Nature Communications - 28 October 2015

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Latest content: Articles Corrigenda Errata Advertisement   Presented by The Chinese Academy of Agricultural Sciences, Chinese Academy of Sciences, Fujian Agriculture and Forestry University, and Nature Genetics AGRICULTURAL GENOMICS 2015 — FROM VARIATION TO IMPROVED PRODUCTION November 16-18, 2015 Shenzhen, China  REGISTER NOW!  Journal homepage Recommend to library Web feed   Advertisement Announcing Nature Reviews Materials Launching in January 2016, Nature Reviews Materials aims to cover the making, measuring, modelling and manufacturing of materials - thus, looking at materials science throughout the pipeline of laboratory discovery to functional device. 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Visit our open access funding page or contact openaccess@nature.com to learn more about APC funding.       Latest Articles View all Articles     Holographic acoustic elements for manipulation of levitated objects OPEN Asier Marzo, Sue Ann Seah, Bruce W. Drinkwater, Deepak Ranjan Sahoo, Benjamin Long and Sriram Subramanian Acoustic waves can be used to levitate objects in air, water and tissue. Here, the authors introduce a single-beam scheme to facilitate the translation, rotation and manipulation of levitated objects in 3D, and design acoustic structures such as tweezers, twisters and bottle traps. 27 October 2015 | doi: 10.1038/ncomms9661 Physical Sciences  Applied physics  Optical physics  Direct observations of American eels migrating across the continental shelf to the Sargasso Sea OPEN Mélanie Béguer-Pon, Martin Castonguay, Shiliang Shan, José Benchetrit and Julian J. Dodson Migration of adult American eels from the coast to their spawning area in the Sargasso Sea have previously only been inferred from larval distributions. Here, Béguer-Pon et al. track adult eels from the continental shelf into the open ocean, with one individual migrating to the northern limit of the spawning site. 27 October 2015 | doi: 10.1038/ncomms9705 Biological Sciences  Ecology  Zoology  High-temperature water–rock interactions and hydrothermal environments in the chondrite-like core of Enceladus OPEN Yasuhito Sekine, Takazo Shibuya, Frank Postberg, Hsiang-Wen Hsu, Katsuhiko Suzuki, Yuka Masaki, Tatsu Kuwatani, Megumi Mori, Peng K. Hong, Motoko Yoshizaki, Shogo Tachibana and Sin-iti Sirono Observations indicate that the southern hemisphere of Enceladus is geologically active, with spray containing Si nanoparticles being ejected from an underground ocean. Here, the authors report that experiments to constrain reaction conditions suggest the core is similar to that of carbonaceous chondrites. 27 October 2015 | doi: 10.1038/ncomms9604 Earth Sciences  Geology and geophysics  Planetary sciences  Structural and functional rejuvenation of the aged brain by an approved anti-asthmatic drug OPEN Julia Marschallinger, Iris Schäffner, Barbara Klein, Renate Gelfert, Francisco J. Rivera, Sebastian Illes, Lukas Grassner, Maximilian Janssen, Peter Rotheneichner, Claudia Schmuckermair, Roland Coras, Marta Boccazzi, Mansoor Chishty, Florian B. Lagler, Marija Renic, Hans-Christian Bauer, Nicolas Singewald, Ingmar Blümcke, Ulrich Bogdahn, Sebastien Couillard-Despres et al. The leukotriene receptor antagonist montelukast is an anti-asthmatic drug. Here, the authors show that montelukast reduces neuroinflammation, promotes hippocampal neurogenesis and restores learning and memory in old rats suffering from ageing-associated cognitive dysfunction. 27 October 2015 | doi: 10.1038/ncomms9466 Biological Sciences  Medical research  Large-scale climatic anomalies affect marine predator foraging behaviour and demography OPEN Charles A. Bost, Cedric Cotté, Pascal Terray, Christophe Barbraud, Cécile Bon, Karine Delord, Olivier Gimenez, Yves Handrich, Yasuhiko Naito, Christophe Guinet and Henri Weimerskirch Understanding how organisms respond to short-term climate variations will help predict the impact of future global change. Here, Bost et al. show that large-scale climatic anomalies coincide with changes in the foraging behaviour and populations dynamics of king penguins in the Southern hemisphere. 27 October 2015 | doi: 10.1038/ncomms9220 Biological Sciences  Climate science  Ecology  Oceanography  Lipophilic prodrugs of nucleoside triphosphates as biochemical probes and potential antivirals OPEN Tristan Gollnest, Thiago Dinis de Oliveira, Dominique Schols, Jan Balzarini and Chris Meier Charged phosphorylated metabolite such as nucleoside tri-phosphates exhibit poor membrane permeability due to their high polarity, limiting their utility as drugs or cellular probes. Here the authors develop a method to render nucleoside triphosphates cell permeable and allows their release by an enzyme-triggered mechanism. 27 October 2015 | doi: 10.1038/ncomms9716 Biological Sciences  Medicinal chemistry  Organic chemistry  Virology  Numb is required to prevent p53-dependent senescence following skeletal muscle injury OPEN Isabelle Le Roux, Julie Konge, Laurent Le Cam, Patricia Flamant and Shahragim Tajbakhsh Regeneration of skeletal muscle relies on the function of muscle satellite cells. Here, Le Roux et al. show that the endocytic adaptor protein Numb promotes skeletal muscle regeneration after injury by preventing a p53-dependent senescence of satellite cells and consequent inflammation and fibrosis. 27 October 2015 | doi: 10.1038/ncomms9528 Biological Sciences  Cell biology  Developmental biology  Medical research  Identification of four new susceptibility loci for testicular germ cell tumour OPEN Kevin Litchfield, Amy Holroyd, Amy Lloyd, Peter Broderick, Jérémie Nsengimana, Rosalind Eeles, Douglas F Easton, Darshna Dudakia, D. Timothy Bishop, Alison Reid, Robert A. Huddart, Tom Grotmol, Fredrik Wiklund, Janet Shipley, Richard S. Houlston and Clare Turnbull This genome-wide association study identifies four novel risk loci for testicular germ cell tumour, and provides functional correlation between a disease-associated variant and gene expression in patient samples for one of the identified loci. 27 October 2015 | doi: 10.1038/ncomms9690 Biological Sciences  Genetics  Biosynthesis of the mycotoxin tenuazonic acid by a fungal NRPS–PKS hybrid enzyme OPEN Choong-Soo Yun, Takayuki Motoyama and Hiroyuki Osada Tenuazonic acid is a mycotoxin produced by various plant pathogenic fungi but its biosynthetic gene is unknown to date. Here, the authors identify the tenuazonic acid biosynthetic gene encoding a protein with a unique KS domain that conducts cyclization step for tenuazonic acid release in Magnaporthe oryzae. 27 October 2015 | doi: 10.1038/ncomms9758 Biological Sciences  Chemical biology  The γ-tubulin-specific inhibitor gatastatin reveals temporal requirements of microtubule nucleation during the cell cycle OPEN Takumi Chinen, Peng Liu, Shuya Shioda, Judith Pagel, Berati Cerikan, Tien-chen Lin, Oliver Gruss, Yoshiki Hayashi, Haruka Takeno, Tomohiro Shima, Yasushi Okada, Ichiro Hayakawa, Yoshio Hayashi, Hideo Kigoshi, Takeo Usui and Elmar Schiebel Current microtubule inhibitors target α/β-tubulin, but no specific inhibitor of γ-tubulin has been developed. Here the authors present gatastatin as a γ-tubulin inhibitor and use it to probe the role of γ-tubulin during the cell cycle. 27 October 2015 | doi: 10.1038/ncomms9722 Biological Sciences  Biotechnology  Cell biology  Tumour-associated macrophages act as a slow-release reservoir of nano-therapeutic Pt(IV) pro-drug OPEN Miles A. Miller, Yao-Rong Zheng, Suresh Gadde, Christina Pfirschke, Harshal Zope, Camilla Engblom, Rainer H. Kohler, Yoshiko Iwamoto, Katherine S. Yang, Bjorn Askevold, Nagesh Kolishetti, Mikael Pittet, Stephen J. Lippard, Omid C. Farokhzad and Ralph Weissleder Drug-loaded nanoparticles allow controlled release and enhanced delivery, yet understanding in vivo behavior has been difficult. Here, the authors develop a platinum prodrug coupled to a polymer platform, and use intravital imaging to show that the nanoparticle accumulates in macrophages, from the which drug redistributes to neighboring tumour cells. 27 October 2015 | doi: 10.1038/ncomms9692 Biological Sciences  Cancer  Medical research  S-nitrosylation-dependent proteasomal degradation restrains Cdk5 activity to regulate hippocampal synaptic strength OPEN Peng Zhang, Wing-Yu Fu, Amy K. Y. Fu and Nancy Y. Ip Phosphorylation of synaptic substrates by Cdk5 plays an essential role in synapse development. Here Zhang et al. reveal that S-nitrosylation of the activator of Cdk5, p35, by nitric oxide results in its degradation and reduced Cdk5 activity, leading to alterations in synaptic strength. 27 October 2015 | doi: 10.1038/ncomms9665 Biological Sciences  Cell biology  Neuroscience  Pharmaceutical screen identifies novel target processes for activation of autophagy with a broad translational potential OPEN Santosh Chauhan, Zahra Ahmed, Steven B. Bradfute, John Arko-Mensah, Michael A. Mandell, Seong Won Choi, Tomonori Kimura, Fabien Blanchet, Anna Waller, Michal H. Mudd, Shanya Jiang, Larry Sklar, Graham S. Timmins, Nicole Maphis, Kiran Bhaskar, Vincent Piguet and Vojo Deretic Autophagy is a homeostatic process that could be a potential drug target in the treatment of disease. Here the authors identify in a pharmaceutical screen flubendazole as an inducer of autophagy initiation and flux by affecting microtubules, mTOR, TFEB and Beclin 1 activity. 27 October 2015 | doi: 10.1038/ncomms9620 Biological Sciences  Cell biology  IRAK1 is a therapeutic target that drives breast cancer metastasis and resistance to paclitaxel OPEN Zhen Ning Wee, Siti Maryam J. M. Yatim, Vera K Kohlbauer, Min Feng, Jian Yuan Goh, Bao Yi, Puay Leng Lee, Songjing Zhang, Pan Pan Wang, Elgene Lim, Wai Leong Tam, Yu Cai, Henrik J Ditzel, Dave S. B. Hoon, Ern Yu Tan and Qiang Yu Triple negative breast cancer (TNBC) patients often acquire resistant to chemotherapy. In this study, the authors identify the IRAK1 as the crucial driver of NF-κB-related cytokine secretion involved in TNBC metastasis and therapy resistance. 27 October 2015 | doi: 10.1038/ncomms9746 Biological Sciences  Cancer  Sub-phonon-period compression of electron pulses for atomic diffraction OPEN A. Gliserin, M. Walbran, F. Krausz and P. Baum High spatial and temporal resolutions are required in order to follow chemical and condensed matter transformations in real time. Here, the authors compress single-electron pulses in time, with low jitter and high repetition rates, and demonstrate atomic resolution via diffraction from organic molecules. 27 October 2015 | doi: 10.1038/ncomms9723 Physical Sciences  Applied physics  Condensed matter  Ocean acidification increases the accumulation of toxic phenolic compounds across trophic levels OPEN Peng Jin, Tifeng Wang, Nana Liu, Sam Dupont, John Beardall, Philip W. Boyd, Ulf Riebesell and Kunshan Gao Increasing atmospheric CO2 concentrations causes ocean acidification, which alters marine chemical environments with unknown consequences for marine ecosystems. Here, Gao et al. show that ocean acidification increases levels of phenolic compounds in phytoplankton and zooplankton, implying a food chain impact. 27 October 2015 | doi: 10.1038/ncomms9714 Earth Sciences  Climate science  Ecology  Oceanography  Insulin enhances striatal dopamine release by activating cholinergic interneurons and thereby signals reward OPEN Melissa A. Stouffer, Catherine A. Woods, Jyoti C. Patel, Christian R. Lee, Paul Witkovsky, Li Bao, Robert P. Machold, Kymry T. Jones, Soledad Cabeza de Vaca, Maarten E. A. Reith, Kenneth D. Carr and Margaret E. Rice Insulin signals satiety after a meal; however, the rising incidence of obesity and chronic insulin elevation suggests that insulin may also signal reward. Here, Stouffer et al. show that insulin amplifies dopamine release in rodent striatum depending on diet, and that striatal insulin can influence food choice. 27 October 2015 | doi: 10.1038/ncomms9543 Biological Sciences  Neuroscience  Direct observation of many-body charge density oscillations in a two-dimensional electron gas Paolo Sessi, Vyacheslav M. Silkin, Ilya A. Nechaev, Thomas Bathon, Lydia El-Kareh, Evgueni V. Chulkov, Pedro M. Echenique and Matthias Bode The implementation of topological insulators in spintronics requires the control of the topological spin texture. Here, the authors show that noble metal atoms added to the surface enable this controllability by altering the magnetic anisotropy and energy level alignment. 26 October 2015 | doi: 10.1038/ncomms9691 Physical Sciences  Condensed matter  Materials science  Zinc regulates a key transcriptional pathway for epileptogenesis via metal-regulatory transcription factor 1 OPEN Karen M. J. van Loo, Christina Schaub, Julika Pitsch, Rebecca Kulbida, Thoralf Opitz, Dana Ekstein, Adam Dalal, Horst Urbach, Heinz Beck, Yoel Yaari, Susanne Schoch and Albert J. Becker Temporal lobe epilepsy can cause ionic imbalance in the brain and alter transcriptional activities. Here, van Loo et al. show that the increase in neuronal zinc following status epilepticus can induce transcriptional change via metal-regulatory transcription factor 1, and alter voltage-gated calcium channel CaV3.2 and intrinsic neuronal excitability. 26 October 2015 | doi: 10.1038/ncomms9688 Biological Sciences  Neuroscience  Quasiparticle spin resonance and coherence in superconducting aluminium OPEN C. H. L. Quay, M. Weideneder, Y. Chiffaudel, C. Strunk and M. Aprili Conventional superconductors were thought to be spin inert, but long-lived, spin-polarized excitations, or quasiparticles, have recently been observed. Here, the authors demonstrate quasiparticle spin resonance in the mesoscopic superconductor aluminium and estimate the spin coherence time. 26 October 2015 | doi: 10.1038/ncomms9660 Physical Sciences  Condensed matter  Materials science  Embryo-scale tissue mechanics during Drosophila gastrulation movements OPEN Matteo Rauzi, Uros Krzic, Timothy E. Saunders, Matej Krajnc, Primož Ziherl, Lars Hufnagel and Maria Leptin It is unclear how cell movements coordinate ventral furrow formation at the start of gastrulation in flies. Here, using multiview light-sheet microscopy and cell immobilization, Rauzi et al. observe differential epithelial cell movements, which contribute to the dynamics and timing of mesoderm internalization. 26 October 2015 | doi: 10.1038/ncomms9677 Biological Sciences  Cell biology  Developmental biology  Inhibition of DYRK1A and GSK3B induces human β-cell proliferation OPEN Weijun Shen, Brandon Taylor, Qihui Jin, Van Nguyen-Tran, Shelly Meeusen, You-Qing Zhang, Anwesh Kamireddy, Austin Swafford, Andrew F. Powers, John Walker, John Lamb, Badry Bursalaya, Michael DiDonato, George Harb, Minhua Qiu, Christophe M. Filippi, Lisa Deaton, Carolina N. Turk, Wilma L. Suarez-Pinzon, Yahu Liu et al. All forms of diabetes eventually lead to a reduction in insulin-secreting pancreatic β-cells. Here, the authors report aminopyrazine derivatives, which induce proliferation of rodent as well as human β-cells and improve glucose metabolism in a mouse model of type 1 diabetes. 26 October 2015 | doi: 10.1038/ncomms9372 Biological Sciences  Medical research  Multi-level engineering facilitates the production of phenylpropanoid compounds in tomato OPEN Yang Zhang, Eugenio Butelli, Saleh Alseekh, Takayuki Tohge, Ghanasyam Rallapalli, Jie Luo, Prashant G. Kawar, Lionel Hill, Angelo Santino, Alisdair R. Fernie and Cathie Martin Metabolic engineering offers an effective strategy for producing valuable bioactive compounds in plants. Here, the authors show that by harnessing transcriptional regulation of carbon flux, tomato fruit metabolism can be optimized for the production of phenylpropanoids. 26 October 2015 | doi: 10.1038/ncomms9635 Biological Sciences  Biotechnology  Plant sciences  Simultaneous enhancements in photon absorption and charge transport of bismuth vanadate photoanodes for solar water splitting OPEN Tae Woo Kim, Yuan Ping, Giulia A. Galli and Kyoung-Shin Choi Bismuth vanadate is a promising photoanode for water-splitting, although its performance is limited by its wide bandgap. Here, the authors show that a gentle nitrogen treatment can result in nitrogen doping and oxygen vacancy generation, simultaneously reducing bandgap and increasing charge transport. 26 October 2015 | doi: 10.1038/ncomms9769 Chemical Sciences  Catalysis  Materials science  Physical chemistry  Quantum Hall states stabilized in semi-magnetic bilayers of topological insulators OPEN R. Yoshimi, K. Yasuda, A. Tsukazaki, K. S. Takahashi, N. Nagaosa, M. Kawasaki and Y. Tokura The transport properties of materials with topologically non-trivial band structures may be manipulated by an applied magnetic field or by magnetic doping. Here, the authors demonstrate quantum Hall states for temperatures up to 2 K in thin film bilayers comprising pristine and Cr-doped topological insulators. 26 October 2015 | doi: 10.1038/ncomms9530 Physical Sciences  Applied physics  Condensed matter  Evidence of covalent synergy in silicon–sulfur–graphene yielding highly efficient and long-life lithium-ion batteries OPEN Fathy M. Hassan, Rasim Batmaz, Jingde Li, Xiaolei Wang, Xingcheng Xiao, Aiping Yu and Zhongwei Chen Silicon anodes are promising for lithium-ion battery development, but suffer from problems such as undesired volume expansion and solid-electrolyte interface formation. Here, the authors report a hierarchical silicon-sulfur-graphene composite anode which mitigates the problems leading to high performance. 26 October 2015 | doi: 10.1038/ncomms9597 Chemical Sciences  Materials science  Nanotechnology  High-performing nonlinear visualization of terahertz radiation on a silicon charge-coupled device OPEN Mostafa Shalaby, Carlo Vicario and Christoph P. Hauri The absence of an imaging device in the low frequency terahertz range has hindered the advance of applications. Here, Shalaby et al. introduce a silicon based charge coupled device allowing the visualization of terahertz radiation in real time and at high spatial detail. 26 October 2015 | doi: 10.1038/ncomms9439 Physical Sciences  Condensed matter  Optical physics  Multiradionuclide evidence for the solar origin of the cosmic-ray events of ᴀᴅ 774/5 and 993/4 OPEN Florian Mekhaldi, Raimund Muscheler, Florian Adolphi, Ala Aldahan, Jürg Beer, Joseph R. McConnell, Göran Possnert, Michael Sigl, Anders Svensson, Hans-Arno Synal, Kees C. Welten and Thomas E. Woodruff Natural spikes in radiocarbon have been identified at ᴀᴅ 774/5 and 993/4 and attributed to exceptional cosmic-ray events, although the cause remains uncertain. Here, the authors analyse records recovered from ice cores and suggest these spikes originated from extreme solar particle events. 26 October 2015 | doi: 10.1038/ncomms9611 Earth Sciences  Astronomy  Autophagy and endosomal trafficking inhibition by Vibrio cholerae MARTX toxin phosphatidylinositol-3-phosphate-specific phospholipase A1 activity OPEN Shivani Agarwal, Hyunjin Kim, Robin B. Chan, Shivangi Agarwal, Rebecca Williamson, Wonhwa Cho, Gilbert D. Paolo and Karla J. F. Satchell The MARTX toxin of V. cholerae processes itself to deliver three distinct effector domains to the cytosol. Here the authors show that the third effector domain is a phosphatidylinositol-3-phosphate (PtdIns3P)-specific phospholipase that inhibits autophagy in target cells. 26 October 2015 | doi: 10.1038/ncomms9745 Biological Sciences  Biochemistry  Cell biology  Microbiology  An orphan gene is necessary for preaxial digit formation during salamander limb development OPEN Anoop Kumar, Phillip B. Gates, Anna Czarkwiani and Jeremy P. Brockes The first digits to form in salamanders are the two most anterior ones, unlike in other tetrapods. Here, the authors show that the gene Prod1 is expressed during early outgrowth of the limb bud and is necessary for limb formation in salamanders. 26 October 2015 | doi: 10.1038/ncomms9684 Biological Sciences  Developmental biology  Evolution  S-nitrosylation triggers ABI5 degradation to promote seed germination and seedling growth OPEN Pablo Albertos, María C. Romero-Puertas, Kiyoshi Tatematsu, Isabel Mateos, Inmaculada Sánchez-Vicente, Eiji Nambara and Oscar Lorenzo Nitric oxide counteracts the inhibitory effects of the plant hormone ABA during seed germination and seedling growth. Here, Albertos et al. show that nitric oxide can act antagonistically to ABA by inducing the S-nitrosylation and degradation of the ABI5 transcription factor involved in ABA signalling. 23 October 2015 | doi: 10.1038/ncomms9669 Biological Sciences  Plant sciences  MHC variation sculpts individualized microbial communities that control susceptibility to enteric infection OPEN Jason L. Kubinak, W. Zac Stephens, Ray Soto, Charisse Petersen, Tyson Chiaro, Lasha Gogokhia, Rickesha Bell, Nadim J. Ajami, Joseph F. Petrosino, Linda Morrison, Wayne K. Potts, Peter E. Jensen, Ryan M. O’Connell and June L. Round Composition of the gut microbiota is regulated by IgA antibodies which are produced under the control of MHCII-restricted B cells. Here the authors show that MHCII polymorphisms sculpt bacterial composition of the gut, which influences a host’s susceptibility to enteric Salmonella infection. 23 October 2015 | doi: 10.1038/ncomms9642 Biological Sciences  Immunology  Microbiology  Coral record of southeast Indian Ocean marine heatwaves with intensified Western Pacific temperature gradient OPEN J. Zinke, A. Hoell, J. M. Lough, M. Feng, A. J. Kuret, H. Clarke, V. Ricca, K. Rankenburg and M. T. McCulloch Intense marine heatwaves have caused extensive coral bleaching in the Southeast Indian Ocean in recent years, yet their cause remains uncertain. Here, based on a 215-year coral sea surface temperature record, the authors shed light on the mechanistic underpinnings of these extreme events. 23 October 2015 | doi: 10.1038/ncomms9562 Earth Sciences  Climate science  Oceanography  Direct observation of ultrafast coherent exciton dynamics in helical π-stacks of self-assembled perylene bisimides OPEN Jooyoung Sung, Pyosang Kim, Benjamin Fimmel, Frank Würthner and Dongho Kim Molecular self-assemblies have potential as photon processing materials, yet observation of exciton delocalization dynamics can be challenging. Here, the authors experimentally demonstrate Frenkel exciton dynamics of H-type aggregates, studying delocalisation of excitons directly after photoexcitation. 23 October 2015 | doi: 10.1038/ncomms9646 Chemical Sciences  Organic chemistry  Physical chemistry  Oxygenated amorphous carbon for resistive memory applications Claudia A. Santini, Abu Sebastian, Chiara Marchiori, Vara Prasad Jonnalagadda, Laurent Dellmann, Wabe W. Koelmans, Marta D. Rossell, Christophe P. Rossel and Evangelos Eleftheriou Carbon-based electronics offer an alternative approach to silicon with the promise that it could be cheaper, faster and smaller. Here, the authors demonstrate amorphous carbon oxide-based resistive memories that are easy to fabricate and exhibit switching speeds on the order of ten nanoseconds. 23 October 2015 | doi: 10.1038/ncomms9600 Physical Sciences  Applied physics  Materials science  Multimaterial magnetically assisted 3D printing of composite materials OPEN Dimitri Kokkinis, Manuel Schaffner and André R. Studart Endowing composite materials with spatially discrete mechanical behaviours is possible by varying the internal concentration and arrangement of particles. Here, the authors demonstrate a 3D magnetic printing technique which enables the fabrication of materials with intricate internal designs. 23 October 2015 | doi: 10.1038/ncomms9643 Physical Sciences  Materials science  Physical chemistry  Designing bioinspired composite reinforcement architectures via 3D magnetic printing OPEN Joshua J. Martin, Brad E. Fiore and Randall M. Erb Superior mechanical properties in natural composites are frequently achieved by the inclusion of locally orientated reinforcing particles. Here, the authors implement this design strategy synthetically by employing a 3D magnetic printing protocol to create programmable composite architectures. 23 October 2015 | doi: 10.1038/ncomms9641 Physical Sciences  Materials science  Physical chemistry  Modelling kidney disease with CRISPR-mutant kidney organoids derived from human pluripotent epiblast spheroids OPEN Benjamin S. Freedman, Craig R. Brooks, Albert Q. Lam, Hongxia Fu, Ryuji Morizane, Vishesh Agrawal, Abdelaziz F. Saad, Michelle K. Li, Michael R. Hughes, Ryan Vander Werff, Derek T. Peters, Junjie Lu, Anna Baccei, Andrew M. Siedlecki, M. Todd Valerius, Kiran Musunuru, Kelly M. McNagny, Theodore I. Steinman, Jing Zhou, Paul H. Lerou et al. Generating organized kidney tissues from human pluripotent stem cell is a major challenge. Here, Freedman et al. describe a differentiation system forming spheroids and tubular structures, characteristic of these kidney structures, and using CRISPR/Cas9, delete PKD1/2, to model polycystic kidney disease. 23 October 2015 | doi: 10.1038/ncomms9715 Biological Sciences  Cell biology  Developmental biology  Defective titanium dioxide single crystals exposed by high-energy {001} facets for efficient oxygen reduction OPEN Dan-Ni Pei, Li Gong, Ai-Yong Zhang, Xing Zhang, Jie-Jie Chen, Yang Mu and Han-Qing Yu Titanium dioxide is not generally considered to be an effective oxygen reduction catalyst. Here, the authors show that nanostructured titanium dioxide, self-doped with oxygen vacancies and with exposed high-energy {001} facets, exhibits competitive oxygen reduction catalytic activity and durability. 23 October 2015 | doi: 10.1038/ncomms9696 Chemical Sciences  Catalysis  Materials science  Large magnetocaloric effect and adiabatic demagnetization refrigeration with YbPt2Sn OPEN Dongjin Jang, Thomas Gruner, Alexander Steppke, Keisuke Mitsumoto, Christoph Geibel and Manuel Brando Magnetocaloric materials are used in adiabatic demagnetization refrigerators to reach extremely low temperature without using Helium. Here, the authors report a large magnetocaloric effect in YbPt2Sn, and show how the properties of this alloy makes it a good magnetocaloric material. 23 October 2015 | doi: 10.1038/ncomms9680 Physical Sciences  Applied physics  Materials science  Single-photon non-linear optics with a quantum dot in a waveguide OPEN A. Javadi, I. Söllner, M. Arcari, S. Lindskov Hansen, L. Midolo, S. Mahmoodian, G Kiršanskė, T. Pregnolato, E. H. Lee, J. D. Song, S. Stobbe and P. Lodahl Interacting light beams are required for all-optical information processing, but such nonlinear effects are tiny at the single-photon level. Here, the authors show that a single quantum dot in a photonic-crystal waveguide enables the necessary giant optical nonlinearity. 23 October 2015 | doi: 10.1038/ncomms9655 Physical Sciences  Optical physics  Scalable fabrication of a hybrid field-effect and acousto-electric device by direct growth of monolayer MoS2/LiNbO3 OPEN Edwin Preciado, Florian J.R. Schülein, Ariana E. Nguyen, David Barroso, Miguel Isarraraz, Gretel von Son, I-Hsi Lu, Wladislaw Michailow, Benjamin Möller, Velveth Klee, John Mann, Achim Wixforth, Ludwig Bartels and Hubert J. Krenner Lithium niobate has piezoelectric and birefringent properties useful for optics, but it is not readily integrated with traditional optoelectronics. Here, the authors create a device that senses photoconductance in semiconducting molybdenum disulfide using surface acoustic waves excited in lithium niobate. 23 October 2015 | doi: 10.1038/ncomms9593 Physical Sciences  Applied physics  Materials science  Structurally driven one-dimensional electron confinement in sub-5-nm graphene nanowrinkles OPEN Hyunseob Lim, Jaehoon Jung, Rodney S. Ruoff and Yousoo Kim Wrinkles in graphene can restrict the motion of electrons to one dimension. Here, the authors observe a one-dimensional van Hove singularity and bandgap opening in a five nanometre wide wrinkle, which enables them to create a metallic-semiconducting-metallic junction in a single graphene sheet. 23 October 2015 | doi: 10.1038/ncomms9601 Physical Sciences  Applied physics  Materials science  Nanotechnology  Microsecond-sustained lasing from colloidal quantum dot solids OPEN Michael M. Adachi, Fengjia Fan, Daniel P. Sellan, Sjoerd Hoogland, Oleksandr Voznyy, Arjan J. Houtepen, Kevin D. Parrish, Pongsakorn Kanjanaboos, Jonathan A. Malen and Edward H. Sargent To date, lasing in colloidal quantum dot solids has been limited to the nanosecond temporal range, limiting the potential for solution-processed lasers. Here, the authors combine thermal management with low amplified spontaneous emission threshold to produce microsecond-sustained lasing. 23 October 2015 | doi: 10.1038/ncomms9694 Physical Sciences  Materials science  Nanotechnology  Optical physics  Cell populations can use aneuploidy to survive telomerase insufficiency OPEN Caroline Millet, Darya Ausiannikava, Thierry Le Bihan, Sander Granneman and Svetlana Makovets The loss of telomeres is a catastrophic event and eukaryotes have evolved multiple strategies to overcome this. Here the authors show that Saccharomyces cerevisiae can generate aneuploid survivors that upregulate telomerase to overcome telomere loss. 22 October 2015 | doi: 10.1038/ncomms9664 Biological Sciences  Microbiology  Molecular biology  Characterizing noise structure in single-cell RNA-seq distinguishes genuine from technical stochastic allelic expression OPEN Jong Kyoung Kim, Aleksandra A. Kolodziejczyk, Tomislav Illicic, Sarah A. Teichmann and John C. Marioni Single-cell RNA-sequencing (scRNA-seq) can be applied to dissect the kinetics of gene expression and patterns of allele-specific expression. Here, Kim et al. report a generative statistical model that can separate biological variability from technical noise by quantifying technical noise using external RNA spike-ins. 22 October 2015 | doi: 10.1038/ncomms9687 Biological Sciences  Bioinformatics  Molecular biology  Observation of a two-dimensional liquid of Fröhlich polarons at the bare SrTiO3 surface OPEN Chaoyu Chen, José Avila, Emmanouil Frantzeskakis, Anna Levy and Maria C. Asensio A polaron is a quasiparticle formed through the strong interaction between an electron and the ions in a crystalline solid. Here, the authors observe Fröhlich polarons, formed by the coupling of electrons and long-wavelength optical phonons, in strontium titanate. 22 October 2015 | doi: 10.1038/ncomms9585 Physical Sciences  Condensed matter  Dynamic control of light emission faster than the lifetime limit using VO2 phase-change OPEN Sébastien Cueff, Dongfang Li, You Zhou, Franklin J. Wong, Jonathan A. Kurvits, Shriram Ramanathan and Rashid Zia Erbium ions offer a way to integrate light emitters into silicon electronics, but their radiative decay time is too slow for effective light modulation. Here, the authors use phase changes in vanadium dioxide to enable all-optical modulation more than a thousand times faster than the erbium excited-state lifetime. 22 October 2015 | doi: 10.1038/ncomms9636 Physical Sciences  Applied physics  Materials science  Optical physics  Room-temperature carbon monoxide oxidation by oxygen over Pt/Al2O3 mediated by reactive platinum carbonates OPEN Mark A. Newton, Davide Ferri, Grigory Smolentsev, Valentina Marchionni and Maarten Nachtegaal There is economic impetus to achieve low-temperature carbon monoxide oxidation. Here, the authors use time-resolved diffuse reflectance infrared spectroscopy and mass spectrometry to show that platinum carbonates formed reversibly from platinum/aluminium oxide can oxidize carbon monoxide at room temperature. 22 October 2015 | doi: 10.1038/ncomms9675 Chemical Sciences  Catalysis  Materials science  Physical chemistry  The transcriptional landscape of age in human peripheral blood OPEN Marjolein J. Peters, Roby Joehanes, Luke C. Pilling, Claudia Schurmann, Karen N. Conneely, Joseph Powell, Eva Reinmaa, George L. Sutphin, Alexandra Zhernakova, Katharina Schramm, Yana A. Wilson, Sayuko Kobes, Taru Tukiainen, NABEC/UKBEC Consortium, Michael A. Nalls, Dena G. Hernandez, Mark R. Cookson, Raphael J. Gibbs, John Hardy, Adaikalavan Ramasamy et al. Ageing increases the risk of many diseases. Here the authors compare blood cell transcriptomes of over 14,000 individuals and identify a set of about 1,500 genes that are differently expressed with age, shedding light on transcriptional programs linked to the ageing process and age-associated diseases. 22 October 2015 | doi: 10.1038/ncomms9570 Biological Sciences  Bioinformatics  Medical research  ChEC-seq kinetics discriminates transcription factor binding sites by DNA sequence and shape in vivo OPEN Gabriel E. Zentner, Sivakanthan Kasinathan, Beibei Xin, Remo Rohs and Steven Henikoff In chromatin endogenous cleavage (ChEC), micrococcal nuclease (MNase) is fused to a protein of interest and its cleavage is thus targeted to specific genomic loci in vivo. Here, the authors show that time-resolved ChEC-seq (high-throughput sequencing after ChEC) can detect DNA shape patterns regardless of motif strength. 22 October 2015 | doi: 10.1038/ncomms9733 Biological Sciences  Bioinformatics  Molecular biology  Reversed reactivity of anilines with alkynes in the rhodium-catalysed C–H activation/carbonylation tandem OPEN Siba P. Midya, Manoj K. Sahoo, Vinod G. Landge, P. R. Rajamohanan and Ekambaram Balaraman C-H activation reactions allow transformations on relatively unfunctionalised organic molecules. Here, the authors describe rhodium-catalysed C-H bond activation of unprotected anilines with alkynes leading to C-C bond formation (rather than the more usual C-N), and subsequent annulation to form quinolines. 21 October 2015 | doi: 10.1038/ncomms9591 Chemical Sciences  Catalysis  Organic chemistry  Mutations in TRAF3IP1/IFT54 reveal a new role for IFT proteins in microtubule stabilization OPEN Albane A. Bizet, Anita Becker-Heck, Rebecca Ryan, Kristina Weber, Emilie Filhol, Pauline Krug, Jan Halbritter, Marion Delous, Marie-Christine Lasbennes, Bolan Linghu, Edward J. Oakeley, Mohammed Zarhrate, Patrick Nitschké, Meriem Garfa-Traore, Fabrizio Serluca, Fan Yang, Tewis Bouwmeester, Lucile Pinson, Elisabeth Cassuto, Philippe Dubot et al. Nephrophthisis (NPH) is a common manifestation of ciliopathy diseases. Here the authors identify mutations in intraflagellar transport 54 (IFT54) in patients with NPH and discover an extra-ciliary role for IFT54 in regulating cytoplasmic microtubule dynamics, that contributes to the pathophysiology of this disease. 21 October 2015 | doi: 10.1038/ncomms9666 Biological Sciences  Cell biology  Ultrahigh sensitivity and layer-dependent sensing performance of phosphorene-based gas sensors OPEN Shumao Cui, Haihui Pu, Spencer A. Wells, Zhenhai Wen, Shun Mao, Jingbo Chang, Mark C. Hersam and Junhong Chen Phosphorene is one of a growing number of 2D materials with high potential for device applications. Here, the authors report a sensor composed of phosphorene nanosheets, showing a high sensitivity to NO2 in dry air and also demonstrate that the sensitivity depends on the nanosheet thickness. 21 October 2015 | doi: 10.1038/ncomms9632 Chemical Sciences  Materials science  Nanotechnology  Physical chemistry  Zeolite-like liquid crystals OPEN Silvio Poppe, Anne Lehmann, Alexander Scholte, Marko Prehm, Xiangbing Zeng, Goran Ungar and Carsten Tschierske Zeolites with regular porous structures are widely used as gas adsorbents and scaffolding for catalysts. Poppe et al. report a liquid crystal with zeolite-like structure by self-assembly of polyphilic molecules with π-conjugated rod-like cores into a honeycomb formed by pentagonal/octagonal channels. 21 October 2015 | doi: 10.1038/ncomms9637 Chemical Sciences  Materials science  Organic chemistry  Atomic cobalt on nitrogen-doped graphene for hydrogen generation OPEN Huilong Fei, Juncai Dong, M. Josefina Arellano-Jiménez, Gonglan Ye, Nam Dong Kim, Errol L.G. Samuel, Zhiwei Peng, Zhuan Zhu, Fan Qin, Jiming Bao, Miguel Jose Yacaman, Pulickel M. Ajayan, Dongliang Chen and James M. Tour There is ongoing interest in the development of non-precious metal catalysts for hydrogen evolution. Here, the authors fabricate a cobalt catalyst in which the cobalt is dispersed as single atoms on nitrogen-doped graphene, and report its high activity and stability for water reduction in acidic media. 21 October 2015 | doi: 10.1038/ncomms9668 Chemical Sciences  Catalysis  Materials science  Nanotechnology  Quantifying the density and utilization of active sites in non-precious metal oxygen electroreduction catalysts OPEN Nastaran Ranjbar Sahraie, Ulrike I. Kramm, Julian Steinberg, Yuanjian Zhang, Arne Thomas, Tobias Reier, Jens-Peter Paraknowitsch and Peter Strasser Iron and nitrogen doped carbon materials are widely studied electrocatalysts, however measurement of features such as intrinsic turn-over frequency and active site utilization has proved difficult. Here, the authors use a combination of chemisorption and spectroscopy techniques to determine these properties. 21 October 2015 | doi: 10.1038/ncomms9618 Chemical Sciences  Catalysis  Materials science  Physical chemistry  Increasing water cycle extremes in California and in relation to ENSO cycle under global warming OPEN Jin-Ho Yoon, S-Y Simon Wang, Robert R. Gillies, Ben Kravitz, Lawrence Hipps and Philip J. Rasch Identifying the effects of global warming on regional water cycle extremes, such as the ongoing drought in California, remains a challenge. Here, the authors present the results of multi-model simulations that project an increase in drought and flooding towards the end of the century. 21 October 2015 | doi: 10.1038/ncomms9657 Earth Sciences  Atmospheric science  Climate science  Turning bubbles on and off during boiling using charged surfactants OPEN H. Jeremy Cho, Jordan P. Mizerak and Evelyn N. Wang Bubble generation during boiling is essential to power generation and heating/cooling systems, but it remains uncontrollable even with state-of-the-art surface engineering. Cho et al. electrostatically attract surfactants to the surface, on which bubble nucleation is manipulated in an on-demand manner. 21 October 2015 | doi: 10.1038/ncomms9599 Physical Sciences  Materials science  Physical chemistry  Photoelectric detection of electron spin resonance of nitrogen-vacancy centres in diamond OPEN E. Bourgeois, A. Jarmola, P. Siyushev, M. Gulka, J. Hruby, F. Jelezko, D. Budker and M. Nesladek Nitrogen-vacancy colour centre defects in diamond are one possible host for qubits, but such an application requires a method for reading out the colour centre spin state. Here, the authors demonstrate a photoelectric readout technique of the magnetic resonances of these colour centres. 21 October 2015 | doi: 10.1038/ncomms9577 Physical Sciences  Applied physics  Materials science  Optical physics  Molecular co-catalyst accelerating hole transfer for enhanced photocatalytic H2 evolution OPEN Wentuan Bi, Xiaogang Li, Lei Zhang, Tao Jin, Lidong Zhang, Qun Zhang, Yi Luo, Changzheng Wu and Yi Xie Enhancing the kinetics of hole transfer at photocatalytic surfaces serves to promote the overall efficiency closer to practically implementable levels. Here, the authors employ trifluoroacetic acid to achieve this goal and significantly improve the photocatalytic H2 evolution activity of K4Nb6O17. 21 October 2015 | doi: 10.1038/ncomms9647 Physical Sciences  Catalysis  Materials science  Sources of heterogeneous variability and trends in Antarctic sea-ice Richard J. Matear, Terence J. O’Kane, James S. Risbey and Matt Chamberlain In contrast to the significant retreat of Arctic sea-ice, Antarctic sea-ice has exhibited a modest expansion in recent decades. Here, the authors employ model simulations to investigate the drivers of this unexpected trend. 21 October 2015 | doi: 10.1038/ncomms9656 Earth Sciences  Climate science  Oceanography    Nature Communications JOBS of the week Research Associate University College London (UCL) Senior Lab Manager Karolinska Institutet (KI) Postdoctoral Associate Weill Cornell Medical School Postdoctoral Fellow University of Virginia Postdoctoral Researcher University of Edinburgh 25 PhD Fellowships Ludwig-Maximilians-Universität München, QBM Munich, Postdoctoral Researcher Temple University School of Medicine Grants Adviser (Fixed Term 12 Months) Wellcome Trust Biomedical Scientist iPP (Integrated Pathology Partnerships) Bioinformatician University of Cambridge More Science jobs from Nature Communications EVENT Applied Bioinformatics in Life Sciences 17.03.16 Leuven, Belgium More science events from       Latest Corrigenda     Corrigendum: Genome-wide association study of colorectal cancer identifies six new susceptibility loci Fredrick R. Schumacher, Stephanie L. Schmit, Shuo Jiao, Christopher K. Edlund, Hansong Wang, Ben Zhang, Li Hsu, Shu-Chen Huang, Christopher P. Fischer, John F. Harju, Gregory E. Idos, Flavio Lejbkowicz, Frank J. Manion, Kevin McDonnell, Caroline E. McNeil, Marilena Melas, Hedy S. Rennert, Wei Shi, Duncan C. Thomas, David J. Van Den Berg et al. 26 October 2015 | doi: 10.1038/ncomms9739 Biological Sciences  Cancer  Genetics      Corrigendum: Identification of a novel actin-dependent signal transducing module allows for the targeted degradation of GLI1 OPEN Philipp Schneider, Juan Miguel Bayo-Fina, Rajeev Singh, Pavan Kumar Dhanyamraju, Philipp Holz, Aninja Baier, Volker Fendrich, Annette Ramaswamy, Stefan Baumeister, Elisabeth D. Martinez and Matthias Lauth 26 October 2015 | doi: 10.1038/ncomms9741 Biological Sciences  Cell biology      Corrigendum: Macroscopic ordering of helical pores for arraying guest molecules noncentrosymmetrically OPEN Chunji Li, Joonil Cho, Kuniyo Yamada, Daisuke Hashizume, Fumito Araoka, Hideo Takezoe, Takuzo Aida and Yasuhiro Ishida 26 October 2015 | doi: 10.1038/ncomms9811 Chemical Sciences  Materials science  Optical physics  Organic chemistry      Corrigendum: Rh D blood group conversion using transcription activator-like effector nucleases OPEN Young-Hoon Kim, Hyun O. Kim, Eun J. Baek, Ryo Kurita, Hyuk-Jin Cha, Yukio Nakamura and Hyongbum Kim 22 October 2015 | doi: 10.1038/ncomms9678 Biological Sciences  Cell biology  Medical research      Corrigendum: Strong coupling between chlorosomes of photosynthetic bacteria and a confined optical cavity mode David M. Coles, Yanshen Yang, Yaya Wang, Richard T. Grant, Robert A. Taylor, Semion K. Saikin, Alán Aspuru-Guzik, David G. Lidzey, Joseph Kuo-Hsiang Tang and Jason M. Smith 21 October 2015 | doi: 10.1038/ncomms9713 Physical Sciences  Biophysics  Optical physics      Corrigendum: The microbiome of New World vultures Michael Roggenbuck, Ida Bærholm Schnell, Nikolaj Blom, Jacob Bælum, Mads Frost Bertelsen, Thomas Sicheritz-Pontén, Søren Johannes Sørensen, M. Thomas P. Gilbert, Gary R. Graves and Lars H. Hansen 21 October 2015 | doi: 10.1038/ncomms9774 Biological Sciences  Ecology  Microbiology  Zoology        Latest Errata     Erratum: STAT3 regulated ARF expression suppresses prostate cancer metastasis OPEN Jan Pencik, Michaela Schlederer, Wolfgang Gruber, Christine Unger, Steven M. Walker, Athena Chalaris, Isabelle J. Marié, Melanie R. Hassler, Tahereh Javaheri, Osman Aksoy, Jaine K. Blayney, Nicole Prutsch, Anna Skucha, Merima Herac, Oliver H. Krämer, Peter Mazal, Florian Grebien, Gerda Egger, Valeria Poli, Wolfgang Mikulits et al. 26 October 2015 | doi: 10.1038/ncomms9802 Biological Sciences  Cancer  Cell biology  Medical research      Erratum: RTN1 mediates progression of kidney disease by inducing ER stress OPEN Ying Fan, Wenzhen Xiao, Zhengzhe Li, Xuezhu Li, Peter Y. Chuang, Belinda Jim, Weijia Zhang, Chengguo Wei, Niansong Wang, Weiping Jia, Huabao Xiong, Kyung Lee and John C. He 22 October 2015 | doi: 10.1038/ncomms9710 Biological Sciences  Medical research      Erratum: Exosomes secreted by nematode parasites transfer small RNAs to mammalian cells and modulate innate immunity OPEN Amy H. Buck, Gillian Coakley, Fabio Simbari, Henry J. McSorley, Juan F. Quintana, Thierry Le Bihan, Sujai Kumar, Cei Abreu-Goodger, Marissa Lear, Yvonne Harcus, Alessandro Ceroni, Simon A. Babayan, Mark Blaxter, Alasdair Ivens and Rick M. Maizels 22 October 2015 | doi: 10.1038/ncomms9772 Biological Sciences  Cell biology  Immunology      Advertisement Nature Reviews Cardiology  FREE POSTER - A HISTORY OF BALLOON ANGIOPLASTY     This Poster highlights the major milestones in the development of balloon angioplasty and important treatment modalities that have emerged as a result of this technology. Produced with support from C.R. Bard, Inc.      Advertisement Nature Reviews Drug Discovery Special on targeting the IL-17 pathway in inflammatory disease POSTER - Targeting the IL-17 pathway in inflammatory disease ANIMATION - Tumour immunology and immunotherapy Animation and Poster produced with support from Eli Lilly and Company     Natureevents is a fully searchable, multi-disciplinary database designed to maximise exposure for events organisers. The contents of the Natureevents Directory are now live. The digital version is available here. 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