Thursday, November 3, 2016

Nature contents: 03 November 2016

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  journal cover  
Nature Volume 539 Issue 7627
 
This Week  
 
 
Editorials  
 
 
 
Russian science at the crossroads
Upheaval in the former superpower is bad for research and the wider world.
Deciphering the genes that give mammals their stripes and patterns
Researchers spot genes in an African mouse to identify the genetics of developmental patterning. 
Twitterstorm shows why scientific evidence matters
An MP’s dismissive tweet that scientists have ‘no experience of the real world’ highlights a chasm in mutual understanding.
 
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World View  
 
 
 
Geneticists should offer data to participants
Sarah Nelson was refused access to her own genome data. How long before volunteers who face this attitude turn away from science?
 
Seven Days  
 
 
 
Earthquakes in Italy, cholera vaccines and turmoil in Turkish universities
The week in science: 28 October–3 November 2016
Research Highlights  
 
 
 
Microbiology: Fungi boost bacterium | Plant nanotechnology: Bionic plant can sense explosives | Metabolism: Low oxygen resets the body clock | Astronomy: Small stars host water worlds | Immunology: Weary T cells may not recover | Animal behaviour: Noise disrupts other senses | Materials: 3D-printed device shapes ultrasound | Fluid dynamics: Soft surfaces suppress splash | Ecology: River fish feed millions | Animal behaviour: Magpies behave cooperatively
 
 

Call for Nominations
 
The Constance Lieber Prize for Innovation in Developmental Neuroscience will be awarded in June of 2017
to an investigator under 55 years of age who has made a transformative contribution in developmental neuroscience
with clinical implications. Nominations will be accepted until Dec. 31, 2016.
 
To nominate an investigator, click here.
 
For more on the Lieber Institute for Brain Development, click here.
 
 
News in Focus
 
World’s largest marine reserve hailed as diplomatic breakthrough
Antarctic agreement follows years of failed discussions and represents the first major conservation effort in the high seas.
Quirin Schiermeier
  Young scientists ditch postdocs for biotech start-ups
Many biologists are founding their own firms as venture capitalists show increased interest in science.
Erika Check Hayden
Cosmic rays may threaten space-weather satellite
DSCOVR’s computer may be suffering from radiation-induced glitches, months after it became the primary sentinel for incoming solar storms.
Alexandra Witze
  Plant-genome hackers seek better ways to produce customized crops
As gene editing opens doors, plant researchers are hamstrung by the need for better ways to slip their molecular tools into cells.
Heidi Ledford
Rio fights Zika with biggest release yet of bacteria-infected mosquitoes
Wolbachia-infected mosquitoes will be widely deployed in two South American cities to combat viral infections.
Ewen Callaway
 
Features  
 
 
 
Can wind and solar fuel Africa's future?
With prices for renewables dropping, many countries in Africa might leap past dirty forms of energy towards a cleaner future.
Erica Gies
Multimedia  
 
 
Nature Podcast: 3 November 2016
This week, the earliest humans to roam Australia, Werner Herzog’s new film about volcanoes, and are astronomers turning a blind eye to competing theories?
Podcast Extra - Futures
Futures is Nature's weekly science fiction slot. Shamini Bundell reads you her favourite from October, 'The sixth circle' by J. W. Armstrong.
Correction  
 
 
Correction
 
 
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Comment
 
Good data are not enough
A vibrant scientific culture encourages many interpretations of evidence, argues Avi Loeb.
Avi Loeb
Bridge the planetary divide
To explain why our planet is habitable, geoscientists studying Earth’s surface and interior must work with each other and with communications scholars, write Ariel D. Anbar, Christy B. Till and Mark A. Hannah.
Ariel D. Anbar, Christy B. Till, Mark A. Hannah
Books and Arts  
 
 
 
Cryptography: Calligraphic conundrum
Andrew Robinson relishes a new volume on a work that has long defied decoders.
Andrew Robinson
Zoology: Animal crackers
Henry Nicholls relishes a brace of chronicles on how zoos on both sides of the Atlantic came to be.
Henry Nicholls
Correspondence  
 
 
 
Protected species: Norway wolf cull will hit genetic diversity
Elina Immonen, Arild Husby
  Inequality: need for data on all nations
Mathieu Denis, Melissa Leach
Inequality: span the global divide
Richard J. Smithers, Malgorzata Blicharska, José María Gutiérrez
  Food security: Protect aquaculture from ship pathogens
Guillaume Drillet
Information: Small data call for big ideas
Iadine Chadès, Sam Nicol
 
 
 
Specials
 
TOOLBOX  
 
 
 
Mining the secrets of college syllabuses
The creators of the Open Syllabus Project hope that sharing data can both improve and reward teaching.
Anna Nowogrodzki
 
 
Research
 
NEW ONLINE  
 
 
 
Neuroscience: Sleepy and dreamless mutant mice
Sleep in mammals consists of non-rapid-eye-movement and rapid-eye-movement sleep. A large genetic screen reveals that these two sleep states are altered in mice by mutations dubbed Sleepy and Dreamless.
Balancing selection shapes density-dependent foraging behaviour
Natural isolates of Caenorhabditis elegans nematodes differ in their sensitivity to the anti-exploratory pheromone icas#9, yielding two distinct foraging strategies that possess different survival advantages depending on environmental conditions such as food distribution.
Developmental mechanisms of stripe patterns in rodents
Alx3-induced modulation of Mitf expression alters melanocyte differentiation and gives rise to the hair colour differences underlying the repeated evolution of dorsal stripes in rodents.
LKB1 loss links serine metabolism to DNA methylation and tumorigenesis
Human tumours with mutations in LKB1 and Kras have a specific hypermetabolic state associated with increased DNA methylation, pointing to potential metabolic and epigenetic vulnerabilities of specific tumours.
Forward-genetics analysis of sleep in randomly mutagenized mice
Two mutations affecting the sleep–wakefulness balance in mice are detected, showing that the SIK3 protein kinase is essential for determining daily wake time, and the NALCN cation channel regulates the duration of rapid eye movement sleep.
Tidal evolution of the Moon from a high-obliquity, high-angular-momentum Earth
A model of the Moon’s tidal evolution, starting from the fast-spinning, high-obliquity Earth that would be expected after a giant impact, reveals that solar perturbations on the Moon’s orbit naturally produce the current lunar inclination and Earth’s low obliquity.
Catalytic activation of carbon–carbon bonds in cyclopentanones
In the chemical industry, it is often necessary to activate carbon–carbon bonds in order to synthesize complex organic molecules, but this is challenging when starting with simple five- or six-membered carbon rings; a new method uses a rhodium pre-catalyst and an amino-pyridine co-catalyst, enabling an overall energetically favourable reaction that involves activation of carbon–carbon bonds plus activation of carbon–hydrogen bonds.
Fatty acid synthesis configures the plasma membrane for inflammation in diabetes
Mice with macrophages deficient in fatty acid synthase exhibit lower levels of diabetes-related insulin resistance and inflammation, qualities that are restored on addition of exogenous cholesterol.
Single-cell RNA-seq supports a developmental hierarchy in human oligodendroglioma
A single sentence summarizing your paper (websum), which will appear online on the table of contents and in e-alerts, has been provided below. Please check this sentence for accuracy and appropriate emphasis.
Cultural innovation and megafauna interaction in the early settlement of arid Australia
Warratyi rock shelter shows evidence of human occupation approximately 50,000 years ago, development of tool use and cultural innovation, and interaction with now-extinct megafauna in arid Australia.
Hypoxia induces heart regeneration in adult mice
Multiple dynamin family members collaborate to drive mitochondrial division
Zika virus infection damages the testes in mice
Microcins mediate competition among Enterobacteriaceae in the inflamed gut
Brief Communications Arising  
 
 
 
The intrinsic thermal conductivity of SnSe
Pai-Chun Wei, S. Bhattacharya, J. He et al.
Zhao et al. reply
Li-Dong Zhao, Shih-Han Lo, Yongsheng Zhang et al.
News and Views  
 
 
 
DNA repair: Telomere-lengthening mechanism revealed
Caitlin M. Roake, Steven E. Artandi
Behavioural biology: Stones that could cause ripples
Hélène Roche
Fluid dynamics: Turbulence in a quantum gas
Brian P. Anderson
 
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Cell biology: Phosphate on, rubbish out
Arti Tripathi, Susan Gottesman
 
Linguistics: Sound and meaning in the world's languages
W. Tecumseh Fitch
Particle physics: Axions exposed
Maria Paola Lombardo
 
Articles  
 
 
 
De novo phasing with X-ray laser reveals mosquito larvicide BinAB structure
The structure of the bacterial toxin BinAB, which is used to combat mosquito-borne diseases, reveals pH-sensitive switches and carbohydrate-binding modules that may contribute to the larvicidal function of the toxin.
Jacques-Philippe Colletier, Michael R. Sawaya, Mari Gingery et al.
Arginine phosphorylation marks proteins for degradation by a Clp protease
In Gram-positive bacteria, arginine phosphorylation by the McsB kinase functions as a general post-translational marker for Clp-mediated proteolysis.
Débora Broch Trentini, Marcin Józef Suskiewicz, Alexander Heuck et al.
Break-induced telomere synthesis underlies alternative telomere maintenance
Alternative lengthening of telomeres in cancer cells is initiated by a specialized replisome and noncanonical homologous recombination at damaged telomeres, culminating in the synthesis of long tracts of telomere DNA.
Robert L. Dilley, Priyanka Verma, Nam Woo Cho et al.
Defining synonymous codon compression schemes by genome recoding
REXER, a new method that allows long sections of DNA to be inserted or replaced in the genome of the bacterium Escherichia coli, is used to investigate codon replacement schemes for the generation of synthetic genomes.
Kaihang Wang, Julius Fredens, Simon F. Brunner et al.
Letters  
 
 
 
Wild monkeys flake stone tools
Wild capuchin monkeys in Brazil deliberately break stones, unintentionally producing flakes similar to the ancient sharp-edged flakes characterized as intentionally produced Pliocene–Pleistocene hominin tools, although why they do so remains unclear.
Tomos Proffitt, Lydia V. Luncz, Tiago Falótico et al.
Evolution of Hoxa11 regulation in vertebrates is linked to the pentadactyl state
The mutually exclusive expression of the Hoxa11 and Hoxa13 genes is required for pentadactyl (five-digit) limbs and is proposed to have contributed to the transition from several digits polydactyl (several-digit) limbs in the earliest tetrapods.
Yacine Kherdjemil, Robert L. Lalonde, Rushikesh Sheth et al.
The formation of Charon’s red poles from seasonally cold-trapped volatiles
The unusual dark red coloration of Charon’s northern polar cap is shown to be produced from hydrocarbons that are cold-trapped from Pluto’s escaping atmosphere during winter.
W. M. Grundy, D. P. Cruikshank, G. R. Gladstone et al.
Emergence of a turbulent cascade in a quantum gas
The gradual development of a turbulent cascade in a weakly interacting homogeneous Bose gas is observed on application of a periodic driving force.
Nir Navon, Alexander L. Gaunt, Robert P. Smith et al.
1970s and ‘Patient 0’ HIV-1 genomes illuminate early HIV/AIDS history in North America
A study of the early genetic diversity and history of the HIV-1 epidemic in North America through sequencing of eight full-length viral genomes from the 1970s.
Michael Worobey, Thomas D. Watts, Richard A. McKay et al.
Metal–organic frameworks as selectivity regulators for hydrogenation reactions
The flavouring, perfume and pharmaceutical industries rely on the selective hydrogenation of α,β-unsaturated aldehydes to generate unsaturated alcohols; here, a new type of highly selective catalyst is described in which platinum nanoparticles are sandwiched between a core and a shell of a metal−organic framework.
Meiting Zhao, Kuo Yuan, Yun Wang et al.
Olfactory receptor pseudo-pseudogenes
Drosophila sechellia, a species closely related to the model species Drosophila melanogaster, bypasses a premature stop codon in neuronal cells to express a functional olfactory receptor protein from an assumed pseudogene template.
Lucia L. Prieto-Godino, Raphael Rytz, Benoîte Bargeton et al.
Single-cell RNA-seq identifies a PD-1hi ILC progenitor and defines its development pathway
Single-cell RNA sequencing of bone marrow innate lymphoid cell (ILC) precursors reveals that PD-1 marks a committed ILC progenitor and that ILC2 development requires Bcl11b and IL-25R expression; activated ILCs can also be depleted by a PD-1 antibody.
Yong Yu, Jason C. H. Tsang, Cui Wang et al.
On-target efficacy of a HIF-2α antagonist in preclinical kidney cancer models
The small-molecule HIF-2α antagonist PT2399 causes tumour regression in animal models of clear cell renal cell carcinoma, but cell lines of this tumour type show unexpectedly variable responses to PT2399.
Hyejin Cho, Xinlin Du, James P. Rizzi et al.
Atomic model for the membrane-embedded VO motor of a eukaryotic V-ATPase
The structure of the VO subcomplex of yeast V-ATPase, solved by electron cryomicroscopy, reveals a new subunit and suggests a mechanism for the translocation of protons across membranes.
Mohammad T. Mazhab-Jafari, Alexis Rohou, Carla Schmidt et al.
Targeting renal cell carcinoma with a HIF-2 antagonist
The HIF-2 antagonist PT2399 is tested in mice bearing tumourgrafts derived from human renal cell cancers to demonstrate its efficacy, identify markers of sensitivity and characterize its effects.
Wenfang Chen, Haley Hill, Alana Christie et al.
Calculation of the axion mass based on high-temperature lattice quantum chromodynamics
The mass of the axion, a particle that is central to many dark-matter theories, is calculated via the equation of state of the Universe and the temperature dependence of the so-called topological susceptibility of quantum chromodynamics.
S. Borsanyi, Z. Fodor, J. Guenther et al.
Mantle dynamics inferred from the crystallographic preferred orientation of bridgmanite
Deformation experiments on bridgmanite indicate that it may be the main contributor to the shear wave anisotropy observed around several subducting plates.
Noriyoshi Tsujino, Yu Nishihara, Daisuke Yamazaki et al.
Corrigenda  
 
 
 
Corrigendum: Lytic to temperate switching of viral communities
B. Knowles, C. B. Silveira, B. A. Bailey et al.
Formation of new stellar populations from gas accreted by massive young star clusters
Chengyuan Li, Richard de Grijs, Licai Deng et al.
Corrigendum: Transfer of mitochondria from astrocytes to neurons after stroke
Kazuhide Hayakawa, Elga Esposito, Xiaohua Wang et al.
Corrigendum: Noncanonical autophagy inhibits the autoinflammatory, lupus-like response to dying cells
Jennifer Martinez, Larissa D. Cunha, Sunmin Park et al.
 
 
Nature Insight: The Protein World

This Insight highlights four exciting topics in contemporary protein science: de novo designed proteins; how cells monitor and regulate the proteome; the rise of cryo-electron microscopy; and proteome analysis through high-resolution mass spectrometry.
 
 
Careers & Jobs
 
Feature  
 
 
 
Postgraduate studies: Find the best fit
Kendall Powell
Career Briefs  
 
 
 
Gender balance: Culture clash
Big pharma: UK drugs outsourced
Futures  
 
 
Blood will tell
Family ties.
Tom Easton, Jack McDevitt
 
 
 
 
 

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