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This week in "Science"

09.12.05, 01:43
Wklejam spis abstraktów. Co prawda to tylko po kilkadziesiąt słów na artykuł,
ale często można podłapać coś ciekawego. Dodam, że wiele bibliotek
uniwersyteckich (np. UMK) prenumeruje Science, co pozwala na przeglądanie tego
pisma elektornicznie.

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DNA Twisted into Tetrahedra
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One strategy for building molecular nanostructures in three dimensions is
to exploit the connectivity afforded by nucleic acid structures. In many
cases, the steps needed to select particular base pairing to create
structures such as cubes lead to long, multistep syntheses. Goodman et al.
(p. 1661) have developed a rapid self-assembly process that creates DNA
tetrahedra that have 10 to 30 base pairs on each edge. Four single strands
that contain the complementary sequences for six edges anneal in seconds in
95% yield, and single diastereomeric products are formed. The authors also
present atomic force microscopy studies of the compression of a single DNA
tetrahedron.

CREDIT: GOODMAN ET AL.

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Restoring the Forests
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Deforestation in the tropics has had seriously adverse consequences for
biodiversity, ecosystem services, and the human inhabitants of the tropical
forest. In recent years, projects have been set in motion to restore
degraded forest lands in some countries. Lamb et al. (p. 1628) review the
range of approaches to restoration and assess the extent to which these
approaches might be successful in achieving their aims, particularly with
respect to human well-being.

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Superconducting Qubit Interferometry
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Mach-Zehnder interferometry is a powerful technique to probe quantum
optical effects. Such interferometers contain two beam splitters. The first
sends two beams of photons along separate paths. The acquired path or phase
difference the two beams may acquire creates interference fringes after the
second beam splitter recombines the two beams. Oliver et al. (p. 1653,
published online 10 November) show that a two-level superconducting qubit
can also be made to exhibit similar interference fringes. In this case, the
anti-crossing between the ground and excited states acts as the beam
splitter, and the energy level splitting between them corresponds to the
optical path difference. Multiple photon transitions (up to 20) can be
induced, thus illustrating a potentially useful route for the manipulation
of superconducting qubits in quantum computing schemes.

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Going Softer
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Whether added deliberately or by accident, impurities or solutes have long
been used to strengthen metals. A more recent discovery was that impurities
can soften some metals, but the underlying reasons have not been fully
understood. Using simulations, Trinkle and Woodward (p. 1665; see the
Perspective by Chrzan ) show that for molybdenum, certain transition metal
solutes can influence the energy barriers for dislocation motion, and in
some cases, these changes lead to a softening of the metal. By reducing the
strength, and thus the tendency to fracture abruptly, these modified metals
may find expanded use in structural components.

CREDIT: TRINKLE AND WOODWARD

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Rapid Glacial Erosion
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Determining the relative importance of incision by rivers and glaciers in
the creation of alpine valleys is often hampered by difficulties in
quantifying rates of glacial erosion. Shuster et al. (p. 1668; see the
cover) assessed the timing and rate of glacial erosion by 4He/3He
thermochronometry. Using an example from the Coast Mountains of British
Columbia, Canada, they determined erosion rates both before and during
alpine glaciation. The Klinaklini Valley deepened rapidly by 2 kilometers
or more around 1.8 million years ago when it became glaciated, at least six
times as fast as during its preglacial state.

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Moon Magma
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A giant impact into the early Earth is thought to have ejected a huge
amount of debris into orbit that coalesced to form the Moon. Heat from the
impact also apparently melted much of the Moon and created a huge ocean of
magma. One means of dating these processes is by detecting 182W, the
daughter product of a short-lived isotope, 182Hf. Differences in the
abundances of 182W are produced when magma, rocks, and crystals separate
while 182Hf is still present. Kliene et al. (p. 1671; published online 24
November) report accurate measurements of tungsten isotopes by analyzing
metals returned in Apollo samples (metals provide the most accurate
measure). The data imply that the giant impact occurred about 30 million
years after the formation of the solar system and that the magma ocean had
solidified by about 50 million years.

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Protein Interaction in the Gaseous Phase
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The identification of transient or readily reversible interactions between
proteins is a difficult problem that has been addressed with a variety of
methods. Ruotolo et al. (p. 1658; published online 17 November) have now
applied mass spectrometry to the problem in order to exploit its advantages
of sensitivity and speed. They show that the trp RNA-binding attenuator
protein (TRAP) maintains its 11-membered ringlike structure in the gas
phase and that binding of RNA and tryptophan influences the shape and
stability of the ring in a fashion consistent with its known behavior in
aqueous solution.

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The Liver and the Control of Glucose Metabolism
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The protein kinase and tumor suppressor LKB1 is a potential activator of
the adenosine monophosphate. activated protein kinase (AMPK), a kinase that
senses cellular energy levels by binding the metabolite AMP. Shaw et al.
(p. 1642; published online 24 November) engineered mice so that LKB1
expression could be acutely blocked only in the liver; they found that its
expression plays a critical role in the control of metabolism in the liver
and in glucose homeostasis. In the absence of LKB1, AMPK was almost
completely inactive. Animals lacking LKB1 in the liver showed hyperglycemia
and increased expression of genes encoding enzymes of gluconeogenesis and
lipogenesis.

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Predicting Responses on the Death Pathway
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Multiple signaling pathways can influence whether a cell commits to the
cell death program known as apoptosis. For many years, it has been possible
to categorize signals as contributing to the "gas" or to the "brakes."
However, predicting the biological outcome of multiple signals that apply
some gas here, and a stomp on the brakes there, has remained a challenge.
Janes et al. (p. 1646) applied a systems-level approach to this problem and
created a model to analyze coupling between almost 8000 measurements of
signaling parameters in cultu
Obserwuj wątek
    • yoric This week in "Science" - ciąg dalszy 09.12.05, 01:46
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      Land-Use Effects on Climate
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      Climate models are still only rather crude representations of real climate
      systems, and one class of important feedbacks not adequately realized in
      them is that of land processes. Fedemma et al. (p. 1674; see the
      Perspective by Pielke) investigate the role of biogeophysical land
      processes, which directly affect the absorption and distribution of energy
      at the Earth's surface, by integrating them into a global climate model.
      Increases in atmospheric CO2 concentrations during the next century and
      associated greenhouse gas-induced warming led to significant regional
      impacts directly associated with land cover, mostly in mid-latitude and
      tropical areas. However, global average temperature was not affected much
      by land cover change because regional variations that led to more or less
      warming tended to cancel out.

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      Lipids and Neurotoxins
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      The venom of certain snakes includes neurotoxins capable of paralyzing
      their victims. Upon intoxication, snake presynaptic phospholipase A2
      neurotoxins (SPANs) cause motor nerve terminals in the neuromuscular
      junction to enlarge and induce exocytosis of neurotransmitters from
      synaptic vesicles. Rigoni et al. (p. 1678; see the Perspective by
      Zimmerberg and Chernomordik) now find that a mixture of lysophospholipids
      and fatty acids, which are released by SPANs acting on phospholipids,
      closely mimics all of the biological effects of SPANs. Thus, at the
      presynaptic membrane, lysophospholipids and fatty acids help to generate a
      membrane conformation that promotes vesicle exocytosis and also inhibits
      synaptic vesicle retrieval.

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      Ambiguity Averse
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      In a 2002 news briefing, U.S. Secretary of Defense Donald Rumsfeld famously
      distinguished between known knowns, known unknowns, and unknown unknowns.
      The last group remains difficult to discuss, but neuroscientists and
      economists have joined forces to examine the distinctions between the first
      two. Hsu et al. (p. 1680; see the Perspective by Rustichini) challenged
      subjects to choose between risky and ambiguous payoffs, where the former
      type of choice contains outcomes with known probabilities and the latter
      type features the same outcomes but with unknown probabilities. Even under
      conditions where the expected payoffs are equal, normal humans prefer risk
      over ambiguity, and brain-imaging results suggest that the amygdala and
      orbitofrontal cortex (OFC), which both become more active with ambiguity,
      modulate a third area of the brain, the striatum. Notably, patients bearing
      lesions in the OFC did not exhibit an aversion to ambiguity.

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      Checkpoint for Synapsis
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      The complex mechanics of the eukaryotic cell cycle is monitored at a number
      of points to ensure that everything is going according to plan, before the
      next step in the process is executed. Known checkpoints include DNA
      replication, DNA damage, and spindle function. Bhalla and Dernburg (p.
      1683) identify a checkpoint that monitors synapsis, or pairing between
      homologous chromosomes during the meiotic (haploid gamete-producing) cell
      cycle in Caenorhabditis elegans, which ensures the accurate chromosome
      segregation during division. The checkpoint requires chromosomal sites
      known as pairing centers, where synapsis initiates, and is distinct from
      the DNA damage checkpoint monitoring meiotic recombination. The checkpoint
      involves the PCH2 gene, which is also involved in the pachytene checkpoint
      in budding yeast.

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      Getting to Grips with G Protein Structure
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      Heterotrimeric G protein signaling is important in a wide range of
      physiological processes; however, little is known about how activated
      heterotrimer subunits (G) are oriented at the membrane during signal
      transduction. Tesmer et al. (p. 1686) provide a snapshot of activated G
      proteins in a 3.1 angstrom crystal structure of G protein-coupled receptor
      kinase 2 (GRK2) bound simultaneously to activated Gq and G. GRK2 is
      critical to the phosphorylation-dependent desensitization of many G
      protein-coupled receptors. In the complex, Gq is fully disassociated from
      G, oriented away from its position in the heterotrimer, and forms an
      effector-like interaction with GRK2.
    • pomruk Re: This week in "Science" 09.12.05, 01:48
      yoric - dzięki, robisz dobrą robotę ;)
    • yoric Wydanie 16.12 + dlaczego to wklejam? 16.12.05, 02:04
      Odpowiedź zwłąszcza w kontekście wątku 'Piszmy po polsku'.
      Otóż Science jest, obok Nature, najbardziej prestiżowym pismem naukowym i tu
      publikuje się to, co najnowsze i najważniejsze. Wystarczy przebiec wzrokiem po
      nagłówkach, by stwierdzić, czy coś nas interesuje, a jeśli tak, z abstraktu
      dowiemy się podstawowych rzeczy. Możliwy jest również dostęp do całych tekstów,
      bo biblioteki wielu uniwerków prenumerują Science elektronicznie. Dlaego sądzę,
      że mimo braku tłumaczenia, które zajęłoby wieki i w sumie niewiele dało osobom
      zainteresowanym pełnymi tekstami, ta prasówka w takiej formie jest pożyteczna.
      Pozdrawiam

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      Comparing Correlations
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      Quantum mechanics offers an exact solution to the forces binding an
      electron to a proton in the hydrogen atom. However, adding just one more
      proton and electron to the system presents an intractable complication
      arising from the correlated motion of the electrons. Vanroose et al. (p.
      1787) have improved the approximate solution by numerical computation. They
      analyze the trajectories of both electrons upon double ionization of the
      hydrogen molecule by a single photon, specifically focusing on the
      influence of changing the internuclear separation. The result is distinct
      from the path taken on double ionization of the helium atom, These findings
      indicate that significant correlation effects stem from a molecular
      geometry (an electron pair shared between two protons), as opposed to an
      atomic geometry (an electron pair symmetrically surrounding two protons).

      CREDIT: VANROOSE ET AL.

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      Begin with a Backflip
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      The initiation of diffusion of molecules on surfaces is mainly thought of
      in terms of translational motion. Backus et al. (p. 1790, published online
      10 November; see the Perspective by Ueba and Wolf) followed the diffusion
      of CO molecules on a stepped Pt surface with ultrafast vibrational
      spectroscopy by using changes in CO stretching frequencies to distinguish
      different adsorption sites. Photoexcitation of the CO with a laser pulse
      revealed very fast motion (a time constant of only 500 femtoseconds) that
      was associated with CO rotation rather than translation. Density functional
      theory calculations show that the excitation of frustrated rotational
      motion of the CO molecule is needed for the molecule to hop to an adjoining
      adsorption site.

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      The Reptile-Dinosaur-Bird Conundrum
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      Examination of the histology of fossil bones has shown that most dinosaurs,
      like birds and mammals today, attained their adult size at about the same
      age after a period of rapid growth, independently of environmental factors.
      In contrast, many reptiles adjust their growth in response to temperature
      and other factors, and may attain adult size at rather different ages. By
      examining a large collection of fossils from central Europe, Sander and
      Klein (p. 1800; see the news story by Gramling) now show that the most
      common Triassic dinosaur, the large prosauropod Plateosaurus engelhardti
      grew more like turtles, snakes, and alligators, unlike later dinosaurs,
      whose growth response resembles that of birds and mammals.

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      Small Reactors
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      Positron emission tomography (PET) achieves local sensitivity in medical
      imaging of organs by detecting the emissive decay of isotopically unstable
      molecular probes. This instability also requires the rapid and efficient
      synthesis of probe compounds. Lee et al. (p. 1793) have built a
      computer-controlled device, roughly the size of a penny, for optimizing the
      speed and cost of such preparations. The micrometer-scale valves and
      channels achieve rapid mixing and solvent exchange, and efficient heat
      transfer, as demonstrated in the multistep synthesis of 18F-radiolabeled
      2-deoxy-2-fluoro-D-glucose, the most widely used PET probe.

      CREDIT: LEE ET AL.

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      The Genetics of Skin Pigmentation
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      Little is known about the specific genes that contribute to the variations
      in human skin color. An exciting clue has now emerged from an unlikely
      source, a tiny aquarium fish. Working with a mutant line of zebrafish
      called golden, whose stripes are paler than those in wild-type fish,
      Lamason et al. (p. 1782; see the cover and the news story by Balter) found
      that the altered pigmentation was caused by a mutation in the slc24A5 gene,
      which encodes a protein potentially involved in cation exchange. The gene
      is highly conserved in vertebrates, and expression of the human gene in the
      golden zebrafish restored wild-type pigmentation. European populations
      carry a slightly different version of the slc24A5 gene than do African and
      East Asian populations. A genetic polymorphism that changes one amino acid
      in the coding region of the gene correlates with skin pigmentation levels,
      which suggests that slc24A5 may contribute to skin color in humans.

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      Hiding in the Long Grass
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      Since the seminal work of MacArthur and Wilson on the theory of island
      biogeography, studies on this topic have focused mainly on the relation of
      species richness with island parameters such as area, distance, and habitat
      variability. The population biology of individual species in the island
      context has received much less attention. Schoener et al. (p. 1807; see the
      Perspective by Thorpe) report results from an experiment using Anolis
      lizards and an introduced lizard predator on small islands in the Bahamas
      archipelago. In the absence of the predator, there was a highly regular
      (decreasing) correlation of lizard survival to a key habitat variable
      (vegetation height). In the presence of the predator, the situation was
      nearly reversed, such that prey survival was highest in the tallest
      vegetation.

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      Modification of Electrical Synapses
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      The brain has two main types of synapses, chemical and electrical.
      Electrical synapses represent a major form of communication between
      interneurons in the mammalian nervous system. They play an important role
      in synchronization of activity in local cell populations because their
      speed and reliability allows signals to spread across whole networks at a
      time scale that is sufficient to preserve precise timing of signals between
      distant neurons. In spite of these potentially vital functions, electrical
      synapses have generally been regarded as stereotypic and nonflexible.
      However, Landisman and Connors (p. 1809) found that transmission across
      electrical synapses can undergo long-term modifications just like chemical
      synapses. The modulation depends on activation of metabotropic glutamate
      receptors, which presumably trigger intracellular signal cascades
      modulating the connexins that constitute the electrical synapses.

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      Snails on the Rampage
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      There has been unprecedented and massive die-off of southeastern United
      States salt marshes during
      • yoric Wydanie 16.12 cd 16.12.05, 02:10
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        Snails on the Rampage
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        There has been unprecedented and massive die-off of southeastern United
        States salt marshes during the past 5 years, with potentially serious
        consequences for coastal protection and integrity. Silliman et al. (p.
        1803) surveyed more than 1200 kilometers of coastline and found
        high-density fronts of plant-grazing snails (~1500 individuals per square
        meter) mowing down marsh plants at 11 of 12 die-off sites. Die-off was
        initiated by drought-induced stress. Snail fronts developed at the edges of
        the die-off zones, and then spread across remaining healthy areas. These
        interactions between climatic and trophic factors may lead to further
        degradation or even collapse of these ecologically and economically
        important systems.

        CREDIT: SILLIMAN ET AL.

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        Inhibiting Brain Repair
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        Neuronal axons in the mammalian central and peripheral nervous system are
        generally ensheathed in myelin that is generated by nonneuronal cells. In
        response to injury in the peripheral nervous system, new axons can sprout
        from unmyelinated gaps called the Nodes of Ranvier, but this response
        rarely occurs in the central nervous system (CNS). Huang et al. (p. 1813,
        published online 17 November) have identified a precursor oligodendrocyte
        cell type whose processes envelope nodes in the CNS and inhibit axon
        sprouting. The processes express a glycoprotein previously thought
        exclusive to compact myelin. Mice lacking the glycoprotein exhibited
        abnormal node formation and nodal axon sprouting. Overcoming the inhibitory
        nature of these cells may be clinically important in recovery from injury.

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        MicroRNA Management of the Genome
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        MicroRNAs (miRNAs), small, ~22-nucleotide noncoding RNAs that have been
        found in most of the plants and animals so far studied, generally regulate
        gene expression by suppressing the activity of messenger RNAs (mRNA)
        bearing complementary target sequences. These targets, or "seeds," are
        apparently only seven to eight nucleotides long, and so, all things being
        equal, should occur randomly throughout the genome with relatively high
        frequency. Farh et al. (p. 1817, published online 24 November) now show
        that all things are not equal: Expression of regulated seed-bearing mRNAs
        correlates with the presence of the appropriate miRNA. However,
        nonregulated mRNAs present at high levels in miRNA-expressing tissues have
        a paucity of complementary seed matches in their sequence. Thus, miRNAs are
        influencing the expression, the evolution, or both of the majority of
        mRNAs.

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        Just-in-Time Competency
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        Many bacteria can take up exogenous DNA, an ability known as natural
        competence. The causative agent of cholera, Vibrio cholerae, is not known
        to have this property, but somehow it has clearly acquired virulence
        attributes, including cholera toxin, from some other source. V. cholerae
        does possess the genes used by other bacteria to assemble the necessary
        machinery for DNA uptake, for example, type IV pili. Meibom et al. (p.
        1824; see the Perspective by Bartlett and Azam) now show that a chitin
        (which can be found in the exoskeleton of crabs, a natural host for the
        bacteria) triggers V. cholerae to produce pili, and to release and exchange
        functional DNA. This competency remained unnoticed in a pathogen that has
        been studied for 60 years, which suggests that other noncompetent bacteria
        may become so under the appropriate growth conditions.

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        Looking at Glasses at Length
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        At the glass transition, the viscosity of a liquid increases dramatically,
        but static snapshots of the extent of ordering in these amorphous systems
        (their static correlation lengths) reveal little difference. However,
        numerical simulations and indirect experimental evidence indicates that as
        a liquid cools, regions of correlated movements of particles become larger,
        impeding the overall fluid flow, so that the length scales upon which the
        material is dynamically heterogeneous appear to be increasing. Berthier et
        al. (p. 1797) derive a lower bound on the four-point, time-dependent
        susceptibility4(t), a general measure of dynamic correlation lengths, and
        analyze data from two experimental systems--supercooled glycerol and
        colloidal hard spheres--as well as simulated glass, a binary Lennard-Jones
        mixture. All three systems display peaks in their appropriate dynamic
        susceptibility whose height increases for slower time scales, which
        indicate the presence of a growing dynamic length scale as the liquids
        cool.

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        Bridging the Damaged DNA Gap
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        The main replicative DNA polymerase has evolved to recognize DNA with high
        fidelity, but this capability also makes it very poor at dealing with
        damaged DNA, where it very often stalls at the point of damage. A series of
        "damage-specific" DNA polymerases that can handle distorted or abasic
        templates are recruited to the stalled polymerase partly through the
        ubiquitinylation of proliferating cell nuclear antigen (PCNA)--but how this
        occurs has been a mystery. Bienko et al. (p. 1821) now show that all the
        Y-family damage-specific translesion synthesis (TLS) polymerases contain
        two previously undetected types of ubiquitin binding domain. Colocalization
        of two TLS polymerases with PCNA in replication factories depends on these
        ubiquitin binding domains, as do the ability to interact with
        ubiquitinylated-PCNA and the ability to facilitate DNA repair.
      • Gość: sceptyk Dzieki! :) IP: *.neoplus.adsl.tpnet.pl 16.12.05, 02:16
        Tak trzymaj, Yoric! :))
    • yoric Re: This week in "Science" 24.12.05, 00:01
      Multidrug Transporter Caught in the Act
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      Multidrug transporters are integral membrane proteins found in bacteria,
      which can expel a wide range of drugs and thereby complicate the treatment
      of a variety of bacterial infections. One such protein, EmrE is a
      proton-dependent transporter that confers resistance to positively charged
      hydrophobic antibiotics, including tetracycline. Pornillos et al. (p. 1950)
      now report the structure of EmrE in complex with a translocation substrate,
      tetraphenylphosphonium, at 3.7 angstrom resolution. Two EmrE polypeptides
      form an asymmetric, antiparallel dimer with substrate bound at the
      dimerization interface. The structure suggests a mechanism in which an
      asymmetric translocation pathway confers unidirectional transport.

      CREDIT: PORNILLOS ET AL.

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      The Zircon's Tale
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      Earth's oldest preserved continental crust dates to about 4 billion years
      ago, much after Earth's formation (4.55 billion years ago); a major
      question has been how much continental crust had formed previously and been
      recycled back into the mantle. Some early rocks in Australia contain relic
      crystals of zircon, recycled from earlier rocks. Zircon harbors uranium,
      and these have been dated to up to 4.4 billion years ago. Harrison et al.
      (p. 1947, see Perspective by Amelin) have analyzed lutetium and hafnium
      isotopes in a large number of these early zircons. This isotopic system
      provides information on the differentiation of major silicate reservoirs on
      the Earth. The data imply that significant continental crust must have
      formed on Earth early on, perhaps by nearly 4.5 billion years ago.

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      Seeing the Forest for the Trees
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      Tree plantations are a potentially valuable tool for slowing the increase
      of carbon dioxide concentrations in the atmosphere, but they also can
      affect the water and soil resources on which they depend. Jackson et al.
      (p. 1944) analyze these often-neglected effects, using a combination of
      field research, regional economic and climate modeling, and more than 600
      already-published observations, to show that afforestation can dramatically
      reduce water availability, as well as salinize and acidify the surrounding
      soil. They find that tree plantations caused nearby streams to dry up in
      more than one-tenth of the cases studied, and that stream flow was reduced
      by half, on average. These findings should help illuminate the costs of
      carbon sequestration by afforestation, rather than only their benefits.

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      Mars, Above and Below
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      The Mars Express satellite carries an instrument called MARSIS (Mars
      Advanced Radar for Subsurface and Ionospheric Sounding), which has been
      imaging Mars with radar waves. The radar waves penetrate the surface,
      including the kilometer-thick polar ice caps, to reveal subsurface
      features. As described by Picardi et al. (p. 1925, published online 30
      November), the data reveal the base of icy deposits near the martian north
      pole, showing that the crust there is rigid, and a buried circular crater,
      250 km in diameter, in the Chryse Planitia lowlands. The radar echoes also
      reveal information about the martian ionosphere. Gurnett et al. (p. 1929,
      published online 30 November) show that reflections occur where there are
      sharp changes or gradients in electron density, and with characteristic
      frequency signatures. In many scans of the ionosphere, Gurnett et al.
      record a range of echo types, including oblique signals in regions where
      the relic magnetic field preserved in Mars' crust is strong.

      CREDIT: ASI/NASA/ESA/UNIV. OF ROME/JPL

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      Controlled Conversion
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      In the absence of a magnetic field, the two nuclear spin states of an
      isolated hydrogen atom are completely equivalent. However, in molecules
      with more than one hydrogen atom, the spins interact with one another, and
      the total energy changes slightly with their relative orientations. In
      low-pressure conditions, such as interstellar space, interconversion of
      such isomers is poorly understood. Sun et al. (p. 1938; see the Perspective
      by Hougen and Oka) have used the differential absorption of infrared light
      by the four nuclear spin isomers of ethylene (C2H4) to produce a
      nonequilibrium population, depleted in one isomer. By monitoring the
      evolution of this gaseous sample, they find that the isomers of similar
      inversion symmetry can interconvert efficiently, but do not transform to
      isomers of opposite symmetry.

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      MicroRNAs and the Aging Worm
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      MicroRNAs are present in diverse organisms, including humans, and control
      processes such as cell division and cell death. Boehm and Slack (p. 1954)
      now extend that repertoire of functions to include aging. In the nematode
      Caenorhabditis elegans, lin-4, a microRNA that is a key regulator of the
      stage-specific timing of cell division patterns during the larval stage,
      also influences the life span and the pace of aging in the adult. The
      microRNA and its target, lin-14, act in insulin/insulin-like growth
      factor-1 signaling pathway to influence life span and the pace of aging.
      Loss of lin-4 shortens worm life span. A common mechanism thus serves to
      control the timing of two processes--development and aging.

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      Maintaining the Amino Acid Supply Chain
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      The efficiency and fidelity of protein synthesis is a key factor in
      cellular survival under a variety of growth conditions. Now Vabulas and
      Hartl (p. 1960) show that, under conditions of acute restriction in amino
      acid supply, continued protein biogenesis in mammalian cells is maintained
      by proteasomal degradation of preexisting proteins. Amino acid deficiency
      leads to severe depletion of the intracellular amino acid pool within
      minutes of proteasome inhibition and, concomitantly, protein translation is
      impaired. Both nascent and newly synthesized polypeptides remain protected
      from proteasomal degradation. At most, only a few percent of polypeptides
      are immediately degraded upon synthesis, indicating that, in contrast to
      previous estimates, protein biogenesis is a highly efficient process.
      • yoric (Zapomniałem zatytułować): 23-12 cd 24.12.05, 00:02
        Prospects for Limb Regeneration
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        Salamanders are able to regenerate a lost limb, a feature of ongoing
        development sadly lost to humans. Brockes and Kumar (p. 1919) review what
        is known about amphibian limb regeneration and speculate on how these
        observations could inform application of stem cell and regenerative
        medicine to mammalian cases. Zebrafish as well can regenerate their fins.
        Regeneration occurs through initial formation of a clump of
        undifferentiated cells, the blastema, which through growth and
        differentiation elaborates a replacement fin. Whitehead et al. (p. 1957;
        see the Perspective by Antebi) have now identified one of the signaling
        factors critical to formation of the blastema. In zebrafish the dob (devoid
        of blastema) mutation affects a gene that encodes signaling factor Fgf20,
        which seems to be used specifically for regeneration rather than for normal
        embryonic development.

        CREDIT: WHITEHEAD ET AL.

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        Observing the Formation and Recollection of Memories
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        Recent advances in analyzing the large data sets collected during
        functional brain imaging studies have revealed patterns of neuronal
        activity that can be associated reliably with the recall of remembered
        stimuli. After seeing pictures or listening to sounds, subjects are able,
        when prompted, to retrieve or reactivate their memories of these items, and
        brain scans taken during the retrieval period are similar to those taken
        when the same items were studied directly. Polyn et al. (p. 1963) now show
        that reactivation of such stored representations occurs prior to a verbal
        report of recollection in a free recall paradigm, where subjects were not
        prompted to remember specific items, but were reporting which of these
        items "resurfaced" in their memory and when. These results provide support
        for the theoretical framework of shifting brain states in dynamic
        cognition.

        ---------------------------------------------------------------------------
        Challenging Immune Diversity Dogma
        ---------------------------------------------------------------------------

        The adaptive immune system has been thought to be confined to the realm of
        jawed vertebrates, where somatic mechanisms of genetic variation have
        evolved to generate immune receptors in great diversity that are clonally
        dispersed among its lymphocytes. However, recently jawless fish have been
        shown to be able to generate diversity among immune-like receptors, and
        indeed some invertebrates produce diverse immunoglobulin-like molecules.
        Extending their original discovery of variable lymphocyte receptors (VLRs)
        in the sea lamprey, Alder et al. (p. 1970) now provide information on the
        form, function, and potential extent of somatic genetic diversity in this
        system. Leucine-rich repeats (LRRs) are randomly selected from a large bank
        of LRR modules by a sequential mechanism of rearrangement so that an
        estimated diversity of VLRs rivaling that of immune receptors in mammals is
        possible. Furthermore serial immunization of lampreys was found to elicit
        the responses expected in a developing adaptive immune response to an
        antigen.

        ---------------------------------------------------------------------------
        Rapid Radiation of Animals
        ---------------------------------------------------------------------------

        Despite many years of effort, the relationships within and between major
        groups of metazoa remain uncertain and controversial. Using substantial
        quantities of sequence data from several key animal taxa, Rokas et al. (p.
        1933; see the Perspective by Jermiin et al.) find a contrast between the
        history of the metazoan and fungal kingdoms--two groups that originated at
        a similar time in life's history. In particular, for animals, the lack of
        resolution of ancient clades is a signature of closely spaced series of
        clade-generating events. This explicit molecular support for the rapid
        radiation of animals is in agreement with previous inferences from the
        fossil record.

        ---------------------------------------------------------------------------
        Swapping O for N
        ---------------------------------------------------------------------------

        The uranyl ion, O=U=O2+, despite its abundance, is a rare example of
        multiple bonding between a light atom and an actinide metal. A fundamental
        question in the formation of such complexes is the specific role of
        partially occupied f-orbitals, or electron distributions unique to the
        lanthanide and actinide elements. Hayton et al. (p. 1941) have prepared two
        analogs of uranyl, in which the multiply bonded oxygens are replaced by
        either alkyl or aryl nitrogen groups. These complexes result from an
        efficient iodine oxidation of uranium metal in the presence of an amine and
        are shown by x-ray crystallography to resemble uranyl in their trans N=U=N
        coordination geometries. Density functional theory calculations shed light
        on the orbitals involved in the bonding, and the comparative electronic
        structures of the nitrogen and oxygen compounds.

        ---------------------------------------------------------------------------
        Linking NO Production and Prostaglandin Synthesis in Inflammation
        ---------------------------------------------------------------------------

        Principal inflammatory responses in mammals include the induction of nitric
        oxide and prostaglandin synthesis in cells of the immune system. Kim et al.
        (p. 1966) report that the enzymes that produce these molecules, nitric
        oxide synthase and cyclooxygenase-2, respectively, interact in macrophage
        cells. Nitric oxide synthase delivers NO to cyclooxygenase-2. This
        modification of cyclooxygenase-2 by nitric oxide, known as S-nitrosylation,
        activates the enzyme. This synergism between the two systems may help in
        the design of potential novel anti-inflammatory drugs.
        • yoric A tu 'przełom roku' wg Science 28.12.05, 18:07
          I to o ewolucji!!!

          www.sciencemag.org/cgi/content/full/310/5756/1878
    • yoric 05.01 06.01.06, 04:27
      ---------------------------------------------------------------------------
      Bring Your Own Bacteria
      ---------------------------------------------------------------------------

      Attine ants of the Americas cultivate gardens of fungi, but these food
      sources can be parasitized by other fungi. The ants ward off fungal
      parasites by means of antibiotic-producing bacteria. Currie et al. (p. 81)
      now show that the ants are so dependent on the bacteria that they have
      special anatomical structures that carry the symbionts on the cuticle
      surface and that may supply nutrients to the bacteria. The organization of
      these structures varies with the ant species, possibly reflecting variable
      co-evolutionary pressures.

      CREDIT: CURRIE ET AL.

      ---------------------------------------------------------------------------
      Money for Nothing
      ---------------------------------------------------------------------------

      Rarely does one encounter someone who isn't at least slightly interested in
      money and in how to get more of it in social exchanges. Camerer and Fehr
      (p. 47) review the economic consequences when two kinds of nontraditionally
      behaving subjects--those exhibiting bounded rationality and those who are
      nonselfish--enter into games with exclusively self-interested individuals
      (the completely rational "Economic Man"). It seems that strategic
      incentives can enable a minority of irrational players to render the entire
      market irrational, but there are also conditions where a minority of
      rational traders can make the entire market rational.

      ---------------------------------------------------------------------------
      Quiet Cuprate Qubits
      ---------------------------------------------------------------------------

      Macroscopic quantum effects have been reported with a number of
      conventional (metallic) superconductors. The use of these effects in
      quantum computing must contend with signal losses caused by decoherence, an
      inherent problem as the logical elements (qubits) in these systems cannot
      be uncoupled from its environment. Recent theoretical proposals have
      suggested ways to isolate the qubit from its electromagnetic environment
      and make it less subject to decoherence, and the d-wave symmetry of the
      ceramic hightemperature superconductors (HTSCs) may provide a route to such
      a quiet qubit. However, it has been assumed that low-energy quasiparticles
      in HTSCs would destroy any benefits of that environment decoupling. Bauch
      et al. (p. 57) now demonstrate an HTSC device with sharp energy levels that
      exhibits the macroscopic quantum effects seen in their well-behaved
      metallic cousins. This result also indicates that the dissipation
      mechanisms in the HTSCs need to be rethought.

      CREDIT: BAUCH ET AL.

      ---------------------------------------------------------------------------
      Arm's Length
      ---------------------------------------------------------------------------

      Mapping the dimensions of the Milky Way with precision is still a daunting
      task. Xu et al. (p. 54, published online 8 December 2005; see the cover and
      the Perspective by Binney) have used precise images of radio sources in a
      star cluster to fix the distance to the nearest spiral arm from the Sun
      using trigonometric parallax, the small shift in apparent position as Earth
      moves between opposing points in its orbit. Using the Very Long Baseline
      Array, the authors detected this shift for radio sources in a young star
      cluster that forms part of the Perseus Arm of the Milky Way. The star
      cluster has extra anomalous motions beyond the simple rotation of our
      galaxy about its center that may be consistent with spiral density-wave
      theory.

      ---------------------------------------------------------------------------
      Forces Underlying Regime Change
      ---------------------------------------------------------------------------

      A major change in the marine ecosystem of the North Pacific Ocean that
      occurred in the mid-1970s, often referred to as a "regime shift," may have
      been a natural variation in oceanatmosphere conditions or the result of
      anthropogenic global warming. Field et al. (p. 63) examined the abundances
      of different species of planktonic foraminifera (forams) in sediments from
      the Santa Barbara channel. Cooler water species began a marked decline in
      abundance relative to warmer water types around 1960, when deeper
      penetration of near-surface warming of the ocean began. The proportion of
      tropical and subtropical forams was not as high any time during the past
      1400 years as during the late 20th century. Thus, anthropogenic forcing
      appears to have been an important component of this regime shift.

      ---------------------------------------------------------------------------
      Short Stout Snout
      ---------------------------------------------------------------------------

      Crocodiles evolved during the late Permian and early Mesozoic and became
      widespread during the Cretaceous, and one common characteristic has been
      their large, long snout containing numerous teeth. Gasparini et al. (p. 70,
      published online 10 November 2005; see the Perspective by Clark) now
      describe an unusual crocodyliform from Patagonia dating to about 140
      million years ago. It has a stout head and jaw, but each jaw contains only
      about one dozen large serrated teeth. This morphology is similar to that of
      some terrestrial archosaurs and greatly expands the evolutionary morphology
      of crocodyliforms.

      ---------------------------------------------------------------------------
      The Making of the Modern Cat
      ---------------------------------------------------------------------------

      Unraveling the relatively recent speciation events that led to the modern
      cat family, which includes lions, tigers, clouded leopards, and domestic
      cats, has been hampered by an incomplete fossil record and a lack of
      distinguishing skeletal features. Johnson et al. (p. 73) analyze an
      extensive array of X-chromosome, Y-chromosome, and mitochondrial DNA
      sequences sampled from all 37 extant cat species to produce a phylogenetic
      tree that resolves the eight major lineages of cats. Modern cats appear to
      have originated in Asia 10 million years ago and undertook a series of 10
      intercontinental migrations that correlate with major fluctuations in sea
      level.

      ---------------------------------------------------------------------------
      Depression, Serotonin, and p11
      ---------------------------------------------------------------------------

      Serotonin is an important modulator in a large number of physiological and
      pathological brain states. Among the many different serotonin receptors,
      the 5-HT1B receptor plays a crucial role in regulating serotonin
      neurotransmission. Svenningsson et al. (p. 77; see the Perspective by
      Sharp) investigated the role of a protein, p11, which appears to interact
      with 5-HT1B receptors, in depression and antidepressant treatment. 5-HT1B
      receptor function depended on p11 expression, and p11 levels were low in
      depressive states both in animal models (transgenic overexpression and
      knockout lines), as well as in human postmortem brains from depressed
      patients. In contrast, p11 levels were increased by antidepressant drugs
      and electroconvulsive treatment.

      ---------------------------------------------------------------------------
      But Will You Know Me Tomorrow?
      ---------------------------------------------------------------------------

      The variety of people with whom we interact extensively changes with time,
      and a single snapshot cannot provide a complete picture of a dynamic
      network. Kossinets and Watts (p. 88) have used a data set of e-mails
      between students, faculty, and staff at a large university, in combination
      with encrypted information about personal attributes and classes attended.
      They assembled a quantitative picture of how the strength of interactions
      depends on similarities between the individuals and how the interactions
      change wit
      • yoric Re: 05.01 06.01.06, 04:28
        with time.

        ---------------------------------------------------------------------------
        To Grow, or Not to Grow
        ---------------------------------------------------------------------------

        Adverse growth conditions, such as excess drought and salinity, tend to
        cause stunted growth in plants. Achard et al. (p. 91) now show that this
        growth restraint is an actively controlled process, not simply a by-product
        of disrupted metabolism. The growth restraint is imposed by DELLA proteins,
        normally localized to the cell nucleus. Arabidopsis has five related DELLA
        proteins encoded in its genome. The DELLA family of proteins seems to
        integrate hormonal and environmental signals in order to fine-tune the
        balance between growth and survival.

        ---------------------------------------------------------------------------
        Organizing the Root
        ---------------------------------------------------------------------------

        Specification of cellular fate in the Arabidopsis root depends on signaling
        by the hormone cytokinin. Mahonen et al. (p. 94) have now analyzed how
        cytokinin regulates and stabilizes choices in vascular cell fate.
        Protoxylem differentiation is a default choice, a direction that is blocked
        by cytokinin. The AHP6 locus promoted protoxylem differentiation and
        encodes a protein with resemblances to phosphotransfer proteins except for
        an amino acid residue critical for phosphotransfer. Nonetheless, it
        inhibits a cytokinin-directed phosphorelay system. AHP6 expression is
        spatially localized such that it can block cytokinin function in specific
        regions, thus allowing protoxylem specification in those locations.
        Cytokinin and AHP6 interact together in a feedback loop to create specific
        cellular domains that remain less responsive to cytokinins.

        CREDIT: MAHONEN ET AL.

        ---------------------------------------------------------------------------
        Yin and Yang on the Reef
        ---------------------------------------------------------------------------

        The effects of "no-take" marine reserves remain poorly understood and
        controversial. Mumby et al. (p. 98; see the Perspective by Hoegh-Guldberg)
        studied the effects of the recovery of a top predator in a large and
        long-established coral reef reserve in the Bahamas archipelago. As the
        predator (the Nassau grouper) increased in abundance, the species
        composition of its prey (parrotfish) shifted toward species too large and
        fast to be caught and eaten by the grouper. Parrotfish are a key component
        of the reef food web because, as algae-eaters, they "clean" the reef of
        algae and enhance the growth and propagation of corals. Thus, despite
        increased predator pressure by groupers, coral grazing by parrotfish is
        enhanced by a shift in the species composition of parrotfish.

        ---------------------------------------------------------------------------
        Sorting CH5+ Vibrations
        ---------------------------------------------------------------------------

        The bonding in protonated methane (CH5) has been hard to characterize,
        because even at low temperature, the hydrogen atoms flurry rapidly about
        the carbon center, rather than forming localized bonds. Recent experiments
        yielded the vibrational spectrum, which was assigned through classical
        trajectory calculations. Huang et al. (p. 60) present a fully
        quantum-mechanical interpretation of the spectrum based on ab initio
        calculations of dipole moment and potential energy surfaces. The results
        accord well with experiment and offer further insight into the nature of
        the three-center, two-electron bonding arrangement of this cation.

        ---------------------------------------------------------------------------
        Ozone and NOx
        ---------------------------------------------------------------------------

        The concentration of NOx (NO NO2) is an important parameter in the ozone
        cycle of the lower troposphere. NOx catalyzes a chain of reactions that
        produces ozone photochemically during sunlight hours, and at night, it
        helps to destroy ozone. One key reaction of the nighttime cycle of ozone
        destruction is the hydrolysis of N2O5, a reaction that is slow in the gas
        phase but can be very rapid when it occurs heterogeneously on aerosols.
        Brown et al. (p. 67) report aircraft measurements that allowed them to
        determine the uptake coefficient for N2O5 on aerosol particles. The
        coefficient depends strongly on aerosol composition, particularly sulfate
        content. This result suggests that there is a stronger connection between
        anthropogenic sulfur and nitrogen oxide emissions than has been assumed, a
        possibility with important implications for the quantification of
        regional-scale ozone production.

        ---------------------------------------------------------------------------
        Shared Past
        ---------------------------------------------------------------------------

        Dendritic cells (DCs) and macrophages of the immune system have distinct
        and overlapping functions--DCs are pivotal in initiating and modulating
        immune responses through the uptake and presentation of antigen to T cells,
        whereas macrophages clear pathogens through phagocytosis and share some
        antigen-presenting capacity. Exactly how these cells are developmentally
        related is unclear. Fogg et al. (p. 83, published online 1 December 2005)
        identify a common progenitor cell that can be induced to generate DCs and
        macrophages in culture and produces subsets of both cells when transferred
        into mice. This common ancestry has many implications for understanding the
        developmental pathways required for the steady-state production of each
        type of cell and for their respective roles in immunity.
    • yoric Re: This week in "Science" 13.01.06, 17:35
      ---------------------------------------------------------------------------
      Silicon Does the Wave
      ---------------------------------------------------------------------------

      Flexible materials with good electronics properties are of interest for a
      number of applications, including sensors and paperlike displays.
      Typically, the materials used are organic, because conventional
      semiconductor substrates, such as silicon wafers, are too thick and brittle
      to bend readily. Khang et al. (p. 208, published online 15 December 2005)
      have deposited single-crystal ribbons of silicon onto prestretched rubber
      made of poly(dimethyl siloxane). When the stress is released, the silicon
      takes on a wavy form, which is then amenable to either stretching or
      compression. This material was used to build a number of basic electronic
      components such as transistors and diodes.

      CREDIT: BECKMAN INSTITUTE AND SEITZ MATERIALS RESEARCH LABORATORY,
      UNIVERSITY OF ILLINOIS

      ---------------------------------------------------------------------------
      Plasmons in Optoelectronics
      ---------------------------------------------------------------------------

      Future electronic technology is expected to combine the size and speed of
      nanoscale electronic and optical circuitry. However, the length scale of
      electronic devices responsible for switching and amplifying signals is now
      below that of the wavelength of light, and the even larger waveguides, for
      carrying and transferring that signal. Ozbay (p. 189) discusses the
      possibilities and challenges of using surface plasmons, which are
      collective excitations of electrons caused by light absorption on the
      surface, to integrate electronics and photonics on chips.

      ---------------------------------------------------------------------------
      Titan's Clouds
      ---------------------------------------------------------------------------

      By modeling the circulation patterns of the thick hazy atmosphere of Titan,
      Saturn's largest moon, Rannou et al. (p. 201; see the Perspective by
      Lellouch) explain the formation of different types of clouds that have been
      observed by telescopes and spacecraft. The general circulation model, which
      includes cloud microphysics, mimics the distribution of methane and ethane
      clouds seen in Titan's nitrogen-rich atmosphere and produces both a
      permanent south polar cloud and sporadic clouds at more temperate
      latitudes.

      ---------------------------------------------------------------------------
      Magnetic Logic Gates
      ---------------------------------------------------------------------------

      A computer architecture based on quantum cellular automata (QCA) can be
      built from a series of identical, simple, and bistable units that are
      coupled together either electrostatically (EQCA) or magnetically (MQCA).
      Whereas EQCA operates only at cryogenic temperatures, the higher coupling
      energies in MQCA should allow operation at higher temperatures. Imre et al.
      (p. 205; see the Perspective by Cowburn) fabricated and demonstrate
      room-temperature operation of a three-input majority logic gate (the basic
      building block for MQCA logic) from a system of coupled nanomagnets. They
      calculate that a chip with 1010 such gates operating at 100 megahertz would
      dissipate less than 0.1 watt of heat.

      ---------------------------------------------------------------------------
      Combating Creep
      ---------------------------------------------------------------------------

      Ceramics can deform at grain boundaries, and for demanding operation at
      high temperatures, impurities are deliberately added to prevent
      deformation. Buban et al. (p. 212) have used Z-contrast transmission
      electron microscopy to locate the positions of yttrium (Y) atoms in a grain
      boundary in a bicrystal of alumina. The Y ions form more and stronger bonds
      with their neighbors than occurs with aluminum in the undoped bicrystal.
      These stronger bonds appear to inhibit grain boundary sliding and thus
      account for the significant drop in the creep rate upon yttrium doping.

      CREDIT: BUBAN ET AL.

      ---------------------------------------------------------------------------
      Imaging Reactions
      ---------------------------------------------------------------------------

      For many rapid chemical reactions, ultrashort laser pulses have revealed
      precisely in what order, and at what rate, individual bonds are made and
      broken. However, molecules in gas or solution phase are in constant, random
      motion. Thus, the data often emerge averaged over every orientation, and
      offer little insight into the spatial characteristics of the reaction.
      Ge{beta}ner et al. (p. 219, published online 15 December 2005) address this
      limitation in a study of photo-induced dissociation of the NO dimer. They
      simultaneously measure electron energy, through ionization as well as the
      angular distributions of ejected electrons and ionic products. With
      femtosecond time resolution, they uncovered the geometrical evolution of
      the dimer's electronic charge distribution, and then the reorientation of
      the nuclei that liberated the NO fragments.

      ---------------------------------------------------------------------------
      Dissecting Dicer
      ---------------------------------------------------------------------------

      The enzyme Dicer cleaves double-stranded (ds) RNA to produce ~22 nucleotide
      (nt) long small interfering (si) RNAs, the effector molecules that underpin
      RNA interference (RNAi). MacRae et al. (p. 195) have determined the
      structure of full-length Dicer from the eukaryote Giardia intestinalis.
      Giardia Dicer is a much abbreviated version of human Dicer, consisting of
      little more than the dual RNase III domains and an RNA-binding PAZ domain.
      Nonetheless, it cleaves dsRNA into the expected 25-nt siRNA fragments. The
      authors liken the Giardia Dicer structure to a hatchet; the RNaseIII
      domains are spaced to generate the characteristic siRNA 3 overhang--forming
      the "blade"--that is connected through the long-helical "handle" to the
      RNA-binding PAZ domain at the base. The distance from the active sites of
      the RNaseIII domains to the RNA-binding pocket of the PAZ domain, 65
      angstroms, approximates to 25 base pairs of A-form dsRNA.

      ---------------------------------------------------------------------------
      Keeping an Eye on the Clock
      ---------------------------------------------------------------------------

      As part of the cycle of intrinsic circadian clock, two proteins, PER and
      TIM, are thought to slowly associate in the cytoplasm of cells. This
      process takes 4 to 6 hours, after which the dimers enter the nucleus of the
      cell and interact with other clock components and close one of the clock's
      feedback loops. Meyer et al. (p. 226; see the Perspective by Dunlap)
      labeled both PER and TIM in single living Drosophila cells with tags that
      emit a fluorescent signal when the proteins are in close proximity. The
      proteins did indeed associate with the expected time course, but,
      surprisingly, PER and TIM dissociated before moving to the nucleus. The
      extent of nuclear localization was independent of the concentrations of PER
      and TIM in the cytoplasm. Thus, fundamental assumptions about how the
      circadian clock keeps time need to be revisited.
    • yoric Re: This week in "Science" 13.01.06, 17:35
      ---------------------------------------------------------------------------
      An Exciting Inhibitory Neuron
      ---------------------------------------------------------------------------

      Discovered 30 years ago, axo-axonic or Chandelier cells are the most
      specific inhibitory neurotransmitter-aminobutyric acid (GABA)ergic cell
      type known and are regularly used in textbooks to illustrate the strategic
      placement of inhibition on the axon. Szabadics et al. (p. 233) show that
      instead of inhibiting postsynaptic cells, axo-axonic cells can actually
      excite postsynaptic cells, which leads to an unprecedented phenomenon in
      the cortex: A single GABAergic cell that can reliably activate the cortical
      network.

      ---------------------------------------------------------------------------
      Defective Dengue
      ---------------------------------------------------------------------------

      Dengue virus infects an estimated 50 million people throughout the tropics
      and causes explosive outbreaks triggered by variant strains. There are
      several strains of virus involved and, paradoxically, a defective strain is
      now in circulation. Aaskov et al. (p. 236) propose that this defective form
      persists through complementation--defective viruses exploit the proteins
      from functional viruses that infect the same cell. When enough hosts have
      multiple infections with different strains, defective viral strains can
      persist and influence the epidemiology of the disease. For example, in
      Myanmar, the variant's spread accompanied a decline in another related
      strain.

      ---------------------------------------------------------------------------
      Monitoring Magnetosomes
      ---------------------------------------------------------------------------

      Magnetosomes are the small magnetite-containing membranes found in certain
      bacteria. Komeili et al. (p. 242, published online 22 December 2005) now
      present evidence that magnetosomes represent invaginations from the
      bacterial plasma membrane, rather than, as previously assumed, individual
      magnetite-containing vesicles. Furthermore, magnetosomes are aligned within
      the cell through the agency of an actin-like filamentous protein.
      Magnetosome assembly and intracellular organization may represent a
      stepping stone in intracellular complexity between organelle-less bacteria
      and organelle-rich eukaryotes.

      CREDIT: KOMEILI ET AL.

      ---------------------------------------------------------------------------
      Protein Network Topologies During Viral Infection
      ---------------------------------------------------------------------------

      Virus infection triggers dramatic changes in the host and in the infecting
      virus. Uetz et al. (p. 239, published online 8 December 2005; see the
      Perspective by Baker and Chant) used yeast-two-hybrid analysis of a subset
      of the viral proteins and found that two herpesviruses, Kaposi
      sarcoma-associated herpesvirus and varicella-zoster virus, shared protein
      interaction network topologies. The observed topologies were distinct from
      the cellular networks that have been studied so far. Viral networks
      resemble single, highly coupled modules, whereas cellular networks are
      organized in separate functional submodules. The authors used simulations
      to show that infection may result in a change to the viral protein
      interaction network that renders its topology more similar to that of the
      host cell.

      ---------------------------------------------------------------------------
      Upon Reflection
      ---------------------------------------------------------------------------

      Reflections of seismic PP waves from the interface between the Earth's
      upper and lower mantle at 660-kilometer depths are detected by Deuss et al.
      (p. 198) in regionally summed earthquake data. The boundary is sufficiently
      complex that signals sometimes occur at multiple depths and cancel out in
      globally averaged data. The authors modeled mineral transitions that occur
      at the temperatures and pressures near 660 kilometers and argue that the
      structures they see are consistent with a pyrolite composition and
      transformations of the garnet component in the mantle.

      ---------------------------------------------------------------------------
      Accounting for Ions
      ---------------------------------------------------------------------------

      The distribution of ions in solution at an interface plays a role in
      electrochemistry and geochemistry and in understanding biomembranes and
      protein interactions. Classical descriptions of ion distributions, such as
      Guoy-Chapman theory, are mean-field approaches that ignore the details of
      molecular structure. Luo et al. (p. 216) used x-ray reflectivity to measure
      ion distributions at the interface between solutions (0.1 to ~1 molar) of
      tetrabuytlammonium (TBA) tetraphenylborate in nitrobenzene and aqueous TBA
      bromide. They find significant deviations from Guoy-Chapman theory in
      describing their data, but molecular dynamics simulations were able to
      produce potentials that could be used to prediction distributions with the
      Poisson-Boltzmann equation without adjustable parameters.

      ---------------------------------------------------------------------------
      Particularities of Disease Susceptibility
      ---------------------------------------------------------------------------

      Some plants are susceptible to infection by certain bacteria, whereas
      others are not. The difference can lie in presence or absence of a plant's
      defense against particular bacterial effector proteins. Studying
      Pseudomonas and Arabidopsis, Janjusevic et al. (p. 222, published online 22
      December 2005) analyze the molecular structure of one domain of a bacterial
      effector protein. The domain shows similarities to U-box proteins of
      eukaryotic ubiquitin ligase complexes. The bacterial protein may function
      as a mimic of the host cell's E3 ubiquitin ligase. Plant defense involves
      controlled cell death of infected cells. In susceptible plants this process
      is disrupted by the bacterial effector protein, perhaps through
      interruption of endogenous ubiquitination pathways.

      ---------------------------------------------------------------------------
      Alternative Splicing and Prader-Willi Syndrome
      ---------------------------------------------------------------------------

      The chromosomal region 15q11-q13 contains 47 copies of a brain-specific
      small nucleolar RNA (snoRNA), HBII-52. Kishore et al. (p. 230, published
      online 15 December 2005) now show that this snoRNA regulates alternative
      splicing of a specific pre-messenger RNA encoding a serotonin receptor by
      masking an exonic silencer. This snoRNA is not expressed in patients
      suffering from Prader-Willi syndrome and causes patients to express
      different isoforms of this serotonin receptor. Previously, it has been
      unclear how the loss of the Prader-Willi-imprinted region causes the
      disease, because most of its genes do not encode protein.
      • yoric 20.01 20.01.06, 13:32
        ---------------------------------------------------------------------------
        Magnetism with a Twist
        ---------------------------------------------------------------------------

        In helical spin order, the spins in a crystallographic plane of a material
        tend to align, and this direction rotates by a constant angle between
        adjacent planes. Knowledge of, and the ability to control, the relative
        orientation of the magnetic moment between the planes could have important
        consequences for the flow of spin-controlled current through such a
        structure. Reciprocal-space imaging probes such as neutron scattering only
        provide an average view of the overall spin structure. Uchida et al. (p.
        359; see the Perspective by Nori and Tonomura), using Lorentz microscopy,
        found that the real-space structure of helical spin ordering is much richer
        than that expected from the averaged techniques. They also visualized the
        real-time dynamics of magnetic defects in response to changes in
        temperature and magnetic field, which may yield important information for
        spintronic devices that would rely on this effect.

        CREDIT: UCHIDA ET AL.

        ---------------------------------------------------------------------------
        Spotlight on Structural Genomics Centers
        ---------------------------------------------------------------------------

        Projects in structural genomics aim to expand our structural knowledge of
        biological macromolecules, while lowering the average costs of structure
        determination. Chandonia and Brenner (p. 347) quantitatively review the
        novelty, cost, and impact of structures solved by structural genomics
        centers, and contrast these results with traditional structural biology.

        ---------------------------------------------------------------------------
        Spinning Membranes from Phospholipids
        ---------------------------------------------------------------------------

        Electrospinning is a simple but powerful method for making very thin
        polymer fibers that can then be collected to create porous films. McKee et
        al. (p. 353) expand the range of this technique by making fibers from small
        molecules, namely phospholipids. The phospholipids form wormlike micelles
        in specific concentration ranges of mixed solvent systems, and under these
        conditions they behave like polymers for electrospinning. The membranes
        formed from phospholipids should exhibit high biocompatibility.

        ---------------------------------------------------------------------------
        Bridging Nanotube Contacts
        ---------------------------------------------------------------------------

        In molecular electronics, the contacts between metal electrode and molecule
        are often the weakest link, and it can be difficult at times to exclude
        changes in this electrode contact as the cause of switching behavior. Guo
        et al. (p. 356) show how small gaps (less than 10 nanometers) in
        single-walled carbon nanotubes (SWNTs) can be bridged covalently with short
        oligomeric molecules whose conjugation makes them conductive. After metal
        contacts were made on a SWNT, patterning allowed a gap to be cut between
        two contacts. This oxidative cutting left terminal carboxylic acid groups
        that were bridged by making amide linkages to molecules bearing amine
        groups at each end. The devices formed are robust, and molecules that bear
        basic nitrogen atoms in the chain changed conductance with pH.

        ---------------------------------------------------------------------------
        Restricted Motion
        ---------------------------------------------------------------------------

        The assignment of gas-phase spectra to specific atomic motions for
        molecules with even as few as five or six atoms can prove challenging. Such
        assignments are of particular interest in piecing together the interactions
        of molecules in deep space, for which spectroscopic signatures are the sole
        source of data. Lee et al. (p. 365) take advantage of the unusual
        properties of solid para-hydrogen (p-H2) to simplify, and thus interpret,
        the vibrational spectrum of methanol. By embedding methanol in a matrix of
        the quantum solid, they prevent overall rotational motion but still observe
        internal torsion of the methyl group about the C-O bond.

        ---------------------------------------------------------------------------
        Mist-Made Martian Glaciers
        ---------------------------------------------------------------------------

        Water ice glaciers flank mountains and volcanoes in the tropics and
        midlatitudes of Mars. Current conditions on Mars are cold and dry and
        restrict water ice to regions near the poles, so the origin of these young
        glaciers at lower latitudes is a puzzle. Forget et al. (p. 368) used
        climate simulations of the planet at high obliquity to explain the
        locations of the glaciers. A few million years ago, the rotation axis of
        Mars was tilted by up to 45{degrees}, which caused more water vapor to
        evaporate from the poles into the atmosphere. Circulating across the
        planet, this watery mist then precipitated to build up glaciers on the
        leeward side of volcanoes and in mountainous regions.

        ---------------------------------------------------------------------------
        Rho, Rho, Rho Your Vaccinia
        ---------------------------------------------------------------------------

        Viruses subvert a variety of host cell mechanisms during infection,
        replication, and dissemination. Valderrama et al. (p. 377) now describe how
        vaccinia virus promotes cellular motility by interfering with the activity
        of RhoA, a small guanosine triphosphase-binding protein involved in
        intracellular signaling, which particularly affects the actin cytoskeleton.
        A conserved vaccinia protein, F11L, directly interacts with RhoA, mimicking
        one of its endogenous substrates, ROCK, and inducing cellular motility. The
        induced motility is likely to facilitate the spread of the virus within
        tissues.

        CREDIT: VALDERRAMA ET AL.

        ---------------------------------------------------------------------------
        Squares in the Sand
        ---------------------------------------------------------------------------

        Language is so intimately linked with our thoughts that it is hard to
        imagine thinking without it, but how language influences thought remains a
        lively topic of discussion. Dehaene et al. (p. 381; see the news story by
        Holden) bring new evidence to light from their studies with an Amazonian
        group, the Munduruku. Both Munduruku children and adults proved competent
        at grasping and using geometric concepts, such as parallel lines and
        right-angled triangles, even though they lack the words for such terms and
        concepts. Furthermore, the Munduruku used relations diagrammed on paper to
        locate hidden objects, and again performed as well as American children,
        but not as well as adults. Thus, the Munduruku possess a basic sense of
        geometry, in addition to their previously discovered sense of arithmetic.

        ---------------------------------------------------------------------------
        Ubiquitous Antibiotic Resistance
        ---------------------------------------------------------------------------

        A major source of antibiotic resistance genes is soil microorganisms that
        produce antimicrobial agents and develop a variety of resistance mechanisms
        as a way of selfdefense against their own toxic products. D'Costa et al.
        (p. 374; see the Perspective by Tomasz) show that soil microbiota also
        represent an enormous reservoir of antibiotic-resistant organisms, most of
        which do not produce antimicrobial agents themselves. The authors
        characterized strains of spore-forming bacteria and tested them against 21
        antimicrobial agents--some in long use as well as compounds recently
        introduced into the antimicrobial armamentarium. Every strain was multidrug
        resistant and exhibited resistance to at least 7 to 8 antibiotics, and
        sometimes to as many as 20.

        CREDIT: D'COSTA ET AL.

        ---------------------------------------------------------------------------
        Turnin
        • yoric Re: 20.01 20.01.06, 13:34
          ---------------------------------------------------------------------------
          Turning Cuttings Back into Whole Plants
          ---------------------------------------------------------------------------

          Plants regenerate much better than do animals--an entire plant can
          regenerate from a small snip of tissue, whereas the best that animals can
          do is the occasional amphibian regeneration of a limb or tail. Xu et al.
          (p. 385) now analyze subcellular dynamics in the root tip of Arabidopsis to
          understand how regeneration is directed in response to localized cell
          ablation. Surprisingly, as new tissues are built, establishment of
          unidirectional flow of the hormone auxin follows, rather than precedes,
          cell fate specification. A suite of transcription factors that respond
          early to changes in auxin distribution directs cell fate respecification.

          ---------------------------------------------------------------------------
          Got to Hitch a Ride
          ---------------------------------------------------------------------------

          During cell division, chromosomes must establish connections to the
          opposing spindle poles and become positioned at the spindle equator.
          Uncorrected errors in this biorientation inevitably lead to aneuploidy and
          are associated with cell transformation and cancers. How chromosomes attach
          properly to the mitotic apparatus is not understood. Kapoor et al. (p. 388;
          see the cover and the Perspective by Heald) used live-cell two-color
          fluorescence, correlative light and electron microscopy, as well as
          chemical biology, to demonstrate surprisingly that chromosomes can congress
          to the spindle equator before they become bioriented. During congression,
          the leading kinetochore glides alongside kinetochore fibers of other
          already bioriented chromosomes toward microtubule plus ends. The gliding is
          mediated by the kinetochore-associated motor protein. Thus, cells possess a
          mechanism for repositioning monooriented chromosomes from the periphery to
          central areas of the spindle where they can establish connections to the
          other spindle pole.

          ---------------------------------------------------------------------------
          Mammoth DNA Sequences
          ---------------------------------------------------------------------------

          The sequencing of ancient DNA is hoped to lend insight into evolutionary
          studies of a variety of species, including mammals. Poinar et al. (p. 392,
          published online 12 December 2005) used a roughly 28,000-year-old bone from
          a woolly mammoth that had been preserved in the Siberian permafrost to
          directly sequence ancient DNA without prior repair or amplification bias. A
          total of 137,000 reads (13 megabases) of mammoth DNA were generated, with
          only traces of human DNA contamination. Genomic comparisons were used to
          establish the rate of sequence divergence between extinct species and
          modern elephants. Examination of microbial and plant sequences isolated
          from the same source may also give clues about the mammoth's environment.

          ---------------------------------------------------------------------------
          Alloy-Based Aldehyde Synthesis
          ---------------------------------------------------------------------------

          The oxidation of alcohols to aldehydes and ketones is readily accomplished
          stoichiometrically with chromate or permangate anions, but the resulting
          wastes pose a toxicity hazard. A number of solution- phase and
          heterogeneous catalysts have been developed to avoid this problem and make
          use of air as an oxidant. However, the conversion of unactivated primary
          alcohols like 1-octanol to aldehydes has remained challenging. Enache et
          al. (p. 362) report that gold-palladium alloy nanocrystals supported on
          titanium dioxide are efficient catalysts for aldehyde synthesis from
          primary alcohols, including 1-octanol, using O2 or air as the oxidant.
          These reactions proceed about 25 times faster on the alloy catalysts versus
          either of the pure metals alone.

          ---------------------------------------------------------------------------
          Uppers and Downers
          ---------------------------------------------------------------------------

          Some types of microaerophilic marine bacteria contain magnetosomes, which
          are thought to help the organisms to avoid exposure to high concentrations
          of oxygen. In the Northern Hemisphere, these bacteria were assumed to seek
          geomagnetic north, so that in high latitudes they swim down away from
          oxygenated water, the converse was assumed to occur in the Southern
          Hemisphere. Simmons et al. (p. 371) now challenge this dogma and show that
          the Northern Hemisphere magnetotactic bacteria have mixed polarity with
          occasional blooms of south-seeking barbell-shaped bacteria. Rod-shaped
          greigite-producing bacteria tend to aggregate in more reducing conditions,
          whereas south-seeking magnetite-containing bacteria form cocci or short
          chains of cocci (barbells) under more oxidizing conditions.

          ---------------------------------------------------------------------------
          A DNA Methyltransferase Prefers RNA Instead
          ---------------------------------------------------------------------------

          DNA methylation in many eukaryotes plays a vital role in the epigenetic
          regulation of gene expression and in helping maintain the integrity of the
          genome. Characterization of the DNA methyltransferase (Dnmt) activity of
          the most highly conserved member, Dnmt2, by Goll met al. (p. 395) reveals
          that it is actually an RNA methyltransferase. Dnmt2 from a wide range of
          species, including mice and Arabidopsis, adds a methyl group specifically
          to the invariant position 38 of Asp transfer RNA. The close similarity
          between the eukaryotic Dnmts indicates that they may have originally
          evolved from a Dnmt2-like RNA methyltransferase.
    • yoric 26.01 27.01.06, 01:30
      ---------------------------------------------------------------------------
      Frozen Forms
      ---------------------------------------------------------------------------

      When water freezes, it can form hexagonal plates that grow at different
      rates in different directions, and impurities can become trapped at the
      water-ice interfaces. Deville et al. (p. 515; see the Perspective by
      Halloran) exploited these effects to fabricate porous materials from
      concentrated ceramic powder suspensions, which could also be backfilled
      with a second material to make composites. The colloidal particles could
      then be etched away to leave a porous structure composed of the second
      material such as alumina. Using nacre and bone as their inspirations, the
      authors show how they can replicate these complex composite materials.

      CREDIT: DEVILLE ET AL./MATERIAL SCIENCES DIVISION, LBNL

      ---------------------------------------------------------------------------
      Above-Ground Resources
      ---------------------------------------------------------------------------

      With fossil-fuel supplies steadily waning, recent research has focused on
      using plant-derived materials as a renewable substitute (see the Editorial
      by Koonin). Ragauskas et al. (p. 484) review progress in this area, ranging
      from plant genetics research for enhancing supply to enzymatic and other
      catalytic methods for breaking down the biomass into practical fuels and
      fine chemical precursors. Some of the economic challenges and benefits of
      changing the production infrastructure on such a large scale are also
      addressed. Ethanol is a renewable resource already in use as a liquid fuel,
      but its production from corn and cellulose is energy intensive, and some
      analyses have found that the overall process uses more energy than it
      creates. Farrell et al. (p. 506) rigorously analyzed a variety of relevant
      investigations, and found that the studies reporting negative net energy
      values are flawed. All of the studies show that current corn ethanol
      technologies reduce petroleum use significantly relative to gasoline.
      However, new production methods are needed if fuel ethanol is to reduce
      greenhouse gas emissions significantly.

      ---------------------------------------------------------------------------
      Unbalanced Superfluidity
      ---------------------------------------------------------------------------

      The pairing of fermions lies at the heart of superconductivity in metals
      and superfluidity in helium-3, where the spin populations are generally
      equal. Exotic pairing states are expected to arise for imbalanced spin
      populations, such as in the pairing of quark matter in neutron stars and in
      strongly magnetized superconductors, but such systems are difficult to
      realize experimentally. The availability of cold atom clouds of mixed
      atomic spin states has allowed the crossover regime between Bose-Einstein
      condensates of molecules and Bardeen-Cooper-Schrieffer superfluids to be
      probed experimentally. Two studies now address the quantum nature and the
      phase transition of interacting Fermi gases of lithium-6 in which
      unbalanced populations of two different spins states are prepared (see the
      23 December 2005 news story by Cho). Zwierlein et al. (p. 492, published
      online 22 December 2005) examined the condensate fraction and superfluidity
      as a function of spin imbalance and found that superfluidity is remarkably
      stable against population imbalance. Partridge et al. (p. 503, published
      online 22 December 2005) detail the spatial structure and polarization of
      the mixed spin system.

      ---------------------------------------------------------------------------
      Tracking a Turn to the Left
      ---------------------------------------------------------------------------

      Semiconducting single-walled carbon nanotubes (SWNTs) exhibit band-gap
      fluorescence in the near-infrared, and the dielectric environment
      surrounding the SWNT can modulate the band-gap energy. Heller et al. (p.
      508) show that this effect is sensitive enough to distinguish whether DNA
      wrapped around SWNTs is in the native B form or has been shifted to lower
      energies when the DNA adopts the left-handed Z form in the presence of
      divalent metal ions such as mercury or cobalt. These shifts were seen for
      the several different SWNT species present in a buffer solution and were
      used to detect micromolar levels of Hg2 in highly scattering media such as
      whole blood.

      ---------------------------------------------------------------------------
      How High Was It?
      ---------------------------------------------------------------------------

      Oxygen isotope fractionation in rain generally decreases with elevation and
      temperature, and this effect can be used to determine changes in elevation
      of a region over geological time. However, changes in the path of storms or
      the season of precipitation add great uncertainty. Ghosh et al. (p. 511;
      see the Perspective by Poage and Chamberlain) have developed a thermometer
      based on the binding of the temperature-dependent binding of rate 13C and
      18O isotopes in carbonate minerals. This independent estimate of
      temperature can be related to lapse rate and other data used to infer
      elevation of minerals that form in soils. An analysis of soil carbonates in
      Bolivia shows that the high plateau there rose between 6 and 10 million
      years ago.
      • yoric Re: 26.01 27.01.06, 01:31
        ---------------------------------------------------------------------------
        Marine Microbial Gene Ecology
        ---------------------------------------------------------------------------

        Depth stratification occurs in the open ocean not only for large planktonic
        creatures but also for microbial plankton. DeLong et al. (p. 496) sampled
        and sequenced the microorganisms in the water column in the North Pacific
        Subtropical Gyre with the aim of identifying sequences that tracked major
        environmental features. Above 200 meters, distinct photic zone sequences
        were found characteristic of photosynthetic and mobile microorganisms
        requiring iron, mostly Prochlorococcus (itself dividing into high- and
        low-light-tolerant clades) and Peligabacter, accompanied by Euryarchaea.
        Strikingly, photic zone microbes showed evidence of high rates of viral
        infection. Below 200 meters, Chloroflexi, SAR202, Planctomycetales, and
        Crenarchaea were found, with sequences suggesting a predominance of
        "adhesive" microbes that produce pili and synthesize polysaccharides and
        antibiotics.

        CREDIT: DELONG ET AL.

        ---------------------------------------------------------------------------
        Dispersal Patterns of Marine Population
        ---------------------------------------------------------------------------

        The scale of dispersal among marine populations, or "population
        connectivity," has been a notoriously intractable problem. Cowen et al. (p.
        522, published online 15 December 2005; see the cover and the Perspective
        by Steneck) analyzed larval dispersal patterns for a suite of coastal fish
        species in the Caribbean Sea, a large region with complex ocean currents.
        Typical dispersal distances were on the scale of only 10 to 100 kilometers,
        and larval movement was a key factor in their dispersal potential. These
        robust estimates of population connectivity levels have broad relevance for
        the spatial management of marine resources and for understanding the spread
        of invasive species and disease in the marine environment.

        ---------------------------------------------------------------------------
        The Not-So-Quiet Cricket
        ---------------------------------------------------------------------------

        Our own behavior often generates intense sensory feedback, for example,
        during loud shouting. How do we prevent self-induced desensitization of our
        auditory pathway and distinguish between self-generated and external
        sounds? Inhibitory neural signals, called corollary discharges, are sent
        from motor to sensory areas in the brain that suppress responses at the
        precise time that we generate sensory information. Using singing crickets
        as a model system, Poulet and Hedwig (p. 518) identified the cellular basis
        for a corollary discharge that is indispensable in order to distinguish
        self-generated sensory feedback from external information. The corollary
        discharge interneuron in the cricket is driven by the song pattern
        generator and monosynaptically inhibits crucial elements of the auditory
        pathway.

        ---------------------------------------------------------------------------
        Working an Active Site into an Existing Scaffold
        ---------------------------------------------------------------------------

        Designing enzymes that catalyze industrial reactions is one goal of protein
        engineering. Although there has been progress in rational design, it is
        hindered by a limited understanding of structure-function relations. Park
        et al. (p. 535; see the Perspective by Tawfik) have used a strategy that
        mimics natural evolution to change the function of an existing protein
        scaffold. By insertion, deletion, and substitution of several active-site
        loops, followed by point mutations, they introduced-lactamase activity into
        the/ metallohydrolase scaffold of glyoxalase II. Extending the process to
        other scaffolds may allow creation of new enzyme activities with practical
        applications.

        CREDIT: PARK ET AL.

        ---------------------------------------------------------------------------
        Maintaining Different Trees in the Forest
        ---------------------------------------------------------------------------

        Frequency-dependent models for the maintenance of high species diversity of
        trees in tropical forests predict that locally rare species survive
        preferentially when compared with common species. Wills et al (p. 527; see
        the news story by Pennisi) present a longitudinal survey of species
        frequencies from a network of large plots (50 hectares) in seven tropical
        forest sites in the Old and New Worlds. In all of the sites, the diversity
        of recruits into large size classes did increase as the forests aged.
        Forests suffering from limited, temporary disturbance should have the
        ability to recover former levels of diversity, and selection processes
        should favor increasing differences between species.

        ---------------------------------------------------------------------------
        Viruses Reveal the Secrets of the Cougar
        ---------------------------------------------------------------------------

        Conservationists and research scientists have discussed the idea that
        pathogens could be used as genetic tags to record changes in the demography
        of the host population, but until now have failed to get to grips with any
        specific system. Biek et al. (p. 538) have characterized the spatial and
        temporal distribution of nonpathogenic feline immunodeficiency virus (FIV)
        and its natural host, the cougar, as the cats' populations recovered from
        heavy hunting pressure in the first half of the 20th century. Fast-evolving
        RNA viruses such as FIV provide insights into what the host population has
        been doing on an ecological time scale, despite the slow pace of chance of
        the host population.

        ---------------------------------------------------------------------------
        Building the Postsynaptic Density
        ---------------------------------------------------------------------------

        The postsynaptic density (PSD) is a large and dynamic protein complex on
        the postsynaptic side of neural synapses that helps communicate incoming
        signals to cytoplasmic targets. Shank proteins are located deep in the PSD
        and may be involved in organizing the structure of the complex. Baron et
        al. (p. 531) have determined the structure of the sterile alpha motif
        domain of a Shank protein and show that it forms large sheets composed of
        helical fibers stacked side-by-side. Sheets of the Shank protein may form a
        platform for the construction of the PSD complex.
    • yoric Re: This week in "Science" 03.02.06, 02:08
      ---------------------------------------------------------------------------
      Slippery Melt Strands
      ---------------------------------------------------------------------------

      Some exhumed faults contain small pockets of melted rocks, presumably
      produced by frictional heat during an earthquake. The role of these melt
      strands-whether they inhibit faulting or lubricate it-and how they are
      produced in weak faults has been controversial. Di Toro et al. (p. 647)
      have now produced analogous features in the laboratory that they compare
      with actual field samples from an exposed fault. They used a rotary shear
      apparatus to slide rocks against each other at conditions that approximate
      natural earthquakes. Melt pockets were produced that lowered the friction
      and lubricated rather than sealed the fault.

      CREDIT: DI TORO ET AL.

      ---------------------------------------------------------------------------
      Assessing Nanomaterial Safety
      ---------------------------------------------------------------------------

      Scenarios of the dangers of nanotechnology that involve nanorobots running
      amok in our bodies or the world being taken over by "gray goo" are
      considered highly unlikely by many experts. However, a great deal remains
      unknown about the biological effects of human and environmental exposure to
      nanomaterials. Nel et al. (p. 622) review the important chemical and
      biological properties of nanomaterials and outline ways in which the safety
      and toxicity of these substances can be evaluated.

      ---------------------------------------------------------------------------
      Magnetic Maps
      ---------------------------------------------------------------------------

      Magnetic fields on stars like the Sun affect their interiors and their
      surrounding environment. In strongly convecting stars, turbulence is
      expected to break up aligned magnetic fields. Donati et al. (p. 633; see
      the Perspective by Basri) show that in a very-low-mass, fully-convective
      star, substantial fields remain, including a strong dipole component. The
      pattern of magnetic fields on the star's surface was recreated from
      observations of the fine Zeeman splitting of spectral lines caused by
      magnetic fields and other signatures in polarized light.

      ---------------------------------------------------------------------------
      Spectroscopy of Coupled Quantum Dots
      ---------------------------------------------------------------------------

      Single and coupled multiple quantum-dot structures have long been proposed
      as systems for storing and manipulating information in quantum information
      processing. However, finding routes to get the coupled dots to communicate
      are only now being explored. Stinaff et al. (p. 636, published online 12
      January) present a spectroscopic study of pairs of neutral and charged
      quantum dots where coherent coupling between the dots can be induced by a
      combination of electric field resonances and optical excitation. The main
      spectroscopic features can be recovered with a relatively simple molecular
      model.

      ---------------------------------------------------------------------------
      Under Pressure to Separate
      ---------------------------------------------------------------------------

      When hydrogen is produced industrially, the gas stream is typically
      contaminated with H2S, CO2, steam, and other impurities that need to be
      removed. Ideally, the separation should occur at high pressure to avoid
      costly recompression, but current membrane materials do not work well at
      high pressure. Lin et al. (p. 639) have developed polymeric membrane
      materials that preferentially absorbed CO2 and other impurities and that
      showed greater efficiency as the pressure of the gas feed was increased.
      Unlike conventional membranes, the presence of impurities plasticizes the
      polymer membranes and improves their selectivity and permeability.

      ---------------------------------------------------------------------------
      Differences Without Diversity
      ---------------------------------------------------------------------------

      When adapting to varied environments, some plants and animals take on
      alternative phenotypes but retain the same genotype. The classic laboratory
      model organism, the tobacco hawk-moth Manduca sexta, is monophenic with a
      green larval phenotype. However, the sister species, the five-spotted
      hawkmoth M. quin-quemaculata, is polyphenic with a black phenotype at
      20{degrees}C and green phenotype at 28{degrees}C. Suzuki and Nijhout (p.
      650; see the news story by Pennisi) sensitized M. sexta to environmental
      temperature by using a black mutant line. Mutation of the black gene
      reduced juvenile hormone and increased melanization of the larval
      epidermis. Heat shock of the black mutant generated larva with colors
      ranging from black to green. Two lines were established with the desired
      phenotype (green or black) by selecting individuals from subsequent
      generations of black mutant populations. Polyphenism can thus evolve by
      genetic accommodation regulated by juvenile hormone.

      CREDIT: SUZUKI AND NIJHOUT

      ---------------------------------------------------------------------------
      Hydrogenation with Less Guidance
      ---------------------------------------------------------------------------

      The selective addition of hydrogen across carbon-carbon double bonds to
      generate homochiral products is used to prepare a wide range of compounds,
      both in the lab and in industry. However, the scope of this reaction is
      often limited by the need for a specific group adjacent to the olefin,
      whether a phenyl or a coordinating oxygen or nitrogen substituent, to
      direct the catalyst. Bell et al. (p. 642, published online 8 December 2005;
      see the Perspective by Wills) show that a class of iridium compounds,
      coordinated by chiral ligands with both phosphinite and pyridine groups,
      can catalyze the asymmetric hydrogenation of olefins bearing only simple
      alkyl substituents. They reduce a vitamin E precursor at two noncontiguous
      C=C bonds in an alkyl chain with net selectivity exceeding 98%.

      ---------------------------------------------------------------------------
      Neurons Navigate Downstream
      ---------------------------------------------------------------------------

      Neurons born near the brain's ventricles travel out to the olfactory bulb
      to function in olfaction. A steady stream of migrating neurons makes the
      journey not only in early development, but also during adulthood. Sawamoto
      et al. (p. 629, published online 12 January) now provide insight into how
      these neurons find their way in mice. The ventricles of the brain are lined
      with cells bearing cilia on their surface. The coordinated beating of these
      cilia develops a stream of fluid coursing through the ventricles carrying
      signaling factors that guide the traveling neurons. Mutations that disrupt
      the cilia also disrupt establishment of the signaling gradient and the
      migration of the neurons to the olfactory bulb.
      • yoric Re: This week in "Science" 03.02.06, 02:10
        ---------------------------------------------------------------------------
        Flexible RNA
        ---------------------------------------------------------------------------

        Conformational flexibility of RNA molecules arises from a complex set of
        local motions, collective domain motions, and overall rotational diffusion.
        Zhang et al. (p. 653) describe a domain-elongation strategy that allows
        them to resolve picosecond local motions and nanosecond domain motions by
        nuclear magnetic resonance (NMR) spectroscopy. By comparing the structural
        dynamics to the conformational differences evident in eight HIV-1
        transactivation response element structures, they show that a hierarchical
        network of local and collective internal motional modes underlies RNA's
        ability to change conformation adaptively.

        ---------------------------------------------------------------------------
        Keeping Tabs on Schools of Fish
        ---------------------------------------------------------------------------

        A technology for continuously monitoring fish populations over areas on the
        scale of continental shelves has been developed by Makris et al. (p. 660)
        that uses the ocean as an acoustic waveguide. Its areal survey rate is
        several orders of magnitude greater than that of current survey methods.
        The technology has been used to provide instantaneous images of enormous
        fish shoals in their entirety, as well as to reveal rapid temporal and
        spatial changes in these shoals.

        CREDIT: MAKRIS ET AL.

        ---------------------------------------------------------------------------
        HIV Decline in Zimbabwe
        ---------------------------------------------------------------------------

        The human immunodeficiency virus epidemic in Zimbabwe is slowing down
        because of a large-scale change in sexual behavior, particularly among
        young and educated people. Gregson et al. (p. 664; see the Perspective by
        Hayes and Weiss) present an analysis that disentangles decline from the
        mortality of high-risk subpopulations and a lower infection rate of young
        people. These trends may be taking place across much of sub-Saharan Africa
        and seem to result from a combination of national program activities,
        condom use, and increased fear of death from AIDS.

        ---------------------------------------------------------------------------
        Smelling in Stereo
        ---------------------------------------------------------------------------

        Stereo sound localization uses both intensity and phase differences between
        the ears to determine source direction. Rajan et al. (p. 666) report that
        olfaction can use similar cues. Trained rats can locate an odor source to
        the left or right using concentration differences or time-of-arrival
        differences. Rats can perform this task within a single sniff. Olfactory
        bulb neuronal responses recorded in response to directional odor stimuli
        were highly selective for the direction of odor stimulation.

        ---------------------------------------------------------------------------
        Processing Nothing But Faces
        ---------------------------------------------------------------------------

        Are there areas in the brain that are solely dedicated to the processing of
        faces? Tsao et al. (p. 670; see the Perspective by Kanwisher) used
        functional magnetic resonance imaging on monkeys in order to identify areas
        responding to faces, and then implanted electrodes in the principal area in
        order to identify its properties at the single-cell level. In this region,
        virtually all of the cells only responded to faces. This finding supports
        the idea that the cortex has a modular architecture.

        ---------------------------------------------------------------------------
        Mantle Minerals as Waveguides
        ---------------------------------------------------------------------------

        Seismic waves travel a bit faster horizontally through the deepest part of
        Earth's mantle than they do radially. This difference may be caused by a
        preferred orientation in the minerals induced by flow or deformation. The
        dominant mineral phase is MgSiO3 postperovskite (produced by a
        transformation with pressure from perovskite), but determining many of its
        properties can be problematic because of the high pressures and
        temperatures required for its stability. Merkel et al. (p. 644) examined an
        analog phase, MgGeO3, which forms the postperovskite structure at much
        lower pressures. Compression of MgGeO3 caused slip on some lattice planes
        such that the one crystallographic direction becomes preferentially
        aligned. This alignment, when extended over a large area, could account for
        observed difference in seismic waves.

        ---------------------------------------------------------------------------
        Closing In on Receptor Binding
        ---------------------------------------------------------------------------

        Binding of the urokinase plasminogen activator (uPA) to its cellular
        receptor (uPAR) mediates biological activities that play a role in tumor
        progression and metastasis. Huai et al. (p. 656) have determined the
        crystal structure of uPAR complexed with the amino-terminal
        receptor-binding fragment of uPA and an antibody to the receptor at 1.9
        angstrom resolution. The receptor displays some conformational flexibility
        that may allow it to interact with a variety of ligands. The structure
        provides a basis for the design of uPA-uPAR antagonists.
    • yoric 09.02 10.02.06, 02:03
      ---------------------------------------------------------------------------
      Hitching a Ride on the Chromosome
      ---------------------------------------------------------------------------

      The Kaposi's sarcoma-associated herpesvirus (KSV) does not integrate into
      its host but is maintained as a stable episome. In order to be distributed
      to daughter cells, the virus associates with human chromosomes. Barbera et
      al. (p. 856) show that the viral latency-associated nuclear antigen (LANA)
      binds directly to specific chromosome components, the core histones H2A and
      H2B. LANA could not bind in systems that lack these two histones. The
      crystal structure of the complex revealed that a hairpin formed when LANA
      interacts with a particular acidic region formed by H2A and H2B within the
      nucleosome.

      CREDIT: BARBERA ET AL.

      ---------------------------------------------------------------------------
      Cosmic Magnetism
      ---------------------------------------------------------------------------

      Primordial magnetic fields arose in the hot young universe as a by-product
      of the gravitational collapse of cosmic structures. Ichiki et al. (p. 827,
      published online 5 January; see the Perspective by Durrer) show that
      primordial magnetic fields are strong enough to explain the fields seen in
      galaxy clusters and galaxies today. For a range of cosmic scales, they
      calculate how seed magnetic fields are produced by currents caused by the
      differing motions of charged protons and electrons as photons scattered off
      them during cosmic epochs before the first atoms formed.

      ---------------------------------------------------------------------------
      Assembling a CO Triangle
      ---------------------------------------------------------------------------

      The Fischer-Tropsch process uses catalysts and high temperature and
      pressure conditions to synthesize hydrocarbons from CO and H2. However,
      efforts to link CO units more selectively under milder conditions have been
      largely unsuccessful, in part because of the high strength of the CO triple
      bond. Summerscales et al. (p. 829; see the Perspective by Wayland and Fu)
      have used a uranium complex to assemble three CO units in a triangular ring
      joined through the carbons and suspended between two U centers, each of
      which donates an electron to produce a (CO)32- dianion. Structural data and
      density functional theory suggest that uranium f orbitals are especially
      suited to stabilizing the structure.

      CREDIT: SUMMERSCALES ET AL.

      ---------------------------------------------------------------------------
      Swiveling in a Net
      ---------------------------------------------------------------------------

      Liquid water is held together by a net of intermolecular hydrogen (H) bonds
      that constantly break and reassemble. Rotation of water molecules would
      seem to require small diffusive steps as donated H-bonds are gradually
      transferred between acceptors. Numerical simulations by Laage and Hynes (p.
      832, published online 26 January 2006) support a more delocalized mechanism
      in which rotation is controlled by coordination changes at the H-bond
      accepting partners in the solvation shell. Thus, rotation is generally
      restricted, but when bulk coordination is simultaneously added to the
      current acceptor and removed from a nearby potential acceptor, the donor
      molecule rapidly swivels from one to the other.

      ---------------------------------------------------------------------------
      Shooting Methane Blanks
      ---------------------------------------------------------------------------

      Numerous rapid increases in the concentration of atmospheric methane
      occurred during the last glacial period and deglaciation, associated with
      abrupt climate warming events. The "clathrate gun" hypothesis argues that
      the source was methane clathrates below the sea floor that were rapidly
      destabilized by ocean warming. Sowers (p. 838) tested that hypothesis with
      measurements of the isotopic composition of hydrogen in methane trapped in
      bubbles of the GISP2 Greenland ice core for several episodes of rapid
      warming during the last glacial period and the last deglaciation. He finds
      no evidence that methane clathrates, which have a unique hydrogen isotopic
      signature, contributed significantly to the methane concentration peaks.

      ---------------------------------------------------------------------------
      In a Wider Warm Spell
      ---------------------------------------------------------------------------

      A number of unusually warm or cold intervals can be seen in most proxy
      records of temperature of the last millennium, so how can we assess the
      relative magnitude of the current warm period? Osborn and Briffa (p. 841)
      compared the geographic extent of late 20th-century warming in the Northern
      Hemisphere to the distribution of both warm and cold intervals for the last
      1200 years by adopting specific thresholds to define warm and cold periods
      in order to avoid questions about of the absolute magnitude of warm and
      cold events, and they considered only a subset of the data chosen
      specifically for its value as a temperature proxy. They find that the
      continuing warmth of the late 20th century is the most widespread and
      longest temperature anomaly of any kind since the 9th century A.D.

      ---------------------------------------------------------------------------
      Modulating the Scaffold
      ---------------------------------------------------------------------------

      Signaling complexes are often preassembled into complexes. So-called
      scaffold proteins help to maintain these complexes and can contribute to
      specificity in various signaling systems. Bhattacharyya et al. (p. 822,
      published online 19 January; see the Perspective by Breitkreutz and Tyers)
      show that the role of such scaffolds can go beyond support and spatial
      localization. In yeast, mating pheromone causes activation of a series of
      kinases that all interact with the scaffold protein Ste5, and signal
      transduction through this pathway activates the mitogen-activated protein
      kinase Fus3. When Fus3 binds to Ste5, this interaction causes an allosteric
      partial activation of Fus3's kinase activity. Fus3 then appears to provide
      negative feedback in the system by phosphorylating the Ste5 scaffold.

      ---------------------------------------------------------------------------
      Basic Body Design
      ---------------------------------------------------------------------------

      Why have certain features of animal body plans, such as bilateral symmetry,
      been conserved since the early Cambrian period, whereas at the species
      level, there has been a continuous accumulation of changes? Davidson and
      Erwin (p. 796) propose that the genetic regulatory networks associated with
      development contain three components that differ in their evolutionary
      conservation. Evolutionarily inflexible subcircuits ("kernels") perform
      essential upstream functions in building given body parts, while other
      small subcircuits ("plug-ins") have been repeatedly co-opted to diverse
      developmental purposes, leaving highly flexible, individual cis-regulatory
      linkages to regulate detailed phenotypic variation.

      CREDIT: DAVIDSON AND ERWIN
      • yoric Re: 09.02 10.02.06, 02:04
        ---------------------------------------------------------------------------
        Self-Promoting Signals
        ---------------------------------------------------------------------------

        Release of proapoptotic factors from the mitochondria leads to cell death,
        and signaling events appear to occur "upstream" or "downstream" of the
        mitochondria. This neat organization is challenged by Lakhani et al. (p.
        847; see the Perspective by Adrain and Martin) in an analysis of knockout
        mice lacking caspase 3 and caspase 7, both thought to be "downstream."
        Caspases 3 and 7 are activated when clipped by other caspases after they
        have been stimulated by molecules released from the mitochondria. In the
        knockout animals, not only was the "downstream" event, apoptosis,
        inhibited, but "upstream" events, such as loss of the integrity of the
        mitochondrial membrane and release apoptotic factors, were also delayed.
        These unanticipated results may indicate that caspase 3 and caspase 7 act
        to promote mitochondrial signals that lead to their own activation and
        raise a "chicken or egg" conundrum regarding the initiation of the
        mitochondrial death signals.

        ---------------------------------------------------------------------------
        Role for Translation in Maintaining Totipotency
        ---------------------------------------------------------------------------

        Germ cells are totipotent--they can give rise to all different cell types.
        Ciosk et al. (p. 851) now show that the translational regulators MEX-3 and
        GLD-1 maintain totipotency in the germ line of the nematode Caenorhabditis
        elegans. When these two factors were eliminated, ectopic cells were found
        in the gonad due to the differentiation of germ cells into somatic cell
        types such as muscle, neurons, and intestinal cells. This
        transdifferentiation was associated with a loss of germ cell features such
        as P granules and germ cell proteins. These "worm teratomas" may be useful
        as a genetically tractable model system for understanding teratoma biology.

        ---------------------------------------------------------------------------
        Word on the Street
        ---------------------------------------------------------------------------

        To understand what forces control the emergence of extraordinarily
        successful songs, movies, or plays, Salganik et al. (p. 854; see the
        Perspective by Hedstrom) have assessed the influence of social information,
        that is, information about what other people are watching and listening to,
        on market performance. By querying students online about their assessments
        of a defined set of songs, the authors show that access to social
        information increases the tendency for certain songs to do well, and that
        the quality of the song is only partly reflected in its market performance.

        ---------------------------------------------------------------------------
        Depressed Mouse Needs Long-Term Treatment
        ---------------------------------------------------------------------------

        What are the neurobiological mechanisms through which psychosocial
        experience may alter the activity of the mesolimbic dopamine system? Berton
        et al. (p. 864); see the news story by Holden) demonstrate that
        long-lasting behavioral and molecular changes develop in mice after
        suffering a series of aggressive encounters. The persistent social aversion
        seen in these mice can be completely normalized by chronic (but not acute)
        treatment with clinically effective antidepressants. The growth factor
        brain-derived neurotrophic factor (BDNF) is required within dopaminergic
        reward regions for these behavioral alterations to unfold.

        ---------------------------------------------------------------------------
        Going Their Very Separated Ways
        ---------------------------------------------------------------------------

        In turbulent flows, neighboring particles are often sent on very different
        pathways, which is why this type of flow is exploited in industrial mixing
        processes. One long-standing question is whether the intermixing depends on
        time only, or if it also depends on the initial separation distance between
        any two particles. Bourgoin et al. (p. 835) show that for violently
        turbulent flows, the rate of particle separation is also dependent on their
        initial separation distance, in agreement with long-standing predictions of
        Batchelor.

        ---------------------------------------------------------------------------
        Marked Out for Activation
        ---------------------------------------------------------------------------

        In eukaryotes, genomic DNA is packaged by histones into nucleosomes within
        chromatin. Chromatin plays a critical role in the regulation of gene
        expression, through the covalent modification of the histone N-terminal
        tails. One of the most prevalent histone modifications is the acetylation
        of lysine 16 in the tail of histone H4 (H4 K16Ac), which is generally
        considered to be an activating mark. Shogren-Knaak et al. (p. 844; see the
        news story by Marx) assayed the function of this modification in vitro by
        reconstituting nucleosome arrays on which the only modification is H4
        K16Ac. As expected, the mark prevented compaction and cross-fiber
        interactions of 30-nanometer? like chromatin fibers. In vivo, the mark was
        enriched in decondensed chromatin. H4 K16Ac also interfered with the
        ability of a chromatin remodeling enzyme to shuffle a single nucleosome on
        DNA. Thus, H4 K16Ac influences both the structure and function of
        chromatin.

        ---------------------------------------------------------------------------
        Neurotransmitters and Higher Cognitive Functions
        ---------------------------------------------------------------------------

        The activity of the human prefrontal cortex is modulated by ascending
        neurotransmitter systems. However, the differential modulation of cognition
        by distinct neurochemical systems in man has yet to be elucidated.
        Chamberlain et al. (p. 861) demonstrate in healthy human volunteers a
        double-dissociation for involvement of noradrenaline and serotonin in two
        cognitive functions that are critically implicated in everyday behavioral
        regulation and in the manifestation and treatment of psychiatric illnesses.
    • yoric Re: This week in "Science" 17.02.06, 01:46
      ---------------------------------------------------------------------------
      Knowing Your Head from Your Toes
      ---------------------------------------------------------------------------

      Embryos of various organisms, such as insects and amphibians, establish
      head and tail ends at a very early stage because of the localization of
      cell fate determinants during oogenesis. Mammalian embryos have been
      thought to be different, with equipotent blastomeres in the early stages.
      Deb et al. (p. 992) show that early mouse embryos may also have localized
      determinants. In particular, Cdx2 messenger RNA is asymmetrically localized
      toward the vegetal pole of mouse oocytes, changes orientation after
      fertilization, and becomes concentrated in the late dividing blastomere of
      the two-cell-stage embryo. Thereafter, it marks the cell lineage leading to
      trophectoderm. Thus, specification of the trophectoderm is already
      pre-patterned in the mouse oocyte.

      CREDIT: DEB ET AL.

      ---------------------------------------------------------------------------
      Messy Moon Motions
      ---------------------------------------------------------------------------

      Two additional moons, named Mab and Cupid, and two outer rings have been
      discovered around Uranus by Showalter and Lissauer (p. 973, published
      online 22 December 2005; see the cover and the Perspective by Murray).
      These new members of the uranian system were spotted in images from the
      Hubble Space Tele-scope and traced in earlier pictures from Voy-ager 2.
      Substantial changes are seen in the pas-sages of the moons and brightness
      of the rings since the Voyager 2 fly-by. Many of Uranus' moons do not
      follow simple keplerian orbits but exhibit complex dynamics, which suggest
      that the whole system is gravitationally unstable or chaotic.

      ---------------------------------------------------------------------------
      Martian Aurorae
      ---------------------------------------------------------------------------

      Aurorae occur when charged particles are accel-erated along magnetic field
      lines into a plane-tary atmosphere. Lundin et al. (p. 980) have mapped the
      motions of ions and electrons flow-ing in arcs above Mars using the
      ASPERA-3 experiment on board the orbiting Mars Express spacecraft. The
      looped paths of charged particles in the martian atmosphere are associated
      with regions of strong magnetism on the planet's sur-face, where aurorae
      have also been seen. This formation mechanism for aurorae on Mars is
      similar to the one for Earth.

      ---------------------------------------------------------------------------
      Power to the People Movers
      ---------------------------------------------------------------------------

      Despite their high energy density, lithium batter-ies are not used in cars
      and other transportation applications because they cannot deliver power at
      a sufficiently high rate. Kang et al. (p. 977) report a combined
      theoretical and experimental exploration of a class of battery electrodes
      with a layered transition-metal structure that permits much faster lithium
      ion transport. The results suggest a general strategy for improving
      lithium-battery power delivery.

      ---------------------------------------------------------------------------
      Metallic Mantle Minerals
      ---------------------------------------------------------------------------

      In smaller terrestrial planets having an iron core, the main silicate
      mineral at depth is thought to be composed of MgSiO3, but its stability at
      higher pressures cannot yet be determined experimentally. Umemoto et al.
      (p. 983) used numerical calculations to infer its stability at extreme
      conditions that may be obtained in the giant outer planets or in newly
      found, large Earth-like planets in other solar systems. The results imply
      that MgSiO3 will dissociate to MgO and SiO2. The compression of electronic
      orbitals at high pressure will lead to more metal-like behavior of these
      compounds, which would affect their thermal properties and planetary heat
      flow.

      CREDIT: UMEMOTO ET AL.

      ---------------------------------------------------------------------------
      Going Faster
      ---------------------------------------------------------------------------

      How much meltwater the Greenland Ice Sheet may be contributing to global
      sea-level rise depends on the mass balance between the inte-rior of the ice
      sheet and its margins. The present understanding is that the interior is
      gaining mass but the margins are eroding even more rapidly. Rignot and
      Kanagaratnam (p. 986; see the Perspective by Dowdeswell) present an ice
      velocity map of the entire Greenland Ice Sheet and estimate the rate of ice
      discharge around its entire margin. A comparison of their results to past
      data shows that there has been a widespread acceleration of ice flow since
      1996, that mass loss has doubled in that time, and that ice dynamics, which
      are particularly dependent on warming, dominate the rapid retreat of
      Greenland's glaciers.

      ---------------------------------------------------------------------------
      Rethinking Sexual Selection
      ---------------------------------------------------------------------------

      Much that Darwin said about sexual selection in1871 is culturally and
      socially biased. His theory attempts to explain why males and females
      differ, often in ways that are contrary to expectations given natural
      selection. Roughgarden et al. (p. 965) offers an alternative model that
      presents social selection theory based on cooperative game theory. Thus,
      cooperation among individuals in sexual relations, as in other social
      relations, gener-ates advantages such that groups of individu-als that
      succeed in cooperation may have greater fitness vis-a-vis groups that fail
      to cooperate. Such differences could generate selection pressure toward
      individuals and groups that cooperate.

      ---------------------------------------------------------------------------
      Sex Pays Off
      ---------------------------------------------------------------------------

      Sex is expensive. For example, the daughters of an asexual female can
      reproduce at twice the rate of the progeny descended from a sexual female,
      assuming a sex ratio of one male to one female. So why is sex maintained
      despite this apparent disadvantage? One suggestion has been that the lack
      of meiotic recombination in asexual lineages results in the accumulation of
      mutations in a sex-uals. Paland and Lynch (p. 990; see the Perspective by
      Nielsen) studied sexual and obligate asexual lineages of Daphnia (water
      fleas). Through a process of selective interference, the asexual line-ages
      developed a fourfold greater number of mildly deleterious mutations in
      their mitochondrial genomes compared to the sexual lineages.
      • yoric Re: This week in "Science" 17.02.06, 01:47
        ---------------------------------------------------------------------------
        Microbial Mobilization of Elemental Sulfur
        ---------------------------------------------------------------------------

        Microbial oxidation of elemental sulfur is important in the global sulfur
        cycle, but little is known about the mechanism of this reaction. Urich et
        al. (p. 996) have determined a 1.7 angstrom resolution structure of a
        sulfur oxygenase reductase from a thermoacidophilic archaeon. A spherical,
        positively charged reaction chamber forms from 24 monomers. Linear sulfur
        probably enters through apolar channels and is bound by a cysteine
        persulfide in one of the 24 active sites. This sulfane sulfur chain is the
        substrate of disproportionation and oxygenation at a nearby mononuclear
        nonheme iron.

        CREDIT: URICH ET AL.

        ---------------------------------------------------------------------------
        Revving Up the Circadian Clock
        ---------------------------------------------------------------------------

        In mammals, circadian rhythms regulate many aspects of behavior and
        physiology, including sleep-wake cycles and metabolism. Disruption of these
        rhythms is associated with certain psychiatric illnesses such as bipolar
        disorder. Yin et al. (p. 1002) describe a potential molecular link between
        circadian clock control and bipolar disorder. In cultured fibroblasts, a
        key negative regulator of clock gene expression, the Rev-erb nuclear
        receptor, was rapidly degraded after exposure to lithium, which is used in
        treating bipolar disorder. This destabilization of Rev-erb led to
        activation of clock genes.

        ---------------------------------------------------------------------------
        Don't Think Too Much
        ---------------------------------------------------------------------------

        We hope that thinking about a decision results in a good choice, and that
        the more complex the decision, the more time and effort were invested in
        thinking about it. Dijksterhuis et al. (p. 1005; see the news story by
        Miller) show that deliberate thinking about simple decisions (such as
        buy-ing a shampoo) does yield choices that are judged to be more satisfying
        than those made with lit-tle thought, as expected. However, as the
        decisions become complex (more expensive items with many characteristics,
        such as cars), better decisions and happier ones come from not attending to
        the choices but allowing one's unconscious to sift through the many
        permutations for the optimal combination.

        ---------------------------------------------------------------------------
        Norepinephrine, Pleasure, and Reward
        ---------------------------------------------------------------------------

        Although norepinephrine is generally accepted to play a role in the adverse
        effects of opiate with-drawal, its role in mediating the rewarding and
        stimulatory effects of opiates remains controversial.Olson et al. (p. 1017)
        discovered that genetically engineered mice unable to synthesize
        norepi-nephrine, due to a targeted disruption of the dopamine-hydroxylase
        (DBH) gene, appear totally blind to morphine reward, as measured in a
        conditioned place preference test. Importantly, sensi-tivity to morphine
        reward was completely rescued by restoration of DBH expression in a
        specific set of neurons.

        ---------------------------------------------------------------------------
        Rats Are Smarter Than We Think
        ---------------------------------------------------------------------------

        Although both human and nonhuman animals may use basic associative
        mechanisms to learn about causal relations, humans have a deeper
        understanding of causal relations that cannot be reduced to associative
        learning. In contrast, there is no definite proof that animals, including
        nonhuman pri-mates, possess deep causal understanding. Blaisdell et al. (p.
        1020) present evidence that rats can reason about the effects of their
        causal interventions. Rats correctly predicted that interventions on one
        effect of a common-cause model would not affect the other effect. Thus,
        rats can engage in more sophisticated causal reasoning than predicted by
        associative models.

        ---------------------------------------------------------------------------
        Power Laws and Scale Insects
        ---------------------------------------------------------------------------

        Power laws apply to many patterns in ecological systems, yet mechanistic
        understanding of the factors behind power law distributions in populations
        have proved largely elusive. Vandermeer and Perfecto (p. 1000) studied the
        biology and the spatial population dynamics of a green scale insect on 40
        hectares of shade-grown coffee in Mexico. The scales have several natural
        enemies (parasitoid wasps and predatory leaf-beetles), but some groups are
        guarded from these enemies by honeydew-seeking Azteca ants. The frequency
        distribution of scale cluster sizes among coffee plants generally follows
        the power-function distribution expected for exponentially growing
        populations founded at random previous times. The basic power function is a
        result of exponential population growth operating at the individual bush
        level; deviations from the power function are the result of incomplete
        migration patterns of the scale and protection from its ant mutualist.

        ---------------------------------------------------------------------------
        Transcriptional Regulation of Synaptic Change
        ---------------------------------------------------------------------------

        Changes in synaptic activity of neurons can result in stable changes in
        neuronal function. Many such long-term changes are thought to be mediated
        by altered transcription of key target genes. Two studies have identified a
        role for the transcriptional regulator MEF2 (myocyte enhancer factor 2) in
        the control of synapse number (see the Perspective by Beg and Scheiffele).
        In cultured rat embryonic neurons, Flavell et al. (p. 1008) found that the
        calcium-dependent signaling that accompanied neuronal activity led to
        activation of MEF2 and decreased numbers of synapses. Depletion of MEF2A
        and MEF2D caused increased synapse formation and MEF2-activated
        transcription of genes known to reduce synapse formation. Shalizi et al.
        (p. 1012) also found regulation of synapse number by MEF2 in rat cerebellum
        and cerebellar slices. MEF2A appeared to act by repressing transcription of
        the gene encoding the transcription factor Nur77. MEF2A showed this
        repression activity when sumoylated (modified by covalent linking of small
        ubiquitin-related modifier protein, or SUMO). Sumoylation was, in turn,
        dependent on calcium-dependent dephosphorylation of MEF2A. Phosphorylation
        of MEF2A appeared to switch MEF2A between an acetylated and a sumoylated
        state.
        • kapitalizm Re: This week in "Science" 10.03.06, 21:18
          ...przypuszczam, ze w tym ustepie powinno byc 'subconscious', a
          nie 'unconscious':


          > Don't Think Too Much


          However, as the
          decisions become complex (more expensive items with many characteristics,
          such as cars), better decisions and happier ones come from not attending to
          the choices but allowing one's _unconscious_ to sift through the many
          permutations for the optimal combination.
    • yoric 24.02 24.02.06, 01:45
      This Week in SCIENCE
      February 24 2006, 311 (5764)

      THIS WEEK IN SCIENCE
      --------------------

      ---------------------------------------------------------------------------
      Dissecting Stratospheric Temperature Trends
      ---------------------------------------------------------------------------

      Since 1980, the lower stratosphere has cooled significantly. This cooling
      trend has been ascribed to the influence of anthropogenic effects--mainly
      stratospheric ozone depletion and the buildup of greenhouse gases. However,
      this process occurred in two major steps. Ramaswamy et al. (p. 1138)
      investigated the temporal structure of the trend using simulations with a
      climate model, in order to delineate the roles of natural and anthropogenic
      forcings. Although the overall downward trend in temperature is the result
      of anthropogenic factors, natural forcing by changes in solar irradiance
      and volcanic aerosols have superimposed on the gradual longer term decrease
      the shorter time-scale structure recorded in the observations. Thus, while
      anthropogenic factors are responsible for the 25-year-long stratospheric
      cooling trend, the steps were caused by natural forcing.

      CREDIT: RAMASWAMY ET AL.

      ---------------------------------------------------------------------------
      Early Aquatic Mammal
      ---------------------------------------------------------------------------

      Mesozoic mammals have been thought to have been small, nocturnal, and
      confined to a few niches on land until the demise of the dinosaurs 65
      million years ago. Most are recorded by isolated jaw fragments or teeth. Ji
      et al. (p. 1123; see the cover and the Perspective by Martin) now describe
      a Jurassic mammal from China that breaks this mold. The fossil is well
      preserved, and impressions of fur can be seen on its body and scales on a
      broad tail (similar to a beaver overall). The animal was fairly large,
      approaching not quite half a meter in length, and the shape of its limbs
      suggest that it was adapted for swimming and burrowing. The combination of
      both primitive and derived features in this early mammal, and the
      demonstration that mammals had occupied aquatic habitats by this time,
      expands the evolutionary innovations of early mammals.

      ---------------------------------------------------------------------------
      Segregating Old and New Chromatids
      ---------------------------------------------------------------------------

      During chromosome replication, paired chromatids ultimately separate during
      cell division to become individual chromosomes in daughter cells. Although
      one might expect segregation of chromatids (with old versus newly
      synthesized strands) to daughter cells to be random, some studies have
      suggested that nonrandom segregation can occur. Armakolas and Klar (p.
      1146) looked for evidence of chromosome-specific nonrandom strand
      segregation in various cell types. After mitotic recombination, mouse
      chromosome 7 shows random segregation in cardiomyocytes, pancreatic, and
      mesoderm cells, whereas nonrandom segregation is seen in embryonic stem
      cells, endoderm cells, and neuroectoderm cells. These segregation patterns
      may be important for developmental decisions and have implications for
      imprinting and inheritance.

      CREDIT: ARMAKOLAS AND KLAR

      ---------------------------------------------------------------------------
      Wind Up
      ---------------------------------------------------------------------------

      Recent evidence suggests that short-duration gamma-ray bursts are produced
      by fast mergers of compact objects, such as double-neutron stars and
      neutron-star, black-hole binaries. However, lingering x-ray emissions seen
      hundreds of seconds after some bright gamma-ray bursts are still a problem
      for this model because simulations predict the merger should happen in
      seconds. Dai et al. (p. 1127) suggest that the merger process proceeds less
      catastrophically, producing a differentially rotating millisecond pulsar
      rather than a final black hole. Because the pulsar's layers spin at
      different rates, its magnetic fields become wound up and release energy
      sporadically through reconnection-driven explosive x-ray flares.

      ---------------------------------------------------------------------------
      Red and Blue
      ---------------------------------------------------------------------------

      Globular star clusters in elliptical galaxies come in two colors, red or
      blue. Many astronomers have assumed the colors reflected age differences,
      such that blue clusters formed more recently than red ones, and implying
      two epochs of globular cluster formation during the growth history of
      elliptical galaxies. Yoon et al. (p. 1129, published online 19 January; see
      the Perspective by Freeman), however, show that a single coeval population
      of globular clusters can exhibit color bimodality due to a nonlinear
      relationship between color and metallicity in stars. Galactic spectral
      models that include treatment of horizontal branch stars can reproduce the
      color distributions even with stars of similar age, removing the need for
      multiple populations of globular clusters.

      ---------------------------------------------------------------------------
      Finding the Path for Quantum Computing
      ---------------------------------------------------------------------------

      Quantum computers hold great promises for solving difficult problems
      otherwise intractable on classical computers. However, actually finding
      algorithms, or the quantum circuitry on which the algorithms can be
      implemented, is challenging because the number of components in the quantum
      circuits should grow only polynomially with the complexity of the problem
      you want to solve. While manipulation of a single qubit can be thought of
      as the rotation of a unit vector in a sphere, a quantum computer will
      typically have n interacting qubits, giving rise to a 2n-dimensional space,
      Thus Nielsen et al. (p. 1133; see the Perspective by Oppenheim) recast the
      problem of finding an efficient quantum algorithm in terms determining the
      shortest path between two points in a certain curved, or Riemannian,
      geometry. The mathematical tools of Riemannian geometry can then be used to
      provide an understanding of quantum computation and a possible route to
      determine efficient quantum algorithms.

      ---------------------------------------------------------------------------
      Bacteria Have Social Lives Too
      ---------------------------------------------------------------------------

      Quorum sensing provides a mechanism for bacteria to monitor one another's
      presence and to modulate gene expression in response to changes in
      population density. Camilli and Bassler (p. 1113) review how the
      synchronous response of bacterial populations to small molecule
      autoinducers that is involved in quorum sensing confers social behavior to
      bacteria. Autoinducers are packaged in a variety of ways and have varying
      half-lives, depending on their roles. Autoinducer signals are integrated
      within each cell by second-messenger systems, probably by cdiGMP signaling.
      • yoric Re: 24.02 24.02.06, 01:45
        ---------------------------------------------------------------------------
        Positive and Negative Transcription Regulators
        ---------------------------------------------------------------------------

        The Drosophila Polycomb group (PcG) and Trithorax group (trxG) of
        epigenetic regulators maintain, respectively, either repressed or active
        chromosomal transcriptional states. They act via the same dual-function
        chromosomal elements to exert their effects. Transcription through these
        elements switches them from silent Polycomb response elements (PREs) to
        active Trithorax response elements (TREs). Sanchez-Elsner et al. (p. 1118)
        show that noncoding RNAs generated by PRE/TRE transcription in the
        ultrabithorax (Ubx) locus function to recruit the histone methyltransferase
        Ash1, an activator of Ubx expression. Ash1 interacts specifically with the
        chromatin-associated TRE noncoding RNAs. Although TRE noncoding RNAs are
        retained at Ubx TREs, possibly through RNA-DNA interactions, they can also
        act in trans to recruit Ash1 to their counterpart TREs and activate Ubx
        transcription.

        ---------------------------------------------------------------------------
        Timely Demise and Immune Control
        ---------------------------------------------------------------------------

        Apoptosis, or programmed cell death, is a fundamental means by which the
        immune system regulates itself. Autoimmunity develops when components of
        the cell death machinery, such as the cell surface receptor Fas and its
        ligand, are mutated or absent. Generally, this change is considered to be
        due to direct defects in lymphocytes, leading to their aberrant activation
        and proliferation. However, Chen et al. (p. 1160; see the news story by
        Marx) challenge this assumption by revealing that correctly regulated cell
        death of another central immune cell--the dendritic cell (DC)--is also
        required to maintain immune control. To prevent apoptosis, a transgene
        encoding a caspase inhibitor was targeted to DCs in mice, resulting in the
        accumulation of these cells; both in their resting state, as well as in
        situations of antigen-priming. As a consequence, T cells in these animals
        became chronically activated and dysregulated, leading to telltale signs of
        autoimmunity.

        CREDIT: CHEN ET AL.

        ---------------------------------------------------------------------------
        DNA Damage-Transcription Links
        ---------------------------------------------------------------------------

        Damage to DNA in cells (like that produced by some anticancer drugs) is
        sensed by the cell and causes cellular responses that determine whether a
        cell lives or dies. Wu et al. (p. 1141; see the Perspective by Bartek and
        Jiri) provide a new link by which this signal can be conveyed from the
        nucleus to the cytoplasm. The protein kinase ataxia telangiectasia mutated
        (ATM) is activated in response to DNA damage and directly phosphorylates
        NEMO, one of the proteins in the IB kinase (IKK) complex that regulates the
        activity of the transcription factor NF-B. NF-B in turn mediates signals
        that promote cell survival. After DNA damage, ATM was exported from the
        nucleus and then interacted in the cytoplasm with another protein in the
        IKK complex, ELKS. Activated IKK then caused activation of NF-B-dependent
        transcription.

        ---------------------------------------------------------------------------
        Searching for a Damaged Needle in a DNA Haystack
        ---------------------------------------------------------------------------

        How does a DNA repair enzyme find a deleterious base lesion within a huge
        excess of normal base pairs? Banerjee et al. (p. 1153) show that a
        bacterial DNA glycosylase can examine an intact DNA helix, and does not
        need to extrude damaged base pairs. Instead, a conserved phenylalanine
        residue inserts into the helical stack and causes buckling at the
        intercalation site. The probe residue senses a deformed base within the
        intact helix and allows for base extrusion events only at damaged sites.

        ---------------------------------------------------------------------------
        Long-Term Planktonic Coupling
        ---------------------------------------------------------------------------

        Plankton bacteria primarily subsist on phytoplankton production, and this
        is clearly seen in successions following phytoplankton blooms. In the
        ocean, phytoplankton and bacterioplankton live short lives (days) and
        interact over short distances (micrometers). In general, it has proved
        difficult to document such trophic coupling in terms of a correlation
        between chlorophyll contents of the water and bacterial abundance. Li et
        al. (p. 1157) analyzed serial observations of chlorophyll and
        bacterioplankton at several coastal and open ocean stations during the past
        decade and find that these microbial groups do change in tandem, increasing
        or decreasing together over many years.

        ---------------------------------------------------------------------------
        Silencing the Supernumerary X
        ---------------------------------------------------------------------------

        In mammals, females have two X chromosomes and males have only one.
        Potentially lethal X-chromosome gene imbalance is prevented by dosage
        compensation, where one of the two X chromosomes in female cells is
        inactivated (Xi) while the other remains active (Xa). Silencing of the
        "supernumerary X" chromosome in females is regulated by the X-inactivation
        center (Xic) on the X chromosome. The mutually exclusive nature of the
        Xa/Xi choice suggests that there must be some form of communication between
        the two X chromosomes. Xu et al. (p. 1149, published online 19 January; see
        the Perspective by Carrel) now show that in mouse cells undergoing dosage
        compensation and X inactivation, such communication takes the form of a
        transient physical interaction between the Xic of the two X chromosomes.
        Placing additional copies of the Xic on autosomes induces ectopic
        X-autosome interactions which interfere with the normal process of
        X-chromosome inactivation.

        ---------------------------------------------------------------------------
        Ionospheric Response
        ---------------------------------------------------------------------------

        The particles and magnetic fields that make up the solar wind buffet
        planetary ionospheres. Mendillo et al. (p. 1135) have recorded the
        instantaneous change in the ionosphere of Mars by catching a solar x-ray
        flare as it hit both Earth's ionosphere and then Mars's. The flare, which
        was spotted in data taken in 2001, was caught by radio instruments on the
        Mars Global Surveyor spacecraft in orbit around Mars and by terrestrial
        ionosonde stations and x-ray satellites. This tandem measurement allowed a
        direct comparison of the response of the planets' ionospheres to the
        perturbing event.
    • yoric Re: This week in "Science" - 10.03. 10.03.06, 17:38
      Ecosystem Effects of Climate Change
      ---------------------------------------------------------------------------

      Contemporary climate changes affect the geographical distribution of a
      number of species of terrestrial and marine organisms. Grebmeier et al. (p.
      1461) observed responses to climate change in an entire ecosystem, the
      northern Bering Sea. This ecosystem is relatively shallow, with a rich
      benthic prey source that supports bottom-feeding marine mammals and
      seabirds that are hunted by local human populations. During the past
      decade, there has been a geographic displacement of marine mammal
      population distributions northward, a reduction of benthic prey
      populations, an increase in pelagic fish, a reduction in sea ice, and an
      increase in air and ocean temperatures.

      CREDIT: COURTESY OF LEE COOPER

      ---------------------------------------------------------------------------
      Unraveling Chemical Collisions
      ---------------------------------------------------------------------------

      Gas-phase spectroscopy and accompanying theoretical computations have been
      used to resolve two long-standing puzzles in the interplay of electronic
      and nuclear molecular motion in chemical reactions (see the Perspective by
      Zare). Yin et al. (p. 1443) probed the impact of electronic state on the
      unimolecular dissociation of formaldehyde (H2CO) into H and HCO products.
      Their results suggest that bond scission in the ground state produces
      rapidly rotating HCO, whereas dissociation in the excited triplet state
      yields vibrationally excited HCO. Qiu et al. (p. 1440) studied a
      bimolecular reaction: collision of an F atom with H2 to yield HF and H. At
      a specific collision energy, the experiments and theory point to a
      transient complex, termed a Feshbach resonance, in which the colliding
      partners vibrate several times before rearranging to products.

      ---------------------------------------------------------------------------
      Clay and Atmospheric Oxygen
      ---------------------------------------------------------------------------

      The oxygen content of Earth's atmosphere increased dramatically and
      permanently during the Neoproterozoic and has remained high since then,
      which suggests that the mechanisms underlying this increase must have
      included some irreversible change in the global biogeochemical cycle.
      Kennedy et al. (p. 1446, published online 2 February; see the Perspective
      by Derry) hypothesize that oxygenation of the atmosphere resulted from an
      increase in the rate of burial of organic carbon caused by the accelerated
      production of clays. In shallow marine environments, clays retard the
      oxidation of organic matter and facilitate their burial. The authors use
      this insight, along with mineralogical and geochemical evidence of an
      increase in clay deposition in the Neoproterozoic, to show how the stepwise
      transition from a low-O2 atmosphere to one with abundant O2 could have
      occurred.

      ---------------------------------------------------------------------------
      Scandinavian Deglaciation
      ---------------------------------------------------------------------------

      The Scandinavian Ice Sheet, the second largest Northern Hemisphere ice
      sheet at the end of the last glacial period, must have contributed
      significantly to glacial-interglacial sea level and regional climate
      changes. However, the timing of the decay of the Scandinavian Ice Sheet
      remains poorly constrained. Rinterknecht et al. (p. 1449) present a suite
      of cosmogenic 10Be ages and radiocarbon dates of glacial deposits that
      define more precisely the timing of major fluctuations of the southern
      margin of the Scandinavian Ice Sheet in central and eastern Europe.

      ---------------------------------------------------------------------------
      Exposed Cometary Ice
      ---------------------------------------------------------------------------

      Exposed deposits containing water ice have been found on the surface of the
      comet 9P/Tempel 1. Images obtained by Sunshine et al. (p. 1453, published
      online 2 February) with cameras on board the Deep Impact spacecraft reveal
      several patches that are bluer than the rest of the surface. Absorption
      features in infrared spectra confirm the presence of water ice in these
      spots and suggest it is present in aggregates of grains that are tens of
      micrometers in size. The deposits are relatively impure and contain only a
      few percent water ice and are too small in area to be the main source of
      water vapor that outgases from the nucleus.

      CREDIT: SUNSHINE ET AL.

      ---------------------------------------------------------------------------
      Rodent Resurrection
      ---------------------------------------------------------------------------

      When the new species of rodent Laonastes was described last year, it
      attracted broad attention because it was claimed as a representative of an
      entirely new family of living mammals. Dawson et al. (p. 1456) compared
      Laonastes with the Diatomyidae, a poorly known group of rodents from the
      Oligocene and Miocene of Asia. Anatomical comparisons of a new fossil
      Miocene diatomyid with Laonastes confirmed that Laonastes is actually a
      living member of this "extinct" clade. Hence, Laonastes "resurrects" a
      clade of mammals that was formerly thought to have been extinct for more
      than 10 million years.

      ---------------------------------------------------------------------------
      Invasive Chain Reaction
      ---------------------------------------------------------------------------

      Biological invasions by exotic species are a leading threat to native
      biodiversity and entail enormous monetary costs. In a meta-analysis of
      field studies from a wide range of ecosystems, Parker et al. (p. 1459)
      challenge the hypothesis that invasive exotic plants become a problem in
      their adoptive lands because they left their coevolved herbivores behind.
      Instead, herbivores in the invaded communities are better able to resist
      invaders than do the enemies of those plants in their original home. By the
      same token, introduced herbivores are harder on native plants in lands they
      invade than on introduced plants, including those with which they
      coevolved. Thus, the replacement of native with exotic herbivores triggers
      an invasional "meltdown" whereby one exotic species facilitates invasions
      by others.

      ---------------------------------------------------------------------------
      Redox Stages in Respiration
      ---------------------------------------------------------------------------

      In bacteria and mitochondria, a flavin cofactor within complex I of the
      membrane accepts reducing equivalents, converts some of the energy into a
      proton gradient, and passes electrons onward via a quinone carrier to other
      membrane-bound enzymes. Sazanov and Hinchliffe (p. 1430, published online 9
      February) describe the crystal structure of the eight-subunit hydrophilic
      portion (the part outside the membrane) of respiratory complex I from
      Thermus thermophilus and describe the environments of the flavin and the
      nine iron-sulfur clusters that transport the electrons from the
      dihydronicotinamide adenine dinucleotide (NADH) binding site into the
      hydrophobic (proton-pumping) domain of the complex. They propose that the
      outermost cluster accepts the second electron from the flavin, which helps
      to reduce the generation of potentially deleterious reactive oxygen
      species.
      • yoric Cd + bonus - job offers 10.03.06, 17:39
        Closing Nisin's Rings
        ---------------------------------------------------------------------------

        Nisin, an antimicrobial peptide widely used as a food preservative, is part
        of a group of posttranslationally modified peptides known as lantibiotics,
        which are characterized by thioether structures. Nisin contains five
        thioether rings of varying size formed by the enzyme NisC. Li et al. (p.
        1464; see the Perspective by Christianson) have reconstituted the nisin
        cyclization process in vitro and determined the x-ray crystal structure of
        the NisC enzyme. NisC is structurally similar to mammalian farnesyl
        transferases with an active-site zinc ion that activates nucleophilic
        cysteine residues during cyclization.

        ---------------------------------------------------------------------------
        Global Problems in Protein Folding in Polyglutamine Diseases?
        ---------------------------------------------------------------------------

        A number of distinct, seemingly unrelated mechanisms have been proposed for
        polyglutamine, or trinucleotide repeat diseases, which include
        spinocerebellar ataxia type 3. These mechanisms include disregulation of
        transcription, protein degradation, and mitochondrial function, as well as
        activation of apoptosis. Gidalevitz et al. (p. 1471, published online 9
        February; see the Perspective by Bates) have taken a genetic approach and
        find that polyglutamine expansions in Caenorhabditis elegans cause global
        perturbation in protein folding. This progressive disturbance of protein
        folding may provide an explanation for the multitude of cellular pathways
        affected in conformational diseases.

        ---------------------------------------------------------------------------
        Prevention Is Cheaper Than Treatment
        ---------------------------------------------------------------------------

        In strategies to fight the AIDS epidemic, considerable emphasis has been
        placed on treatment options and costs. Stover et al. (p. 1474, published
        online 2 February) have evaluated the cost-effectiveness of prevention
        approaches on the basis of UNAIDS/WHO predictions of prevalence. By their
        calculations, roughly 30 million new infections could be prevented between
        2005 and 2015 if a package of 15 prevention approaches targeting sexual
        transmission and transmission among injecting drug users were used in 125
        low- and middle-income countries. These averted infections translated into
        dramatic savings because of the diminished needs for treatment and care.

        ---------------------------------------------------------------------------
        Mixing Scents
        ---------------------------------------------------------------------------

        How are odors represented in the higher processing areas of the brain? Zou
        and Buck (p. 1477) compared the responses of mouse olfactory cortical
        neurons to binary mixtures of odorants versus their individual components.
        They monitored neuronal activity in the anterior piriform cortex of the
        same animals in response to individual odors and mixtures. The technique
        used enabled the authors to monitor neuronal activity in response to two
        temporally segregated experiences. The results suggest that olfactory
        cortical neurons receive convergent input from multiple odorant receptors
        and that a subpopulation may require such convergent input for activation.

        ---------------------------------------------------------------------------
        Pushy Protons
        ---------------------------------------------------------------------------

        Titanium dioxide semiconductors and their derivatives are under vigorous
        study as catalysts for the photogeneration of hydrogen from water. To model
        the complex dynamics at the liquid-solid interface, Li et al. (p. 1436)
        irradiated methanol-coated TiO2 to produce transiently solvated electrons
        and monitored their relaxation back to the bulk TiO2 with two-photon
        photoemission spectroscopy. The electron dynamics were coupled to that of
        the methanol nuclei; increased electron lifetimes were seen for CH3OD
        versus CH3OH. Density functional calculations implicate a proton-coupled
        mechanism in the back transfer of electrons to the TiO2 in a manner
        analogous to the charge transport mechanisms found in light-harvesting
        proteins.

        ---------------------------------------------------------------------------
        Making Molecular Motors Work Together
        ---------------------------------------------------------------------------

        Cooperativity between motor proteins can allow physiological functions that
        are not available with single motors. However, investigating how
        cooperativity relates to function is challenging. Diehl et al. (p. 1468)
        engineered model systems using bacterial expression of artificial proteins
        to produce polymeric scaffolds that assemble kinesin motors. They could
        then control the number of motors, the intermotor distance, and the nature
        of elastic coupling. Microtubule gliding velocities were enhanced in
        multimotor assemblies but, in contrast to collections of unorganized
        motors, were not influenced by the elasticity of the scaffold.

        ---------------------------------------------------------------------------
        Extending Genetic Interaction Maps
        ---------------------------------------------------------------------------

        Although there are elegant interaction maps available for yeast and
        Drosophila, it will become more difficult to find complete, high-quality
        data for higher organisms. Zhong and Sternberg (p. 1481; see the
        Perspective by Eddy) have developed a computational approach to
        cross-species data integration and have used it to generate a map of
        Caenorhabditis elegans genetic interactions. To test the robustness of
        their predictions, RNA interference analysis was used to verify novel
        interactors predicted for let-60 and itr-1.


        -----------------------------------------------------------------

        JOBS OF THE WEEK

        FACULTY POSITION
        Department of Microbiology & Immunology
        University of Rochester, Rochester, NY 14642
        aaas.sciencecareers.org/texis/jobsearch/details.html?id=440f06ab4a0940&q=University%20of%20Ro
        chester&qField=All&qSort=date&qMatch=all&pp=20&view=1&page=1


        Research Scientist
        Brigham & Women's Hospital Harvard Medical School
        Brigham and Women's Hospital, Boston, MA 02115
        aaas.sciencecareers.org/texis/jobsearch/details.html?id=440f06ab4a0870&q=Brigham%20%26%20Wome
        n%27s%20Hospital%20&qField=All&qSort=date&qMatch=all&pp=20&view=1&page=1
    • yoric Do: Kapitalizm 11.03.06, 00:36
      >...przypuszczam, ze w tym ustepie powinno byc 'subconscious', a
      nie 'unconscious'

      w zupełności się zgadzam.
      PS: proszę nie wklejać odpowiedzi 'w środek' bo trudno ją potem namierzyć :).
      PS2: Mnie również szczególnie zaciekawił właśnie ten kawałek (nawet zamieściłem
      go na Forum [tym co jest w podpisie] ale jakoś się nie przykął]
      Pozdrawiam
    • yoric Re: This week in "Science" 17.03.06, 12:31
      ---------------------------------------------------------------------------
      Starting Statues Sooner
      ---------------------------------------------------------------------------

      When Dutch sailors arrived on Easter Island in 1722, they encountered a
      famished population of Polynesians living on a denuded landscape marked by
      giant stone statues. It has been generally assumed that colonists arrived
      on the island between about 400 and 1000 A.D.; only later, around 1200
      A.D., did they erect the statues and cleared the once-abundant forests.
      Hunt and Lipo (p. 1603) present radiocarbon dates from a recent excavation
      on Easter Island and analyze previous dates from other sites. Their dates
      and analysis imply that colonization occurred near the time of statue
      construction. If so, then irreversible deforestation may have started
      immediately after the Polynesians arrived.

      CREDIT: HUNT AND LIPO

      ---------------------------------------------------------------------------
      Mobility for Artificial Muscles
      ---------------------------------------------------------------------------

      Electrically powered motor or actuators can serve as artificial muscles in
      robots or prosthetic limbs, but significant "down times" will likely occur
      if their power needs are met by rechargeable batteries. Ebron et al. (p.
      1580; see the Perspective by Madden) demonstrate two alternative approaches
      that use fuel cells. In one approach, a catalyst containing carbon
      nanotubes acts as muscle, fuel cell electrode, and supercapacitor electrode
      in a hydrogen-fueled system. In the other approach that can be fueled by
      hydrogen, methanol, or formic acid, a shape-memory alloy is used; this
      artificial muscle achieves actuator stroke and power density comparable to
      that of natural skeletal muscle and generates stresses that are one hundred
      times greater.

      ---------------------------------------------------------------------------
      Sporadic Spokes
      ---------------------------------------------------------------------------

      Dark radial streaks or spokes in Saturn's main B-ring were first seen with
      the Voyager space probes, and later by the Hubble Space Telescope. In 1998,
      they faded from view from the Earth as Saturn's rings became oriented edge
      on. Contrary to expectations, the spokes remained absent even when the
      Cassini spacecraft flew close to the rings in 2004 but then reappeared
      faintly in September 2005. These latter findings suggested that the spokes
      are intermittent features whose presence depends on the rings' angle to the
      Sun. Mitchell et al. (p. 1587) use Cassini data to model the formation of
      spokes as charged dust particles are lifted into the plasma above the ring
      plane by electrostatic forces. They find a sharp switch in the spokes'
      visibility, such that they disappear abruptly when the rings are open to
      the Sun, and also predict when the spokes are likely to appear clearly.

      ---------------------------------------------------------------------------
      Deflection Detection
      ---------------------------------------------------------------------------

      A promising approach for highly sensitive detection of biomolecules makes
      use of microfabricated cantilevers decorated with receptors or other
      molecules that would bind a molecule of interest. Binding creates a surface
      stress that deflects the cantilever. However, this deflection is small (on
      the order of tens of nanometers), and the methods used to date (optical,
      capacitive, and piezoelectric) have various limitations. Shekhawat et al.
      (p. 1592, published online 2 February) show that they can build a
      field-effect transistor into the cantilever that responds to surface
      stresses. Detected deflection changes of ~5 nanometers can be followed and
      allows detection of biotin and antibodies.

      ---------------------------------------------------------------------------
      Construction in Tight Spaces
      ---------------------------------------------------------------------------

      Forming high-aspect-ratio metal or semiconducting wires can be difficult
      because the main fabrication technique, chemical vapor deposition (CVD),
      does not work well when filling long narrow channels. Sazio et al. (p.
      1583) have developed a modified CVD process that allows for the integration
      of functional materials within an optical waveguide, which can tolerate a
      much higher pressure CVD process. Specifically, metals and semiconductors
      with lateral dimensions down to a few nanometers are formed within
      microstructured optical fibers.

      CREDIT: NEIL BARIL/PENNSYLVANIA STATE UNIVERSITY

      ---------------------------------------------------------------------------
      The Ringdown Cycle
      ---------------------------------------------------------------------------

      The use of spectroscopy for chemical analysis often requires tradeoffs
      between bandwidth (how much of the spectral range is being recorded),
      resolution, and data acquisition speed. For example, in cavity-ringdown
      spectroscopy (CRDS), adsorption by molecules depletes light that is
      bouncing back and forth in an optical cavity, and the light adsorption
      curve can provide extremely high detection limits. However, the range of
      frequencies that can be followed is limited. Thorpe et al. (p. 1595)
      created a broadband version of CRDS by coupling an optical frequency comb
      to a high-finesse optical cavity whose mirror position could be finely
      adjusted, and followed the simultaneous decay of numerous ringdown modes.
      They obtained spectral data across a 100-nanometer wavelength range in the
      visible and near-infrared for species such as water and ammonia.

      ---------------------------------------------------------------------------
      Observing Proteins One by One
      ---------------------------------------------------------------------------

      Detection of single messenger RNA (mRNA) molecules has led to exciting
      insights into gene expression in live cells. Yu et al. (p. 1600) have
      developed a method to image single protein molecules in living Escherichia
      coli cells. They expressed a membrane-targeted version of yellow
      fluorescent protein (YFP) and, under repressed conditions, detected
      individual membrane-localized YFP molecules as they were being synthesized.
      The protein molecules were expressed in bursts, and each burst originated
      from a stochastically transcribed mRNA molecule. The technique may make it
      possible to study the dynamics of the many proteins present in low numbers
      per cell.
      • yoric Re: This week in "Science" 17.03.06, 12:32
        --------------------------------------------------------------------------
        A Catalog of Avian Flu
        ---------------------------------------------------------------------------

        Large-scale sequence analysis of avian flu isolates based on 4339 virus
        genes from many wild birds confirms long-known facts of flu biology, such
        as the variability of hemagglutinin and neuraminidase sequences, the
        frequency of reassortment, and the restricted compatibility of internal
        virion subunits. Obenauer et al. (p. 1576, published online 26 January; see
        the Perspective by Krug) have developed the means to characterize these
        viruses by a technique they term "proteotyping" and use the method to
        identify specific combinations of genes and gene products that travel
        together. They also identified a previously overlooked motif that appears
        to correlate closely with virulence, at least in strains of avian origin.

        ---------------------------------------------------------------------------
        Higher Brain Functions in Primary Visual Cortex
        ---------------------------------------------------------------------------

        According to the classical textbook view, the early stages of visual cortex
        operate as a hard-wired, feature-detecting system and are little affected
        by nonvisual features of external stimuli. However, Shuler and Bear (p.
        1606) show that neurons in primary visual cortex (area V1) have very
        different response patterns during presentation of the same stimuli at
        early and late stages of visual discrimination training. They found an
        association of responses of area V1 neurons with the timing of a reward.
        Animals were trained to receive water after a certain number of licks, on a
        tube, after stimulation of one eye. Reward time was different for both
        eyes, and neurons in the primary visual cortex predicted the time of the
        reward in trained, but not in naive, animals.

        ---------------------------------------------------------------------------
        Managing the Neural Production Line
        ---------------------------------------------------------------------------

        Neural progenitors in the developing brain interact with neighboring cells
        throughE-catenin-containing adherens junctions. Lien et al. (p. 1609; see
        the Perspective by DiCicco-Bloom) found that conditional knock-out of
        theE-catenin gene during embryonic brain development resulted in mice whose
        brains at birth contained twice as many cells as normal. It seems that the
        area of cell surface occupied by adherens junctions defines the density of
        cells and regulates cellular proliferation such that enough, but not too
        many, brain cells are produced.

        CREDIT: LIEN ET AL.

        ---------------------------------------------------------------------------
        Eye of Lizard
        ---------------------------------------------------------------------------

        The parietal eye of lizards responds to light and dark but does not form
        images. Su et al. (p. 1617) show that blue light and green light, working
        through opsins unlike those in visual eyes, send antagonistic signals to a
        key cyclic guanosine monophosphate (cGMP) phosphodiesterase. Subsequent
        alterations in cGMP concentrations modulate channel openings to depolarize
        or hyperpolarize the parietal photoreceptor cells. Comparison of the opsins
        and signaling molecules involved suggests an evolutionary trajectory by
        which the parietal eye diverged from the visual eyes.

        ---------------------------------------------------------------------------
        Promising Therapy for Progeria?
        ---------------------------------------------------------------------------

        Progerias are a group of rare genetic disorders characterized by the onset
        in children of symptoms typically seen in aging individuals, such as
        osteoporosis, vascular disease, and hair loss. Several progeroid disorders
        are caused by mutations that alter the function of prelamin A, a protein
        that helps maintain the structural integrity of the cell nucleus. Cells
        from patients with progeria display dramatic changes in nuclear
        architecture because prelamin A remains aberrantly attached to the nuclear
        membrane by virtue of a farnesyl lipid modification. In a mouse model of
        progeria, Fong et al. (p. 1621, published online 16 February; see the 17
        February news story by Travis) now show that a drug that inhibits protein
        farnesylation (farnesyltransferase inhibitor, or FTI) and that is already
        in clinical development for potential anticancer activity can ameliorate
        symptoms of the disease. FTI-treated mice had greater grip strength were
        less likely to develop rib fractures and, in a short-term study, appeared
        to live slightly longer than untreated mice.

        ---------------------------------------------------------------------------
        Watching Waves Collide
        ---------------------------------------------------------------------------

        The wavelike behavior of atoms is among the least intuitive properties
        imposed by quantum mechanics. Although diatomic molecules like iodine (I2)
        are often depicted as two balls connected by a spring, their vibration
        actually involves overlapping nuclear waves. Katsuki et al. (p. 1589) have
        used two-pulse ultrafast laser excitation to visualize the interference
        pattern that results from vibrational excitation of I2. The first pulse
        accesses an electronically excited superposition of vibrational states. The
        second pulse is then variably tuned in frequency and time to induce
        fluorescence selectively when the nuclear waves collide and interfere. The
        spectra resolve peaks and troughs with subangstrom resolution and
        correspond well to theoretical calculations.

        ---------------------------------------------------------------------------
        Past Experience Is Key
        ---------------------------------------------------------------------------

        Models of animal decision-making often assume that choices are based on the
        fitness consequences that each choice yields. Fitness gains, in turn,
        depend on both the intrinsic properties of the options and the state of the
        subject at the time of the choice. However, recent studies in humans and
        other vertebrates have shown that preferences may reflect more closely the
        subject's state at the time of learning than at the time of choice.
        Pompilio et al. (p. 1613) now describe similar behavior in an invertebrate.
        In the desert locust, the state-dependent benefit experienced on
        acquaintance with a source of reward drove later choices. This finding
        contrasts with normative theories of choice in biology and economics, which
        rely on present rather than past benefit and psychological models of
        reinforcement learning that use absolute reward magnitude rather than
        state-dependent benefit.

        ---------------------------------------------------------------------------
        Survival of the Fittest?
        ---------------------------------------------------------------------------

        An asexual population undergoing selection, such as cancer cells or a virus
        switching its host-range, may experience clonal interference, in which
        numerous beneficial mutations create competing lineages. Hegreness et al.
        (p. 1615) use numerical simulations and analysis of mixed and marked
        bacterial populations to show that, regardless of the underlying
        distribution of individual mutant cells, the evolution of a population can
        be approximated by an equivalent model, in which all beneficial mutations
        confer the same fitness advantage. This equivalence principle can be used
        to predict other measures of adaptation in such populations, including the
        degree of polymorphism and the average fitness of mutant lineages.
    • yoric 24:03 24.03.06, 15:41
      ---------------------------------------------------------------------------
      Ice Sheet Stability
      ---------------------------------------------------------------------------

      CREDIT: OTTO-BLIESNER ET AL. The world is warming, and higher temperatures
      can cause melting of polar ice sheets. How fast will the ice sheets of
      Greenland and Antarctica disappear, and how fast and far will sea level
      rise in the coming century? These issues are addressed in a news story by
      Kerr (see the cover), the Editorial by Hanson and Kennedy, Perspectives by
      Bindschadler and Joughin, and four Reports. Otto-Bliesner et al. (p. 1751)
      integrate climate model simulations, an ice sheet model, and paleoclimate
      data to show that the northern latitudes, and particularly the Arctic, were
      significantly warmer during the Last Interglaciation, when sea level was
      several meters higher than at present. They also estimate that the
      Greenland Ice Sheet contributed between 2.2 and 3.4 meters of sea level
      rise in the penultimate deglaciation. Overpeck et al. (p. 1747) compare the
      model's predictions of warming during the next 130 years to this
      reconstruction, and conclude that surface temperatures will be as high by
      the end of this century as they were 130,000 years ago. These conditions
      would melt enough of the Greenland Ice Sheet to raise sea level by several
      meters. Determining how quickly Antarctic ice may be disappearing has been
      difficult to assess. The Gravity Recovery and Climate Experiment (GRACE)
      satellites were designed to make the needed measurements, and Velicogna and
      Wahr (p. 1754, published online 23 February) show that the mass of the ice
      sheet has been decreasing by 152 {+/-} 80 cubic kilometers per year from
      2002 to 2005, mostly from losses of the West Antarctic Ice Sheet. Contrary
      to some projections, ice loss around the margins is proceeding faster than
      the center of the ice sheet is growing. Glacial earthquakes are triggered
      by the large and sudden sliding of glaciers and can be observed by global
      seismic networks. Ekstrom et al. (p. 1756; see the Perspective by Joughin)
      recorded glacial earthquakes on Greenland and found that these events were
      more common in summer and that their annual number has doubled since 2002.
      Both of these findings are consistent with the observed accelerating motion
      of outlet glaciers from the Greenland Ice Sheet and correlate with its more
      widespread melting in recent years.

      CREDIT: VELICOGNA AND WAHR

      ---------------------------------------------------------------------------
      Beating Entropy
      ---------------------------------------------------------------------------

      It is typically difficult to mix two polymers together or to mix particles
      into polymers unless there is a strong attraction between the dissimilar
      materials because entropic effects favor phase separation. Mackay et al.
      (p. 1740) show that when the size of the particles is smaller than the
      radius of gyration of the polymer, the mixed state may be thermodynamically
      favored because of an increase in surface contacts between the particles
      and the polymer. However, they also show that processing strategies must be
      taken into consideration for this favored state to be reached for certain
      mixtures.

      ---------------------------------------------------------------------------
      Making Oxygen Glow in the Dark
      ---------------------------------------------------------------------------

      Aqueous mixtures of organic matter in the environment contain many
      molecules that, when irradiated by sunlight, can excite dissolved oxygen to
      its singlet state (1O2). Highly reactive 1O2 can play a significant role in
      both the direct degradation of pollutants and the internal chemistry of
      local bacteria. However, the short lifetime of 1O2 hinders accurate
      measurements of its concentration. Latch and McNeill (p. 1743, published
      online 23 February; see the Perspective by Hassett) use a hydrophobic probe
      molecule to trap 1O2 from deep within the suspended pockets of organic
      matter and then quantify concentrations with induced chemiluminescence.
      They measure values more than 100 times greater than those found with
      traditional probes that fail to penetrate the organic phase. A kinetic
      model based on competing quenching and diffusion rates accounts well for
      the partitioning.

      ---------------------------------------------------------------------------
      Bloated and Not-So-Bloated Genomes
      ---------------------------------------------------------------------------

      Eukaryotic genomes are bloated with so-called "junk" DNA including introns,
      mobile elements, and large intergenic regions. Curiously, animal
      mitochondrial genomes are tiny, essentially junk-free, and conserved in
      gene structure, whereas plant mitochondrial genomes are relatively large,
      full of junk, and do not show a rigid conservation of gene structure. What
      underlies these very different patterns of genome size and complexity?
      Lynch et al. (p. 1727) review how mutation rates correlate with organelle
      genome complexity, being for the most part much higher in animal
      mitochondria than in plant mitochondria, which suggests that nonadaptive
      evolutionary forces play a critical role in shaping the structure of
      organelle genomes and possibly nuclear genomes. A stumbling block in
      annotating bacterial genomes is the presence of pseudogenes. Ochman and
      Davalos (p. 1730) review systematic methods for identifying pseudogenes in
      particular genomes, using the well-studied Escherichia coli as an example.

      ---------------------------------------------------------------------------
      Plankton Biogeography
      ---------------------------------------------------------------------------

      Prochlorococcus is the most common oxyphototroph in the open ocean and
      plays a key role in ocean-based fixation of CO2, oceanic primary
      production, and the composition of the marine ecosystem. Johnson et al. (p.
      1737) show that closely related strains (>97% similarity in 16S ribosomal
      RNA) have dramatically different distribution patterns in the water column,
      and indeed over the entire Atlantic Ocean. These closely related microbes
      appear to have ecologically distinct roles related to temperature, light,
      and competitors. Coleman et al. (p. 1768) analyzed two closely related
      Prochlorococcus strains and found that diversity was concentrated in
      genomic islands, putatively acquired via lateral gene transfer mediated by
      phage. Genomic islands may be a fundamental mechanism for niche
      differentiation across microbial systems (see the news story by Pennisi).

      ---------------------------------------------------------------------------
      A Foe Motif
      ---------------------------------------------------------------------------

      Pattern recognition receptors recognize conserved components found in
      pathogens, but not in the host, are central to the innate immune response.
      Chang et al. (p. 1761) describe the crystal structure at 2.1 angstrom
      resolution of tracheal cytotoxin (TCT), a fragment of a peptidoglycan
      specific to Gram-negative bacteria, bound to the ectodomains of the
      peptidoglycan recognition proteins LCa and LCx. The structure shows how a
      specificity determinant of Gram-negative bacteria is recognized in the
      complex and how TCT induces heterodimerization of LCa and LCx to activate
      downstream signaling.
      • yoric Re: 24:03 24.03.06, 15:42
        Adding Oxygen to the Evolutionary Mix
        ---------------------------------------------------------------------------

        What was the effect of developing the ability to use oxygen safely in
        metabolic reactions? Raymond and Segre (p. 1764; see the Perspective by
        Falkowski) modeled how metabolic networks would have evolved from the Late
        Archean to Late Proterozoic periods of Earth's history. The complexity of
        networks that could use oxygen increased to levels far beyond those seen
        before the presence of oxygen. Comparisons between enzyme distributions and
        phylogenies suggest that adaptation to oxygen occurred after the major
        phylum-level divergences.

        ---------------------------------------------------------------------------
        Rethinking β-Islet Cell Replacement
        ---------------------------------------------------------------------------

        Type 1 diabetes mellitus (T1DM) occurs when the insulin producing-islet
        cells of the pancreas become depleted through autoimmune attack. As well as
        finding means of limiting this destructive immune response, a great deal of
        research effort is being placed in finding ways of regenerating-islet
        cells. It had been reported that spleen cells could reverse T1DM by
        replacing lost-islet cells through transdifferentiation when injected
        together with an immune adjuvant into diabetic mice [Science 302, 1223
        (2003)]. Three groups (Chong et al., p. 1774; Nishio et al., p. 1775; and
        Suri et al., p. 1778) now report that the same protocol does result in some
        reversal of established T1DM in the same mouse model, but not via spleen
        cell transdifferentiation (see the news story by Couzin). Simple injection
        of the immune adjuvant alone promoted recovery. Presumably, the
        immune-modifying activity of the adjuvant provides a window of opportunity
        for the few remaining-islet cells to proliferate to the extent that they
        become a sufficient source of insulin. Although these studies do not
        support the contribution of spleen cell transdifferentiation to the
        reversal of T1DM, they do provide hope for future development of
        immune-based therapies for the condition.

        CREDIT: CHONG ET AL.

        ---------------------------------------------------------------------------
        A Trojan Horse to Battle Cancer
        ---------------------------------------------------------------------------

        One of the major hurdles in cancer therapy is delivering drugs efficiently
        to the tumor cell target. Thorne et al. (p. 1780) addressed this problem by
        designing a "Trojan horse" therapy in which immune effector cells that
        naturally migrate to tumors (cytokine-induced killer, or CIK cells) were
        used to deliver a potent oncolytic virus (vaccinia) to tumors growing in
        mice. The CIK cells transported the virus deep within the tumors to provide
        a uniform distribution of infection. The viral infection in turn enhanced
        tumor cell killing by the CIK cells and significantly inhibited tumor
        growth. Although each component of the therapy had been shown previously to
        have antitumor activity, the combination proved to be much more effective.

        ---------------------------------------------------------------------------
        Ordering Up Ice Phases
        ---------------------------------------------------------------------------

        Ice forms numerous phases at high pressures that are denser than liquid
        water. Exploring the phase diagram has been an ongoing process, and success
        has often been obtained by finding a method or trick to accelerate the
        transformation from one phase, in which it may be trapped, into another.
        Salzmann et al. (p. 1758) show that the addition of hydrochloric acid to
        two disordered phases of ice, ice V and ice VII, could unlock their
        geometrical frustration to form two previously uncharacterized phases, ice
        XIII and ice XIV.

        ---------------------------------------------------------------------------
        Shedding Light on Tuberculosis Susceptibility
        ---------------------------------------------------------------------------

        Since the late 1800s, sunlight and other forms of light therapy have been
        considered potentially beneficial for tuberculosis, most likely because of
        the antimicrobial effects of sunlight-induced synthesis of vitamin D. Liu
        et al. (p. 1770) reveal that vitamin D signaling contributes to the
        Toll-like receptor (TLR) pathway of microbicidal defense to Mycobacterium
        tuberculosis (MTB) in monocytes and macrophages. Activation of TLR2/1 by a
        bacterial lipoprotein led to vitamin D receptor expression and processing
        of the provitamin D precursor, which stimulated vitamin D-induced
        up-regulation of an antimicrobial peptide and killing of MTB bacilli. The
        low levels of circulating provitamin D3 hormone and limited ability to
        induce the microbicidal peptide observed in sera of African-American
        individuals may contribute to their increased susceptibility to
        tuberculosis.
    • yoric 31.03 31.03.06, 12:15
      Ancient Tropical Forest Diversity
      ---------------------------------------------------------------------------

      Understanding how the high plant species diversity of tropical forests
      arose has been hampered by the scant fossil evidence of lowland tropical
      rainforest species diversity in the geological record. Jaramillo et al. (p.
      1893) now present a 45-million-year time series of plant diversity in the
      Neotropics with an unparalleled resolution. Changes in tropical-biome area
      were the main factor driving local tropical diversity. The observed
      diversity pattern resembled reconstructed global temperatures, which
      suggests that global climate mediated the change in tropical-biome area.
      Past episodes of climate warming have driven local speciation by increasing
      the area of tropical-like climate. Global cooling, however, drove local
      extinction by reducing the tropical-like area.

      CREDIT: JARAMILLO AND RUEDA, 2006

      ---------------------------------------------------------------------------
      Fast Spinning
      ---------------------------------------------------------------------------

      Pulsars are fast-spinning neutron stars that emit flashing twin radio
      beams. For the last 23 years, the speed limit was set by the first such
      pulsar discovered, which rotates at 642 hertz. Hessels et al. (p. 1901,
      published online 12 January; see the Perspective by Grindlay) have now
      found an even faster pulsar that spins 716 times a second. This extreme
      pulsar was found with the giant Green Bank Telescope during a survey of the
      globular cluster Terzan 5. From the pulsar's rotation speed, the star's
      diameter is calculated to be less than 16 kilometers, and limits can be
      placed on mechanisms for braking of the system by gravitation radiation.
      The faintness of this pulsar suggests that even faster ones await
      discovery.

      ---------------------------------------------------------------------------
      Up in the Middle
      ---------------------------------------------------------------------------

      Meteorological observations show that surface temperature of the western
      side of the Antarctic Peninsula has increased at a rate faster than that of
      any other region on Earth in the last 50 years. However, there have been
      few statistically significant surface temperature changes across the rest
      of Antarctica, which may even have cooled slightly in some places during
      recent decades. In order to help provide a more complete picture of how
      temperatures in the Antarctic troposphere have changed, Turner et al. (p.
      1914) examined recently released radiosonde data from 1971 to 2003. The
      Antarctic middle troposphere has warmed by 0.5{degrees}C or more per decade
      during the winters during that time. Although this rise has been detected,
      its cause is still unknown.

      CREDIT: TURNER ET AL.

      ---------------------------------------------------------------------------
      Uplifting Off Sumatra
      ---------------------------------------------------------------------------

      Rupture of the Sunda megathrust during the giant earthquake of 28th March
      2005 with a moment magnitude of 8.7 produced spectacular tectonic
      deformation along a 400-kilometer strip of the western Sumatran
      archipelago. Briggs et al. (p. 1897; see the Perspective by Bilham) combine
      measurements of uplifted coral and continuous satellite records to map the
      pattern of deformation in the region. They reveal belts of uplift as high
      as 2.9 meters parallel to the trench and a 1-meter-deep subsidence trough
      between the islands and main Sumatran coast. Two barriers to the
      propagation of this earthquake are identified.

      ---------------------------------------------------------------------------
      Frictionless Spinning
      ---------------------------------------------------------------------------

      One of the principal changes in moving a chemical system from the gas to
      solution phase is a huge increase in collision frequency. Constant
      bombardment by solvent molecules tends to quickly equilibrate any excess
      energy that a solute may acquire, for example, by photoexcitation. Moskun
      et al. (p. 1907) show that if a solute is given a sufficient burst of
      angular momentum, it can transiently push aside the surrounding solvent and
      rotate for picoseconds as if it were in a collisionless gas phase
      environment. Rapidly spinning CN fragments were generated with specific
      energies by ultraviolet photolysis of ICN in alcohol or aqueous solution.
      The persistent coherent rotation was well reproduced by simulating CN
      rotors in liquid argon, which suggests that solvent structure had little
      impact on the initial phase of nearly frictionless spinning.

      ---------------------------------------------------------------------------
      High-Performance Superconducting Wires
      ---------------------------------------------------------------------------

      Potential applications of high-temperature superconductors have included
      high-efficiency power transmission and levitating trains. However, these
      applications require wires that can carry huge currents and still remain
      superconducting in high magnetic fields. Kang et al. (p. 1911; see the news
      story by Service) have fabricated so-called second-generation
      superconducting wires, flexible metal substrates coated with thick
      high-temperature superconducting material, and show that they can meet the
      performance targets that have been set by industry for many applications.

      ---------------------------------------------------------------------------
      Drying Streams
      ---------------------------------------------------------------------------

      Africa is particularly vulnerable to the tragic consequences of drought,
      and climate models project that the mean annual rainfall in the northern
      and southern sections of the continent will decrease significantly during
      this century. De Wit and Stankiewicz (p. 1917, published online 2 March)
      examine what effects these expected changes in precipitation will have on
      perennial stream flow using a continent-wide database of all of the rivers
      and lakes in Africa and the fields of precipitation projected by a
      collection of climate change models. Perennial drainage could be
      significantly reduced in 25% of Africa by the end of the century, which
      would place an even greater burden on already struggling populations.

      ---------------------------------------------------------------------------
      Highlighting the Niche
      ---------------------------------------------------------------------------

      Replenishment of hair, skin, mucosal surfaces, and blood all depend on a
      steady supply of replacement cells that are generated by a small population
      of quiet but dedicated stem cells. These sorts of stem cells seem to reside
      in particular physical locations, or niches, within the organism. Moore and
      Lemischka (p. 1880) now review stem cell niches, including what they look
      like and how they direct the function of the stem cells, and also explore
      some of the questions about them that remain open.

      ---------------------------------------------------------------------------
      Kaposi's Virus Entry Receptor
      ---------------------------------------------------------------------------

      Kaposi's sarcoma-associated herpes virus (KSHV) is responsible for causing
      the debilitating life-threatening lesions often observed in patients with
      HIV/AIDS. Kaleeba and Berger (p. 1921) now identify human xCT, the light
      chain of human cystine/glutamate transporter as a receptor for the virus
      necessary and sufficient for its entry into target cells. Recombinant xCT
      rendered otherwise nonpermissive target cells susceptible to KSHV
      glycoprotein-mediated cell fusion and to KSHV virion entry, and antibodies
      to CT blocked KSHV fusion and entry with naturally permissive target cells.

      ---------------------------------------------------------------------------
      A Mitotic Function for Lamin B
      ------------------------------------------------------------------
      • yoric Re: 31.03 31.03.06, 12:16
        A Mitotic Function for Lamin B
        ---------------------------------------------------------------------------

        Nuclear lamins line the nuclear envelope to make up the nuclear lamina,
        which helps to maintain the structure and function of the nucleus. During
        cell division, the nuclear lamina disassembles, and the role for the
        lamins, if any, in mitosis is unclear. Tsai et al. (p. 1887, published
        online 16 March) now show that lamin B is required for the formation of the
        mitotic spindle. In cell extracts, lamin B formed a matrix with which
        spindle-assembly factors (which promote assembly of microtubules) were
        associated. Thus, lamin B is a key part of the so-called "spindle matrix,"
        a structure known to be associated with assembly of the spindle but whose
        molecular constituents have not been described.

        CREDIT: TSAI ET AL.

        ---------------------------------------------------------------------------
        Accentuate the Positive
        ---------------------------------------------------------------------------

        The cytokine interleukin-2 (IL-2) facilitates proliferation of naive T
        cells, but several studies have shown that antibodies that bind IL-2, which
        at first glance should be inhibitory, can promote the expansion of subsets
        of memory CD8 T cells. Thus, IL-2 somehow might inhibit suppressive T cell
        populations that would otherwise prevent memory CD8 T cell expansion.
        Boyman et al. (p. 1924, published online 16 February; see the Perspective
        by Prlic and Bevan) now show that instead, binding of antibodies to IL-2
        augments the direct activity of the cytokine on memory CD8 T cells
        themselves. Immune complexes form that focus local levels of IL-2 through
        presentation by Fc receptors. These observations could be important to
        consider in therapies that involve the manipulation of IL-2 and other
        cytokines, such as bone marrow transplantation and tumor immunotherapy.

        ---------------------------------------------------------------------------
        Keeping the Wheat Near the Chaff
        ---------------------------------------------------------------------------

        Wild grasses tend to release their mature seed fairly easily to facilitate
        widespread propagation. Domesticated grasses, such as wheat, rice, maize,
        and oat crops, do not release their grain as easily, and indeed would be of
        little value if the grain were to fall willy-nilly to the ground. Li et al.
        (p. 1936; see the cover and the Brevia by Tanno and Willcox) describe a
        one-nucleotide substitution in a rice gene that encodes a putative
        transcription factor that appears to account for this difference. The gene
        is expressed late in grain development at the junction between the seed and
        the mother plant.

        ---------------------------------------------------------------------------
        The Making of Complex Carbohydrates
        ---------------------------------------------------------------------------

        The cell walls of grasses differ from those of other plants in that they
        contain a particular type of polysaccharide, glucan. Burton et al. (p.
        1940; see the Perspective by Keegstra and Walton) have now identified the
        (1,3;1,4)--D-glucan synthase genes of rice, which are critical for
        production of the grain-specific glucan. The rice gene was identified by
        comparison with quantitative trait loci of barley that affect its malt
        quality. Improved understanding of the complex carbohydrate biochemistry
        behind cell walls could lead to modifications tailored for specific
        purposes, whether as fuel, food, or fiber.

        ---------------------------------------------------------------------------
        Six in a Row
        ---------------------------------------------------------------------------

        Among the many unusual properties of carbon, relative to the other
        elements, is its propensity to catenate into one-dimensional chains. Hill
        et al. (p. 1904) find that-diketiminate ligands can coax indium to form a
        chain as well, in contrast to the more common tendency of this metallic
        element to form bridged clusters. Crystallography revealed a partially
        coiled string of six indium centers, each coordinated by a-diketiminate
        ligand, with the ends capped by iodides. Spectroscopy and theoretical
        modeling offer preliminary evidence for electron delocalization along
        the-bonded In backbone.

        ---------------------------------------------------------------------------
        Shared Signals
        ---------------------------------------------------------------------------

        The immune system is classically described in terms of innate and acquired
        immunity, although it is becoming increasingly apparent that these two arms
        share some fundamental cellular and molecular processes. In large part,
        this overlap exists "downstream" at points of gene expression and
        transcriptional regulation; for example, the transcription factor NFB
        activates a large number of innate and acquired immune response genes.
        Although "upstream" (membrane proximal) signaling proteins appear to be
        more segregated, Suzuki et al. (p. 1927) find that IRAK-4, a dominant
        protein kinase already known to be involved in signaling innate immune
        responses from Toll-like receptors, also supports signaling from the T cell
        receptor. Thus, mice lacking the IRAK-4 gene showed diminished acquired T
        cell immunity to viral infection.

        ---------------------------------------------------------------------------
        Finding Variation
        ---------------------------------------------------------------------------

        It is no longer enough to have one sequenced genome of an organism;
        characterizing function and understanding diversity or evolution can
        require inefficient and expensive resequencing efforts. Gresham et al. (p.
        1932, published online 9 March) have compared an entire yeast genome to a
        reference sequence represented on a microarray to rapidly locate all
        sequence differences. Genomes could differ by as little as one mutation or
        as many as 30,000. The approach was used for identifying genes related to
        specific traits and to track all the single-nucleotide polymorphisms that
        accumulate during experimental evolution of a yeast population.
    • yoric 07.04 07.04.06, 13:58
      Repeating Ring Properties
      ---------------------------------------------------------------------------

      Two new outer rings and moons were recently discovered around Uranus. Using
      the infrared Keck adaptive optics system, de Pater et al. (p. 92) show that
      the rings are blue and red like Saturn's E and G rings. Blue ring R1 is
      associated with moon Mab, and Saturn's E ring hosts the active moon
      Enceladus. This correspondence suggests that Mab may be the source of ring
      material and the blue color, because only small grains survive
      gravitational forces, solar radiation pressure, and electromagnetic forces.
      Ring R2 is as red as Saturn's G ring and shows the same forward- and
      back-scattered light ratios. Both the uranian and saturnian rings are also
      at similar locations in planetary radii.

      CREDIT: M. SHOWALTER, I. DE PATER, H. HAMMEL, AND S. GIBBARD

      ---------------------------------------------------------------------------
      Beginning with C-H Bonds
      ---------------------------------------------------------------------------

      Carbon-hydrogen bonds in organic molecules and biopolymers are among the
      least reactive chemical groups, and in chemical synthesis, a C-H bond is
      first activated by oxygenation or halogenation reactions that can be
      unselective or difficult to control. Godula and Sames (p. 67) review recent
      progress in transition metal catalysis that has allowed direct, selective
      formation of carbon-carbon bonds from isolated C-H bonds. These synthetic
      routes offer great potential for increased synthetic efficiency in
      preparing complex molecules such as drug precursors.

      ---------------------------------------------------------------------------
      From Quantum Kittens to Flying Cats
      ---------------------------------------------------------------------------

      Quantum information processing will require the reliable preparation of
      quantum states of matter. While these are easy to specify theoretically,
      experimental realization of such states has been difficult, especially the
      type of "flying" states that are expected to be useful for quantum
      communication purposes. By subtracting a single photon from a squeezed
      coherent optical pulse, Ourjoumtsev et al. (p. 83, published online 9
      March; see the Perspective by Gisin) report on the production of small
      Schrodinger cat states, or Schrodinger kittens, and show that these kittens
      can be grown into cats through a suitable amplification and distillation
      process.

      ---------------------------------------------------------------------------
      Superalloying Cobalt
      ---------------------------------------------------------------------------

      Superalloys, which are based on iron, cobalt, or most commonly nickel, can
      be safely used at temperatures in excess of 0.7 of the absolute melting
      temperature, unlike conventional alloys, which are prone to creep and
      oxidation. Through the addition of solutes like aluminum or titanium, or
      both, a two-phase equilibrium microstructure forms that consists of and
      phases; the latter phase is largely responsible for the
      elevated-temperature strength of the material and its incredible resistance
      to creep. Cobalt superalloys typically have lower strengths than those
      based on nickel, which is why the latter has dominated in applications.
      However, Sato et al. (p. 90) now show than a ternary cobalt alloy based on
      the addition of aluminum and tungsten has properties that compete with
      those of the nickel superalloys.

      ---------------------------------------------------------------------------
      H2 Leaves Pt Unexcited
      ---------------------------------------------------------------------------

      The Born-Oppenheimer (B-O) approximation, which treats nuclear and
      electronic motion independently during chemical interactions, is a
      cornerstone of computational modeling. Without it, theoretical analysis of
      even small molecule reactions in the gas phase would prove dauntingly
      complex. However, the ease with which electrons can be excited at metal
      surfaces has cast doubt on the validity of the approximation for simulating
      molecule-surface collisions, which play a major role in industrial
      catalysis. Nieto et al. (p. 86, published online 9 February; see the
      Perspective by Wodtke) show that data for scattering and dissociative
      adsorption of H2 at a platinum surface are well predicted with a density
      functional theory approach with the B-O criteria intact. The absence of Pt
      electronic excitation during the H2 interaction suggests that accurate
      modeling of a wide range of heterogeneous reactions should be feasible.

      CREDIT: NIETO ET AL.

      ---------------------------------------------------------------------------
      Hunting Hurricane Causes
      ---------------------------------------------------------------------------

      A number of different factors can affect the formation and development of
      hurricanes, including sea surface temperature (SST), lower tropospheric
      humidity, vertical wind shear, and large-scale atmospheric circulation
      patterns. Which of these factors are most important and which are
      responsible for the increase in global hurricane intensity observed since
      1970? Hoyos et al. (p. 94, published online 16 March) use a method based on
      Bayesian statistics and information theory to isolate the causes of the
      trend from short-term variability, for all of the major ocean basins where
      these storms occur. They conclude that only rising tropical SSTs have had a
      significant influence on the recent multi-decadal trend.

      ---------------------------------------------------------------------------
      No Pain, No Gain
      ---------------------------------------------------------------------------

      Societal behavior is complex and multifaceted. One complicated question is
      the conditions under which we cooperate with others for mutual gain.
      Experimental results using a public goods game suggest that the threat of
      costly punishment of free-riders by altruistically minded souls suffices to
      maintain groupwide compliance. Gurerk et al. (p. 108; see the Perspective
      by Henrich) show that if allowed to choose freely, individuals first elect
      to join a sanction-free game where punishment is not permitted. As
      successive rounds are played, they come to appreciate that cooperation
      yields greater rewards, so they switch to the sanctioning regime where
      punishment (which makes free-riding costly) is allowed and themselves
      become active monitors of compliance.
      • yoric Re: 07.04 cd 07.04.06, 13:59
    • yoric 14.04 17.04.06, 00:22
      Catch, React, Release
      ---------------------------------------------------------------------------

      Enzymes derive much of their remarkable selectivity by orienting substrates
      in ways that facilitate specific reaction paths. Recently, chemists have
      sought to achieve similar effects using relatively simpler hollow
      structures, assembled from organic and metallic building blocks in
      solution. However, these synthetic hosts often bind products as effectively
      as they do reactants so that catalysis is inhibited. Yoshizawa et al. (p.
      251) find that a palladium and triazine-based host that adopts a bowl shape
      can catalyze the Diels-Alder reaction of anthracenes and phthalimides in
      water because the product geometry is no longer compatible with the host. A
      related host structure, shaped like a cage, can be used stoichiometrically
      to orient the same reagents in a different way and yields an unusual
      Diels-Alder adduct at a terminal, rather than central, site on the
      anthracene framework.

      CREDIT: YOSHIZAWA ET AL.

      ---------------------------------------------------------------------------
      Sending Charges Their Separate Ways
      ---------------------------------------------------------------------------

      Devices implanted in the body require power, which is normally delivered by
      batteries, but a number of approaches have been proposed to tap into the
      power or fuel sources the body already provides. Wang and Song (p. 242)
      have converted mechanical energy into electrical energy by deflecting
      anchored ZnO nanowires with a conductive atomic force microscope tip. The
      strain field created by bending the nanowires with the tip caused charges
      to separate and build up on opposite sides of this polar material. The tip
      and nanowire form a rectifying Schottky barrier so that built-up charge is
      released as electrical current when the tip crosses from one face polarity
      to the other.

      ---------------------------------------------------------------------------
      Ductility Through Deformation
      ---------------------------------------------------------------------------

      In traditional metalworking, a metal is cold-deformed in order to introduce
      dislocations that make it stronger, and then annealed to restore its
      ductility. As the number of dislocations increases, their movement and
      ability to multiply are hindered, which is the source of the strengthening.
      X. Huang et al. (p. 249) now show that an opposite cycle of processes can
      be used to prepare ductile nanostructured aluminum. During heat treatment,
      dislocation sources are removed, making it harder for new dislocations to
      form, and a subsequent deformation step restores these sources, thus
      enhancing the ductility.

      ---------------------------------------------------------------------------
      Anode Alternatives
      ---------------------------------------------------------------------------

      In order for solid-oxide fuel cells to run directly on natural gas,
      improved anode materials will be needed to avoid problems such as carbon
      buildup and sulfur poisoning. Y.- H. Huang et al. (p. 254) report on the
      use of double-perovskite materials, Sr2Mg1-xMnxMoO6-, as anodes at
      temperatures between 650{degrees} and 1000{degrees}C. The active
      Mo(VI)-Mo(V) couple is paired with the Mg and Mn cations that are not
      reduced by the fuel. The Mg cation appears to be especially resistant to
      sulfur poisoning and allows for stable operation (200 hours) in the
      presence of 50 parts per million H2S.

      ---------------------------------------------------------------------------
      An Extra Thymus in Mice
      ---------------------------------------------------------------------------

      The thymus lies directly above the heart and acts as a cradle for
      developing T cells that will eventually protect the body from the many
      pathogens encountered during a lifetime. The thymus has been considered one
      of a kind, but Terszowski et al. (p. 284, published online 2 March; see the
      Perspective by von Boehmer) find that mice frequently possess a second,
      smaller thymus located in the neck. This "cervical" thymus displays all of
      the classical features that define the larger thoracic organ, including
      boundaries between distinct thymocyte compartments and markers for thymic
      epithelia and developing thymocytes. Moreover, T cells emerging from this
      smaller cousin also appear functionally competent and can populate athymic
      adult recipients after cervical thymus transplantation.

      CREDIT: TERSZOWSKI ET AL.

      ---------------------------------------------------------------------------
      Alkane Shuffle
      ---------------------------------------------------------------------------

      Olefin metathesis, which swaps molecular fragments on either side of a
      carbon-carbon double bond, has become an efficient and widely used chemical
      process. However, there are few effective catalysts for the analogous
      transformation of saturated hydrocarbons. Such rearrangements around C-C
      single bonds would be useful in generating fuel from lighter alkanes
      (methane to hexane) derived from sources other than petroleum. Goldman et
      al. (p. 257; see the news story by Service) achieve alkane metathesis by
      combining two catalysts. A molecular iridium catalyst first dehydrogenates
      alkanes to form olefins, which can be combined and rearranged with a
      well-established olefin metathesis catalyst. The iridium complex then
      rehydrogenates the rearranged products. In this way, two equivalents of
      hexane can be converted to decane and ethane, as well as a small
      distribution of other alkanes stemming from isomerization at the olefin
      stage.

      ---------------------------------------------------------------------------
      Bile Buildup and Liver Regeneration
      ---------------------------------------------------------------------------

      Numerous secreted factors, including growth factors and cytokines, have
      been implicated in regulating hepatocyte proliferation. W. Huang et al. (p.
      233; see the news story by Vogel) report that bile acids are essential
      stimulatory factors for liver regeneration in mice. An increase in bile
      acids stimulates regeneration and requires the nuclear bile acid receptor
      FXR. The authors propose a homeostatic mechanism for determination of liver
      size, in which FXR and perhaps other nuclear receptors sense the levels of
      endogenous metabolites to determine the liver's functional capacity. When
      liver function is decreased as a result of injury, the resulting
      accumulation of bile acids activates FXR, which stimulates signaling
      pathways to protect the liver from bile acid toxicity and also promotes
      liver growth to handle the overload.

      ---------------------------------------------------------------------------
      Biochemical Quantum Tunneling
      ---------------------------------------------------------------------------

      Whether enzymes have evolved to use quantum tunneling to facilitate proton
      transfer is a topic of considerable debate. Masgrau et al. (p. 237; see the
      Perspective by Benkovic and Hammes-Schiffer) present an atomic-level
      description of the reaction pathway for tryptamine oxidation by aromatic
      amine dehydrogenase. Proton transfer occurs in a reaction dominated by
      tunneling over a distance of 0.6 angstrom. Tunneling does not require
      long-range motions coupled to the reaction coordinate but is promoted by
      short-range motion that reduces the proton-acceptor distance.

      ---------------------------------------------------------------------------
      Controlling a Plant's Water Balance
      ---------------------------------------------------------------------------

      Plants lose much of their water through stomata, tiny pores on their
      leaves. The opening and closing of these pores, and thus a considerable
      part of the plant's water management, is at least partially under control
      of the hormone abscisic acid (ABA). Mishra et al. (p. 264) have now
      elucidated the signaling pathway between ABA in the opening and closing o
      • yoric Re: 14.04 17.04.06, 00:23
        Gamete Recognition and Reproductive Success
        ---------------------------------------------------------------------------

        To ensure the reproductive success of a species at fertilization, egg and
        sperm must be compatible. In field studies with the sea urchin
        Strongylocentrotus franciscanus, Levitan and Ferrell (p. 267) examine the
        selective factors that shape highly polymorphic bindin gamete recognition
        proteins involved in species specificity. The reproductive success of males
        was greatest with common genotypes relative to rare genotypes; however,
        females with common genotypes had half the reproductive success of females
        with rare genotypes. In addition, common bindin alleles are selected with
        low sperm densities, but rare bindin alleles are selected with high
        densities. The interaction between spawning density and genotype frequency
        provides insight into why different species evolve at different rates.

        ---------------------------------------------------------------------------
        Directing Nonribosomal Peptide Synthesis
        ---------------------------------------------------------------------------

        Nonribosomal peptide synthetases (NRPSs) operate through an assembly line
        where peptidyl carrier proteins (PCPs) transfer peptide intermediates
        between acyl-adenylate-forming (A) domains and peptide-bond-forming (C)
        domains. Koglin et al. (p. 273) now show how PCP reorients a cofactor that
        holds the growing peptide chains. Both apo and holo-PCP exist in two stable
        conformations and have one conformation in common between them. This double
        two-state equilibrium facilitates directed movement of the cofactor and may
        modulate specific interactions with the A and C domains.

        CREDIT: KOGLIN ET AL.

        ---------------------------------------------------------------------------
        Genetic Link to Obesity?
        ---------------------------------------------------------------------------

        Obesity is thought to be in part heritable, but the genes responsible are
        difficult to identify, probably because they are numerous and each exerts
        only a small effect. Herbert et al. (p. 279) scanned the genomes of a group
        of well-characterized patients with markers for over 86,000 genetic
        polymorphisms. One of the markers was associated with an index of obesity,
        the body mass index. In follow-up studies of five completely independent
        groups of people that included adults and children, the association was
        present in four of the groups. The polymorphism is located upstream of a
        gene involved in global fat metabolism and could potentially affect its
        function.

        ---------------------------------------------------------------------------
        Particulate Impact
        ---------------------------------------------------------------------------

        Aerosols influence climate mainly through cloud formation and their
        interactions with solar radiation. Anthropogenic aerosol emissions are
        fairly well documented, but much less is known about natural emissions,
        such as biogenic volatile organic carbon (BVOC) from boreal forests. Tunved
        et al. (p. 261) show that Scandanavian boreal forests provide significant
        natural fluxes of climate-relevant aerosols, and propose a straightforward
        relation between emissions of monoterpenes and gas-particle formation over
        regions where there are few to no local anthropogenic aerosol sources.

        ---------------------------------------------------------------------------
        Choosing the Path of Molecular Breakup
        ---------------------------------------------------------------------------

        There are a number of pathways by which a molecule can dissociate, and
        controlling the path and the direction in which the fragments move may
        provide a way to control the outcomes of elementary chemical reactions.
        Kling et al. (p. 246) use recent developments in the generation of
        few-cycle optical pulses that allow their amplitude, frequency, and phase
        to be controlled with great precision. They apply the pulses to look at the
        dissociation D2 molecules and show that manipulation of the waveform
        results in a pronounced dependence of the direction of emission of the
        ions.

        ---------------------------------------------------------------------------
        Inter- and Intrachromosome Interactions in Gene Regulation
        ---------------------------------------------------------------------------

        Long-range interactions within chromosomes that occur through
        intrachromosomal loops can set up important gene regulatory interactions.
        For example, the imprinting control region (ICR) at the insulin-like growth
        factor Igf2/H19 locus on mouse chromosome 7 is involved in bringing distant
        enhancers into promoter regions to increase gene transcription. Ling et al.
        (p. 269; see the Perspective by Spilianakis and Flavell) now show that
        interchromosome as well as intrachromosome interactions are mediated
        through the Igf2/H19 ICR. The maternal Igf2/H19 ICR interacts with a
        specific region on paternal chromosome 11. This interaction requires an ICR
        binding protein and appears to play a role in the regulation of expression
        of the interacting genes on chromosome 11.

        ---------------------------------------------------------------------------
        Functional Conservation of Noncoding Sequences
        ---------------------------------------------------------------------------

        Sequences, and even expression patterns, are conserved across evolutionary
        history, but less is understood about the conservation of regulatory
        sequences. Fisher et al. (p. 276, published online 23 March) developed a
        rapid, transposon-based transgenic strategy in zebrafish to study the
        functional conservation of noncoding sequences. This assay avoided problems
        of mosaicism that have been observed previously. The sequences that control
        expression of RET in humans (a gene that is associated with neural crest
        disorders) also show appropriate tissue-specific expression in the
        zebrafish, despite the lack of overt sequence conservation between the
        regulatory elements.
    • Gość: Kagan Re: This week in "Science" IP: *.neoplus.adsl.tpnet.pl 17.04.06, 16:21
      Dla mnie nic ciekawego.

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