Nature Communications - 08 November 2018

Advertisement NATURE FEATURE: Three is the Magic Number in Gene Therapy Production  Interested in AAV-based therapies?  Learn why this method remains the industry standard     Weekly Content Alert Nature Communications is fully open access. Read more. 08 November 2018  Latest content: Comment Articles Author Corrections Publisher Corrections Journal homepage Recommend to library Web feed   Advertisement Nature Index 2018 Science Cities Cities are the ideal setting for scientific exploration. They attract bright and diverse minds, are abuzz with creative activity, and can summon the capital to realize big ideas. Nature Index 2018 Science Cities profiles five regional leaders in the production of high-quality research. Access now >>      Latest Comment     Macrophages regulate the clearance of living cells by calreticulin OPEN Dmitri V. Krysko, Kodi S. Ravichandran & Peter Vandenabeele 07 November 2018 | doi: 10.1038/s41467-018-06807-9 Cancer  Cancer therapy  Molecular medicine  Tumour immunology      Latest Articles View all Articles     Systems glycomics of adult zebrafish identifies organ-specific sialylation and glycosylation patterns OPEN Nao Yamakawa, Jorick Vanbeselaere, Lan-Yi Chang, Shin-Yi Yu, Lucie Ducrocq, Anne Harduin-Lepers, Junichi Kurata, Kiyoko F. Aoki-Kinoshita, Chihiro Sato, Kay-Hooi Khoo, Ken Kitajima & Yann Guerardel Zebrafish is a popular system for studying the molecular basis of glycan-related human diseases. Here, the authors present glycomic profiles of eight zebrafish organs and establish the organ-specific expression patterns of related biosynthetic enzymes. 07 November 2018 | doi: 10.1038/s41467-018-06950-3 Glycobiology  Glycomics  Mass spectrometry  Zebrafish  Thermostable virus portal proteins as reprogrammable adapters for solid-state nanopore sensors OPEN Benjamin Cressiot, Sandra J. Greive, Mehrnaz Mojtabavi, Alfred A. Antson & Meni Wanunu Solid state nanopores are robust but the sizing can be variable, whereas protein nanopores are precisely sized but lack robustness. Here the authors cork a solid state nanopore with the DNA-translocating portal protein from the virus G20c to obtain a lipid-free hybrid nanopore that can sense various biopolymers. 07 November 2018 | doi: 10.1038/s41467-018-07116-x Nanopores  Single-molecule biophysics  Design and application of volatilizable solid additives in non-fullerene organic solar cells OPEN Runnan Yu, Huifeng Yao, Ling Hong, Yunpeng Qin, Jie Zhu, Yong Cui, Sunsun Li & Jianhui Hou High-boiling-point solvent additives are commonly used to optimize the device performance of organic solar cells but they make problems for device stability and reproducibility. Here Yu et al. design volatilizable solid additives that can improve the device performance without causing above issues. 07 November 2018 | doi: 10.1038/s41467-018-07017-z Materials chemistry  Solar cells  Basal freeze-on generates complex ice-sheet stratigraphy OPEN G. J.-M. C. Leysinger Vieli, C. Martín, R. C. A. Hindmarsh & M. P. Lüthi Subsurface ice-sheet radar images reveal large plume-shaped bodies rising from the base, with their origin not yet understood. Here, the authors show that freeze-on of water at the ice-sheet base combined with ice-flux explains the vertical extent, shape and structure of the observed plumes. 07 November 2018 | doi: 10.1038/s41467-018-07083-3 Cryospheric science  Fluid dynamics  Dynamic control of proinflammatory cytokines Il-1β and Tnf-α by macrophages in zebrafish spinal cord regeneration OPEN Themistoklis M. Tsarouchas, Daniel Wehner, Leonardo Cavone, Tahimina Munir, Marcus Keatinge, Marvin Lambertus, Anna Underhill, Thomas Barrett, Elias Kassapis, Nikolay Ogryzko, Yi Feng, Tjakko J. van Ham, Thomas Becker & Catherina G. Becker While proinflammatory signalling is preventive to axon regrowth, activated macrophages can be beneficial, for example by limiting the inflammation. This study uses mutant zebrafish lines that lack macrophages and/or microglia to show that peripheral macrophages are necessary in axon regrowth following complete transection of spinal cord. 07 November 2018 | doi: 10.1038/s41467-018-07036-w Developmental biology  Neuroscience  Regeneration and repair in the nervous system  Signature of quantum Griffiths singularity state in a layered quasi-one-dimensional superconductor OPEN Enze Zhang, Jinhua Zhi, Yi-Chao Zou, Zefang Ye, Linfeng Ai, Jiacheng Shi, Ce Huang, Shanshan Liu, Zehao Lin, Xinyuan Zheng, Ning Kang, Hongqi Xu, Wei Wang, Liang He, Jin Zou, Jinyu Liu, Zhiqiang Mao & Faxian Xiu Whether the quantum Griffiths singularity state exists in one-dimensional (1D) systems remains elusive. Here, Zhang et al. report violation of the Pauli limit in the superconducting critical field and multiple phase transitions in the current-voltage hysteresis loops in a Ta2PdS5 nanowire, suggesting signatures of quasi-1D quantum Griffith singularity. 07 November 2018 | doi: 10.1038/s41467-018-07123-y Electronic properties and materials  Phase transitions and critical phenomena  Superconducting properties and materials  A retrieval-specific mechanism of adaptive forgetting in the mammalian brain OPEN Pedro Bekinschtein, Noelia V. Weisstaub, Francisco Gallo, Maria Renner & Michael C. Anderson Forgetting is ubiquitous across the animal kingdom, but neuroscience is only beginning to address its mechanisms. This study shows that rats, like humans, actively forget memories that interfere with retrieval, and that this retrieval-induced forgetting requires the prefrontal cortex. 07 November 2018 | doi: 10.1038/s41467-018-07128-7 Cognitive control  Cognitive neuroscience  Cortex  Learning and memory  Neuroscience  Dissipative shock waves generated by a quantum-mechanical piston OPEN Maren E. Mossman, Mark A. Hoefer, Keith Julien, P. G. Kevrekidis & P. Engels There is increasing interest in understanding the non-equilibrium phenomena in quantum fluids. Here, the authors show dissipative, viscous shock and rarefaction wave dynamics emerging from the turbulent, superfluid flow of an elongated BEC of ultracold Rb atoms driven by a quantum-mechanical piston. 07 November 2018 | doi: 10.1038/s41467-018-07147-4 Bose–Einstein condensates  Fluid dynamics  Ultracold gases  Genetic dissection of the miR-200–Zeb1 axis reveals its importance in tumor differentiation and invasion OPEN Alexandra C. Title, Sue-Jean Hong, Nuno D. Pires, Lynn Hasenöhrl, Svenja Godbersen, Nadine Stokar-Regenscheit, David P. Bartel & Markus Stoffel In vivo studies on the regulation of the epithelial-mesenchymal transition (EMT) within a physiological context are lacking. Here it is shown that miR-200 ablation in the Rip-Tag2 insulinoma mouse model induces beta-cell dedifferentiation, EMT and tumor invasion, and that disruption of Zeb1 regulation by miR-200c is sufficient to drive EMT. 07 November 2018 | doi: 10.1038/s41467-018-07130-z Cancer genetics  Epithelial–mesenchymal transition  Epithelial cells release adenosine to promote local TNF production in response to polarity disruption OPEN Ingrid Poernbacher & Jean-Paul Vincent Epithelial stress can disrupt polarity and activate TNF and JNK signalling that contributes to inflammation and cell damage. Here, the authors show that disruption of apico-basal polarity leads to adenosine release, activating TNF and JNK and driving an inflammatory response during chronic stress. 07 November 2018 | doi: 10.1038/s41467-018-07114-z Apicobasal polarity  Disease model  Inflammation  Stress signalling  BMI1 enables interspecies chimerism with human pluripotent stem cells OPEN Ke Huang, Yanling Zhu, Yanlin Ma, Bentian Zhao, Nana Fan, Yuhang Li, Hong Song, Shilong Chu, Zhen Ouyang, Quanjun Zhang, Qi Xing, Chengdan Lai, Nan Li, Tian Zhang, Jiaming Gu, Baoqiang Kang, Yongli Shan, Keyu Lai, Wenhao Huang, Yuchan Mai et al. Conventional human pluripotent stem cells (hPSCs) fail to contribute to interspecies chimaeras when injected into mouse blastocysts. Here the authors show that forced expression of BMI1 overcomes apoptosis of hPSCs in blastocysts of mouse, rabbit and pig allowing them to contribute to chimaeras. 07 November 2018 | doi: 10.1038/s41467-018-07098-w Pluripotency  Stem-cell biotechnology  Symmetry breakdown of electron emission in extreme ultraviolet photoionization of argon OPEN M. Ilchen, G. Hartmann, E. V. Gryzlova, A. Achner, E. Allaria, A. Beckmann, M. Braune, J. Buck, C. Callegari, R. N. Coffee, R. Cucini, M. Danailov, A. De Fanis, A. Demidovich, E. Ferrari, P. Finetti, L. Glaser, A. Knie, A. O. Lindahl, O. Plekan et al. Exploring the photoionization process leads to better understanding of the fundamental interactions between light and matter. Here the authors show the non-dipole contribution in the form of asymmetric photoelectron angular distribution from the ionization of argon atoms and ions. 07 November 2018 | doi: 10.1038/s41467-018-07152-7 Atomic and molecular interactions with photons  Free-electron lasers  Imaging techniques  Dynamic ubiquitylation of Sox2 regulates proteostasis and governs neural progenitor cell differentiation OPEN Chun-Ping Cui, Yuan Zhang, Chanjuan Wang, Fang Yuan, Hongchang Li, Yuying Yao, Yuhan Chen, Chunnan Li, Wenyi Wei, Cui Hua Liu, Fuchu He, Yan Liu & Lingqiang Zhang Sox2 regulates pluripotency in neural progenitor cells (NPC) but how protein stability affects this is unclear. Here, the authors identify changes in ubiquitylation of Sox2 (by CUL4A-DET1-COP1 ligase and OTUD7B deubiquitylase) as controlling protein stability and so the differentiation state of NPCs. 07 November 2018 | doi: 10.1038/s41467-018-07025-z Neural progenitors  Ubiquitylation  Chiral domain wall motion in unit-cell thick perpendicularly magnetized Heusler films prepared by chemical templating OPEN Panagiotis Ch. Filippou, Jaewoo Jeong, Yari Ferrante, See-Hun Yang, Teya Topuria, Mahesh G. Samant & Stuart S. P. Parkin Heusler compounds are of great interest for spintronic applications. Here the authors report current driven domain wall motion in unit cell thick perpendicularly magnetized Heusler films with low current densities and show the velocity is dominated by the bulk chiral Dzyaloshinskii–Moriya exchange interaction. 07 November 2018 | doi: 10.1038/s41467-018-07091-3 Magnetic properties and materials  Spintronics  Surfaces, interfaces and thin films  The deubiquitinase MYSM1 dampens NOD2-mediated inflammation and tissue damage by inactivating the RIP2 complex OPEN Swarupa Panda & Nelson O. Gekara The innate immune receptor NOD2 is tightly regulated to ensure beneficial antimicrobial immunity. Here the authors show that the H2A deubiquitinase MYSM1 restrains NOD2 signaling by removing lysine 63 (K63), K27, M1 but not K48 polyubiquitin chains from its downstream adaptor protein RIP2. 07 November 2018 | doi: 10.1038/s41467-018-07016-0 Antimicrobial responses  Monocytes and macrophages  NOD-like receptors  Ubiquitylation  Kauniolide synthase is a P450 with unusual hydroxylation and cyclization-elimination activity OPEN Qing Liu, Arman Beyraghdar Kashkooli, David Manzano, Irini Pateraki, Lea Richard, Pim Kolkman, Maria Fátima Lucas, Victor Guallar, Ric C.H. de Vos, Maurice C. R. Franssen, Alexander van der Krol & Harro Bouwmeester Guaianolides are pharmaceutically interesting molecules. Here, the authors isolate the enzyme kauniolide synthase from feverfew, show that it converts constunolide into a guaianolide via an unusual mechanism of action, and reconstruct the full kauniolide biosynthesis pathway in host organisms. 07 November 2018 | doi: 10.1038/s41467-018-06565-8 Biocatalysis  Mechanism of action  Molecular structure of promoter-bound yeast TFIID OPEN Olga Kolesnikova, Adam Ben-Shem, Jie Luo, Jeff Ranish, Patrick Schultz & Gabor Papai Transcription preinitiation complex assembly begins with the recognition of the gene promoter by the TATA-box Binding Protein-containing TFIID complex. Here the authors present a Cryo-EM structure of promoter-bound yeast TFIID complex, providing a detailed view of its subunit organization and promoter DNA contacts. 07 November 2018 | doi: 10.1038/s41467-018-07096-y Cryoelectron microscopy  Transcriptional regulatory elements  Whole body PD-1 and PD-L1 positron emission tomography in patients with non-small-cell lung cancer OPEN A. N. Niemeijer, D. Leung, M. C. Huisman, I. Bahce, O. S. Hoekstra, G. A. M. S. van Dongen, R. Boellaard, S. Du, W. Hayes, R. Smith, A. D. Windhorst, N. H. Hendrikse, A. Poot, D. J. Vugts, E. Thunnissen, P. Morin, D. Lipovsek, D. J. Donnelly, S. J. Bonacorsi, L. M. Velasquez et al. Assessment of PD-1 and PD-L1 expression can be predictive of immunotherapy response in lung cancer. Here the authors assess the clinical toxicity, safety and quality of non-invasive imaging of PD-1 and PD-L1 expression in 13 patients with advanced lung cancer prior to treatment with immunotherapy and show it correlates with response. 07 November 2018 | doi: 10.1038/s41467-018-07131-y Cancer imaging  Non-small-cell lung cancer  CDC20B is required for deuterosome-mediated centriole production in multiciliated cells OPEN Diego R. Revinski, Laure-Emmanuelle Zaragosi, Camille Boutin, Sandra Ruiz-Garcia, Marie Deprez, Virginie Thomé, Olivier Rosnet, Anne-Sophie Gay, Olivier Mercey, Agnès Paquet, Nicolas Pons, Gilles Ponzio, Brice Marcet, Laurent Kodjabachian & Pascal Barbry In vertebrate multiciliated cells, most centrioles are synthesized and released by poorly characterized structures called deuterosomes. Here, the authors report that the previously-uncharacterized Cdc20b in mouse and Xenopus associates with deuterosomes and contributes to centriole release. 07 November 2018 | doi: 10.1038/s41467-018-06768-z Cell biology  Differentiation  In-situ observation of plasmon-controlled photocatalytic dehydrogenation of individual palladium nanoparticles OPEN Michal Vadai, Daniel K. Angell, Fariah Hayee, Katherine Sytwu & Jennifer A. Dionne While plasmonic nanoparticles offer new opportunities for photocatalysis, understanding the underlying effects remains challenging. Here, the authors visualize plasmon-driven dehydrogenation reaction within individual palladium nanoparticles using light-coupled transmission electron microscopy. 07 November 2018 | doi: 10.1038/s41467-018-07108-x Nanophotonics and plasmonics  Nanoscale materials  Photocatalysis  Transmission electron microscopy  Plasma Tie2 is a tumor vascular response biomarker for VEGF inhibitors in metastatic colorectal cancer OPEN Gordon C. Jayson, Cong Zhou, Alison Backen, Laura Horsley, Kalena Marti-Marti, Danielle Shaw, Nerissa Mescallado, Andrew Clamp, Mark P. Saunders, Juan W. Valle, Saifee Mullamitha, Mike Braun, Jurjees Hasan, Delyth McEntee, Kathryn Simpson, Ross A. Little, Yvonne Watson, Susan Cheung, Caleb Roberts, Linda Ashcroft et al. Identification of response biomarkers is a key step towards the development of personalised care. Here, Jayson et al. identify plasma Tie2 as a biomarker for the response of the tumor vasculature to anti-angiogenics in patients with metastatic colorectal cancer, suggesting that monitoring Tie2 levels may help guide therapy in the clinics. 07 November 2018 | doi: 10.1038/s41467-018-07174-1 Tumour angiogenesis  Tumour biomarkers  Gene inversion potentiates bacterial evolvability and virulence OPEN Christopher N. Merrikh & Houra Merrikh Head-on replication-transcription collisions occur within genes encoded on the lagging DNA strand. Here, the authors show that a large number of originally co-oriented (leading strand) genes have inverted to the head-on orientation, increasing both gene-specific mutation rates, and the overall evolvability of several bacterial pathogens. 07 November 2018 | doi: 10.1038/s41467-018-07110-3 Bacterial genes  Bacterial genetics  Evolution  Evolutionary genetics  Genome evolution  Integrating chemical and mechanical signals through dynamic coupling between cellular protrusions and pulsed ERK activation OPEN J.-Ming Yang, Sayak Bhattacharya, Hoku West-Foyle, Chien-Fu Hung, T.-C. Wu, Pablo A. Iglesias & Chuan-Hsiang Huang Cellular ERK activation occurs as discrete pulses but their relationship to upstream Ras signaling is still under debate. Here, the authors show that Ras signaling associated with cellular protrusions triggers pulsed ERK activation, thereby enabling cells to integrate chemical and mechanical stimuli. 07 November 2018 | doi: 10.1038/s41467-018-07150-9 Actin  Fluorescence imaging  Focal adhesion  Growth factor signalling  Optogenetics  Cohort-wide deep whole genome sequencing and the allelic architecture of complex traits OPEN Arthur Gilly, Daniel Suveges, Karoline Kuchenbaecker, Martin Pollard, Lorraine Southam, Konstantinos Hatzikotoulas, Aliki-Eleni Farmaki, Thea Bjornland, Ryan Waples, Emil V. R. Appel, Elisabetta Casalone, Giorgio Melloni, Britt Kilian, Nigel W. Rayner, Ioanna Ntalla, Kousik Kundu, Klaudia Walter, John Danesh, Adam Butterworth, Inês Barroso et al. Rare genetic variants can contribute to complex traits but this contribution is not well understood. Here, the authors analyse deep whole genome sequencing data across 1457 individuals from an isolated Greek population and find association of rare variant burdens with cardiometabolic traits. 07 November 2018 | doi: 10.1038/s41467-018-07070-8 Cardiovascular genetics  Genetic association study  Next-generation sequencing  Rare variants  Overcoming EGFRG724S-mediated osimertinib resistance through unique binding characteristics of second-generation EGFR inhibitors OPEN Jana Fassunke, Fabienne Müller, Marina Keul, Sebastian Michels, Marcel A. Dammert, Anna Schmitt, Dennis Plenker, Jonas Lategahn, Carina Heydt, Johannes Brägelmann, Hannah L. Tumbrink, Yannic Alber, Sebastian Klein, Alena Heimsoeth, Ilona Dahmen, Rieke N. Fischer, Matthias Scheffler, Michaela A. Ihle, Vanessa Priesner, Andreas H. Scheel et al. Acquired resistance to targeted drugs remains a major clinical challenge in lung adenocarcinoma patients. Here, the authors show how the acquired EGFRG724S mutation induces resistance to third-generation EGFR inhibitors and why the mutant kinase remains susceptible to second-generation inhibitors. 07 November 2018 | doi: 10.1038/s41467-018-07078-0 Cancer genetics  Cancer therapy  Non-small-cell lung cancer  Tumour biomarkers  Proteome evolution under non-substitutable resource limitation OPEN Manu Tamminen, Alexander Betz, Aaron Louis Pereira, Marco Thali, Blake Matthews, Marc J.-F. Suter & Anita Narwani Organisms could respond to essential resource limitation by increasing metabolic efficiency or resource acquisition ability. Here, the authors experimentally evolve green algae under different resource limitations and show convergent evolution of core metabolism rather than resource specialization. 07 November 2018 | doi: 10.1038/s41467-018-07106-z Evolutionary genetics  Experimental evolution  Metabolism  Establishment and characterization of new tumor xenografts and cancer cell lines from EBV-positive nasopharyngeal carcinoma OPEN Weitao Lin, Yim Ling Yip, Lin Jia, Wen Deng, Hong Zheng, Wei Dai, Josephine Mun Yee Ko, Kwok Wai Lo, Grace Tin Yun Chung, Kevin Y. Yip, Sau-Dan Lee, Johnny Sheung-Him Kwan, Jun Zhang, Tengfei Liu, Jimmy Yu-Wai Chan, Dora Lai-Wan Kwong, Victor Ho-Fun Lee, John Malcolm Nicholls, Pierre Busson, Xuefeng Liu et al. The lack of appropriate models restricts pre-clinical research for nasopharyngeal carcinoma (NPC). Here the authors report the development and characterization of NPC patient-derived xenografts (PDXs), and EBV positive NPC cell line from patient tumor, and suggest their potential use in future NPC research. 07 November 2018 | doi: 10.1038/s41467-018-06889-5 Cancer models  Head and neck cancer  PRKAA1/AMPKα1-driven glycolysis in endothelial cells exposed to disturbed flow protects against atherosclerosis OPEN Qiuhua Yang, Jiean Xu, Qian Ma, Zhiping Liu, Varadarajan Sudhahar, Yapeng Cao, Lina Wang, Xianqiu Zeng, Yaqi Zhou, Min Zhang, Yiming Xu, Yong Wang, Neal L. Weintraub, Chunxiang Zhang, Tohru Fukai, Chaodong Wu, Lei Huang, Zhen Han, Tao Wang, David J. Fulton et al. Increased glycolysis and inflammatory responses have been observed in endothelial cells exposed to disturbed flow. However, the role of endothelial glycolysis in atherosclerosis is unclear. Here the authors unveil a protective role for glycolysis by showing that endothelial deletion of Prkaa1 accelerates atherosclerosis in hyperlipidemic mice through a reduction of glycolytic metabolism. 07 November 2018 | doi: 10.1038/s41467-018-07132-x Atherosclerosis  Metabolism  Modern slavery and the race to fish OPEN David Tickler, Jessica J. Meeuwig, Katharine Bryant, Fiona David, John A. H. Forrest, Elise Gordon, Jacqueline Joudo Larsen, Beverly Oh, Daniel Pauly, Ussif R. Sumaila & Dirk Zeller There have been growing concerns about the exploitation of workers in the fisheries sectors. Here, Tickler et al. use a country-level metric of slavery to determine the risk of fisheries-level slavery across 20 countries, and find it rises as unreported catch increases and mean value of catch decreases. 07 November 2018 | doi: 10.1038/s41467-018-07118-9 Developing world  Ethics  Socioeconomic scenarios  Sustainability  Biological plausibility and stochasticity in scalable VO2 active memristor neurons OPEN Wei Yi, Kenneth K. Tsang, Stephen K. Lam, Xiwei Bai, Jack A. Crowell & Elias A. Flores The neuromorphic computing based on complementary metal-oxide-semiconductor transistors holds promise for artificial intelligence, but it suffers from the trade-off between scalability and biological fidelity. Yi et al. emulate 23 types of biological neuronal behaviors using scalable VO2 active memristors. 07 November 2018 | doi: 10.1038/s41467-018-07052-w Engineering  Nanoscience and technology  Self-implantable double-layered micro-drug-reservoirs for efficient and controlled ocular drug delivery OPEN Aung Than, Chenghao Liu, Hao Chang, Phan Khanh Duong, Chui Ming Gemmy Cheung, Chenjie Xu, Xiaomeng Wang & Peng Chen Treatment for eye injuries and diseases is most efficient when delivered directly into the eye. Here, the authors developed a patient-friendly eye patch equipped with an array of detachable microneedles, through which drugs can be delivered through the cornea for an extended period of time. 06 November 2018 | doi: 10.1038/s41467-018-06981-w Biomedical materials  Drug delivery  Roll-to-roll fabrication of touch-responsive cellulose photonic laminates OPEN Hsin-Ling Liang, Mélanie M. Bay, Roberto Vadrucci, Charles H. Barty-King, Jialong Peng, Jeremy J. Baumberg, Michael F. L. De Volder & Silvia Vignolini Self-assembled structures are typically demonstrated on small scales under well-controlled lab environments. Here, the authors present a roll-to-roll process for the continuous manufacturing of square-meters of self-assembled cellulose-based mechano-chromic films and demonstrate the recording of pressure profiles generated by foot-imprints in real time. 06 November 2018 | doi: 10.1038/s41467-018-07048-6 Green photonics  Optical materials and structures  Sensors and biosensors  Epigenetic profiling for the molecular classification of metastatic brain tumors OPEN Javier I. J. Orozco, Theo A. Knijnenburg, Ayla O. Manughian-Peter, Matthew P. Salomon, Garni Barkhoudarian, John R. Jalas, James S. Wilmott, Parvinder Hothi, Xiaowen Wang, Yuki Takasumi, Michael E. Buckland, John F. Thompson, Georgina V. Long, Charles S. Cobbs, Ilya Shmulevich, Daniel F. Kelly, Richard A. Scolyer, Dave S. B. Hoon & Diego M. Marzese The treatment of brain metastases is often limited by the ability to diagnose their origins. Here the authors generate DNA methylomes from the three most frequent types of brain metastases, identify epigenetic signatures specific to each type of metastasis and construct a DNA methylation-based classifier (BrainMETH) to advance brain metastasis diagnosis. 06 November 2018 | doi: 10.1038/s41467-018-06715-y Breast cancer  CNS cancer  DNA methylation  Metastasis  Translational research  High precision FRET studies reveal reversible transitions in nucleosomes between microseconds and minutes OPEN Alexander Gansen, Suren Felekyan, Ralf Kühnemuth, Kathrin Lehmann, Katalin Tóth, Claus A. M. Seidel & Jörg Langowski Nucleosomes compact the genome and regulate access to specific DNA sequences. Here the authors employ single-molecule FRET studies to characterize nucleosome dynamics at different salt concentrations and dissect nucleosome disassembly into elementary steps. 06 November 2018 | doi: 10.1038/s41467-018-06758-1 Biological fluorescence  Nucleosomes  Single-molecule biophysics  Onsite GTP fuelling via DYNAMO1 drives division of mitochondria and peroxisomes OPEN Yuuta Imoto, Yuichi Abe, Masanori Honsho, Kanji Okumoto, Mio Ohnuma, Haruko Kuroiwa, Tsuneyoshi Kuroiwa & Yukio Fujiki Mitochondria and peroxisomes require a dynamin-like GTPase to remodel membranes during division. Here the authors identify DYNAMO1, a nucleoside diphosphate kinase-like protein that generates a local source of GTP to promote constriction of the division machinery and produce daughter organelles. 06 November 2018 | doi: 10.1038/s41467-018-07009-z Mitochondria  Peroxisomes  A diverse suite of pharmaceuticals contaminates stream and riparian food webs OPEN Erinn K. Richmond, Emma J. Rosi, David M. Walters, Jerker Fick, Stephen K. Hamilton, Tomas Brodin, Anna Sundelin & Michael R. Grace Pharmaceuticals are widespread contaminants in surface waters. Here, Richmond and colleagues show that dozens of pharmaceuticals accumulate in  food chains of streams, including in predators in adjacent terrestrial ecosystems. 06 November 2018 | doi: 10.1038/s41467-018-06822-w Community ecology  Environmental chemistry  Freshwater ecology  Riparian ecology  Unveiling a magnetized jet from a low-mass protostar OPEN Chin-Fei Lee, Hsiang-Chih Hwang, Tao-Chung Ching, Naomi Hirano, Shih-Ping Lai, Ramprasad Rao & Paul. T. P Ho The presence of magnetic fields in protostellar jets has been predicted theoretically, but its experimental confirmation has been elusive so far. Here, the authors report the detection of SiO line polarisation in the HH 211 protostellar jet, indicative of the onset of magnetic fields. 06 November 2018 | doi: 10.1038/s41467-018-07143-8 Astrophysical magnetic fields  Interstellar medium  Dynamic laminar rerouting of inter-areal mnemonic signal by cognitive operations in primate temporal cortex OPEN Masaki Takeda, Toshiyuki Hirabayashi, Yusuke Adachi & Yasushi Miyashita Inter-areal interaction has been shown to support various cognitive functions. Here, the authors report that neurons in area 36 flexibly synchronize their activity with different layers of area TE within different epochs of a visually cued recall task suggesting dynamic rerouting of information. 06 November 2018 | doi: 10.1038/s41467-018-07007-1 Cognitive neuroscience  Neural circuits  Structural basis of Gip1 for cytosolic sequestration of G protein in wide-range chemotaxis OPEN Takero Miyagawa, Hiroyasu Koteishi, Yoichiro Kamimura, Yukihiro Miyanaga, Kohei Takeshita, Atsushi Nakagawa & Masahiro Ueda Gip1 sequesters heterotrimeric G proteins in the cytosolic pool which regulates G protein-coupled receptor signalling for eukaryotic chemotaxis. Here the authors provide the crystal structure of Gip1's G protein-binding region and show that mutations in this region lead to G protein sequestration and ultimately chemotaxis defects. 06 November 2018 | doi: 10.1038/s41467-018-07035-x Chemotaxis  X-ray crystallography  Chromium-catalyzed para-selective formation of quaternary carbon centers by alkylation of benzamide derivatives OPEN Pei Liu, Changpeng Chen, Xuefeng Cong, Jinghua Tang & Xiaoming Zeng The selective installation of quaternary carbon substituents on arenes is a highly challenging synthetic goal. Here, the authors report a chromium-catalyzed para-selective functionalization of benzamides with tertiary organometallic reagents under mild conditions. 06 November 2018 | doi: 10.1038/s41467-018-07069-1 Catalyst synthesis  Homogeneous catalysis  Synthetic chemistry methodology  Similarity of introduced plant species to native ones facilitates naturalization, but differences enhance invasion success OPEN Jan Divíšek, Milan Chytrý, Brian Beckage, Nicholas J. Gotelli, Zdeňka Lososová, Petr Pyšek, David M. Richardson & Jane Molofsky Plant functional traits may help distinguish introduced species that will become invasive from those that do not. Here, Divíšek et al. show that functional profiles of naturalized plant species are similar to natives, while those of invasive plant species exist at the edge of the functional trait space. 06 November 2018 | doi: 10.1038/s41467-018-06995-4 Invasive species  Recognition of host Clr-b by the inhibitory NKR-P1B receptor provides a basis for missing-self recognition OPEN Gautham R. Balaji, Oscar A. Aguilar, Miho Tanaka, Miguel A. Shingu-Vazquez, Zhihui Fu, Benjamin S. Gully, Lewis L. Lanier, James R. Carlyle, Jamie Rossjohn & Richard Berry Natural killer (NK) cells eliminate damaged cells, but spare healthy ones by recognizing their expressed ligands via NK inhibitory receptors. Here the authors solve the structure of an NK inhibitory receptor, NKR-P1B, bound to its ligand, Clr-b, with further data suggesting a weak interaction and informing on the basis of missing-self recognition. 05 November 2018 | doi: 10.1038/s41467-018-06989-2 Autoimmunity  Innate lymphoid cells  Signal transduction  X-ray crystallography  Copper adparticle enabled selective electrosynthesis of n-propanol OPEN Jun Li, Fanglin Che, Yuanjie Pang, Chengqin Zou, Jane Y. Howe, Thomas Burdyny, Jonathan P. Edwards, Yuhang Wang, Fengwang Li, Ziyun Wang, Phil De Luna, Cao-Thang Dinh, Tao-Tao Zhuang, Makhsud I. Saidaminov, Shaobo Cheng, Tianpin Wu, Y. Zou Finfrock, Lu Ma, Shang-Hsien Hsieh, Yi-Sheng Liu et al. Upgrading wasted carbon emissions to high-value, multi-carbon products provides an economic route to reduce carbon dioxide levels, but such conversions have proven challenging. Here, authors explore copper adparticles as highly active surfaces that convert CO to n-propanol with high selectivities. 05 November 2018 | doi: 10.1038/s41467-018-07032-0 Electrocatalysis  Energy  Magnetic field compatible circuit quantum electrodynamics with graphene Josephson junctions OPEN J. G. Kroll, W. Uilhoorn, K. L. van der Enden, D. de Jong, K. Watanabe, T. Taniguchi, S. Goswami, M. C. Cassidy & L. P. Kouwenhoven A transmon qubit insensitive to magnetic fields is a crucial element in topological quantum computing. Here, Kroll et al. create graphene transmons by integrating monolayer graphene Josephson junctions into microwave frequency superconducting circuits, allowing them to operate in a parallel magnetic field of 1 T. 05 November 2018 | doi: 10.1038/s41467-018-07124-x Electronic properties and devices  Qubits  Superconducting devices  Superconducting properties and materials  Differential lateral and basal tension drive folding of Drosophila wing discs through two distinct mechanisms OPEN Liyuan Sui, Silvanus Alt, Martin Weigert, Natalie Dye, Suzanne Eaton, Florian Jug, Eugene W. Myers, Frank Jülicher, Guillaume Salbreux & Christian Dahmann Epithelial folding has mainly been linked to forces acting in the apical actomyosin network of cells. Here, the authors show using live imaging that two distinct mechanisms, changes in basal surface tension and changes in lateral surface tension, drive the formation of two folds in the Drosophila wing disc. 05 November 2018 | doi: 10.1038/s41467-018-06497-3 Actin  Computational models  Drosophila  Morphogenesis  Changes in human footprint drive changes in species extinction risk OPEN Moreno Di Marco, Oscar Venter, Hugh P. Possingham & James E. M. Watson Species extinction risk is difficult to measure and often lags behind the pace of increasing threats. Here, the authors demonstrate how monitoring changes in cumulative human pressures could be used to rapidly assess potential change in species' conservation status. 05 November 2018 | doi: 10.1038/s41467-018-07049-5 Biodiversity  Biogeography  Conservation biology  Evidence for Weyl fermions in a canonical heavy-fermion semimetal YbPtBi OPEN C. Y. Guo, F. Wu, Z. Z. Wu, M. Smidman, C. Cao, A. Bostwick, C. Jozwiak, E. Rotenberg, Y. Liu, F. Steglich & H. Q. Yuan Weyl fermions are evidenced in weakly correlated electron systems, but whether they survive strong electron correlations remains obscure. Here, Guo et al. report evidence of the chiral anomaly, topological Hall effect and a cubic temperature dependence of specific heat, suggesting existence of Weyl fermions in a heavy fermion semimetal YbPtBi. 05 November 2018 | doi: 10.1038/s41467-018-06782-1 Electronic properties and materials  Topological insulators  Mechanical strain determines the site-specific localization of inflammation and tissue damage in arthritis OPEN Isabelle Cambré, Djoere Gaublomme, Arne Burssens, Peggy Jacques, Nadia Schryvers, Amélie De Muynck, Leander Meuris, Stijn Lambrecht, Shea Carter, Pieter de Bleser, Yvan Saeys, Luc Van Hoorebeke, George Kollias, Matthias Mack, Paul Simoens, Rik Lories, Nico Callewaert, Georg Schett & Dirk Elewaut Pro-inflammatory factors implicated for the onset of arthritis often have systematic effects, yet arthritis symptoms are mostly limited to the joints. Here the authors show that mechanical strain at the joints promotes the recruitment of monocyte and their differentiation into bone-eroding osteoclast to contribute this tissue specificity. 05 November 2018 | doi: 10.1038/s41467-018-06933-4 Immunology  Pathogenesis  Rheumatology  CHD3 helicase domain mutations cause a neurodevelopmental syndrome with macrocephaly and impaired speech and language OPEN Lot Snijders Blok, Justine Rousseau, Joanna Twist, Sophie Ehresmann, Motoki Takaku, Hanka Venselaar, Lance H. Rodan, Catherine B. Nowak, Jessica Douglas, Kathryn J. Swoboda, Marcie A. Steeves, Inderneel Sahai, Connie T. R. M. Stumpel, Alexander P. A. Stegmann, Patricia Wheeler, Marcia Willing, Elise Fiala, Aaina Kochhar, William T. Gibson, Ana S. A. Cohen et al. Chromodomain Helicase DNA-binding (CHD) proteins have been implicated in neurodevelopmental processes. Here, the authors identify missense variants in CHD3 that disturb its chromatin remodeling activities and cause a neurodevelopmental disorder with macrocephaly and speech and language impairment. 05 November 2018 | doi: 10.1038/s41467-018-06014-6 Chromatin remodelling  Clinical epigenetics  Disease genetics  Neurodevelopmental disorders  Inhibition of mTORC1 by lncRNA H19 via disrupting 4E-BP1/Raptor interaction in pituitary tumours OPEN Ze Rui Wu, Lichong Yan, Yan Ting Liu, Lei Cao, Yu Hang Guo, Yong Zhang, Hong Yao, Lin Cai, Han Bing Shang, Wei Wei Rui, Gang Yang, Xiao Biao Zhang, Hao Tang, Yu Wang, Jin Yan Huang, Yong Xu Wei, Wei Guo Zhao, Bing Su & Zhe Bao Wu LncRNA H19 has been shown to be aberrantly expressed in different cancers. Here, the authors show that H19 lncRNA is downregulated in pituitary adenomas and H19 is able to impede pituitary tumorigenesis via disruption of 4E-BPB1 and Raptor interaction to inhibit the phosphorylation of 4E-BP1. 05 November 2018 | doi: 10.1038/s41467-018-06853-3 Long non-coding RNAs  Pituitary tumours  TOR signalling  Controlling reaction pathways of selective C–O bond cleavage of glycerol OPEN Weiming Wan, Salai C. Ammal, Zhexi Lin, Kyung-Eun You, Andreas Heyden & Jingguang G. Chen The hydrodeoxygenation (HDO) reaction is an important pathway to upgrade glycerol, but a fundamental explanation for the selectivity toward breaking different number and type of the CO bonds is still lacking. Here, the authors explore the possibility of tuning the HDO selectivity by manipulating the surface oxophilicity. 05 November 2018 | doi: 10.1038/s41467-018-07047-7 Catalytic mechanisms  Heterogeneous catalysis  Effect of hydrophobic cations on the oxygen reduction reaction on single‒crystal platinum electrodes OPEN Tomoaki Kumeda, Hiroo Tajiri, Osami Sakata, Nagahiro Hoshi & Masashi Nakamura Highly active catalysts for the oxygen reduction reaction are valuable for fuel cells. Here the authors evaluate catalytic activity of single-crystal platinum electrodes in acidic solutions that contain hydrophobic cations, which prevent the adsorption of poisoning species and form an efficient interface. 05 November 2018 | doi: 10.1038/s41467-018-06917-4 Electrocatalysis  Fuel cells  Germline variation at 8q24 and prostate cancer risk in men of European ancestry OPEN Marco Matejcic, Edward J. Saunders, Tokhir Dadaev, Mark N. Brook, Kan Wang, Xin Sheng, Ali Amin Al Olama, Fredrick R. Schumacher, Sue A. Ingles, Koveela Govindasami, Sara Benlloch, Sonja I. Berndt, Demetrius Albanes, Stella Koutros, Kenneth Muir, Victoria L. Stevens, Susan M. Gapstur, Catherine M. Tangen, Jyotsna Batra, Judith Clements et al. Chromosome 8q24 is known to be a major susceptibility region for prostate cancer risk. Here the authors analyze genetic data across the 8q24 region from 71,535 prostate cancer patients identifying 12 risk loci, three previously unreported, highlighting the contribution of germline variation at this locus. 05 November 2018 | doi: 10.1038/s41467-018-06863-1 Biochemistry  Cancer  Computational biology and bioinformatics  Diseases  Genetics  Potassium channel-based optogenetic silencing OPEN Yinth Andrea Bernal Sierra, Benjamin R. Rost, Martin Pofahl, António Miguel Fernandes, Ramona A. Kopton, Sylvain Moser, Dominik Holtkamp, Nicola Masala, Prateep Beed, John J. Tukker, Silvia Oldani, Wolfgang Bönigk, Peter Kohl, Herwig Baier, Franziska Schneider-Warme, Peter Hegemann, Heinz Beck, Reinhard Seifert & Dietmar Schmitz Optogenetic tools enable precise experimental control of the behaviour of cells. Here, the authors introduce a genetically-encoded two-protein system that enables silencing of excitable cells such as neurons and cardiomyocytes using blue light, and demonstrate its utility both in vitro and In vivo. 05 November 2018 | doi: 10.1038/s41467-018-07038-8 Cardiology  Neuroscience  Optogenetics  Genome sequences of two diploid wild relatives of cultivated sweetpotato reveal targets for genetic improvement OPEN Shan Wu, Kin H. Lau, Qinghe Cao, John P. Hamilton, Honghe Sun, Chenxi Zhou, Lauren Eserman, Dorcus C. Gemenet, Bode A. Olukolu, Haiyan Wang, Emily Crisovan, Grant T. Godden, Chen Jiao, Xin Wang, Mercy Kitavi, Norma Manrique-Carpintero, Brieanne Vaillancourt, Krystle Wiegert-Rininger, Xinsun Yang, Kan Bao et al. Sweetpotato is an important food security crop providing rich source of macro- and micronutrients including carbohydrates and vitamins. Here, the authors assemble of the two diploid relatives of cultivated sweetpotato and identify genes and alleles associated with carotenoid biosynthesis from breeding lines. 02 November 2018 | doi: 10.1038/s41467-018-06983-8 Comparative genomics  Genome duplication  Phylogenomics  Plant breeding  Deciphering highly similar multigene family transcripts from Iso-Seq data with IsoCon OPEN Kristoffer Sahlin, Marta Tomaszkiewicz, Kateryna D. Makova & Paul Medvedev Transcripts from highly-similar multigene families are challenging to decipher. Here, the authors develop IsoCon, a tool for detecting and reconstructing isoforms from multigene families by analyzing long PacBio Iso-Seq reads. 02 November 2018 | doi: 10.1038/s41467-018-06910-x Genome informatics  Transcriptomics  No significant boron in the hydrated mantle of most subducting slabs OPEN Andrew M. McCaig, Sofya S. Titarenko, Ivan P. Savov, Robert A. Cliff, David Banks, Adrian Boyce & Samuele Agostini Boron is one of the main proxies for seawater-derived fluids in subduction zone volcanics and it is vital to characterise the location and concentration of boron in the oceanic lithosphere. Here the authors show that boron concentration in the mantle of downgoing slabs has been overestimated, because boron is strongly decoupled from water in the hydration process. 02 November 2018 | doi: 10.1038/s41467-018-07064-6 Geochemistry  Petrology  Parvalbumin+ interneurons obey unique connectivity rules and establish a powerful lateral-inhibition microcircuit in dentate gyrus OPEN Claudia Espinoza, Segundo Jose Guzman, Xiaomin Zhang & Peter Jonas GABAergic interneurons are known to provide inhibition to allow computational function of neuronal network. Here, Espinoza and colleagues show that connectivity of granule cells and interneurons in the dentate gyrus of mouse hippocampus are consistent with the circuit architecture capable of performing a winners-take-all mechanism. 02 November 2018 | doi: 10.1038/s41467-018-06899-3 Neuroscience  Physiology  Threatened species drive the strength of the carbonate pump in the northern Scotia Sea OPEN C. Manno, F. Giglio, G. Stowasser, S. Fielding, P. Enderlein & G. A. Tarling The Scotia Sea, located in the Southern Ocean, is a major hotspot for the drawdown of atmospheric CO2. Here, the authors show that the strength of the carbonate counter pump doubles when shelled pteropods dominate the plankton calcifier community, counteracting the amount of CO2 transferred to the deep ocean. 02 November 2018 | doi: 10.1038/s41467-018-07088-y Carbon cycle  Ocean sciences  ARTS mediates apoptosis and regeneration of the intestinal stem cell niche OPEN Elle Koren, Yahav Yosefzon, Roi Ankawa, Despina Soteriou, Avi Jacob, Alexander Nevelsky, Rahamim Ben-Yosef, Gil Bar-Sela & Yaron Fuchs The mechanisms regulating intestinal stem cell elimination remain unclear. Here, the authors identify that the pro-apoptotic protein ARTS (a Septin4 isoform) interacts with XIAP in the intestinal stem cell niche to  regulate stem cell survival during intestinal homeostasis and regeneration. 02 November 2018 | doi: 10.1038/s41467-018-06941-4 Apoptosis  Intestinal stem cells  Progressive divisions of multipotent neural progenitors generate late-born chandelier cells in the neocortex OPEN Khadeejah T. Sultan, Wenying Angela Liu, Zhao-Lu Li, Zhongfu Shen, Zhizhong Li, Xin-Jun Zhang, Owen Dean, Jian Ma & Song-Hai Shi Diverse GABAergic neurons arise from progenitors in the medial ganglionic eminence. Here, the authors show these progenitors are progressively fate-restricted, with early-born interneurons occupying cortex in an "inside-out" pattern and later-born types like chandelier cells generated "outside-in". 02 November 2018 | doi: 10.1038/s41467-018-07055-7 Cell fate and cell lineage  Neural progenitors  Exosomes derived from HIV-1-infected cells promote growth and progression of cancer via HIV TAR RNA OPEN Lechuang Chen, Zhimin Feng, Hong Yue, Douglas Bazdar, Uri Mbonye, Chad Zender, Clifford V. Harding, Leslie Bruggeman, Jonathan Karn, Scott F. Sieg, Bingcheng Wang & Ge Jin HIV patients have an increased risk of developing non-AIDS-defining cancers but the molecular mechanisms underlying this predisposition are unclear. Here the authors show that exosomes secreted by HIV-infected T cells or isolated from the blood of HIV-positive patients, stimulate oncogenic properties of cancer cells through the activation of ERK1/2 signaling pathway. 02 November 2018 | doi: 10.1038/s41467-018-07006-2 Cancer  Cancer models  Tumour virus infections  Neomorphic PDGFRA extracellular domain driver mutations are resistant to PDGFRA targeted therapies OPEN Carman K. M. Ip, Patrick K. S. Ng, Kang Jin Jeong, S. H. Shao, Zhenlin Ju, P. G. Leonard, Xu Hua, Christopher P. Vellano, Richard Woessner, Nidhi Sahni, Kenneth L. Scott & Gordon B. Mills Activation of PDGFRA by genomic aberrations contributes to tumor progression in several tumor types. Here, the authors perform functional characterization of 16 novel PDGFRA mutations identified from different tumor types and demonstrate that a neomorphic PDGFRA extracellular domain driver mutation is resistant to PDGFRA targeted therapies. 02 November 2018 | doi: 10.1038/s41467-018-06949-w Cancer genomics  Molecular medicine  Post-translational modifications  Structural biology  Myh10 deficiency leads to defective extracellular matrix remodeling and pulmonary disease OPEN Abnormal alveolar development and homeostasis are common features of pulmonary disease. Here the authors show that Myh10 expression is reduced in emphysema patients, and that Myh10 loss of function impairs alveolar formation and lung morphogenesis via upregulation of matrix metalloproteinase activity and altered matrix remodeling. 02 November 2018 | doi: 10.1038/s41467-018-06833-7 Developmental biology  Extracellular matrix  Respiratory tract diseases  Programming molecular topologies from single-stranded nucleic acids OPEN Xiaodong Qi, Fei Zhang, Zhaoming Su, Shuoxing Jiang, Dongran Han, Baoquan Ding, Yan Liu, Wah Chiu, Peng Yin & Hao Yan Designing nucleic acid-based nanostructures with knots remains challenging. Here the authors present a general strategy to design and construct highly knotted 2D and 3D nanostructures from single-stranded DNA or RNA 02 November 2018 | doi: 10.1038/s41467-018-07039-7 DNA and RNA  DNA nanostructures  RNA nanotechnology  Improved estimation of cancer dependencies from large-scale RNAi screens using model-based normalization and data integration OPEN James M. McFarland, Zandra V. Ho, Guillaume Kugener, Joshua M. Dempster, Phillip G. Montgomery, Jordan G. Bryan, John M. Krill-Burger, Thomas M. Green, Francisca Vazquez, Jesse S. Boehm, Todd R. Golub, William C. Hahn, David E. Root & Aviad Tsherniak Integrated analyses of multiple large-scale screenings can be complicated by batch effects and technical artefacts. McFarland et al. introduce DEMETER2, a hierarchical model coupled with model-based normalization, which allows the assessment of differential dependencies across genes and cell lines. 02 November 2018 | doi: 10.1038/s41467-018-06916-5 Computational models  Data integration  Data processing  Genome informatics  Topological LC-circuits based on microstrips and observation of electromagnetic modes with orbital angular momentum OPEN Yuan Li, Yong Sun, Weiwei Zhu, Zhiwei Guo, Jun Jiang, Toshikaze Kariyado, Hong Chen & Xiao Hu Both photonic topological structures and optical angular momentum have been investigated over the last few years. Here, the authors propose and demonstrate that a honeycomb LC circuit can support topological photonic states with band inversion between modes that carry orbital angular momentum. 02 November 2018 | doi: 10.1038/s41467-018-07084-2 Electrical and electronic engineering  Microwave photonics  Tissue-resident memory T cells populate the human brain OPEN Joost Smolders, Kirstin M. Heutinck, Nina L. Fransen, Ester B. M. Remmerswaal, Pleun Hombrink, Ineke J. M. ten Berge, René A. W. van Lier, Inge Huitinga & Jörg Hamann Tissue-resident immune cells are important for local protections from pathogens. Here the authors show that brain tissue-resident memory T cells (TRM cells) can be further subsetted by CD103 expression, with higher CD103 correlates with increased chemokine receptor and exhaustion markers such as PD1 or CTLA4, but reduced differentiation markers. 02 November 2018 | doi: 10.1038/s41467-018-07053-9 CD8-positive T cells  Gene regulation in immune cells  Immunological memory  Neuroimmunology  Baleen whale cortisol levels reveal a physiological response to 20th century whaling OPEN Stephen J. Trumble, Stephanie A. Norman, Danielle D. Crain, Farzaneh Mansouri, Zach C. Winfield, Richard Sabin, Charles W. Potter, Christine M. Gabriele & Sascha Usenko It has recently been found that stress hormones accumulate in the earwax of whales. Here, the authors use these signatures of stress along with time series of ocean warming and whaling pressure to demonstrate that both stressors were correlated with baleen whale stress over several decades. 02 November 2018 | doi: 10.1038/s41467-018-07044-w Conservation biology  Ecophysiology  Ocean sciences  Targeting IFNα to tumor by anti-PD-L1 creates feedforward antitumor responses to overcome checkpoint blockade resistance OPEN Yong Liang, Haidong Tang, Jingya Guo, Xiangyan Qiu, Zecheng Yang, Zhenhua Ren, Zhichen Sun, Yingjie Bian, Lily Xu, Hairong Xu, Jiao Shen, Yanfei Han, Haidong Dong, Hua Peng & Yang-Xin Fu Despite the presence of tumor-infiltrating lymphocytes, many patients do not respond to PD-L1/PD-1 blockade therapy. Here they show that PD-L1 antibody armed with interferon-α (IFNα) improves tumor targeting and antigen presentation while countering innate or T-cell-drive PD-L1 upregulation, and overcomes resistance to checkpoint blockade therapy. 02 November 2018 | doi: 10.1038/s41467-018-06890-y Cancer  Drug discovery  Immunology  A 34.5 day quasi-periodic oscillation in γ-ray emission from the blazar PKS 2247–131 OPEN Jianeng Zhou, Zhongxiang Wang, Liang Chen, Paul J. Wiita, Jithesh Vadakkumthani, Nidia Morrell, Pengfei Zhang & Jujia Zhang PKS 2247–131 is an active galaxy that has been emitting gamma-ray flares since October 2016. Here, the authors used data obtained with the Fermi Gamma-ray Space Telescope to find that PKS 2247–131 presents a relatively short, month-like flux oscillation at gamma-ray energies of 0.1–300 GeV. 02 November 2018 | doi: 10.1038/s41467-018-07103-2 High-energy astrophysics  Transient astrophysical phenomena  Theory of photoinduced ultrafast switching to a spin-orbital ordered hidden phase OPEN Jiajun Li, Hugo U. R. Strand, Philipp Werner & Martin Eckstein Ultrafast excitation of materials can cause the formation of hidden phases that are not accessible in thermal equilibrium. Li et al. identify and investigate theoretically a hidden phase that can be accessed in systems with intertwined spin and orbital-ordering such as KCuF3. 02 November 2018 | doi: 10.1038/s41467-018-07051-x Electronic properties and materials  Phase transitions and critical phenomena  Theoretical physics  Generalized Hartmann-Shack array of dielectric metalens sub-arrays for polarimetric beam profiling OPEN Zhenyu Yang, Zhaokun Wang, Yuxi Wang, Xing Feng, Ming Zhao, Zhujun Wan, Liangqiu Zhu, Jun Liu, Yi Huang, Jinsong Xia & Martin Wegener Obtaining information on the amplitude, phase and polarization profile of optical beams is of huge interest. Here, the authors create a generalized Hartmann-Shack array with metalenses which measures phase and phase-gradient profiles of optical beams but also measures spatial polarization profiles at the same time. 02 November 2018 | doi: 10.1038/s41467-018-07056-6 Metamaterials  Nanophotonics and plasmonics  NuRD-interacting protein ZFP296 regulates genome-wide NuRD localization and differentiation of mouse embryonic stem cells OPEN Susan L. Kloet, Ino D. Karemaker, Lisa van Voorthuijsen, Rik G. H. Lindeboom, Marijke P. Baltissen, Raghu R. Edupuganti, Deepani W. Poramba-Liyanage, Pascal W. T. C. Jansen & Michiel Vermeulen The NuRD complex plays an important role in regulating lineage commitment and cell fate during early embryonic development. Here the authors present an integrative analysis of MBD3/NuRD composition and binding in mouse embryonic stem cells and neural progenitor cells, providing a molecular basis for genome-wide NuRD localization 02 November 2018 | doi: 10.1038/s41467-018-07063-7 Chromatin remodelling  Gene expression  Stem-cell differentiation  Transcription  Joint single-cell DNA accessibility and protein epitope profiling reveals environmental regulation of epigenomic heterogeneity OPEN Xingqi Chen, Ulrike M. Litzenburger, Yuning Wei, Alicia N. Schep, Edward L. LaGory, Hani Choudhry, Amato J. Giaccia, William J. Greenleaf & Howard Y. Chang Cellular heterogeneity in cancer is complex and difficult to study. Here, the authors introduce Protein-indexed Assay of Transposase Accessible Chromatin (Pi-ATAC), which combines single cell chromatin and proteomic profiling to provide deep insight into the tumor microenvironment, and reveal the role of hypoxia in shaping the regulome of a subset of breast cancer cells in vivo. 02 November 2018 | doi: 10.1038/s41467-018-07115-y Chromatin analysis  Next-generation sequencing  Global-scale control of extensional tectonics on CO2 earth degassing OPEN Giancarlo Tamburello, Silvia Pondrelli, Giovanni Chiodini & Dmitri Rouwet Earth degassing of CO2-rich fluids contributes significantly to the global carbon budget but its link to tectonic regimes remains unclear. Here, the authors use global geological datasets to show that there is a positive spatial correlation between CO2 discharges and extensional tectonic regimes. 02 November 2018 | doi: 10.1038/s41467-018-07087-z Geochemistry  Geodynamics  Tectonics  Volcanology  Sex specific function of epithelial STAT3 signaling in pathogenesis of K-ras mutant lung cancer OPEN Proinflammatory and immunomodulatory events that drive development of K-ras mutant lung adenocarcinoma (LUAD) are poorly understood. Here they develop a lung epithelial specific K-ras mutant/Stat3 conditional knockout mouse model and show a sex-specific role for epithelial Stat3 signaling in K-ras-mutant LUAD. 02 November 2018 | doi: 10.1038/s41467-018-07042-y Cancer  Immunology  Lung cancer  Tumour immunology  An information-theoretic framework for deciphering pleiotropic and noisy biochemical signaling OPEN Tomasz Jetka, Karol Nienałtowski, Sarah Filippi, Michael P. H. Stumpf & Michał Komorowski Signalling responses are marked by substantial cell-to-cell variability. Here, the authors propose an information theoretic framework that accounts for multiple inputs and temporal dynamics to analyse how signals flow through shared network components. 02 November 2018 | doi: 10.1038/s41467-018-07085-1 Information theory  Interferons  Molecular fluctuations  Signal processing  Stochastic modelling  Universal passivation strategy to slot-die printed SnO2 for hysteresis-free efficient flexible perovskite solar module OPEN Tongle Bu, Jing Li, Fei Zheng, Weijian Chen, Xiaoming Wen, Zhiliang Ku, Yong Peng, Jie Zhong, Yi-Bing Cheng & Fuzhi Huang Uniformity and hysteresis are long lasting problems for flexible perovskite solar modules. Here Bu et al. develop a universal potassium passivation strategy to improve the quality of slot-die printed tin oxide electron transport layers and demonstrate highly efficient and hysteresis-free flexible devices. 02 November 2018 | doi: 10.1038/s41467-018-07099-9 Solar cells  Solar energy  Loss of embryonic neural crest derived cardiomyocytes causes adult onset hypertrophic cardiomyopathy in zebrafish OPEN Sarah Abdul-Wajid, Bradley L. Demarest & H. Joseph Yost A small percentage of cardiomyocytes (CM) are of neural crest origin but the function of such cells in the adult zebrafish is unclear. Here, the authors identify this CM subpopulation as expressing the Notch ligand jag2b and if deleted in the embryo, cause severe hypertrophic cardiomyopathy in adulthood. 02 November 2018 | doi: 10.1038/s41467-018-07054-8 Cardiac hypertrophy  Cell lineage  Development  Compliant rolling-contact architected materials for shape reconfigurability OPEN Lucas A. Shaw, Samira Chizari, Matthew Dotson, Yuanping Song & Jonathan B. Hopkins The authors introduce a compliant rolling-contact architected material as a class of shape reconfigurable mechanical metamaterial. They also devise an approach that combines two photon stereolithography and scanning holographic optical tweezers, which allows them to fabricate these architected materials on the microscale. 02 November 2018 | doi: 10.1038/s41467-018-07073-5 Materials for optics  Mechanical engineering  Structural materials  Experimental optical phase measurement approaching the exact Heisenberg limit OPEN Shakib Daryanoosh, Sergei Slussarenko, Dominic W. Berry, Howard M. Wiseman & Geoff J. Pryde Measurements of an unknown optical phase have not yet been performed with the ultimate precision, i.e. saturating the Heisenberg limit. Here, Daryanoosh et al. demonstrate this with a precision within 4% of the Heisenberg limit by combining photonic entanglement and multiple passes. 02 November 2018 | doi: 10.1038/s41467-018-06601-7 Quantum information  Quantum metrology  Quantum optics  Alleviating oxygen evolution from Li-excess oxide materials through theory-guided surface protection OPEN Yongwoo Shin, Wang Hay Kan, Muratahan Aykol, Joseph K. Papp, Bryan D. McCloskey, Guoying Chen & Kristin A. Persson Rechargeable Li-ion batteries can show extensive oxygen loss from the cathode material under operating conditions. Here, the authors use high-throughput computational screening to guide the synthesis of a Tantalum-doped Li-excess cathode that significantly reduces oxygen loss. 02 November 2018 | doi: 10.1038/s41467-018-07080-6 Batteries  Energy storage  Neuronal SIRT1 regulates macronutrient-based diet selection through FGF21 and oxytocin signalling in mice OPEN Sho Matsui, Tsutomu Sasaki, Daisuke Kohno, Keisuke Yaku, Ayumu Inutsuka, Hiromi Yokota-Hashimoto, Osamu Kikuchi, Takayoshi Suga, Masaki Kobayashi, Akihiro Yamanaka, Akihiro Harada, Takashi Nakagawa, Tatsushi Onaka & Tadahiro Kitamura SIRT1 is a NAD+-dependent deacetylase whose functions have been linked to organismal longevity, aging and metabolism. Here, Matsui and colleagues show that neuronal SIRT1 can affect nutrient-related dietary choice in mice, and this effect is mediated by FGF21 signalling and oxytocin. 02 November 2018 | doi: 10.1038/s41467-018-07033-z Endocrine system and metabolic diseases  Feeding behaviour  Homeostasis  A computational framework to study sub-cellular RNA localization OPEN Aubin Samacoits, Racha Chouaib, Adham Safieddine, Abdel-Meneem Traboulsi, Wei Ouyang, Christophe Zimmer, Marion Peter, Edouard Bertrand, Thomas Walter & Florian Mueller Automated analysis of RNA localisation in smFISH data has been elusive. Here, the authors simulate and use a large dataset of images to design and validate a framework for highly accurate classification of sub-cellular RNA localisation patterns from smFISH experiments. 02 November 2018 | doi: 10.1038/s41467-018-06868-w Cellular imaging  Fluorescence imaging  Fluorescence in situ hybridization  Software  Competing protein-protein interactions regulate binding of Hsp27 to its client protein tau OPEN Rebecca Freilich, Miguel Betegon, Eric Tse, Sue-Ann Mok, Olivier Julien, David A. Agard, Daniel R. Southworth, Koh Takeuchi & Jason E. Gestwicki Small heat shock proteins (sHSPs) limit the aggregation of proteins, such as tau. Here the authors show that Hsp27 recognizes two aggregation-prone regions of tau and that this interaction competes with Hsp27 oligomerization. 01 November 2018 | doi: 10.1038/s41467-018-07012-4 Chaperones  Protein aggregation  Direct oxygen isotope effect identifies the rate-determining step of electrocatalytic OER at an oxidic surface OPEN Sandra Haschke, Michael Mader, Stefanie Schlicht, André M. Roberts, Alfredo M. Angeles-Boza, Johannes A. C. Barth & Julien Bachmann Understanding reaction mechanisms is crucial for catalyst design. Here, natural-abundance isotope quantifications of O2 yield mechanistically significant reaction kinetic isotope effects for water oxidation over metal oxide electrodes, the bottleneck step of water electrolysis. 01 November 2018 | doi: 10.1038/s41467-018-07031-1 Catalytic mechanisms  Characterization and analytical techniques  Electrocatalysis  Energy  Mass spectrometry  Self-assembly of polycyclic supramolecules using linear metal-organic ligands OPEN Bo Song, Sneha Kandapal, Jiali Gu, Keren Zhang, Alex Reese, Yuanfang Ying, Lei Wang, Heng Wang, Yiming Li, Ming Wang, Shuai Lu, Xin-Qi Hao, Xiaohong Li, Bingqian Xu & Xiaopeng Li Coordination-driven supramolecular assembly provides the ability to build molecular architectures of impressive complexity. Here, the authors use a series of linear metal-organic ligands with specific sequences to construct multiple generations of precisely-controlled, 2D fractal polycyclic supramolecules. 01 November 2018 | doi: 10.1038/s41467-018-07045-9 Coordination chemistry  Synthetic chemistry methodology  Organic–inorganic nanostructures  Self-assembly  Human antibodies targeting Zika virus NS1 provide protection against disease in a mouse model OPEN Mark J. Bailey, James Duehr, Harrison Dulin, Felix Broecker, Julia A. Brown, Fortuna O. Arumemi, Maria C. Bermúdez González, Victor H. Leyva-Grado, Matthew J. Evans, Viviana Simon, Jean K. Lim, Florian Krammer, Rong Hai, Peter Palese & Gene S. Tan Zika virus infection can cause severe disease in humans and there are currently no specific treatments or vaccines. Here, Bailey et al. isolate antibodies recognizing non-structural protein NS1 and show that they protect mice from disease by an Fc-dependent, non-neutralizing mechanism. 01 November 2018 | doi: 10.1038/s41467-018-07008-0 Antibodies  Complement cascade  Viral host response  Viral infection  Microsphere-based interferometric optical probe OPEN Yongjae Jo, Junhwan Kwon, Moonseok Kim, Wonshik Choi & Myunghwan Choi Tagging and tracking cells with multiplexed labels can help study complex cellular behaviors in living systems. Here, Jo et al. propose and demonstrate the use of Fabry-Perot-like resonances in dielectric microspheres as such a label and call these reflectophores. 01 November 2018 | doi: 10.1038/s41467-018-07029-9 Optical techniques  Sensors and probes  Reciprocal inhibition of YAP/TAZ and NF-κB regulates osteoarthritic cartilage degradation OPEN Yujie Deng, Jinqiu Lu, Wenling Li, Ailing Wu, Xu Zhang, Wenxue Tong, Kiwai Kevin Ho, Ling Qin, Hai Song & Kinglun Kingston Mak Inflammation can promote cartilage degradation by inducing matrix-degrading enzymes via NF-κB. Here the authors uncover reciprocal inhibition of Yap/Taz and NF-κB signaling though TAK1, and identify Yap activity as critical for maintenance of cartilage integrity in a mouse model of osteoarthritis. 01 November 2018 | doi: 10.1038/s41467-018-07022-2 Cartilage development  Disease model  Osteoimmunology  Transcriptional read-through of the long non-coding RNA SVALKA governs plant cold acclimation OPEN Peter Kindgren, Ryan Ard, Maxim Ivanov & Sebastian Marquardt The function of most lncRNA is unknown. Here, the authors show that transcriptional read-through at the Arabidopsis SVALKA locus produces a cryptic lncRNA that overlaps with the neighboring cold-responsive CBF1 gene and limits CBF1 expression via an RNA polymerase II collision-based mechanism. 01 November 2018 | doi: 10.1038/s41467-018-07010-6 Long non-coding RNAs  Plant molecular biology  Plant sciences  Distinct functional elements for outer-surface anti-interference and inner-wall ion gating of nanochannels OPEN Pengcheng Gao, Qun Ma, Defang Ding, Dagui Wang, Xiaoding Lou, Tianyou Zhai & Fan Xia Nanochannels are often modified with functional elements, but most studies have focused on functionalizing only the inner wall. Here, the authors design nanochannels with distinct chemical modifications on the inner and outer surfaces, providing a route to dual-function channels. 01 November 2018 | doi: 10.1038/s41467-018-06873-z Bioanalytical chemistry  Ion channels  Structural insights into the π-π-π stacking mechanism and DNA-binding activity of the YEATS domain OPEN Brianna J. Klein, Kendra R. Vann, Forest H. Andrews, Wesley W. Wang, Jibo Zhang, Yi Zhang, Anastasia A. Beloglazkina, Wenyi Mi, Yuanyuan Li, Haitao Li, Xiaobing Shi, Andrei G. Kutateladze, Brian D. Strahl, Wenshe R. Liu & Tatiana G. Kutateladze YEATS domains are histone acylation readers that recognize crotonyllysine and acetyllysine. Here the authors provide structural insights into how YEATS domains recognize acetyllysines and further show that the human AF9 YEATS domain also binds DNA. 01 November 2018 | doi: 10.1038/s41467-018-07072-6 Chemical modification  Epigenetics  X-ray crystallography  The impact of Arctic sea ice loss on mid-Holocene climate OPEN Hyo-Seok Park, Seong-Joong Kim, Kyong-Hwan Seo, Andrew L. Stewart, Seo-Yeon Kim & Seok-Woo Son Mid-Holocene climate was characterized by strong summer solar heating that decreased Arctic sea ice cover. Here the authors show that this sea ice loss had profound effects on the climate system, distinct from direct effects of solar heating, over North America, northern Asia, and the North Atlantic. 01 November 2018 | doi: 10.1038/s41467-018-07068-2 Climate sciences  Ocean sciences  Palaeoclimate  Non-equilibrium anisotropic colloidal single crystal growth with DNA OPEN Soyoung E. Seo, Martin Girard, Monica Olvera de la Cruz & Chad A. Mirkin Colloidal crystal engineering with DNA can be used to synthesize highly anisotropic hexagonal prismatic microcrystals. This manuscript introduces a plane multiplicity mechanism that can be used to deliberately design non-equilibrium Wulff shapes, a capability important in many areas, including optics and photocatalysis. 01 November 2018 | doi: 10.1038/s41467-018-06982-9 DNA nanotechnology  Nanoparticles  Self-assembly  TRPV4 and KRAS and FGFR1 gain-of-function mutations drive giant cell lesions of the jaw OPEN Carolina Cavalieri Gomes, Tenzin Gayden, Andrea Bajic, Osama F. Harraz, Jonathan Pratt, Hamid Nikbakht, Eric Bareke, Marina Gonçalves Diniz, Wagner Henriques Castro, Pascal St-Onge, Daniel Sinnett, HyeRim Han, Barbara Rivera, Leonie G. Mikael, Nicolas De Jay, Claudia L. Kleinman, Elvis Terci Valera, Angelia V. Bassenden, Albert M. Berghuis, Jacek Majewski et al. Giant cell lesions of the jaw (GCLJ) are debilitating benign tumors of unclear origin. The authors identify driver recurrent somatic mutations in TRPV4, KRAS and FGFR1 and show they converge on aberrant activation of the MAPK pathway. Their findings extend the spectrum of TRPV4 channelopathies and provide rationale for targeted therapies at the bedside in GCLJ. 01 November 2018 | doi: 10.1038/s41467-018-06690-4 Calcium channels  Cancer epigenetics  Metasurface eyepiece for augmented reality OPEN Gun-Yeal Lee, Jong-Young Hong, SoonHyoung Hwang, Seokil Moon, Hyeokjung Kang, Sohee Jeon, Hwi Kim, Jun-Ho Jeong & Byoungho Lee Here, the authors demonstrate a metasurface application to realize a compact near-eye display system for augmented reality with a wide field of view, full-color imaging, high resolution and a sufficiently large eyebox. 01 November 2018 | doi: 10.1038/s41467-018-07011-5 Displays  Metamaterials  Photonic devices  Three-dimensional topological acoustic crystals with pseudospin-valley coupled saddle surface states OPEN Cheng He, Si-Yuan Yu, Hao Ge, Huaiqiang Wang, Yuan Tian, Haijun Zhang, Xiao-Chen Sun, Y. B. Chen, Jian Zhou, Ming-Hui Lu & Yan-Feng Chen Valley states can be used to realise topologically protected transport. Here, He et al. show that considering additional degrees of freedom, together with glide symmetry, allow the design of 2D acoustic topological pseudospin-valley coupled saddle surface states in 3D structures. 01 November 2018 | doi: 10.1038/s41467-018-07030-2 Acoustics  Topological insulators  Microfluidic-spinning construction of black-phosphorus-hybrid microfibres for non-woven fabrics toward a high energy density flexible supercapacitor OPEN Xingjiang Wu, Yijun Xu, Ying Hu, Guan Wu, Hengyang Cheng, Qiang Yu, Kai Zhang, Wei Chen & Su Chen Supercapacitors that exhibit flexibility and deformability are attractive for wearable devices; however achieving high energy density remains challenging. Here the authors report a non-woven fabric based on black phosphorus and carbon nanotubes for use in a supercapacitor with notable performance. 01 November 2018 | doi: 10.1038/s41467-018-06914-7 Supercapacitors  Two-dimensional materials  Acute microglia ablation induces neurodegeneration in the somatosensory system OPEN Stephen J. Rubino, Lior Mayo, Isabella Wimmer, Victoria Siedler, Florian Brunner, Simon Hametner, Asaf Madi, Amanda Lanser, Thais Moreira, Dustin Donnelly, Laura Cox, Rafael Machado Rezende, Oleg Butovsky, Hans Lassmann & Howard L. Weiner Previous studies have shown that depletion of microglia at early developmental stages leads to neuronal death. Here the authors use an inducible system to ablate microglia in adulthood, showing that such depletion leads to ataxia-like behavior and neuronal loss, and identifying the inflammatory components that may contribute. 01 November 2018 | doi: 10.1038/s41467-018-05929-4 Microglia  Neurodegeneration  Neuroimmunology  Stability and nature of the volume collapse of ε-Fe2O3 under extreme conditions OPEN J. A. Sans, V. Monteseguro, G. Garbarino, M. Gich, V. Cerantola, V. Cuartero, M. Monte, T. Irifune, A. Muñoz & C. Popescu Iron oxides exist in a variety of polymorphs at different pressure and temperature conditions, displaying important magnetic properties, and are major constituents of the Earth's interior. Here the authors investigate the structural and electronic changes in the uncommon epsilon phase under compression to deep Mantle pressures. 01 November 2018 | doi: 10.1038/s41467-018-06966-9 Geochemistry  Geophysics  Phase transitions and critical phenomena  Structure of solids and liquids  Vapor detection and discrimination with a panel of odorant receptors OPEN Hitoshi Kida, Yosuke Fukutani, Joel D. Mainland, Claire A. de March, Aashutosh Vihani, Yun Rose Li, Qiuyi Chi, Akemi Toyama, Linda Liu, Masaharu Kameda, Masafumi Yohda & Hiroaki Matsunami Biomimetic "noses" have been proposed to replace trained animals for chemical detection. Here the authors select 31 mouse olfactory receptors (ORs), based on a large cell-based screen of >800 ORs against seven chemicals, to build an OR-based sensor able to discriminate structurally similar compounds. 01 November 2018 | doi: 10.1038/s41467-018-06806-w Biomimetics  Molecular biology  Hard rock landforms generate 130 km ice shelf channels through water focusing in basal corrugations OPEN Hafeez Jeofry, Neil Ross, Anne Le Brocq, Alastair G.C. Graham, Jilu Li, Prasad Gogineni, Mathieu Morlighem, Thomas Jordan & Martin J. Siegert Subglacial landforms, formed by glacial processes operating over long timescales, influence ice dynamics. Here, the authors show how mega-scale landforms at an Antarctic ice stream grounding zone modulate basal water flow, causing extensive channels in the ice shelf downstream that may impact its structure. 01 November 2018 | doi: 10.1038/s41467-018-06679-z Cryospheric science  Palaeoclimate  Short-chain ketone production by engineered polyketide synthases in Streptomyces albus OPEN Satoshi Yuzawa, Mona Mirsiaghi, Renee Jocic, Tatsuya Fujii, Fabrice Masson, Veronica T. Benites, Edward E. K. Baidoo, Eric Sundstrom, Deepti Tanjore, Todd R. Pray, Anthe George, Ryan W. Davis, John M. Gladden, Blake A. Simmons, Leonard Katz & Jay D. Keasling Mutating natural enzymes is effective in broadening the substrate or product range, but generally leads to reduced titers. Here the authors engineer hybrid polyketide synthases for efficient production of short-chain ketones from plant biomass hydrolysates in Streptomyces, which can increase the octane of gasoline. 01 November 2018 | doi: 10.1038/s41467-018-07040-0 Biocatalysis  Metabolic engineering  Protein design  Disease-relevant transcriptional signatures identified in individual smooth muscle cells from healthy mouse vessels OPEN Lina Dobnikar, Annabel L. Taylor, Joel Chappell, Phoebe Oldach, Jennifer L. Harman, Erin Oerton, Elaine Dzierzak, Martin R. Bennett, Mikhail Spivakov & Helle F. Jørgensen Vascular smooth muscle cell (VSMC) accumulation is associated with cardiovascular disease. Here, the authors combine single-cell RNA sequencing with lineage labelling to profile VSMC heterogeneity in healthy mice. They show that upregulation of Sca1 in a rare VSMC subpopulation marks a cell phenotype that is prevalent in disease. 01 November 2018 | doi: 10.1038/s41467-018-06891-x Atherosclerosis  Muscle  Transcriptomics  Non-resonant light scattering in dispersions of 2D nanosheets OPEN Andrew Harvey, Claudia Backes, John B. Boland, Xiaoyun He, Aideen Griffin, Beata Szydlowska, Cian Gabbett, John F. Donegan & Jonathan N. Coleman Quantitative analysis of the extinction spectra of dispersions of 2D materials is complicated by light scattering. Here, the authors investigate non-resonant scattering in suspensions of wide-bandgap nanosheets, and develop a general model which allows the scattering spectra to be used as metrics for particle size in nanosheet dispersions. 01 November 2018 | doi: 10.1038/s41467-018-07005-3 Materials science  Optics and photonics    Nature Communications EVENT Artificial Intelligence International Conference - A2IC 2018 21.11.18 Barcelona, Spain More science events from     Latest Author Corrections     Author Correction: Larger mammals have longer faces because of size-related constraints on skull form OPEN Andrea Cardini & P. David Polly 06 November 2018 | doi: 10.1038/s41467-018-07156-3 Author Correction: A comprehensive map coupling histone modifications with gene regulation in adult dopaminergic and serotonergic neurons OPEN Erik Södersten, Konstantinos Toskas, Vilma Rraklli, Katarina Tiklova, Åsa K. Björklund, Markus Ringnér, Thomas Perlmann & Johan Holmberg 02 November 2018 | doi: 10.1038/s41467-018-07154-5 Epigenetics and plasticity  Histone analysis  Parkinson's disease  Author Correction: The structure of the ubiquitin-like modifier FAT10 reveals an alternative targeting mechanism for proteasomal degradation OPEN Annette Aichem, Samira Anders, Nicola Catone, Philip Rößler, Sophie Stotz, Andrej Berg, Ricarda Schwab, Sophia Scheuermann, Johanna Bialas, Mira C. Schütz-Stoffregen, Gunter Schmidtke, Christine Peter, Marcus Groettrup & Silke Wiesner 02 November 2018 | doi: 10.1038/s41467-018-07183-0 Proteasome  Solution-state NMR  Ubiquitylation  X-ray crystallography  Author Correction: Pan-cancer deconvolution of tumour composition using DNA methylation OPEN Ankur Chakravarthy, Andrew Furness, Kroopa Joshi, Ehsan Ghorani, Kirsty Ford, Matthew J. Ward, Emma V. King, Matt Lechner, Teresa Marafioti, Sergio A. Quezada, Gareth J. Thomas, Andrew Feber & Tim R. Fenton 02 November 2018 | doi: 10.1038/s41467-018-07155-4 Cancer genomics  Cancer microenvironment  Epigenomics  Predictive medicine  Author Correction: A mixed antagonistic/synergistic miRNA repression model enables accurate predictions of multi-input miRNA sensor activity OPEN Jeremy J. Gam, Jonathan Babb & Ron Weiss 02 November 2018 | doi: 10.1038/s41467-018-07158-1 Computational models  miRNAs  Reporter genes  Synthetic biology  Author Correction: Parallels between experimental and natural evolution of legume symbionts OPEN Camille Clerissi, Marie Touchon, Delphine Capela, Mingxing Tang, Stéphane Cruveiller, Clémence Genthon, Céline Lopez-Roques, Matthew A. Parker, Lionel Moulin, Catherine Masson-Boivin & Eduardo P. C. Rocha 02 November 2018 | doi: 10.1038/s41467-018-07205-x Comparative genomics  Experimental evolution  Genome evolution  Mobile elements  Author Correction: Gap junction protein Connexin-43 is a direct transcriptional regulator of N-cadherin in vivo OPEN Maria Kotini, Elias H. Barriga, Jonathan Leslie, Marc Gentzel, Verena Rauschenberger, Alexandra Schambony & Roberto Mayor 01 November 2018 | doi: 10.1038/s41467-018-07167-0 Cell adhesion  Cell migration  Morphogenesis      Latest Publisher Corrections     Publisher Correction: Diverse populations of local interneurons integrate into the Drosophila adult olfactory circuit OPEN Nan-Fu Liou, Shih-Han Lin, Ying-Jun Chen, Kuo-Ting Tsai, Chi-Jen Yang, Tzi-Yang Lin, Ting-Han Wu, Hsin-Ju Lin, Yuh-Tarng Chen, Daryl M. Gohl, Marion Silies & Ya-Hui Chou 06 November 2018 | doi: 10.1038/s41467-018-07001-7 Developmental biology  Neuroscience  Publisher Correction: Notch1 regulates the initiation of metastasis and self-renewal of Group 3 medulloblastoma OPEN Suzana A. Kahn , Xin Wang, Ryan T. Nitta, Sharareh Gholamin, Johanna Theruvath, Gregor Hutter, Tej D. Azad, Lina Wadi, Sara Bolin, Vijay Ramaswamy, Rogelio Esparza, Kun-Wei Liu, Michael Edwards, Fredrik J. Swartling, Debashis Sahoo, Gordon Li, Robert J. Wechsler-Reya, Jüri Reimand, Yoon-Jae Cho, Michael D. Taylor et al. 02 November 2018 | doi: 10.1038/s41467-018-07182-1 Cancer in the nervous system  Cell invasion  CNS cancer  Self-renewal      Advertisement =================================== Register for the latest nature.com webcast Quantitative approaches in discovery proteomics: How do they measure up? - Thursday, November 7, 2018 Register for FREE today Sponsored by: Thermo Fisher Scientific    ==================================   Advertisement Nature Briefing is an essential round-up of science news, opinion and analysis, free in your inbox every weekday. With Nature Briefing, we'll keep you updated on the latest research, so you can focus on yours. Click here to sign up.   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. Find the latest scientific conferences, courses, meetings and symposia on natureevents.com. 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