Wednesday, January 11, 2017

Nature Communications -11 January 2017

 
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Nature Milestones: Antibodies chronicles the history of antibodies from their earliest description in antisera, their structure, generation and function, right through to their recent application in cancer immunotherapy. It also includes a timeline and a collection of seminal papers reproduced from Springer Nature. 

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Agrp neuron activity is required for alcohol-induced overeating OPEN
Sarah Cains, Craig Blomeley, Mihaly Kollo, Romeo Rácz and Denis Burdakov
It is well known that alcohol consumption leads to overeating however the neural mechanisms are unclear. Here the authors demonstrate that hunger promoting Agrp neurons in hypothalamus are also activated by ethanol and are necessary for ethanol-induced overeating.
10 January 2017 | doi: 10.1038/ncomms14014

Organization of high-level visual cortex in human infants OPEN
Ben Deen, Hilary Richardson, Daniel D. Dilks, Atsushi Takahashi, Boris Keil, Lawrence L. Wald, Nancy Kanwisher and Rebecca Saxe
Adult visual cortex is organized into regions that respond to categories such as faces and scenes, but it is unclear if this depends on experience. Here, authors measured brain activity in 4–6 month old infants looking at faces and scenes and find that their visual cortex is organized similarly to adults.
10 January 2017 | doi: 10.1038/ncomms13995

Transportable hyperpolarized metabolites OPEN
Xiao Ji, Aurélien Bornet, Basile Vuichoud, Jonas Milani, David Gajan, Aaron J. Rossini, Lyndon Emsley, Geoffrey Bodenhausen and Sami Jannin
MRI imaging can be significantly enhanced by injecting highly magnetized chemical agents, but the short magnetization lifetime requires processing at the point of use. Here, the authors demonstrate a method that could extend the lifetime from seconds to hours, enabling remote preparation.
10 January 2017 | doi: 10.1038/ncomms13975

Dopaminergic dynamics underlying sex-specific cocaine reward OPEN
Erin S. Calipari, Barbara Juarez, Carole Morel, Deena M. Walker, Michael E. Cahill, Efrain Ribeiro, Ciorana Roman-Ortiz, Charu Ramakrishnan, Karl Deisseroth, Ming-Hu Han and Eric J Nestler
Sex differences in reward processing are at present poorly understood. Calipari and Juarez et al. report oestrous cycle-dependent fluctuations in firing of VTA dopamine neurons that drive alterations in DAT function expressed in terminals in the NAc. These differences underlie enhanced cocaine reward processing during oestrus.
10 January 2017 | doi: 10.1038/ncomms13877

Improved ethanol electrooxidation performance by shortening Pd–Ni active site distance in Pd–Ni–P nanocatalysts OPEN
Lin Chen, Lilin Lu, Hengli Zhu, Yueguang Chen, Yu Huang, Yadong Li and Leyu Wang
Incorporating oxophilic metals into noble metal catalysts can improve electrocatalytic performance; however, the influence of the distance between noble metal and oxophilic metal active site is not well understood. Here the authors make Pd–Ni–P nanocatalysts for ethanol oxidation, with improved performance achieved by shortening the Pd–Ni distance.
10 January 2017 | doi: 10.1038/ncomms14136

Colossal negative thermal expansion in reduced layered ruthenate OPEN
Koshi Takenaka, Yoshihiko Okamoto, Tsubasa Shinoda, Naoyuki Katayama and Yuki Sakai
Materials displaying negative thermal expansion have received interest as thermal-expansion compensators. Here, authors report very large total volume change associated with this effect in reduced calcium ruthenates and propose a microstructural origin driven by highly anisotropic thermal lattice expansion.
10 January 2017 | doi: 10.1038/ncomms14102

High power rechargeable magnesium/iodine battery chemistry OPEN
Huajun Tian, Tao Gao, Xiaogang Li, Xiwen Wang, Chao Luo, Xiulin Fan, Chongyin Yang, Liumin Suo, Zhaohui Ma, Weiqiang Han and Chunsheng Wang
Rechargeable magnesium batteries suffer from slow solid-state Mg2+ diffusion in the intercalation cathode. Here the authors show magnesium/iodine chemistry in which the liquid–solid two-phase reaction leads to increased rate capabilities by overcoming the sluggish kinetics.
10 January 2017 | doi: 10.1038/ncomms14083

The local nature of incompressibility of quantum Hall effect OPEN
E. M. Kendirlik, S. Sirt, S. B. Kalkan, N. Ofek, V. Umansky and A. Siddiki
Edge current quantization in the integer quantum Hall effect is understood to arise due to noninteracting electrons circulating an incompressible insulating bulk. Here, the authors evidence compressible metal-like bulk behaviour in GaAs/AlGaAs Hall bars consistent with electronic interactions.
10 January 2017 | doi: 10.1038/ncomms14082

Integrating mass spectrometry with MD simulations reveals the role of lipids in Na+/H+ antiporters OPEN
Michael Landreh, Erik G. Marklund, Povilas Uzdavinys, Matteo T. Degiacomi, Mathieu Coincon, Joseph Gault, Kallol Gupta, Idlir Liko, Justin L. P. Benesch, David Drew and Carol V. Robinson
Na+/H+ antiporters transport sodium or lithium ions across the membrane in exchange for protons. Here the authors combine ion mobility mass spectrometry and molecular dynamics simulations to uncover a facilitating role for lipids in the transport mechanism.
10 January 2017 | doi: 10.1038/ncomms13993

Neuronal sFlt1 and Vegfaa determine venous sprouting and spinal cord vascularization OPEN
Raphael Wild, Alina Klems, Masanari Takamiya, Yuya Hayashi, Uwe Strähle, Koji Ando, Naoki Mochizuki, Andreas van Impel, Stefan Schulte-Merker, Janna Krueger, Laetitia Preau and Ferdinand le Noble
The generation of vasculature in organs is regulated by cross-talk between the developing tissue and specialized endothelial cells. Here, the authors show that vessel growth feeding the zebrafish spinal cord is coordinated by balancing neuron-derived pro-angiogenic ligand Vegfaa and its receptor, sFlt1.
10 January 2017 | doi: 10.1038/ncomms13991

PhotoGate microscopy to track single molecules in crowded environments OPEN
Vladislav Belyy, Sheng-Min Shih, Jigar Bandaria, Yongjian Huang, Rosalie E. Lawrence, Roberto Zoncu and Ahmet Yildiz
Tracking single molecules in living cells is difficult or impractical owing to their high density. Here the authors introduce a technique of repeatedly photobleaching fluorophores at the boundary of a region of interest, thereby controlling the number of fluorescent particles for observation.
10 January 2017 | doi: 10.1038/ncomms13978

Starved epithelial cells uptake extracellular matrix for survival OPEN
Taru Muranen, Marcin P. Iwanicki, Natasha L. Curry, Julie Hwang, Cory D. DuBois, Jonathan L. Coloff, Daniel S. Hitchcock, Clary B. Clish, Joan S. Brugge and Nada Y. Kalaany
Inhibition of PI3K/mTOR, which mimics nutrient starvation, causes death of detached but not matrix-attached cancer cells. Here the authors show that nutrient restriction of epithelial cells causes uptake of the matrix protein laminin, which results in increased intracellular amino acids and enhanced mTORC1 signalling.
10 January 2017 | doi: 10.1038/ncomms13989

Mesoscopic superconductivity and high spin polarization coexisting at metallic point contacts on Weyl semimetal TaAs OPEN
Leena Aggarwal, Sirshendu Gayen, Shekhar Das, Ritesh Kumar, Vicky Süß, Claudia Felser, Chandra Shekhar and Goutam Sheet
Topological states of matter with unique transport properties hold the potential to realize unexpected phenomena. Here, Aggarwal et al. report the coexistence of a superconducting phase and a high transport spin polarization at metallic point contacts on Weyl semimetal TaAs.
10 January 2017 | doi: 10.1038/ncomms13974

Structural basis of human PCNA sliding on DNA OPEN
Matteo De March, Nekane Merino, Susana Barrera-Vilarmau, Ramon Crehuet, Silvia Onesti, Francisco J. Blanco and Alfredo De Biasio
DNA sliding clamps are ring-shaped proteins that encircle DNA and harbour polymerases and other factors that promote processive DNA replication. Here the authors use X-ray crystallography, NMR and MD simulations to propose a model for a PCNA sliding mechanism that relies on short-lived polar interactions.
10 January 2017 | doi: 10.1038/ncomms13935

Marine origin of retroviruses in the early Palaeozoic Era OPEN
Pakorn Aiewsakun and Aris Katzourakis
Endogenous retroviruses are viruses that have become integrated into the genomes of their hosts. Here, the authors investigate the evolution of foamy-like endogenous retroviruses, and, by taking into account the temporal dynamics of the rate of viral evolution, suggest that retroviruses arose at least 450 million years ago in marine vertebrates.
10 January 2017 | doi: 10.1038/ncomms13954

Prophylactic orthosteric inhibition of leukocyte integrin CD11b/CD18 prevents long-term fibrotic kidney failure in cynomolgus monkeys OPEN
Abbas Dehnadi, A. Benedict Cosimi, Rex Neal Smith, Xiangen Li, José L. Alonso, Terry K. Means and M. Amin Arnaout
Acute kidney injury can progress to chronic kidney disease. Here Dehnadi et al. develop a post-ischaemic chronic kidney disease model in cynomolgus monkeys and show that prophylactic inhibition of CD11b/CD18 leukocyte receptor via a monoclonal antibody inhibits progression of kidney disease and fibrosis.
10 January 2017 | doi: 10.1038/ncomms13899

Transcriptional pausing at the translation start site operates as a critical checkpoint for riboswitch regulation OPEN
Adrien Chauvier, Frédéric Picard-Jean, Jean-Christophe Berger-Dancause, Laurène Bastet, Mohammad Reza Naghdi, Audrey Dubé, Pierre Turcotte, Jonathan Perreault and Daniel A. Lafontaine
Riboswitches are non-coding RNA elements that detect metabolites and control expression by regulating mRNA levels or translation. Here, the authors provide evidence that the E. coli thiC riboswitch has a pause site in the translation initiation region that acts as a checkpoint for thiC expression.
10 January 2017 | doi: 10.1038/ncomms13892

Topologically protected modes in non-equilibrium stochastic systems OPEN
Arvind Murugan and Suriyanarayanan Vaikuntanathan
Energy dissipation characterizes the states far from equilibrium, whilst how it affects the local organization remains elusive. Here, Murugan et al. show that the non-equilibrium systems exhibit topologically protected boundary modes that have been known in electronic and mechanical systems.
10 January 2017 | doi: 10.1038/ncomms13881

Germline BRCA2 mutations drive prostate cancers with distinct evolutionary trajectories OPEN
Renea A. Taylor, Michael Fraser, Julie Livingstone, Shadrielle Melijah G. Espiritu, Heather Thorne, Vincent Huang, Winnie Lo, Yu-Jia Shiah, Takafumi N. Yamaguchi, Ania Sliwinski, Sheri Horsburgh, Alice Meng, Lawrence E. Heisler, Nancy Yu, Fouad Yousif, Melissa Papargiris, Mitchell G. Lawrence, Lee Timms, Declan G. Murphy, Mark Frydenberg et al.
Men that carrier BRCA2 germline mutations are at risk of developing prostate cancer. Here, the authors analyse the genomes of prostate cancer from these individuals and demonstrate increased genomic instability in comparison to sporadic prostate cancer.
09 January 2017 | doi: 10.1038/ncomms13671

Syntrophic anaerobic photosynthesis via direct interspecies electron transfer OPEN
Phuc T. Ha, Stephen R. Lindemann, Liang Shi, Alice C. Dohnalkova, James K. Fredrickson, Michael T. Madigan and Haluk Beyenal
Direct interspecies electron transfer has been shown in methane-producing communities, but it is unknown how widespread this mechanism is. Here, Ha et al. show that anoxygenic photosynthesis can be driven by direct electron transfer from a heterotrophic partner bacterium.
09 January 2017 | doi: 10.1038/ncomms13924

Pyruvate kinase type M2 promotes tumour cell exosome release via phosphorylating synaptosome-associated protein 23 OPEN
Yao Wei, Dong Wang, Fangfang Jin, Zhen Bian, Limin Li, Hongwei Liang, Mingzhen Li, Lei Shi, Chaoyun Pan, Dihan Zhu, Xi Chen, Gang Hu, Yuan Liu, Chen-Yu Zhang and Ke Zen
Exosomes, vesicles secreted by cancer cells, have a role in cancer progression but the mechanisms regulating their biogenesis are mostly unknown. Here the authors show that PKM2, a rate-limiting glycolytic enzyme overexpressed in cancer cells, mediates exosomes exocytosis by phosphorylating SNAP-23.
09 January 2017 | doi: 10.1038/ncomms14041

Hepatitis C virus has a genetically determined lymphotropism through co-receptor B7.2 OPEN
Chia-Lin Chen, Jeffrey Y. Huang, Chun-Hsiang Wang, Stanley M Tahara, Lin Zhou, Yasuteru Kondo, Joel Schechter, Lishan Su, Michael M C. Lai, Takaji Wakita, François-Loïc Cosset, Jae U Jung and Keigo Machida
Infection of B cells by hepatitis C virus (HCV) is poorly understood, but is thought to result in lymphoproliferative disorders. Here, Chen et al. identify CD86 as co-receptor for lymphotropic HCV and show that HCV infection inhibits memory B-cell function.
09 January 2017 | doi: 10.1038/ncomms13882

The transcription factor EPAS1 links DOCK8 deficiency to atopic skin inflammation via IL-31 induction OPEN
Kazuhiko Yamamura, Takehito Uruno, Akira Shiraishi, Yoshihiko Tanaka, Miho Ushijima, Takeshi Nakahara, Mayuki Watanabe, Makiko Kido-Nakahara, Ikuya Tsuge, Masutaka Furue and Yoshinori Fukui
DOCK8-deficiency can cause atopic dermatitis but the mechanism is unclear. Here the authors use mice and human samples to show ARNT-independent DOCK8 inhibition of EPAS1 increases transcription of IL-31 in CD4+ T cells, thus driving skin inflammation.
09 January 2017 | doi: 10.1038/ncomms13946

Nonlinear detection of secondary isotopic chemical shifts in NMR through spin noise OPEN
Maria Theresia Pöschko, Victor V. Rodin, Judith Schlagnitweit, Norbert Müller and Hervé Desvaux
Nuclear spin noise allows passive monitoring of magnetization using the sole NMR detection circuit. Here, the authors report spectroscopic signatures of low abundance molecules and of weak magnetic field gradients which are nonlinearly amplified by cooled-coil probes and large overlapping signals.
09 January 2017 | doi: 10.1038/ncomms13914

Quantification of network structural dissimilarities OPEN
Tiago A. Schieber, Laura Carpi, Albert Díaz-Guilera, Panos M. Pardalos, Cristina Masoller and Martín G. Ravetti
Identifying and quantifying dissimilarities among graphs is a problem of practical importance, but current approaches are either limited or computationally demanding. Here, the authors propose an efficiently computable measure for network comparison that can identify structural topological differences.
09 January 2017 | doi: 10.1038/ncomms13928

Submesoscale transition from geostrophic flows to internal waves in the northwestern Pacific upper ocean OPEN
Bo Qiu, Toshiya Nakano, Shuiming Chen and Patrice Klein
Satellite altimeters resolution poorly capture mesoscale signals in the upper ocean. Here, the authors analyse shipboard Acoustic Doppler Current Profiler measurements from the northwest Pacific, and show that balanced geostrophic flows and unbalanced internal waves comprise upper ocean velocities.
09 January 2017 | doi: 10.1038/ncomms14055

Suppressed decomposition of organometal halide perovskites by impermeable electron-extraction layers in inverted solar cells OPEN
K.O. Brinkmann, J. Zhao, N. Pourdavoud, T. Becker, T. Hu, S. Olthof, K. Meerholz, L. Hoffmann, T. Gahlmann, R. Heiderhoff, M. F. Oszajca, N. A. Luechinger, D. Rogalla, Y. Chen, B. Cheng and T Riedl
The stability issue of perovskite-based solar cells is in part due to electrode corrosion. Here, Brinkmann et al. develop an impermeable bilayered electron-extraction layer between the active layer and the electrode, suppressing decomposition of the perovskite and preventing corrosion from the inside.
09 January 2017 | doi: 10.1038/ncomms13938

Updating temporal expectancy of an aversive event engages striatal plasticity under amygdala control OPEN
Glenn Dallérac, Michael Graupner, Jeroen Knippenberg, Raquel Chacon Ruiz Martinez, Tatiane Ferreira Tavares, Lucille Tallot, Nicole El Massioui, Anna Verschueren, Sophie Höhn, Julie Boulanger Bertolus, Alex Reyes, Joseph E. LeDoux, Glenn E. Schafe, Lorenzo Diaz-Mataix and Valérie Doyère
Aversive conditioning requires the learning of time intervals between conditioned and unconditioned stimuli, as well as the associations of the stimuli themselves. Here the authors show that dorsal striatum and basal amygdala are part of a functional network that encodes interval timing.
09 January 2017 | doi: 10.1038/ncomms13920

Adsorbate-induced lattice deformation in IRMOF-74 series OPEN
Sudi Jawahery, Cory M. Simon, Efrem Braun, Matthew Witman, Davide Tiana, Bess Vlaisavljevich and Berend Smit
IRMOF-74 materials have thus far been thought to undergo only simple crystal lattice expansion upon gas adsorption. Here, Smit and co-workers demonstrate that these MOFs undergo a unique complex deformation upon argon uptake, changing how we view the fundamentals of adsorption in this series.
09 January 2017 | doi: 10.1038/ncomms13945

CDK4/6-dependent activation of DUB3 regulates cancer metastasis through SNAIL1 OPEN
Tongzheng Liu, Jia Yu, Min Deng, Yujiao Yin, Haoxing Zhang, Kuntian Luo, Bo Qin, Yunhui Li, Chenming Wu, Tao Ren, Yang Han, Peng Yin, JungJin Kim, SeungBaek Lee, Jing Lin, Lizhi Zhang, Jun Zhang, Somaira Nowsheen, Liewei Wang, Judy Boughey et al.
Overexpression of SNAIL confers tumour cells with cancer stem-like characteristics associated with tumour progression. Here the authors show that inhibition of CDK4/6 blocks tumour metastasis in triple negative breast cancer by targeting DUB3 which in turns deubiquitinates and stabilises SNAIL1.
09 January 2017 | doi: 10.1038/ncomms13923

Oxidized nucleotide insertion by pol β confounds ligation during base excision repair OPEN
Melike Çağlayan, Julie K. Horton, Da-Peng Dai, Donna F. Stefanick and Samuel H. Wilson
Oxidative stress in cells leads to the oxidations of DNA precursors. Here the authors show that these oxidized precursors can be incorporated in vivo during base excision repair, leading to DNA breaks and cytotoxicity.
09 January 2017 | doi: 10.1038/ncomms14045

Regional adaptation defines sensitivity to future ocean acidification OPEN
Piero Calosi, Sedercor Melatunan, Lucy M. Turner, Yuri Artioli, Robert L. Davidson, Jonathan J. Byrne, Mark R. Viant, Stephen Widdicombe and Simon D. Rundle
Global warming is expected to lead to shifts in species' geographic ranges to track preferred temperatures. Here, the authors show that populations of the common periwinkle vary in their sensitivity to ocean acidification, another major global change driver, which could further restrict range shifts caused by warming.
09 January 2017 | doi: 10.1038/ncomms13994

The microbiota maintain homeostasis of liver-resident γδT-17 cells in a lipid antigen/CD1d-dependent manner OPEN
Fenglei Li, Xiaolei Hao, Yongyan Chen, Li Bai, Xiang Gao, Zhexiong Lian, Haiming Wei, Rui Sun and Zhigang Tian
γδ T cells are major producers of IL-17A in response to microbial infection. Here the authors show that a high load of commensal microbes can maintain homeostasis of IL-17A+ γδ T cells in the liver via CD1d antigen presentation, with implications for liver diseases.
09 January 2017 | doi: 10.1038/ncomms13839

Multiple Dirac cones at the surface of the topological metal LaBi OPEN
Jayita Nayak, Shu-Chun Wu, Nitesh Kumar, Chandra Shekhar, Sanjay Singh, Jörg Fink, Emile E. D. Rienks, Gerhard H. Fecher, Stuart S. P. Parkin, Binghai Yan and Claudia Felser
The magnetoresistance suggests an exotic topological phase in LaBi, but the evidence is still missing. Here, Nayak et al. report the existence of surface states of LaBi through the observation of three Dirac cones, confirming it a topological semimetal.
09 January 2017 | doi: 10.1038/ncomms13942

Bi- and uniciliated ependymal cells define continuous floor-plate-derived tanycytic territories OPEN
Zaman Mirzadeh, Yael Kusne, Maria Duran-Moreno, Elaine Cabrales, Sara Gil-Perotin, Christian Ortiz, Bin Chen, Jose Manuel Garcia-Verdugo, Nader Sanai and Arturo Alvarez-Buylla
Ependymal cells lining the adult brain ventricles are comprised of multiciliated cells and a rare subpopulation with two cilia (E2 cells) whose origin and function remain unknown. Here the authors find E2 cells in the 3rd ventricle of mice and humans, along with a third ependymal cell type with only a primary cilium, and provide details of their marker profile and developmental origins.
09 January 2017 | doi: 10.1038/ncomms13759

Environmental stresses induce transgenerationally inheritable survival advantages via germline-to-soma communication in Caenorhabditis elegans OPEN
Saya Kishimoto, Masaharu Uno, Emiko Okabe, Masanori Nono and Eisuke Nishida
Environmental stress causes epigenetic changes but it is unclear if such changes are transgenerational. Here, the authors show that in C. elegans, increased resistance to oxidative stress and proteotoxicity in the parental generation and linked epigenetic changes are transmitted to subsequent generations.
09 January 2017 | doi: 10.1038/ncomms14031

Jasmonate response decay and defense metabolite accumulation contributes to age-regulated dynamics of plant insect resistance OPEN
Ying-Bo Mao, Yao-Qian Liu, Dian-Yang Chen, Fang-Yan Chen, Xin Fang, Gao-Jie Hong, Ling-Jian Wang, Jia-Wei Wang and Xiao-Ya Chen
Immunity deteriorates with age in animals but less is known about how aging affects immunity in plants. Here, Mao et al. show that responsiveness to the major insect defense hormone JA declines as plants age, but insect resistance still increases as plants accumulate secondary metabolites such as glucosinolates.
09 January 2017 | doi: 10.1038/ncomms13925

Coherent ultra-violet to near-infrared generation in silica ridge waveguides OPEN
Dong Yoon Oh, Ki Youl Yang, Connor Fredrick, Gabriel Ycas, Scott A. Diddams and Kerry J. Vahala
Continuum generation in optical fibres has enabled many applications, like optical frequency combs. Here, Oh et al. demonstrate controlled dispersive-wave generation in on-chip silica waveguides, which could have a similar impact on integrated devices.
09 January 2017 | doi: 10.1038/ncomms13922

CD8+ T cells stimulate Na-Cl co-transporter NCC in distal convoluted tubules leading to salt-sensitive hypertension OPEN
Yunmeng Liu, Tonya M. Rafferty, Sung W. Rhee, Jessica S. Webber, Li Song, Benjamin Ko, Robert S. Hoover, Beixiang He and Shengyu Mu
T cells contribute to development of high blood pressure but their role in salt-sensitive hypertension is less clear. Liu et al. show that CD8+ T cells upregulate and activate Na-Cl co-transporter NCC in distal convoluted tubules via direct cell-cell contact and ROS-Src activation, leading to Na+ retention and salt-sensitive hypertension.
09 January 2017 | doi: 10.1038/ncomms14037

Structure of actomyosin rigour complex at 5.2 Å resolution and insights into the ATPase cycle mechanism OPEN
Takashi Fujii and Keiichi Namba
The cyclic association and dissociation of myosin with actin filament is regulated by ATP binding and hydrolysis cycles. Here the authors report the structure of mammalian skeletal muscle actomyosin rigour complex that provides insights into the ATPase-coupled reaction cycle of actomyosin.
09 January 2017 | doi: 10.1038/ncomms13969

Mutant U2AF1-expressing cells are sensitive to pharmacological modulation of the spliceosome OPEN
Cara Lunn Shirai, Brian S. White, Manorama Tripathi, Roberto Tapia, James N. Ley, Matthew Ndonwi, Sanghyun Kim, Jin Shao, Alexa Carver, Borja Saez, Robert S. Fulton, Catrina Fronick, Michelle O’Laughlin, Chandraiah Lagisetti, Thomas R. Webb, Timothy A. Graubert and Matthew J. Walter
Spliceosome mutations occur in approximately 50% of patients with myelodysplastic syndromes. Here, the authors show that tumour cells harbouring the S34F mutation in the U2AF spliceosome gene is sensitive to compounds that further perturb the spliceosome.
09 January 2017 | doi: 10.1038/ncomms14060

Praja1 E3 ubiquitin ligase promotes skeletal myogenesis through degradation of EZH2 upon p38α activation OPEN
Silvia Consalvi, Arianna Brancaccio, Alessandra Dall’Agnese, Pier Lorenzo Puri and Daniela Palacios
In skeletal muscle progenitors, EZH2 maintains myogenic genes in a repressed state, but during differentiation its levels are reduced via unknown mechanisms. Here the authors show that during myogenesis, p38α kinase phosphorylates EZH2 and targets it for degradation by the ubiquitin ligase PRAJA1.
09 January 2017 | doi: 10.1038/ncomms13956

Room-temperature chiral charge pumping in Dirac semimetals OPEN
Cheng Zhang, Enze Zhang, Weiyi Wang, Yanwen Liu, Zhi-Gang Chen, Shiheng Lu, Sihang Liang, Junzhi Cao, Xiang Yuan, Lei Tang, Qian Li, Chao Zhou, Teng Gu, Yizheng Wu, Jin Zou and Faxian Xiu
Magnetotransport signature of topological semimetal states has been observed but restricted at very low temperature. Here, Zhang et al. report magnetic field-modulated chiral charge pumping and valley diffusion in Cd3As2 up to room temperature.
09 January 2017 | doi: 10.1038/ncomms13741

Quantum-chemical insights from deep tensor neural networks OPEN
Kristof T. Schütt, Farhad Arbabzadah, Stefan Chmiela, Klaus R. Müller and Alexandre Tkatchenko
Machine learning is an increasingly popular approach to analyse data and make predictions. Here the authors develop a ‘deep learning’ framework for quantitative predictions and qualitative understanding of quantum-mechanical observables of chemical systems, beyond properties trivially contained in the training data.
09 January 2017 | doi: 10.1038/ncomms13890

Characterization of the interplay between DNA repair and CRISPR/Cas9-induced DNA lesions at an endogenous locus OPEN
Anne Bothmer, Tanushree Phadke, Luis A. Barrera, Carrie M Margulies, Christina S. Lee, Frank Buquicchio, Sean Moss, Hayat S. Abdulkerim, William Selleck, Hariharan Jayaram, Vic E. Myer and Cecilia Cotta-Ramusino
CRISPR-Cas9 has rapidly become a common molecular biology tool for modifying genomes and has been modified to generate single-strand nicks as well as double-strand breaks. Here the authors explore the DNA repair pathways activated by the different variants of Cas9.
09 January 2017 | doi: 10.1038/ncomms13905

Identification of microsporidia host-exposed proteins reveals a repertoire of rapidly evolving proteins OPEN
Aaron W. Reinke, Keir M. Balla, Eric J. Bennett and Emily R. Troemel
Unbiased identification of proteins from pathogens that are exposed to a host can provide insight into host–pathogen interaction. Here, the authors use an enzymatic tagging method and mass spectrometry to identify rapidly evolving Nematocida microsporidia proteins when infecting C. elegans.
09 January 2017 | doi: 10.1038/ncomms14023

Ultrafast evolution and transient phases of a prototype out-of-equilibrium Mott–Hubbard material OPEN
G. Lantz, B. Mansart, D. Grieger, D. Boschetto, N. Nilforoushan, E. Papalazarou, N. Moisan, L. Perfetti, V. L. R. Jacques, D. Le Bolloc'h, C. Laulhé, S. Ravy, J-P Rueff, T. E. Glover, M. P. Hertlein, Z. Hussain, S. Song, M. Chollet, M. Fabrizio and M. Marsi et al.
Ultrafast photoexcitation stabilizes new states of matter with rich out-of-equilibrium behaviours. Here, Lantz et al. report a transient non-thermal phase developing immediately after photoexcitation in V2O3, shedding a light on optical manipulation of strongly correlated systems.
09 January 2017 | doi: 10.1038/ncomms13917

Luminescent hyperbolic metasurfaces OPEN
J. S. T. Smalley, F. Vallini, S. A. Montoya, L. Ferrari, S. Shahin, C. T. Riley, B. Kanté, E. E. Fullerton, Z. Liu and Y. Fainman
Here, Smalley et al. demonstrate luminescent hyperbolic metasurfaces wherein quantum heterostructures simultaneously function as the emission source and constituent dielectric. The design enables extreme polarization anisotropy of photoluminescence and efficient extraction of in-plane surface modes.
09 January 2017 | doi: 10.1038/ncomms13793

Rapid control and feedback rates enhance neuroprosthetic control OPEN
Maryam M. Shanechi, Amy L. Orsborn, Helene G. Moorman, Suraj Gowda, Siddharth Dangi and Jose M. Carmena
Brain machine interfaces (BMI) enable sensorimotor control of movement yet the parameters that may affect these pathways are not known. Here the authors show systematically that increasing the rate of control from brain as well as feedback rates to the subject results in better performance on a BMI task in monkeys.
06 January 2017 | doi: 10.1038/ncomms13825

CDK4/6 or MAPK blockade enhances efficacy of EGFR inhibition in oesophageal squamous cell carcinoma OPEN
Jin Zhou, Zhong Wu, Gabrielle Wong, Eirini Pectasides, Ankur Nagaraja, Matthew Stachler, Haikuo Zhang, Ting Chen, Haisheng Zhang, Jie Bin Liu, Xinsen Xu, Ewa Sicinska, Francisco Sanchez-Vega, Anil K. Rustgi, J. Alan Diehl, Kwok-Kin Wong and Adam J. Bass
Oesophageal squamous cell carcinoma often develop resistance to EGFR tyrosine kinase inhibitors. Here, the authors demonstrate that inhibition of cell cycle regulators CDK4/6 or MAPK blockade enhances the efficacy of EGFR inhibitors for these tumours in mice.
06 January 2017 | doi: 10.1038/ncomms13897

Infrared fingerprints of few-layer black phosphorus OPEN
Guowei Zhang, Shenyang Huang, Andrey Chaves, Chaoyu Song, V. Ongun Özçelik, Tony Low and Hugen Yan
Few-layered black phosphorus offers an infrared bandgap, complementing that of graphene and transition metal dichalcogenides. Here, the authors investigate the thickness- and strain-dependent electronic structure of black phosphorus using polarised infrared spectroscopy.
06 January 2017 | doi: 10.1038/ncomms14071

Structure of the cohesin loader Scc2 OPEN
William C. H. Chao, Yasuto Murayama, Sofía Muñoz, Andrew W. Jones, Benjamin O. Wade, Andrew G. Purkiss, Xiao-Wen Hu, Aaron Borg, Ambrosius P. Snijders, Frank Uhlmann and Martin R. Singleton
The cohesin complex maintains genome integrity by ensuring correct sister-chromatid segregation during mitosis and meiosis. Here, Chao et al. present a pseudo-atomic model of the full-length Scc2–Scc4 cohesin loader complex and reveal key Scc2 surfaces crucial for cohesin loading.
06 January 2017 | doi: 10.1038/ncomms13952

Discovery of high-performance low-cost n-type Mg3Sb2-based thermoelectric materials with multi-valley conduction bands OPEN
Jiawei Zhang, Lirong Song, Steffen Hindborg Pedersen, Hao Yin, Le Thanh Hung and Bo Brummerstedt Iversen
Zintl-phase thermoelectrics are predominantly p-type. Here, Zhang et al. use tellurium to n-dope Mg3Sb1.5Bi0.5 and obtain thermoelectric figures of merit up to 1.6 at 700 K. Calculations show that these performances result from a conduction band with sixfold valley degeneracy.
06 January 2017 | doi: 10.1038/ncomms13901

Hollow boron nitride nanospheres as boron reservoir for prostate cancer treatment OPEN
Xia Li, Xiupeng Wang, Jun Zhang, Nobutaka Hanagata, Xuebin Wang, Qunhong Weng, Atsuo Ito, Yoshio Bando and Dmitri Golberg
Use of soluble boron compounds in prostate cancer therapy is hampered by their short half-life time and low effectiveness. Here, the authors show that boron nitride nanospheres with controlled boron release can reduce proliferation of prostate cancer cells and inhibit tumour growth in animal models.
06 January 2017 | doi: 10.1038/ncomms13936

BMP restricts stemness of intestinal Lgr5+ stem cells by directly suppressing their signature genes OPEN
Zhen Qi, Yehua Li, Bing Zhao, Chi Xu, Yuan Liu, Haonan Li, Bingjie Zhang, Xinquan Wang, Xiao Yang, Wei Xie, Baojie Li, Jing-Dong Jackie Han and Ye-Guang Chen
Bone morphogenetic protein (BMP) maintains intestinal homeostasis by restricting its hyperproliferation but whether it directly regulates the stem cells is unknown. Here the authors show that BMP constrains the Lgr5+ stem cell expansion under both homeostatic and injury conditions through Smad-mediated repression of stem cell signature genes.
06 January 2017 | doi: 10.1038/ncomms13824

Structural and mechanistic basis of proton-coupled metal ion transport in the SLC11/NRAMP family OPEN
Ines A. Ehrnstorfer, Cristina Manatschal, Fabian M. Arnold, Juerg Laederach and Raimund Dutzler
Cellular uptake of transition metal ions is mediated by members of the SLC11/NRAMP family. Here the authors determine the structural and functional properties of EcoDMT, a bacterial SLC11 transporter, gathering molecular insight into its transport mechanism and proton coupling process.
06 January 2017 | doi: 10.1038/ncomms14033

Reorientation of the diagonal double-stripe spin structure at Fe1+yTe bulk and thin-film surfaces OPEN
Torben Hänke, Udai Raj Singh, Lasse Cornils, Sujit Manna, Anand Kamlapure, Martin Bremholm, Ellen Marie Jensen Hedegaard, Bo Brummerstedt Iversen, Philip Hofmann, Jin Hu, Zhiqiang Mao, Jens Wiebe and Roland Wiesendanger
Knowledge of the spin structure in parent compounds of unconventional superconductors is crucial for an understanding of the complex physics in these materials. Here, the authors report canted spin structure on the surface as well as on the thin film form of Fe1+y Te, different from the bulk.
06 January 2017 | doi: 10.1038/ncomms13939

Temporal coherence structure rapidly shapes neuronal interactions OPEN
Kai Lu, Yanbo Xu, Pingbo Yin, Andrew J. Oxenham, Jonathan B. Fritz and Shihab A. Shamma
One can easily identify if multiple sounds are originating from a single source yet the neural mechanisms underlying this process are unknown. Here the authors show that temporally coherent sounds elicit changes in receptive field dynamics of auditory cortical neurons in ferrets only when paying attention.
05 January 2017 | doi: 10.1038/ncomms13900

Augmenting light coverage for photosynthesis through YFP-enhanced charge separation at the Rhodobacter sphaeroides reaction centre OPEN
Katie J. Grayson, Kaitlyn M. Faries, Xia Huang, Pu Qian, Preston Dilbeck, Elizabeth C. Martin, Andrew Hitchcock, Cvetelin Vasilev, Jonathan M. Yuen, Dariusz M. Niedzwiedzki, Graham J. Leggett, Dewey Holten, Christine Kirmaier and C. Neil Hunter
Photosynthesis uses only a limited range of solar radiation. Here, Grayson et al. genetically incorporated the yellow fluorescent protein (YFP) chromophore into a bacterial photosystem, and show that energy harvested by reaction centre–YFP complexes can augment photosynthesis in vivo.
05 January 2017 | doi: 10.1038/ncomms13972

Innate and adaptive immune traits are differentially affected by genetic and environmental factors OPEN
Massimo Mangino, Mario Roederer, Margaret H. Beddall, Frank O. Nestle and Tim D. Spector
Both genetics and environment affect the number and phenotype of immune cells. Here the authors characterize the degree of influence of genetics versus environment on various immune cell parameters by analysing a large cohort of female twins.
05 January 2017 | doi: 10.1038/ncomms13850

c-Src phosphorylation and activation of hexokinase promotes tumorigenesis and metastasis OPEN
Jia Zhang, Suili Wang, Bin Jiang, Lihong Huang, Zhiliang Ji, Xiaotong Li, Huamin Zhou, Aidong Han, Ai Chen, Yanan Wu, Huanhuan Ma, Wentao Zhao, Qingwen Zhao, Changchuan Xie, Xiaoyan Sun, Yanming Zhou, Huiying Huang, Muhammad Suleman, Furong Lin, Lin Zhou et al.
The protein tyrosine kinase c-Src is a renowned proto-oncogene with pleiotropic effects. Here, the authors show that c-Src induces the metabolic reprogramming of cancer cells by phosphorylating hexokinases HK1 and HK2, which in turns lead to increased HK catalytic activity and consequent enhancement of glycolysis.
05 January 2017 | doi: 10.1038/ncomms13732

Layer-specificity in the effects of attention and working memory on activity in primary visual cortex OPEN
Timo van Kerkoerle, Matthew W. Self and Pieter R. Roelfsema
The effect of working memory on activity in primary visual cortex (V1) is not well understood. Here the authors report a clear influence of both working memory and attention on spiking activity in the superficial and deep layers of V1 with a weaker influence on input layer 4.
05 January 2017 | doi: 10.1038/ncomms13804

Slow cooling and efficient extraction of C-exciton hot carriers in MoS2 monolayer OPEN
Lei Wang, Zhuo Wang, Hai-Yu Wang, Gustavo Grinblat, Yu-Li Huang, Dan Wang, Xiao-Hui Ye, Xian-Bin Li, Qiaoliang Bao, AndrewThye-Shen Wee, Stefan A Maier, Qi-Dai Chen, Min-Lin Zhong, Cheng-Wei Qiu and Hong-Bo Sun
Light-matter interaction in atomically thin transition metal dichalcogenides is dominated by excitonic effects and hot-carrier relaxation/extraction mechanisms. Here, the authors report that the C exciton in two-dimensional MoS2 exhibits a slower hot-carrier cooling than band-edge excitons.
05 January 2017 | doi: 10.1038/ncomms13906

A stable lithiated silicon–chalcogen battery via synergetic chemical coupling between silicon and selenium OPEN
KwangSup Eom, Jung Tae Lee, Martin Oschatz, Feixiang Wu, Stefan Kaskel, Gleb Yushin and Thomas F. Fuller
Lithium-based batteries employing silicon anodes and sulfur cathodes are promising for combining low cost and high capacity, but have been limited in terms of cycling stability. Here authors present cycling and characterization data supporting beneficial synergies between a selenium disulfide cathode and a silicon anode.
05 January 2017 | doi: 10.1038/ncomms13888

Investigation of phonon coherence and backscattering using silicon nanomeshes OPEN
Jaeho Lee, Woochul Lee, Geoff Wehmeyer, Scott Dhuey, Deirdre L. Olynick, Stefano Cabrini, Chris Dames, Jeffrey J. Urban and Peidong Yang
Low thermal conductivities in nanomeshes have been attributed to both wave-like and particle-like behaviour of phonons. Here, the authors use periodicity-controlled silicon nanomeshes to show that the particle backscattering effect dominates for periodicities above 100 nm and temperatures above 14 K.
04 January 2017 | doi: 10.1038/ncomms14054

The mitotic kinesin-14 KlpA contains a context-dependent directionality switch OPEN
Andrew R. Popchock, Kuo-Fu Tseng, Pan Wang, P. Andrew Karplus, Xin Xiang and Weihong Qiu
Kinesin-14s are commonly considered to be minus end-directed microtubule motor proteins. Here the authors show that KlpA, a fungal kinesin-14 orthologue, relies on its N-terminal nonmotor microtubule-binding tail to achieve context-dependent bidirectional motility.
04 January 2017 | doi: 10.1038/ncomms13999

Evolutionary conservation and in vitro reconstitution of microsporidian iron–sulfur cluster biosynthesis OPEN
Sven-A. Freibert, Alina V. Goldberg, Christian Hacker, Sabine Molik, Paul Dean, Tom A. Williams, Sirintra Nakjang, Shaojun Long, Kacper Sendra, Eckhard Bill, Eva Heinz, Robert P. Hirt, John M Lucocq, T. Martin Embley and Roland Lill
The functions of the highly reduced mitochondria (mitosomes) of microsporidians are not well-characterized. Here, the authors show that the Trachipleistophora hominis mitosome is the site of iron–sulfur cluster assembly and that its retention is likely linked to its role in cytosolic and nuclear iron–sulfur protein maturation.
04 January 2017 | doi: 10.1038/ncomms13932

One-dimensional organic lead halide perovskites with efficient bluish white-light emission OPEN
Zhao Yuan, Chenkun Zhou, Yu Tian, Yu Shu, Joshua Messier, Jamie C. Wang, Lambertus J. van de Burgt, Konstantinos Kountouriotis, Yan Xin, Ethan Holt, Kirk Schanze, Ronald Clark, Theo Siegrist and Biwu Ma
Low-dimensional systems exhibit unique optical properties. Yuan et al. demonstrate one-dimensional organic-inorganic hybrid metal halide perovskites with highly efficient bluish white-light emission due to efficient exciton self-trapping in the quantum-confined structure.
04 January 2017 | doi: 10.1038/ncomms14051

Pushing the limits of CMOS optical parametric amplifiers with USRN:Si7N3 above the two-photon absorption edge OPEN
K. J. A. Ooi, D. K. T. Ng, T. Wang, A. K. L. Chee, S. K. Ng, Q. Wang, L. K. Ang, A. M. Agarwal, L. C. Kimerling and D. T. H. Tan
Typical CMOS materials in the telecommunications band suffer from two-photon absorption or possess weak Kerr nonlinearities. Here, Ooi et al. demonstrate 42.5 dB optical parametric amplification in ultra-silicon-rich nitride waveguides, designed to have strong nonlinearities with negligible losses.
04 January 2017 | doi: 10.1038/ncomms13878

PAXX promotes KU accumulation at DNA breaks and is essential for end-joining in XLF-deficient mice OPEN
Xiangyu Liu, Zhengping Shao, Wenxia Jiang, Brian J. Lee and Shan Zha
Non-homologous end-joining is the key pathway for repairing double-stranded DNA breaks in mammalian cells. Here the authors show that PAXX promotes the accumulation of KU at DNA breaks and is essential for end-joining in cells lacking XLF.
04 January 2017 | doi: 10.1038/ncomms13816

Observation of photonic anomalous Floquet topological insulators OPEN
Lukas J. Maczewsky, Julia M. Zeuner, Stefan Nolte and Alexander Szameit
Vanishing Chern numbers usually mean that a system is topologically trivial, but this rule may be violated for periodically driven systems. Here, Maczewsky et al. report topologically protected edge modes in a periodically driven photonic lattice with all bands of zero Chern number.
04 January 2017 | doi: 10.1038/ncomms13756

Synthesis of single-crystal-like nanoporous carbon membranes and their application in overall water splitting OPEN
Hong Wang, Shixiong Min, Chun Ma, Zhixiong Liu, Weiyi Zhang, Qiang Wang, Debao Li, Yangyang Li, Stuart Turner, Yu Han, Haibo Zhu, Edy Abou-hamad, Mohamed Nejib Hedhili, Jun Pan, Weili Yu, Kuo-Wei Huang, Lain-Jong Li, Jiayin Yuan, Markus Antonietti and Tom Wu et al.
Hierarchical, nanoporous graphitic membranes are synthetically challenging yet attractive materials, due to their structural integrity. Here, the authors fabricate freestanding, porous carbon membranes with single-crystal-like graphitic order which serve as water splitting electrocatalysts upon cobalt doping.
04 January 2017 | doi: 10.1038/ncomms13592

Evolution of form in metal–organic frameworks OPEN
Jiyoung Lee, Ja Hun Kwak and Wonyoung Choe
Self-assembly is a strategy for making metal-organic materials but controlling the interior of metal-organic crystals remains challenging. Here, the authors report a sequential self-assembly process for synthesizing various interior morphologies of metal-organic crystal demonstrating evolution of form.
04 January 2017 | doi: 10.1038/ncomms14070

3D nitrogen-doped graphene foam with encapsulated germanium/nitrogen-doped graphene yolk-shell nanoarchitecture for high-performance flexible Li-ion battery OPEN
Runwei Mo, David Rooney, Kening Sun and Hui Ying Yang
The development of materials for energy storage hinges on the design of electrodes with large capacity, flexibility, fast charge–discharge rate and long cycling lifetime. Here, the authors develop electrodes based on nitrogen doped graphene with encapsulated Ge quantum dots with yolk-shell architecture.
04 January 2017 | doi: 10.1038/ncomms13949

Vacancy-induced dislocations within grains for high-performance PbSe thermoelectrics OPEN
Zhiwei Chen, Binghui Ge, Wen Li, Siqi Lin, Jiawen Shen, Yunjie Chang, Riley Hanus, G. Jeffrey Snyder and Yanzhong Pei
In thermoelectric materials, dislocations at grain boundaries can be used to scatter midfrequency phonons. Here, Chen et al. use vacancy engineering and thermal annealing to generate dislocations homogeneously within the crystalline grains and obtain good figures of merit for PbSe-based thermoelectrics.
04 January 2017 | doi: 10.1038/ncomms13828

Electromagnetic polarization-controlled perfect switching effect with high-refractive-index dimers and the beam-splitter configuration OPEN
Ángela I. Barreda, Hassan Saleh, Amelie Litman, Francisco González, Jean-Michel Geffrin and Fernando Moreno
Traditional metallic communication elements suffer from substantial losses in the visible and near-infrared. Here, Barreda et al. show in a proof of principle in the microwave regime that a pair of high-index dielectric spheres can operate as a perfect switch in a beam-splitter configuration.
04 January 2017 | doi: 10.1038/ncomms13910

Architecture and mechanism of the late endosomal Rab7-like Ypt7 guanine nucleotide exchange factor complex Mon1–Ccz1 OPEN
Stephan Kiontke, Lars Langemeyer, Anne Kuhlee, Saskia Schuback, Stefan Raunser, Christian Ungermann and Daniel Kümmel
The Mon1-Ccz1 (MC1) complex is a Rab guanine nucleotide exchange factor (RabGEF) for Ypt7/Rab7 important for endosomal maturation. Here the authors present the biochemical and structural characterization of MC1, elucidating its catalytic mechanism and showing that MC1 represents novel class of RabGEFs.
04 January 2017 | doi: 10.1038/ncomms14034

Experimental observation of anomalous topological edge modes in a slowly driven photonic lattice OPEN
Sebabrata Mukherjee, Alexander Spracklen, Manuel Valiente, Erika Andersson, Patrik Öhberg, Nathan Goldman and Robert R. Thomson
A periodically driven system may show a novel type of topologically protected edge modes that has no static analogue. Here, Mukherjee et al. report the observation of such anomalous chiral edge modes in an ultrafast-laser-inscribed slowly-driven photonic lattice.
04 January 2017 | doi: 10.1038/ncomms13918

VGLL4 targets a TCF4–TEAD4 complex to coregulate Wnt and Hippo signalling in colorectal cancer OPEN
Shi Jiao, Chuanchuan Li, Qian Hao, Haofei Miao, Lei Zhang, Lin Li and Zhaocai Zhou
The Wnt/β-catenin and YAP signaling pathways have fundamental roles in cancer. Here, the authors show that VGLL4, a known YAP antagonist, also negatively regulates Wnt/β-catenin signaling by targeting TEAD-DNA-TCF4 complex, thereby inhibiting colorectal cancer growth.
04 January 2017 | doi: 10.1038/ncomms14058
 
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Corrigendum: Defining functional interactions during biogenesis of epithelial junctions OPEN
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