Wednesday, April 29, 2015

Nature contents: 30 April 2015

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  journal cover  
Nature Volume 520 Issue 7549
 
This Week  
 
 
Editorials  
 
 
 
Thank you for sharing
Initiatives to make genetic and medical data publicly available could improve diagnostics — but they lose value if they do not share with other projects.
A hard sell
Scientists must stand up for marine parks if the value of the seas is to be recognized globally.
More on unicorns
A newly discovered tiny dinosaur sported an intriguing structural accessory.
 
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World View  
 
 
 
China's scientific progress hinges on access to data
It is getting harder for scientists in China to obtain the high-quality public data that they need for important research studies, says Zheng Wan.
 
Seven Days  
 
 
 
Seven days: 24–30 April 2015
The week in science: Nepal quake's devastating toll; malaria vaccine hopeful offers infants only small protection; why the US National Football League must pay out nearly US$1billion.
Research Highlights  
 
 
 
Biomechanics: How grebes walk on water | Astronomy: Light direct from an alien world | Biophysics: Bacteria swim to form crystals | Hydrology: Groundwater under Antarctica | Neuroscience: Brain waves go far in tinnitus | Metrology: Atomic clock smashes records | Climate change: Weather extremes linked to warming | Physiology: Colour tunes the body clock | Palaeogenetics: Genomes reveal mammoth history
Social Selection
Bar graphs criticized for misrepresenting data
 
 

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News in Focus
 
Human-embryo editing poses challenges for journals
Ethical concerns complicate publishing process.
Daniel Cressey, David Cyranoski
  Embryo editing sparks epic debate
In wake of paper describing genetic modification of human embryos, scientists disagree about ethics.
David Cyranoski, Sara Reardon
Canadian budget pushes applied research
Plan seeks to increase government partnerships with industry but downplays basic science.
Margaret Munro
  Vatican convenes major climate-change meeting
Religious leaders and scientists gather to discuss moral implications of global warming as Pope drafts key letter.
Edwin Cartlidge
Consumer DNA firms get serious about drug development
Companies race to gather large data sets in bid to find treatments based on genetics.
Erika Check Hayden
  Bone DNA reveals humanity's trek into South America
DNA from Peru cave sites suggests a single human migration to the continent.
Ewen Callaway
Features  
 
 
 
Collateral damage: How one misconduct case brought a biology institute to its knees
The fall out from the STAP case is still being felt across Japan.
David Cyranoski
Science in turmoil: After the Arab Spring
Four years after revolutions shook governments in North Africa and the Middle East, scientists face an uncertain future.
Mohammed Yahia, Declan Butler
Correction  
 
 
Correction
 
 
Comment
 
Personalized medicine: Time for one-person trials
Precision medicine requires a different type of clinical trial that focuses on individual, not average, responses to therapy, says Nicholas J. Schork.
Nicholas J. Schork
Statistics: P values are just the tip of the iceberg
Ridding science of shoddy statistics will require scrutiny of every step, not merely the last one, say Jeffrey T. Leek and Roger D. Peng.
Jeffrey T. Leek, Roger D. Peng
Books and Arts  
 
 
 
Climate economics: The high road
Michael Grubb is both swept away and frustrated by Nicholas Stern's argument for tackling climate change.
Michael Grubb
Genetics: We are the 98%
Nathaniel Comfort unpicks the metaphors in a trio of books exploring the 'junk'-ridden genome.
Nathaniel Comfort
New in paperback
Emily Banham
Origins of life: An improbable journey
Adrian Woolfson enjoys two studies on microbial life's trek towards complexity.
Adrian Woolfson
Virology: Journal of the plague years
Mark Dybul applauds the latest chapter in an account of a life at the leading edge of HIV research and policy.
Mark Dybul
Medical history: Pioneer of polio eradication
Tilli Tansey extols a biography of determined vaccine trailblazer Jonas Salk.
Tilli Tansey
Physics: One hundred years of general relativity
Pedro Ferreira looks back at how Einstein himself and a panoply of other physicists have framed the theory.
Pedro Ferreira
Correspondence  
 
 
 
Germline edits: heat does not help debate
Mika Martikainen, Ole Pedersen
  Germline edits: trust ethics review process
Julian Savulescu, Chris Gyngell, Tom Douglas
Iran: Lift sanctions now to save public health
Mehdi Aloosh, Arash Aloosh
  Publishing: Double-blind peer review a double risk
Thomas E. DeCoursey
Fisheries: Better policing for fishy catch data
David W. Sims, Samantha J. Simpson
 
 
 
Specials
 
Outlook: Assessing Science (China)  
 
 
 
Assessing science
Michelle Grayson
  China's research & development spend
Xiaole Ni
Symposium overview: Raising standards
Michelle Grayson
  Q&A: Science regeneration
Kurt Wüthrich
Evaluation: Moving away from metrics
Huang Kun
  Q&A: The numbers game
David Sweeney
Q&A: Times are changing
Chen Xiangmei, Zeng Xuan
  Research impact: A tale of two systems
Peng Tian
Q&A: China still rising
Anthony Cheetham
  Perspective: Give youth a chance
Chuan-Chao Wang
Q&A: The global view
Jin Dong-Yan
 
 
 
Research
 
NEW ONLINE  
 
 
 
Cancer: Antibodies regulate antitumour immunity
Boosting the T cells that mediate anticancer immune responses is a therapeutic goal. But T cells do not work alone — B cells and the antibodies they produce can both trigger and suppress the response.
Palaeontology: Dinosaur up in the air
A new feathered dinosaur from China, belonging to an obscure and strange carnivorous group, bears a seemingly bony wrist structure that may have had a role in flight.
Sequential cancer mutations in cultured human intestinal stem cells
Using the CRISPR/Cas9 system, up to four frequently occurring colorectal cancer mutations were introduced alone or in combination into stem cell organoids derived from human small intestinal or colon tissue, allowing an in-depth investigation of the contribution of these mutations to cancer progression.
Neurons for hunger and thirst transmit a negative-valence teaching signal
Cell-type-specific electrical activity manipulations and deep-brain imaging in mice of neuronal populations associated with homeostasis of nutrient or fluid intake reveals that learning is conditioned by a negative-valence signal from the hunger-mediating AGRP neurons and also from the thirst-mediating neurons in the subfornical organ.
An enigmatic plant-eating theropod from the Late Jurassic period of Chile
A new dinosaur from the Late Jurassic period of Chile (about 150 million years ago) has been discovered and identified as a primitive kind of theropod that, unusually, was herbivore.
Immunosuppressive plasma cells impede T-cell-dependent immunogenic chemotherapy
IgA plasmocytes are shown to promote resistance to the immunogenic chemotherapeutic oxaliplatin in prostate cancer mouse models by inhibiting activation of cytotoxic T cells; immunosuppressive plasma cells, which are also found in human-therapy-resistant prostate cancer, are generated in response to TGFβ, and their functionality depends on PD-L1 expression and IL-10 secretion.
A bizarre Jurassic maniraptoran theropod with preserved evidence of membranous wings
A recently discovered fossil belonging to the Scansoriopterygidae, a group of bizarre dinosaurs closely related to birds, represents a new scansoriopterygid species and preserves evidence of a membranous aerodynamic surface very different from a classic avian wing.
The Xist lncRNA interacts directly with SHARP to silence transcription through HDAC3
The mechanisms by which Xist, a long non-coding RNA, silences one X chromosome in female mammals are unknown; here a mass spectrometry-based approach is developed to identify several proteins that interact directly with Xist, including the transcriptional repressor SHARP that is required for transcriptional silencing through the histone deacetylase HDAC3.
Structures of actin-like ParM filaments show architecture of plasmid-segregating spindles
Structures of actin-like ParM filaments at near-atomic resolution and their arrangements into doublets reveal how subunits and filaments come together to segregate low-copy-number plasmid R1 in Escherichia coli, producing the simplest known mitotic machinery.
Allogeneic IgG combined with dendritic cell stimuli induce antitumour T-cell immunity
Naturally occurring tumour-binding IgG antibodies are shown to initiate the rejection of allogeneic tumours, whereby Fc-receptor-mediated uptake of tumour immune complexes into dendritic cells activates tumour-reactive T cells, and intra-tumoral injection of allogeneic IgG together with dendritic cell adjuvants induces systemic T-cell-mediated antitumour responses.
Th17 cells transdifferentiate into regulatory T cells during resolution of inflammation
Analysis of a mouse model shows that during the course of an immune response, helper T cells undergo functional reprogramming to transdifferentiate into regulatory T cells; this T cell plasticity could possibly be exploited to develop better therapies for restoring immune tolerance in autoimmune diseases.
News and Views  
 
 
 
Cancer: An essential passenger with p53
James E. Bradner
Immunology: Stillbirth prevented by signal blockade
Anna Bakardjiev
Microbiology: Malaria runs rings round artemisinin
Jeremy Burrows
 
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Palaeoclimate: Northern push for the bipolar see-saw
Tas van Ommen
 
50 & 100 Years Ago
Materials science: Semiconductors grown large and thin
Tobin J. Marks, Mark C. Hersam
 
Articles  
 
 
 
A multilevel multimodal circuit enhances action selection in Drosophila
Combining neural manipulation in freely behaving animals, physiological studies and electron microscopy reconstruction in the Drosophila larva identifies a complex multilsensory circuit involved in the selection of larval escape modes that exhibits a multilevel multimodal convergence architecture.
Tomoko Ohyama, Casey M. Schneider-Mizell, Richard D. Fetter et al.
Structure of the human 80S ribosome
The structure of the human ribosome at high resolution has been solved; by combining single-particle cryo-EM and atomic model building, local resolution of 2.9 Å was achieved within the most stable areas of the structure.
Heena Khatter, Alexander G. Myasnikov, S. Kundhavai Natchiar et al.
Letters  
 
 
 
Extended hard-X-ray emission in the inner few parsecs of the Galaxy
A distinct hard-X-ray emission component is reported within the central four parsecs by eight parsecs of the Galaxy; this emission is more sharply peaked toward the Galactic Centre than is the surface brightness of the soft X-ray population, and all the interpretations of this emission pose significant challenges to our understanding of stellar evolution, binary formation and cosmic-ray production in the Galactic Centre.
Kerstin Perez, Charles J. Hailey, Franz E. Bauer et al.
Topological valley transport at bilayer graphene domain walls
The bandgap of bilayer graphene can be tuned with an electric field and topological valley polarized modes have been predicted to exist at its domain boundaries; here, near-field infrared imaging and low-temperature transport measurements reveal such modes in gapped bilayer graphene.
Long Ju, Zhiwen Shi, Nityan Nair et al.
High-mobility three-atom-thick semiconducting films with wafer-scale homogeneity
A new chemical vapour deposition method enables transition-metal dichalcogenide (TMD) monolayers to be grown directly on insulating silicon dioxide wafers, demonstrating the possibility of wafer-scale batch fabrication of high-performance devices with TMD monolayers.
Kibum Kang, Saien Xie, Lujie Huang et al.
Precise interpolar phasing of abrupt climate change during the last ice age
A new ice core from West Antarctica shows that, during the last ice age, abrupt Northern Hemisphere climate variations were followed two centuries later by a response in Antarctica, suggesting an oceanic propagation of the climate signal to the Southern Hemisphere high latitudes.
WAIS Divide Project Members, Christo Buizert, Betty Adrian et al.
Isotopic evidence for biological nitrogen fixation by molybdenum-nitrogenase from 3.2 Gyr
Nitrogen isotope ratios from rocks between 3.2 and 2.75 billion years old are most readily explained by biological nitrogen fixation, most probably using the metal molybdenum as a cofactor, showing that nitrogen fixation is at least 3.2 billion years old and suggesting that molybdenum was available to organisms long before the Great Oxidation Event.
Eva E. Stüeken, Roger Buick, Bradley M. Guy et al.
An epigenome-wide association study of total serum immunoglobulin E concentration
A survey of epigenetic associations between serum immunoglobulin E concentrations indicating allergy and methylation at CpG islands in families and a population sample has revealed associations at 36 loci that harbour genes encoding proteins including eosinophil products and phospholipid inflammatory mediators.
Liming Liang, Saffron A. G. Willis-Owen, Catherine Laprise et al.
A circuit mechanism for differentiating positive and negative associations
Neurons in the basolateral amygdala projecting to canonical fear or reward circuits undergo opposing changes in synaptic strength following fear or reward conditioning, and selectively activating these projection-target-defined neural populations causes either negative or positive reinforcement, respectively.
Praneeth Namburi, Anna Beyeler, Suzuko Yorozu et al.
NIK1-mediated translation suppression functions as a plant antiviral immunity mechanism
A new mechanism that plants use to combat begomoviruses—one of the most pathogenic groups of plant viruses, causing severe disease in major crops worldwide—is uncovered: plants inhibit the transcription of genes associated with the translational apparatus, thus causing a general reduction in protein synthesis.
Cristiane Zorzatto, João Paulo B. Machado, Kênia V. G. Lopes et al.
A molecular mechanism of artemisinin resistance in Plasmodium falciparum malaria
Artemisinins are key anti-malarial drugs, but artemisinin resistance has been increasing; this study identifies the molecular target of artemisinins as phosphatidylinositol-3-kinase and increase of the lipid product phosphatidylinositol-3-phosphate induces resistance in Plasmodium falciparum.
Alassane Mbengue, Souvik Bhattacharjee, Trupti Pandharkar et al.
Single-dose attenuated Vesiculovax vaccines protect primates against Ebola Makona virus
Two second-generation attenuated Ebola virus vaccines based on recombinant vesicular stomatitis virus protect macaques against infection with a recent Ebola virus isolate from Guinea.The N1 and N4 rVSV vectors described in this manuscript are the subject of patents licensed to Profectus BioSciences, Inc. Opinions, interpretations, conclusions, and recommendations are those of the authors and are not necessarily endorsed by the University of Texas Medical Branch.
Chad E. Mire, Demetrius Matassov, Joan B. Geisbert et al.
Mutant MHC class II epitopes drive therapeutic immune responses to cancer
The authors show that a large fraction of tumour mutations is immunogenic and predominantly recognized by CD4+ T cells; they use these data to design synthetic messenger-RNA-based vaccines specific against tumour mutations, and show that these can reject tumours in mice.
Sebastian Kreiter, Mathias Vormehr, Niels van de Roemer et al.
TP53 loss creates therapeutic vulnerability in colorectal cancer
Genomic deletion of the tumour suppressor TP53 frequently includes other neighbouring genes, such as the POLR2A housekeeping gene that encodes a crucial RNA polymerase II subunit; suppression of POLR2A with α-amanitin or by RNA interference selectively inhibits the tumorigenic potential of cancer cells, and in mouse models of cancer, tumours can be selectively targeted with α-amanitin coupled to antibodies, suggesting new therapeutic approaches for human cancers.
Yunhua Liu, Xinna Zhang, Cecil Han et al.
Structural basis of CpG and inhibitory DNA recognition by Toll-like receptor 9
Crystal structures of three forms of Toll-like receptor (TLR) 9 — unliganded or bound either to immune stimulatory CpG-containing DNA or inhibitory DNA — together reveal the molecular basis of TLR9 activation.
Umeharu Ohto, Takuma Shibata, Hiromi Tanji et al.
The octahaem MccA is a haem c–copper sulfite reductase
Sulfite-reducing microbes couple the reduction of sulfite to the generation of a proton motive force that sustains organismic growth; here, two X-ray crystal structures are solved of MccA, a c-type cytochrome enzyme with eight haem groups that catalyses the six-electron reduction of sulfite to sulfide at a novel haem–copper active site.
Bianca Hermann, Melanie Kern, Luigi La Pietra et al.
Corrigenda  
 
 
 
Corrigendum: Deterministic direct reprogramming of somatic cells to pluripotency
Yoach Rais, Asaf Zviran, Shay Geula et al.
Corrigendum: Derivation of novel human ground state naive pluripotent stem cells
Ohad Gafni, Leehee Weinberger, Abed AlFatah Mansour et al.
 
 

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Careers & Jobs
 
Feature  
 
 
 
Public health: Behind a vaccine
Bryn Nelson
Q&AS  
 
 
 
Workplace climate: Metrics for ethics
Monya Baker
Futures  
 
 
The archive personality protocol
A great way to resolve a problem.
Brian Trent
 
 
 
 
 

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