Nature Communications - 28 November 2018

Weekly Content Alert Nature Communications is fully open access. Read more. 28 November 2018  Latest content: Comment Articles Author Corrections Journal homepage Recommend to library Web feed     Latest Comment     Cross-species interference of gene expression OPEN Irene de Bruijn & Koen J. F. Verhoeven 27 November 2018 | doi: 10.1038/s41467-018-07353-0 Epigenetics  Microbial ecology  Microbiology      Latest Articles View all Articles     Disease-associated genotypes of the commensal skin bacterium Staphylococcus epidermidis OPEN Guillaume Méric, Leonardos Mageiros, Johan Pensar, Maisem Laabei, Koji Yahara, Ben Pascoe, Nattinee Kittiwan, Phacharaporn Tadee, Virginia Post, Sarah Lamble, Rory Bowden, James E. Bray, Mario Morgenstern, Keith A. Jolley, Martin C. J. Maiden, Edward J. Feil, Xavier Didelot, Maria Miragaia, Herminia de Lencastre, T. Fintan Moriarty et al. Staphylococcus epidermidis is carried asymptomatically by virtually all humans but is also a major cause of nosocomial infection. Here, the authors study 141 isolates from healthy carriage and 274 isolates from clinical infections, and identify genes and genetic elements associated with pathogenicity. 28 November 2018 | doi: 10.1038/s41467-018-07368-7 Bacterial evolution  Evolutionary biology  Evolutionary genetics  Infectious-disease diagnostics  A preclinical model of chronic pancreatitis driven by trypsinogen autoactivation OPEN Andrea Geisz & Miklós Sahin-Tóth Inflammatory diseases of the pancreas are currently untreatable and lack a pre-clinical model that recapitulates the hallmarks of the human pathology. Here, the authors generate a knock-in mouse strain with increased tripsinogen autoactivation and show that it develops spontaneous pancreatic pathology with some key features of human pancreatitis. 28 November 2018 | doi: 10.1038/s41467-018-07347-y Acute pancreatitis  Chronic pancreatitis  Interethnic analyses of blood pressure loci in populations of East Asian and European descent OPEN Fumihiko Takeuchi, Masato Akiyama, Nana Matoba, Tomohiro Katsuya, Masahiro Nakatochi, Yasuharu Tabara, Akira Narita, Woei-Yuh Saw, Sanghoon Moon, Cassandra N. Spracklen, Jin-Fang Chai, Young-Jin Kim, Liang Zhang, Chaolong Wang, Huaixing Li, Honglan Li, Jer-Yuarn Wu, Rajkumar Dorajoo, Jovia L. Nierenberg, Ya Xing Wang et al. Blood pressure (BP) is a major risk factor for cardiovascular disease and more than 200 genetic loci associated with BP are known. Here, the authors perform discovery GWAS for BP in East Asians and meta-analysis in East Asians and Europeans and report ancestry-specific BP SNPs and selection signals. 28 November 2018 | doi: 10.1038/s41467-018-07345-0 Cardiovascular genetics  Circulation  Genome-wide association studies  Hypertension  MRP3 is a sex determining gene in the diatom Pseudo-nitzschia multistriata OPEN Monia T. Russo, Laura Vitale, Laura Entrambasaguas, Konstantinos Anestis, Neri Fattorini, Filomena Romano, Carmen Minucci, Pasquale De Luca, Elio Biffali, Wim Vyverman, Remo Sanges, Marina Montresor & Maria I. Ferrante Little is known about how sex is determined in diatoms. Here, Russo et al. show that in the diatom Pseudo-nitzschia multistriata, the gene MRP3 regulates mating type and the expression of four other mating-type biased genes. 28 November 2018 | doi: 10.1038/s41467-018-07496-0 Evolutionary genetics  Gene regulation  Genetic association study  39Ar dating with small samples provides new key constraints on ocean ventilation OPEN Sven Ebser, Arne Kersting, Tim Stöven, Zhongyi Feng, Lisa Ringena, Maximilian Schmidt, Toste Tanhua, Werner Aeschbach & Markus K. Oberthaler The rare noble gas isotope 39Ar is the ideal tracer to investigate the ventilation of the deep ocean in the time range of 50 to 1000 years. Here the authors constrain transit time distributions in the eastern Tropical Atlantic with 39Ar-measurements done on a sample size of 5 L of water utilising modern atom-optical techniques. 28 November 2018 | doi: 10.1038/s41467-018-07465-7 Atom optics  Characterization and analytical techniques  Marine chemistry  Physical oceanography  Quantum physics  Abiotic formation of condensed carbonaceous matter in the hydrating oceanic crust OPEN Marie Catherine Sforna, Daniele Brunelli, Céline Pisapia, Valerio Pasini, Daniele Malferrari & Bénédicte Ménez Thermodynamic calculations suggest that condensed carbonaceous matter should be the dominant product of abiotic organic synthesis during serpentinization of the oceanic crust at Mid-Ocean Ridges. Here the authors report natural occurrences of such carbonaceous matter formed during low temperature alteration. 28 November 2018 | doi: 10.1038/s41467-018-07385-6 Carbon cycle  Petrology  Thermodynamic phases in two-dimensional active matter OPEN Juliane U. Klamser, Sebastian C. Kapfer & Werner Krauth Adapting statistical physics tools to study active systems is challenging due to their non-equilibrium nature. Here the authors use simulations to present a phase diagram of a 2D active system, showing a two-step melting scenario far from equilibrium along with gas-liquid motility-induced phase separation. 28 November 2018 | doi: 10.1038/s41467-018-07491-5 Phase transitions and critical phenomena  Statistical physics  Tuning anhydrous proton conduction in single-ion polymers by crystalline ion channels OPEN Onnuri Kim, Kyoungwook Kim, U. Hyeok Choi & Moon Jeong Park High-conductivity solid-state electrolyte materials with minimal polarization loss are difficult to synthesize. Here the authors show single-ion block copolymers with crystalline protogenic channels having a promising potential to be used as efficient proton conductors. 28 November 2018 | doi: 10.1038/s41467-018-07503-4 Fuel cells  Polymer characterization  Polymers  Cortical beta power reflects decision dynamics and uncovers multiple facets of post-error adaptation OPEN Adrian G. Fischer, Roland Nigbur, Tilmann A. Klein, Claudia Danielmeier & Markus Ullsperger People slow down reactions after errors, yet it is debated whether the mechanisms behind this slowing are beneficial for future performance. Here, the authors show that EEG measures converge with model predictions supporting a complex but overall beneficial mechanism of post-error slowing. 28 November 2018 | doi: 10.1038/s41467-018-07456-8 Attention  Cognitive control  Decision  Human behaviour  A biomimetic nanoreactor for synergistic chemiexcited photodynamic therapy and starvation therapy against tumor metastasis OPEN Zhengze Yu, Ping Zhou, Wei Pan, Na Li & Bo Tang Photodynamic therapy is usually ineffective against deeply seated metastatic tumors due to poor penetration of the excitation light. Here, the authors design a biomimetic nanoreactor which can convert nutriment glucose into toxic singlet oxygen via chemiluminescence resonance energy transfer with no light excitation and demonstrate its high efficacy in a mouse lung metastatic model. 28 November 2018 | doi: 10.1038/s41467-018-07197-8 Biomaterials  Cancer therapy  Metastasis  Nanomedicine  Therapeutics  Efficient and stable sky-blue delayed fluorescence organic light-emitting diodes with CIEy below 0.4 OPEN Chin-Yiu Chan, Masaki Tanaka, Hajime Nakanotani & Chihaya Adachi The potential of organic light-emitting diodes (OLEDs) for display and lighting applications is limited by the need for blue emitters that show efficient and stable operation. Here, the authors report stable and efficient thermally activated delayed fluorescence OLEDs based on a sky-blue emitter. 28 November 2018 | doi: 10.1038/s41467-018-07482-6 Organic LEDs  Selective expansion of myeloid and NK cells in humanized mice yields human-like vaccine responses OPEN Florian Douam, Carly G. K. Ziegler, Gabriela Hrebikova, Bruno Fant, Robert Leach, Lance Parsons, Wei Wang, Jenna M. Gaska, Benjamin Y. Winer, Brigitte Heller, Alex K. Shalek & Alexander Ploss Humanized mice are an enabling technology to explore human immunity and disease. Here, Douam et al. provide an in-depth comparison of immune responses to yellow fever vaccine in human vaccinees, conventional and second-generation humanized mice and define a workflow to evaluate and refine these models. 28 November 2018 | doi: 10.1038/s41467-018-07478-2 Immunology  Live attenuated vaccines  Vaccines  Intralocus sexual conflict can resolve the male-female health-survival paradox OPEN C. Ruth Archer, Mario Recker, Eoin Duffy & David J. Hosken Although men have lower survival across ages, women have poorer health than men as they age. Here, Archer et al. suggest that this pattern is explained by intralocus sexual conflict and provide supporting evidence from a mathematical model and experiments with Drosophila. 28 November 2018 | doi: 10.1038/s41467-018-07541-y Evolutionary genetics  Evolutionary theory  Experimental evolution  Free-space creation of ultralong anti-diffracting beam with multiple energy oscillations adjusted using optical pen OPEN Xiaoyu Weng, Qiang Song, Xiaoming Li, Xiumin Gao, Hanming Guo, Junle Qu & Songlin Zhuang Anti-diffracting propagation of light beams over infinite distance requires infinite power. Here, the authors develop an approach that uses multiple energy oscillation mechanisms to overcome this limitation, developing a versatile optical pen. 28 November 2018 | doi: 10.1038/s41467-018-07282-y Optical physics  Self-assembled nematic colloidal motors powered by light OPEN Ye Yuan, Ghaneema N. Abuhaimed, Qingkun Liu & Ivan I. Smalyukh Biological motors which convert energy into mechanical work inspire the fabrication of synthetic motors. Here the authors demonstrate self-assembled colloidal motors which are driven to a range of responses controlled by the feedback between light polarization and deformation of a liquid crystal. 28 November 2018 | doi: 10.1038/s41467-018-07518-x Liquid crystals  Molecular machines and motors  Self-assembly  Preclinical development of a microRNA-based therapy for intervertebral disc degeneration OPEN Ming-liang Ji, Hua Jiang, Xue-jun Zhang, Pei-liang Shi, Chao Li, Hao Wu, Xiao-tao Wu, Yun-tao Wang, Chen Wang & Jun Lu Intervertebral disk degeneration (IDD) is characterized by changes in the nucleus pulposus (NP) extra cellular matrix that compromise disk structural integrity. In a miRNA screen of human IDD patient NP tissue, the authors identify deregulated miR-141 and show that direct injection of nanoparticle-coupled miR-141 into the NP alleviates IDD in mice. 28 November 2018 | doi: 10.1038/s41467-018-07360-1 Experimental models of disease  Preclinical research  Translational research  Communication and quorum sensing in non-living mimics of eukaryotic cells OPEN Henrike Niederholtmeyer, Cynthia Chaggan & Neal K. Devaraj Cells communicate through chemical and mechanical signals but emulating these in non-living mimics has been challenging. Here the authors present a porous mimic with a DNA-hydrogel 'nucleus' that can communicate through diffusive protein signals. 28 November 2018 | doi: 10.1038/s41467-018-07473-7 Bioinspired materials  Synthetic biology  Connectivity and network state-dependent recruitment of long-range VIP-GABAergic neurons in the mouse hippocampus OPEN Ruggiero Francavilla, Vincent Villette, Xiao Luo, Simon Chamberland, Einer Muñoz-Pino, Olivier Camiré, Kristina Wagner, Viktor Kis, Peter Somogyi & Lisa Topolnik Long-range GABAergic hippocampal neurons project to cortical and subcortical areas, while vasoactive intestinal peptide (VIP+) interneurons can inhibit other GABAergic neurons. Here, authors discover a VIP+, long-range projecting GABAergic neuron whose activity is associated with quiet wakefulness. 28 November 2018 | doi: 10.1038/s41467-018-07162-5 Neuroscience  Physiology  Single-cell RNA sequencing unveils an IL-10-producing helper subset that sustains humoral immunity during persistent infection OPEN Gang Xin, Ryan Zander, David M. Schauder, Yao Chen, Jason S. Weinstein, William R. Drobyski, Vera Tarakanova, Joseph Craft & Weiguo Cui During chronic infection CD4+ T cells can progressively acquire IL-10 producing functionality. Here the authors use single cell RNA sequencing to interrogate the IL10 CD4+ T cell compartment in a murine model of chronic infection and identify Il10-producing Tfh involved in promotion of the antiviral humoral immune response. 28 November 2018 | doi: 10.1038/s41467-018-07492-4 Follicular T-helper cells  Germinal centres  Infection  Viral infection  Dynamic and non-contact 3D sample rotation for microscopy OPEN Frederic Berndt, Gopi Shah, Rory M. Power, Jan Brugués & Jan Huisken Sample orientation is crucial to ensure optimal image quality in light microscopy. Here the authors enable multi-axis orientation of fixed mouse embryos and shrimp, and live zebrafish embryos and larvae by introducing magnetic beads and rotating the sample with a magnetic field in a microscope. 28 November 2018 | doi: 10.1038/s41467-018-07504-3 Biomedical engineering  Cell lineage  Imaging techniques  Light-sheet microscopy  Magnetic tweezers  Metal-organic framework glasses with permanent accessible porosity OPEN Metal–organic framework glasses have emerged as a new family of melt-quenched glass, but have yet to display the accessible porosity of their crystalline counterparts. Here, Bennett and colleagues report that glasses derived from ZIF-76 parent materials possess 4 – 8 Å pores and exhibit reversible gas adsorption. 28 November 2018 | doi: 10.1038/s41467-018-07532-z Glasses  Metal–organic frameworks  Porous materials  Solid-state chemistry  The Trithorax protein Ash1L promotes myoblast fusion by activating Cdon expression OPEN Ilaria Castiglioni, Roberta Caccia, Jose Manuel Garcia-Manteiga, Giulia Ferri, Giuseppina Caretti, Ivan Molineris, Kenichi Nishioka & Davide Gabellini Myoblast fusion in skeletal muscle is a complex process but how this is regulated is unclear. Here, the authors identify Ash1L, a histone methyltransferase, as modulating myoblast fusion via activation of the myogenesis gene Cdon, and observe decreased Ash1L expression in Duchenne muscular dystrophy. 28 November 2018 | doi: 10.1038/s41467-018-07313-8 Differentiation  Epigenetics  Gene regulation  Skeletal muscle  A new look at effective interactions between microgel particles OPEN Maxime J. Bergman, Nicoletta Gnan, Marc Obiols-Rabasa, Janne-Mieke Meijer, Lorenzo Rovigatti, Emanuela Zaccarelli & Peter Schurtenberger Changing temperature of thermoresponsive microgels is typically used as a proxy for modifying volume fraction based on the assumption that doing so does not alter the interaction potential. Bergman et al. shows that this picture is oversimplified and microgels are better described by a multi-Hertzian model. 28 November 2018 | doi: 10.1038/s41467-018-07332-5 Colloids  Gels and hydrogels  Physical chemistry  The phospholipid PI(3,4)P2 is an apical identity determinant OPEN Álvaro Román-Fernández, Julie Roignot, Emma Sandilands, Marisa Nacke, Mohammed A. Mansour, Lynn McGarry, Emma Shanks, Keith E. Mostov & David M. Bryant During de novo establishment of apical-basal polarity, a basolateral membrane must be converted into an apical delivery zone. Here, the authors use MDCK 3D cysts to uncover that the phospholipid PI(3,4)P2 is an apical membrane determinant. 28 November 2018 | doi: 10.1038/s41467-018-07464-8 Apicobasal polarity  Membrane trafficking  Morphogenesis  Phosphoinositol signalling  Tradeoffs in demographic mechanisms underlie differences in species abundance and stability OPEN Lauren M. Hallett, Emily C. Farrer, Katharine N. Suding, Harold A. Mooney & Richard J. Hobbs Protection of rare species requires advanced understanding of the reasons for their rarity. Here, Hallett et al. show that potential growth rate and density dependence together predict rarity vs. abundance, and that the stability of species of similar sizes depends on the relative strength of these two mechanisms. 28 November 2018 | doi: 10.1038/s41467-018-07535-w Community ecology  Grassland ecology  Population dynamics  Synergistic enzymatic and bioorthogonal reactions for selective prodrug activation in living systems OPEN Qingxin Yao, Feng Lin, Xinyuan Fan, Yanpu Wang, Ye Liu, Zhaofei Liu, Xingyu Jiang, Peng R. Chen & Yuan Gao The side effects of cancer drugs limit their utility. Here, the authors developed a method in which an inactive (prodrug) version of the cancer drug doxorubicin enters tumour cells and then gets activated inside the cells upon a trigger facilitated by enzyme-instructed supramolecular self-assembly. 28 November 2018 | doi: 10.1038/s41467-018-07490-6 Chemotherapy  Drug delivery  Targeted therapies  Expansive microbial metabolic versatility and biodiversity in dynamic Guaymas Basin hydrothermal sediments OPEN Nina Dombrowski, Andreas P. Teske & Brett J. Baker The diversity and function of microbes inhabiting hydrothermal areas is a topic of active interest in marine microbiology. Here, the authors assemble genomes from Guaymas Basin hydrothermal sediments and describe the metabolic roles of the bacterial community, which includes five new bacterial candidate phyla 27 November 2018 | doi: 10.1038/s41467-018-07418-0 Microbiome  Next-generation sequencing  Megadomains and superloops form dynamically but are dispensable for X-chromosome inactivation and gene escape OPEN John E. Froberg, Stefan F. Pinter, Andrea J. Kriz, Teddy Jégu & Jeannie T. Lee The mammalian inactive X-chromosome (Xi) is organized into megadomains and superloops directed by the noncoding loci, Dxz4 and Firre. Here the authors provide evidence that megadomains do not precede Xist expression or Xi gene silencing, and suggest that Dxz4, Firre, and megadomains are dispensable for Xi silencing and escape from X-inactivation. 27 November 2018 | doi: 10.1038/s41467-018-07446-w Chromatin structure  Chromosomes  Dosage compensation  Long non-coding RNAs  Hysteresis control of epithelial-mesenchymal transition dynamics conveys a distinct program with enhanced metastatic ability OPEN Toni Celià-Terrassa, Caleb Bastian, Daniel Liu, Brian Ell, Nicole M. Aiello, Yong Wei, Jose Zamalloa, Andres M. Blanco, Xiang Hang, Dmitriy Kunisky, Wenyang Li, Elizabeth D. Williams, Herschel Rabitz & Yibin Kang The epithelial-mesenchymal transition (EMT) is a dynamic process that plays important roles in cancer progression and metastasis. Here, the authors characterize a non-linear hysteretic response of E-cadherin repression during TGFβ-induced EMT that is controlled by the strength of the miR-200s/ZEBs negative feedback loop and enhances metastasis. 27 November 2018 | doi: 10.1038/s41467-018-07538-7 Cancer models  Metastasis  Single cell RNA-sequencing identifies a metabolic aspect of apoptosis in Rbf mutant OPEN Majd M. Ariss, Abul B. M. M. K. Islam, Meg Critcher, Maria Paula Zappia & Maxim V. Frolov The function of the Retinoblastoma (Rb) protein is regulated by its cellular environment. Here, the authors perform single cell RNA-sequencing during Drosophila eye development and identify the impact of an Rbf mutation, which sensitises specific cells to apoptosis by changing metabolism. 27 November 2018 | doi: 10.1038/s41467-018-07540-z Disease model  Next-generation sequencing  Tumour-suppressor proteins  Rapid and robust restoration of breathing long after spinal cord injury OPEN Philippa M. Warren, Stephanie C. Steiger, Thomas E. Dick, Peter M. MacFarlane, Warren J. Alilain & Jerry Silver Respiratory failure is one of the leading causes of death following spinal cord injury and it is unclear if normal respiratory motor activity can be recovered after chronic injury-induced paralysis. Here, authors show that treatment with chondroitinase ABC induces robust rescue of breathing up to 1.5 years following complete hemidiaphragm paralysis. 27 November 2018 | doi: 10.1038/s41467-018-06937-0 Respiration  Spinal cord  Spinal cord injury  Efficient solar-driven electrocatalytic CO2 reduction in a redox-medium-assisted system OPEN Yuhang Wang, Junlang Liu, Yifei Wang, Yonggang Wang & Gengfeng Zheng Generating high-energy fuels from sunlight, water, and CO2 using synthetic materials requires, among many things, the careful separation of reduced and oxidized products. Here, authors employ a zinc-based redox pair to spatially and temporally separate light-driven water oxidation and CO2 reduction. 27 November 2018 | doi: 10.1038/s41467-018-07380-x Artificial photosynthesis  Devices for energy harvesting  Electrocatalysis  Energy  Geometric phase magnetometry using a solid-state spin OPEN K. Arai, J. Lee, C. Belthangady, D. R. Glenn, H. Zhang & R. L. Walsworth When performing interferometry-based magnetometry, there is generally a trade-off between sensitivity and range. Here, instead, the authors demonstrate a geometric-phase-based protocol which allows a 400-fold enhancement in static magnetic field range with a single NV-centre without reducing sensitivity. 27 November 2018 | doi: 10.1038/s41467-018-07489-z Quantum information  Quantum metrology  Quantum physics  MFF-dependent mitochondrial fission regulates presynaptic release and axon branching by limiting axonal mitochondria size OPEN Tommy L. Lewis Jr, Seok-Kyu Kwon, Annie Lee, Reuben Shaw & Franck Polleux It is unclear how and why axonal mitochondria are kept so small in axons. Authors show here that MFF-mediated fission is required for determining the size of mitochondria both entering and along the axon, and this is critical for mitochondrial calcium uptake capacity, neurotransmitter release properties and axon branching. 27 November 2018 | doi: 10.1038/s41467-018-07416-2 Mitochondria  Molecular neuroscience  Neuronal development  Passive directional sub-ambient daytime radiative cooling OPEN Bikram Bhatia, Arny Leroy, Yichen Shen, Lin Zhao, Melissa Gianello, Duanhui Li, Tian Gu, Juejun Hu, Marin Soljačić & Evelyn N. Wang Passive daytime radiative cooling presents a promising low-cost refrigeration solution but has thus far relied on specialized nanophotonic structures. Here Bhatia et al. show a directional approach that decouples solar reflectance and infrared emission to achieve superior cooling performance. 27 November 2018 | doi: 10.1038/s41467-018-07293-9 Energy science and technology  Engineering  Intellectual synthesis in mentorship determines success in academic careers OPEN Jean F. Liénard, Titipat Achakulvisut, Daniel E. Acuna & Stephen V. David While successful mentors tend to train successful students in academic career, it's unclear how mentorship determines chances of a success in a trainee. Here, Liénard and colleagues analyze approximately 20 K mentor/trainee relationships in life sciences, and find that success of trainees is associated with an intellectual synthesis between their mentors' research. 27 November 2018 | doi: 10.1038/s41467-018-07034-y Careers  Education  Slx5-Slx8 ubiquitin ligase targets active pools of the Yen1 nuclease to limit crossover formation OPEN Ibtissam Talhaoui, Manuel Bernal, Janet R. Mullen, Hugo Dorison, Benoit Palancade, Steven J. Brill & Gerard Mazón Nucleases are regulated during the cell cycle to control for crossover formation and maintain genome integrity. Here the authors reveal that the yeast Holliday junction resolvase Yen is a sumoylation target and it is regulated by the ubiquitin ligases Slx5/Slx8 during crossover formation. 27 November 2018 | doi: 10.1038/s41467-018-07364-x Biochemistry  Cell biology  Genetics  Molecular biology  A CRISPR–Cas9-triggered strand displacement amplification method for ultrasensitive DNA detection OPEN Wenhua Zhou, Li Hu, Liming Ying, Zhen Zhao, Paul K. Chu & Xue-Feng Yu Isothermal DNA amplification techniques are useful for diagnostic applications in place of traditional PCR. Here the authors describe CRISDA, which combines CRISPR–Cas9 with strand displacement amplification and exhibits attomolar sensitivity and single-nucleotide specificity in DNA detection. 27 November 2018 | doi: 10.1038/s41467-018-07324-5 Assay systems  Biochemical assays  CRISPR-Cas systems  Colossal tunability in high frequency magnetoelectric voltage tunable inductors OPEN Yongke Yan, Liwei D. Geng, Yaohua Tan, Jianhua Ma, Lujie Zhang, Mohan Sanghadasa, Khai Ngo, Avik W. Ghosh, Yu U. Wang & Shashank Priya Voltage tunable inductors (VTIs) with high working frequency and tunability are desired for new design of energy efficient electronics. Here the authors demonstrate magnetoelectric VTIs operating up to 10 MHz with tunability over 750% via strain mediated magnetoelectric effect and magnetocrystalline anisotropy cancellation strategy. 27 November 2018 | doi: 10.1038/s41467-018-07371-y Electrical and electronic engineering  Electronic devices  TRIM28 protects TRIM24 from SPOP-mediated degradation and promotes prostate cancer progression OPEN Ka-wing Fong, Jonathan C. Zhao, Bing Song, Bin Zheng & Jindan Yu TRIM24 is stabilized in SPOP-mutated prostate cancers, but the regulation of TRIM24 in wild-type prostate cancers is unknown. Here, the authors show that TRIM28 interacts with TRIM24 to prevent SPOP-mediated ubiquitination of TRIM24 and enhances TRIM24 and AR signaling to induce prostate cancer tumorigenesis. 27 November 2018 | doi: 10.1038/s41467-018-07475-5 Prostate cancer  Ubiquitylation  Imaging antiferromagnetic antiphase domain boundaries using magnetic Bragg diffraction phase contrast OPEN Min Gyu Kim, Hu Miao, Bin Gao, S.-W. Cheong, C. Mazzoli, A. Barbour, Wen Hu, S. B. Wilkins, I. K. Robinson, M. P. M. Dean & V. Kiryukhin Imaging the antiferromagnetic (AFM) domains facilitates the understanding and design of AFM spintronics but is still challenging. Here the authors show an imaging approach for antiphase domains in AFM Fe2Mo3O8 by resonantly scattered coherent soft X-rays, which is also applicable to collinear antiferromagnets. 27 November 2018 | doi: 10.1038/s41467-018-07350-3 Imaging techniques  Magnetic properties and materials  Differentiation between enamines and tautomerizable imines in the oxidation reaction with TEMPO OPEN Xiaoming Jie, Yaping Shang, Zhe-Ning Chen, Xiaofeng Zhang, Wei Zhuang & Weiping Su Tautomerization of imines into enamines is the basis of their similar reactivity; however, minor structural changes may lead to different outcomes. Here, the authors show that the reaction of cyclohexanone and amines in presence of TEMPO affords either α-amino-enones or arylamines depending on the intermediate imine structure. 27 November 2018 | doi: 10.1038/s41467-018-07534-x Density functional theory  Synthetic chemistry methodology  Reaction mechanisms  Vasculogenic mimicry formation in EBV-associated epithelial malignancies OPEN Tong Xiang, Yu-Xin Lin, Wenlong Ma, Hao-Jiong Zhang, Ke-Ming Chen, Gui-Ping He, Xiao Zhang, Miao Xu, Qi-Sheng Feng, Ming-Yuan Chen, Mu-Sheng Zeng, Yi-Xin Zeng & Lin Feng EBV latent infection contributes to the pathogenesis of epithelial malignancies by inducing angiogenesis. Here, the authors show EBV promotes vasculogenic mimicry in EBV associated epithelial cancers via AKT/HIF-1α pathway and combination therapy of HIF-1α and VEGF reduces tumour growth. 27 November 2018 | doi: 10.1038/s41467-018-07308-5 Tumour angiogenesis  Tumour virus infections  Dual HLA B*42 and B*81-reactive T cell receptors recognize more diverse HIV-1 Gag escape variants OPEN Funsho Ogunshola, Gursev Anmole, Rachel L. Miller, Emily Goering, Thandeka Nkosi, Daniel Muema, Jaclyn Mann, Nasreen Ismail, Denis Chopera, Thumbi Ndung'u, Mark A. Brockman & Zaza M Ndhlovu Closely related HLA alleles presenting similar HIV-1 epitopes can be associated with variable clinical outcome. Here the authors report their findings on CD8+ T cell responses to the HIV-1 Gag-p24 TL9 immunodominant epitope in the context of closely related protective and less protective HLA alleles, and their differential effect on viral control 27 November 2018 | doi: 10.1038/s41467-018-07209-7 CD8-positive T cells  HIV infections  Immunological memory  Viral host response  NF1 heterozygosity fosters de novo tumorigenesis but impairs malignant transformation OPEN Jean-Philippe Brosseau, Chung-Ping Liao, Yong Wang, Vijay Ramani, Travis Vandergriff, Michelle Lee, Amisha Patel, Kiyoshi Ariizumi & Lu Q. Le Germline mono-allelic loss of the tumour suppressor NF1 predisposes patients to the development of benign lesions but rarely further progression into cancer development. Here the authors use mouse models to show that an NF1 heterozygous microenvironment accelerates the formation of benign tumours but impairs progression to malignancy. 27 November 2018 | doi: 10.1038/s41467-018-07452-y Cancer genetics  PTEN expression by an oncolytic herpesvirus directs T-cell mediated tumor clearance OPEN Luke Russell, Jessica Swanner, Alena Cristina Jaime-Ramirez, Yufeng Wang, Alex Sprague, Yeshavanth Banasavadi-Siddegowda, Ji Young Yoo, Gina M. Sizemore, Raleigh Kladney, Jianying Zhang, Norman L. Lehman, Michael C Ostrowski, Bangxing Hong, Michael Caligiuri, Jianhua Yu & Balveen Kaur Oncolytic viruses are a promising therapeutic approach for cancer treatment. The authors demonstrate the efficacy of an engineered HSV-1 expressing PTENα as an oncolytic and immune stimulating therapy against brain cancer metastases. 27 November 2018 | doi: 10.1038/s41467-018-07344-1 Cancer  Immunology  Neuroscience  Oncology  Human milk oligosaccharides, milk microbiome and infant gut microbiome modulate neonatal rotavirus infection OPEN Sasirekha Ramani, Christopher J. Stewart, Daniel R. Laucirica, Nadim J. Ajami, Bianca Robertson, Chloe A. Autran, Dhairyasheel Shinge, Sandya Rani, Sasirekha Anandan, Liya Hu, Josephine C. Ferreon, Kurien A. Kuruvilla, Joseph F. Petrosino, B. V. Venkataram Prasad, Lars Bode, Gagandeep Kang & Mary K. Estes Neonatal rotavirus infections are associated with gastrointestinal symptoms in some settings, but the role of host factors in clinical presentation is unclear. Here, Ramani et al. show that human milk oligosaccharides and microbiome are associated with symptomatic infection with neonatal strain G10P[11]. 27 November 2018 | doi: 10.1038/s41467-018-07476-4 Gastroenteritis  Live attenuated vaccines  Microbiome  Rotavirus  Double dative bond between divalent carbon(0) and uranium OPEN Wei Su, Sudip Pan, Xiong Sun, Shuao Wang, Lili Zhao, Gernot Frenking & Congqing Zhu While chemical bonding between carbon and the d- and p-block elements is relatively well-studied, that between carbon and the f-block elements remains comparatively poorly understood. Here, the authors synthesize a series of uranium−carbone complexes in which carbon forms an unprecedented double dative bond to uranium. 27 November 2018 | doi: 10.1038/s41467-018-07377-6 Chemical bonding  Coordination chemistry  Organometallic chemistry  Theoretical chemistry  Clearance of maternal barriers by paternal miR159 to initiate endosperm nuclear division in Arabidopsis OPEN Youshang Zhao, Songyun Wang, Wenye Wu, Lei Li, Ting Jiang & Binglian Zheng Seed development in plants is triggered by entry of sperm to the ovule. Here, Zhao et al. uncover miR159 as a paternal-trigger of seed development that is transmitted to the central cell where it represses expression of maternal targets to promote nuclear division in the endosperm. 27 November 2018 | doi: 10.1038/s41467-018-07429-x Cell biology  Developmental biology  Genetics  Plant sciences  Macrophage-derived netrin-1 promotes abdominal aortic aneurysm formation by activating MMP3 in vascular smooth muscle cells OPEN Tarik Hadi, Ludovic Boytard, Michele Silvestro, Dornazsadat Alebrahim, Samson Jacob, Jordyn Feinstein, Krista Barone, Wes Spiro, Susan Hutchison, Russell Simon, Debra Rateri, Florence Pinet, David Fenyo, Mark Adelman, Kathryn J. Moore, Holger K. Eltzschig, Alan Daugherty & Bhama Ramkhelawon Abdominal aortic aneurysms (AAA) are characterized by extensive extracellular matrix degradation. Here Hadi et al. identify a netrin-1/neogenin-based crosstalk between macrophages and vascular smooth muscle cells (VSMCs), leading to the secretion of the matrix metalloproteinase MMP-3 by VSMCs and subsequent matrix degradation in AAA lesions. 27 November 2018 | doi: 10.1038/s41467-018-07495-1 Aneurysm  Chronic inflammation  Extracellular matrix  Monocytes and macrophages  Ancient Fennoscandian genomes reveal origin and spread of Siberian ancestry in Europe OPEN Thiseas C. Lamnidis, Kerttu Majander, Choongwon Jeong, Elina Salmela, Anna Wessman, Vyacheslav Moiseyev, Valery Khartanovich, Oleg Balanovsky, Matthias Ongyerth, Antje Weihmann, Antti Sajantila, Janet Kelso, Svante Pääbo, Päivi Onkamo, Wolfgang Haak, Johannes Krause & Stephan Schiffels Populations from North-eastern Europe, in particular those speaking Uralic languages, carry additional ancestry in similarity with modern East Asian populations. Here, the authors analyse ancient genomic data from 11 individuals from Finland and Northwest Russia, and identify genomic signals of migrations from Siberia that began at least 3500 years ago. 27 November 2018 | doi: 10.1038/s41467-018-07483-5 Archaeology  Next-generation sequencing  Population genetics  Understanding dynamics of coherent Ising machines through simulation of large-scale 2D Ising models OPEN Fabian Böhm, Takahiro Inagaki, Kensuke Inaba, Toshimori Honjo, Koji Enbutsu, Takeshi Umeki, Ryoichi Kasahara & Hiroki Takesue Coherent Ising machines constitute a possible way to solve Ising models, but there are still open questions about their dynamics. In this work, the authors simulate regular and frustrated 2D lattices, highlighting the role of optical pump power and freeze-out effects for solving optimization problems. 27 November 2018 | doi: 10.1038/s41467-018-07328-1 Complex networks  Nonlinear optics  Seasonal energy exchange in sea ice retreat regions contributes to differences in projected Arctic warming OPEN Robyn C. Boeke & Patrick C. Taylor State-of-the-art climate models disagree on the magnitude of Arctic climate change. Here the authors show that the principle processes driving the disagreement operate locally in sea ice retreat regions, necessitating comprehensive observations to improve our understanding of atmosphere-ocean-sea ice energy exchanges. 27 November 2018 | doi: 10.1038/s41467-018-07061-9 Climate change  Projection and prediction  Pd(OAc)2-catalyzed asymmetric hydrogenation of sterically hindered N-tosylimines OPEN Jianzhong Chen, Zhenfeng Zhang, Bowen Li, Feilong Li, Yulin Wang, Min Zhao, Ilya D. Gridnev, Tsuneo Imamoto & Wanbin Zhang Sterically hindered unsaturated compounds are challenging substrates for asymmetric hydrogenation. Here, the authors report a palladium/chiral (bis)phosphine catalytic system that hydrogenates a number of hindered N-tosylimines with excellent enantioselectivitites. 27 November 2018 | doi: 10.1038/s41467-018-07462-w Asymmetric catalysis  Catalytic mechanisms  Synthetic chemistry methodology  Distinct contributions of tensile and shear stress on E-cadherin levels during morphogenesis OPEN Girish R. Kale, Xingbo Yang, Jean-Marc Philippe, Madhav Mani, Pierre-François Lenne & Thomas Lecuit The effects of mechanical forces, generated by actomyosin contractility, on E-cadherin based cell adhesion are poorly characterized in vivo. Here, the authors report that normal stress increases E-cadherin levels, whereas shear stress reduces E-Cadherin levels, in the developing Drosophila embryo. 27 November 2018 | doi: 10.1038/s41467-018-07448-8 Cell adhesion  Gastrulation  Multidirectional desymmetrization of pluripotent building block en route to diastereoselective synthesis of complex nature-inspired scaffolds OPEN Vunnam Srinivasulu, Paul Schilf, Saleh Ibrahim, Monther A. Khanfar, Scott McN Sieburth, Hany Omar, Anusha Sebastian, Raed A. AlQawasmeh, Matthew John O'Connor & Taleb H. Al-Tel Methods enabling the synthesis of diverse collections of nature-inspired compounds with potential medicinal use are sought after in drug design. Here, the authors report a build/couple/pair strategy to efficiently construct chiral polycyclic scaffolds and show their diversification for drug discovery screening. 26 November 2018 | doi: 10.1038/s41467-018-07521-2 Synthetic chemistry methodology  Screening  Stereochemistry  Quantifying post-transcriptional regulation in the development of Drosophila melanogaster OPEN Kolja Becker, Alina Bluhm, Nuria Casas-Vila, Nadja Dinges, Mario Dejung, Sergi Sayols, Clemens Kreutz, Jean-Yves Roignant, Falk Butter & Stefan Legewie Proteome and transcriptome often show poor correlation, hindering the system-wide analysis of post-transcriptional regulation. Here, the authors study proteome and transcriptome dynamics during Drosophila embryogenesis and present basic mathematical models describing the temporal regulation of most protein-RNA pairs. 26 November 2018 | doi: 10.1038/s41467-018-07455-9 Differential equations  Drosophila  Proteomics  Transcriptomics  Cryo-EM structures of KdpFABC suggest a K+ transport mechanism via two inter-subunit half-channels OPEN C. Stock, L. Hielkema, I. Tascón, D. Wunnicke, G. T. Oostergetel, M. Azkargorta, C. Paulino & I. Hänelt The P-type ATPase subunit KdpB of KdpFABC hydrolyzes ATP while K+ transport was assumed to occur through channel-like subunit KdpA. Here, the authors show two cryo-EM structures of KdpFABC which suggest a translocation pathway through two inter-subunit half-channels formed by KdpA and KdpB. 26 November 2018 | doi: 10.1038/s41467-018-07319-2 Cryoelectron microscopy  Ion transport  Permeation and transport  Potassium channels  Adipocyte-secreted BMP8b mediates adrenergic-induced remodeling of the neuro-vascular network in adipose tissue OPEN Vanessa Pellegrinelli, Vivian J. Peirce, Laura Howard, Samuel Virtue, Dénes Türei, Martina Senzacqua, Andrea Frontini, Jeffrey W. Dalley, Antony R. Horton, Guillaume Bidault, Ilenia Severi, Andrew Whittle, Kamal Rahmouni, Julio Saez-Rodriguez, Saverio Cinti, Alun M. Davies & Antonio Vidal-Puig Enhancing thermogenesis is a promising therapeutic strategy for promoting metabolic health. Here the authors show that adipocyte-secreted BMP8b contributes to optimizing the thermogenic response by remodeling of the neuro-vascular networks in brown and white adipose tissue. 26 November 2018 | doi: 10.1038/s41467-018-07453-x Cell biology  Fat metabolism  Metabolic diseases  Molecular biology  Physiology  Predicting natural language descriptions of mono-molecular odorants OPEN E. Darío Gutiérrez, Amit Dhurandhar, Andreas Keller, Pablo Meyer & Guillermo A. Cecchi It is now possible to predict what a chemical smells like based on its chemical structure, however to date, this has only been done for a small number of odor descriptors. Here, using natural-language semantic representations, the authors demonstrate prediction of a much wider range of descriptors. 26 November 2018 | doi: 10.1038/s41467-018-07439-9 Cheminformatics  Computational models  Computational science  Olfactory system  Exchange coupling torque in ferrimagnetic Co/Gd bilayer maximized near angular momentum compensation temperature OPEN Robin Bläsing, Tianping Ma, See-Hun Yang, Chirag Garg, Fasil Kidane Dejene, Alpha T N'Diaye, Gong Chen, Kai Liu & Stuart S. P. Parkin High speed current induced domain wall motion is key to various spintronic applications, such as memory-storage. Here the authors show that the motion of chiral domain walls in Co/Gd bilayer structures is controlled by an exchange coupling torque that is maximized at the temperature where the Co and Gd angular momenta exactly balance each other 26 November 2018 | doi: 10.1038/s41467-018-07373-w Magnetic properties and materials  Spintronics  High-speed AFM height spectroscopy reveals µs-dynamics of unlabeled biomolecules OPEN George R. Heath & Simon Scheuring The dynamics of biomolecules can occur over a wide range of time and length scales. Here the authors develop a high-speed AFM height spectroscopy method to directly detect the motion of unlabeled molecules at Angstrom spatial and microsecond temporal resolution. 26 November 2018 | doi: 10.1038/s41467-018-07512-3 Atomic force microscopy  Biological physics  Membrane biophysics  Membrane structure and assembly  Single-molecule biophysics  Unravelling the effect of charge dynamics at the plasmonic metal/semiconductor interface for CO2 photoreduction OPEN Laura Collado, Anna Reynal, Fernando Fresno, Mariam Barawi, Carlos Escudero, Virginia Perez-Dieste, Juan M. Coronado, David P. Serrano, James R. Durrant & Víctor A. de la Peña O'Shea Light-driven CO2 reduction provides a way to limit greenhouse gas concentrations, but understanding how materials accomplish this transformation is challenging. Here, authors examine the reaction over plasmonic silver-titanium dioxide using time-resolved, in situ techniques to follow the mechanism. 26 November 2018 | doi: 10.1038/s41467-018-07397-2 Artificial photosynthesis  Nanoparticles  Photocatalysis  Surface spectroscopy  Structures of Coxsackievirus A10 unveil the molecular mechanisms of receptor binding and viral uncoating OPEN Ling Zhu, Yao Sun, Jinyan Fan, Bin Zhu, Lei Cao, Qiang Gao, Yanjun Zhang, Hongrong Liu, Zihe Rao & Xiangxi Wang The disease-causing pathogen Coxsackievirus A10 (CVA10) is a human type-A Enterovirus. Here the authors present the cryo-EM structures of the mature CVA10 virion and the empty- and A-particles of CVA10, which is of interest for CVA10 vaccine development. 26 November 2018 | doi: 10.1038/s41467-018-07531-0 Cryoelectron microscopy  Virology  Unicolored phosphor-sensitized fluorescence for efficient and stable blue OLEDs OPEN Paul Heimel, Anirban Mondal, Falk May, Wolfgang Kowalsky, Christian Lennartz, Denis Andrienko & Robert Lovrincic The potential of organic light-emitting diodes (OLEDs) for solid-state lighting applications is limited by the need to develop efficient blue emitters. Here, the authors utilize a unicolored phosphor-sensitized fluorescence strategy to demonstrate efficient sky-blue OLEDs with enhanced lifetime. 26 November 2018 | doi: 10.1038/s41467-018-07432-2 Atomistic models  Organic LEDs  Systematic review of indoor residual spray efficacy and effectiveness against Plasmodium falciparum in Africa OPEN Ellie Sherrard-Smith, Jamie T. Griffin, Peter Winskill, Vincent Corbel, Cédric Pennetier, Armel Djénontin, Sarah Moore, Jason H. Richardson, Pie Müller, Constant Edi, Natacha Protopopoff, Richard Oxborough, Fiacre Agossa, Raphael N'Guessan, Mark Rowland & Thomas S. Churcher Indoor residual spraying is a commonly used method for mosquito, and malaria, control and there are a number of available insecticides that are available for this. Here, the authors evaluate the efficacy of widely-used and novel insecticides against pyrethroid-resistant mosquitoes. 26 November 2018 | doi: 10.1038/s41467-018-07357-w Epidemiology  Malaria  Population dynamics  Public health  Genetic variation in PTPN1 contributes to metabolic adaptation to high-altitude hypoxia in Tibetan migratory locusts OPEN Ding Ding, Guangjian Liu, Li Hou, Wanying Gui, Bing Chen & Le Kang Vertebrate adaptation to high-altitude life has been extensively investigated, while invertebrates are less well-studied. Here, the authors find signals of adaptive evolution in genomes of migratory locusts from the Tibetan Plateau, and implicate a PTPN1 coding mutation in their hypoxia response. 26 November 2018 | doi: 10.1038/s41467-018-07529-8 Entomology  Evolutionary genetics  Genetic variation  Amino acids stimulate the endosome-to-Golgi trafficking through Ragulator and small GTPase Arl5 OPEN Meng Shi, Bing Chen, Divyanshu Mahajan, Boon Kim Boh, Yan Zhou, Bamaprasad Dutta, Hieng Chiong Tie, Siu Kwan Sze, Geng Wu & Lei Lu Amino acid levels are known to regulate anabolic and catabolic pathways. Here, the authors report that amino acids also affect membrane trafficking by stimulating endosome-to-Golgi retrograde trafficking and regulating cell surface localization of certain Golgi proteins through Ragulator and Arl5. 26 November 2018 | doi: 10.1038/s41467-018-07444-y Endosomes  Golgi  Nutrient signalling  Small GTPases  National and sub-national variation in patterns of febrile case management in sub-Saharan Africa OPEN Victor A. Alegana, Joseph Maina, Paul O. Ouma, Peter M. Macharia, Jim Wright, Peter M. Atkinson, Emelda A. Okiro, Robert W. Snow & Andrew J. Tatem Treatment-seeking for fever is widely used to estimate treatment of childhood infections, but cross-country comparisons are problematic. Here, the authors estimate the probability of seeking treatment for fever at public facilities across 29 countries by quantifying person-level latent variables. 26 November 2018 | doi: 10.1038/s41467-018-07536-9 Epidemiology  Health policy  Health services  Heart enhancers with deeply conserved regulatory activity are established early in zebrafish development OPEN Xuefei Yuan, Mengyi Song, Patrick Devine, Benoit G. Bruneau, Ian C. Scott & Michael D. Wilson During early embryogenesis, critical cardiac specification events occur. Here the authors isolate cardiac progenitor cells from early zebrafish embryos and characterize accessible chromatin regions specific to this cell population, finding that many of these regions overlap with conserved non-coding elements that are ortholgous to accessible chromatin regions in human. 26 November 2018 | doi: 10.1038/s41467-018-07451-z Comparative genomics  Development  Zebrafish  A quaternary tetramer assembly inhibits the deubiquitinating activity of USP25 OPEN Bing Liu, Marta Sureda-Gómez, Yang Zhen, Virginia Amador & David Reverter USP25 is a deubiquitinating enzyme and a positive regulator of Wnt/β-catenin signaling. Here the authors present the crystal structure of USP25 in a tetrameric inactive state and their biochemical and kinetic assays support an USP25 autoinhibitory mechanism that is mediated through a dimer to tetramerization transition. 26 November 2018 | doi: 10.1038/s41467-018-07510-5 Ubiquitylation  X-ray crystallography  Interplay between hypoxia and androgen controls a metabolic switch conferring resistance to androgen/AR-targeted therapy OPEN Hao Geng, Changhui Xue, Janet Mendonca, Xiao-Xin Sun, Qiong Liu, Patrick N. Reardon, Yingxiao Chen, Kendrick Qian, Vivian Hua, Alice Chen, Freddy Pan, Julia Yuan, Sang Dang, Tomasz M. Beer, Mu-Shui Dai, Sushant K. Kachhap & David Z. Qian Prostate cancer often develops resistance to androgen receptor (AR) targeting drugs. Here, the authors show that, under conditions of hypoxia, AR inhibition via enzalutamide increases the expression of the glycolytic enzyme phosphoglucose isomerase (GPI) promoting a metabolic rewiring that allows the cells to survive, and consistent GPI inhibition restores sensitivity to enzalutamide. 26 November 2018 | doi: 10.1038/s41467-018-07411-7 Cancer metabolism  Cancer therapeutic resistance  Cancer therapy  Prostate cancer  Characterisation of the British honey bee metagenome OPEN Tim Regan, Mark W. Barnett, Dominik R. Laetsch, Stephen J. Bush, David Wragg, Giles E. Budge, Fiona Highet, Benjamin Dainat, Joachim R. de Miranda, Mick Watson, Mark Blaxter & Tom C. Freeman Numerous microbial symbionts, both commensal and pathogenic, are associated with honey bees. Here, the authors genomically characterize this 'metagenome' of the British honey bee, identifying a diversity of commensal microbes as well as known and putative pathogens 26 November 2018 | doi: 10.1038/s41467-018-07426-0 Microbial communities  Entomology  Metagenomics  Microbial ecology  Canopy mortality has doubled in Europe's temperate forests over the last three decades OPEN Cornelius Senf, Dirk Pflugmacher, Yang Zhiqiang, Julius Sebald, Jan Knorn, Mathias Neumann, Patrick Hostert & Rupert Seidl Increases in tree mortality can signal changes in forest health, but large-scale tree mortality is difficult to quantify. Here Senf et al. show large-scale increases in forest mortality in Central Europe over the past 30 years, which were related to increasing growing stocks and temperature. 26 November 2018 | doi: 10.1038/s41467-018-07539-6 Climate-change ecology  Forest ecology  Structural basis of RIP2 activation and signaling OPEN Qin Gong, Ziqi Long, Franklin L. Zhong, Daniel Eng Thiam Teo, Yibo Jin, Zhan Yin, Zhao Zhi Boo, Yaming Zhang, Jiawen Zhang, Renliang Yang, Shashi Bhushan, Bruno Reversade, Zongli Li & Bin Wu The pathogen recognition receptors NOD1/2 recognize bacterial cell wall components and signal through their downstream adapter kinase RIP2 via a CARD (Caspase activation and recruitment domain) mediated oligomerization process. Here the authors present the cryo-EM structure of the active RIP2-CARD filament and discuss implications for NOD1/2-RIP2 signalling. 26 November 2018 | doi: 10.1038/s41467-018-07447-9 Cryoelectron microscopy  Pattern recognition receptors  Competition between proton transfer and intermolecular Coulombic decay in water OPEN Clemens Richter, Daniel Hollas, Clara-Magdalena Saak, Marko Förstel, Tsveta Miteva, Melanie Mucke, Olle Björneholm, Nicolas Sisourat, Petr Slavíček & Uwe Hergenhahn Interatomic or intermolecular Coulombic decay is responsible for the generation of slow electrons in clusters and biological samples. Here the authors use electron–electron coincidence detection to find the competitive roles of proton transfer and ICD that occur on similar time scales in water clusters. 26 November 2018 | doi: 10.1038/s41467-018-07501-6 Atomic and molecular interactions with photons  Excited states  Macromolecules and clusters  Excess charge-carrier induced instability of hybrid perovskites OPEN Yuze Lin, Bo Chen, Yanjun Fang, Jingjing Zhao, Chunxiong Bao, Zhenhua Yu, Yehao Deng, Peter N. Rudd, Yanfa Yan, Yongbo Yuan & Jinsong Huang Optoelectronic devices based on organic–inorganic halide perovskites show promising performance, but their poor stability impedes the commercialization. Here Lin et al. show that excess free charges are detrimental and efficient charge-carrier extraction is necessary for improved device stability. 26 November 2018 | doi: 10.1038/s41467-018-07438-w Materials science  Physics  Spectral interferometry with waveform-dependent relativistic high-order harmonics from plasma surfaces OPEN Dmitrii Kormin, Antonin Borot, Guangjin Ma, William Dallari, Boris Bergues, Márk Aladi, István B. Földes & Laszlo Veisz High-order harmonic generation is explored in gases, solids and plasmas with moderate to high intensity lasers. Here the authors show spectral interferometry of HHG from relativistic plasma and its potential as a source of intense isolated attosecond pulses. 26 November 2018 | doi: 10.1038/s41467-018-07421-5 High-harmonic generation  Laser-produced plasmas  Ultrafast photonics  X-rays  VDAC2 enables BAX to mediate apoptosis and limit tumor development OPEN Hui San Chin, Mark X. Li, Iris K. L. Tan, Robert L. Ninnis, Boris Reljic, Kristen Scicluna, Laura F. Dagley, Jarrod J. Sandow, Gemma L. Kelly, Andre L. Samson, Stephane Chappaz, Seong L. Khaw, Catherine Chang, Andrew Morokoff, Kerstin Brinkmann, Andrew Webb, Colin Hockings, Cathrine M. Hall, Andrew J. Kueh, Michael T. Ryan et al. BAX and BAK are pro-apoptotic proteins whose activity is essential for the action of many anti-cancer drugs and to suppress tumorigenesis. Here, the authors perform a genome-wide CRISPR/Cas9 screen and identify VDAC2 as a promoter of BAX-mediated apoptosis that is important for an efficient chemotherapeutic response and to suppress tumor formation. 26 November 2018 | doi: 10.1038/s41467-018-07309-4 Apoptosis  Mitochondrial proteins  High-entropy high-hardness metal carbides discovered by entropy descriptors OPEN Pranab Sarker, Tyler Harrington, Cormac Toher, Corey Oses, Mojtaba Samiee, Jon-Paul Maria, Donald W. Brenner, Kenneth S. Vecchio & Stefano Curtarolo The overwhelming number of possible high-entropy materials represents a big challenge for predicting their existence. Here, the authors introduce an entropy-forming-ability descriptor capturing the synthesizability of these systems, and apply the model to the discovery of new refractory metal carbides. 26 November 2018 | doi: 10.1038/s41467-018-07160-7 Computational methods  Mechanical properties  Metals and alloys  Accelerating water dissociation kinetics by isolating cobalt atoms into ruthenium lattice OPEN Junjie Mao, Chun-Ting He, Jiajing Pei, Wenxing Chen, Dongsheng He, Yiqing He, Zhongbin Zhuang, Chen Chen, Qing Peng, Dingsheng Wang & Yadong Li Water splitting provides an appealing route to generating carbon-neutral fuel, however the scarcity and cost of platinum, often used as a catalyst, necessitates a search for alternatives. Here, authors show cobalt atoms in ruthenium nanosheets to afford excellent hydrogen production activities. 23 November 2018 | doi: 10.1038/s41467-018-07288-6 Electrocatalysis  Nanoscale materials  Deep learning for universal linear embeddings of nonlinear dynamics OPEN Bethany Lusch, J. Nathan Kutz & Steven L. Brunton It is often advantageous to transform a strongly nonlinear system into a linear one in order to simplify its analysis for prediction and control. Here the authors combine dynamical systems with deep learning to identify these hard-to-find transformations. 23 November 2018 | doi: 10.1038/s41467-018-07210-0 Applied mathematics  Nonlinear phenomena  Pulsed axial epitaxy of colloidal quantum dots in nanowires enables facet-selective passivation OPEN Yi Li, Tao-Tao Zhuang, Fengjia Fan, Oleksandr Voznyy, Mikhail Askerka, Haiming Zhu, Liang Wu, Guo-Qiang Liu, Yun-Xiang Pan, Edward H. Sargent & Shu-Hong Yu The precise control over nanoscale structures is crucial in developing new, functional nanomaterials. Here, authors demonstrate a controllable method to epitaxially stack CdS quantum dots into ZnS nanowires and show improved photocatalytic hydrogen evolution activities. 23 November 2018 | doi: 10.1038/s41467-018-07422-4 Nanoparticle synthesis  Nanowires  Photocatalysis  Entropy production rate is maximized in non-contractile actomyosin OPEN Daniel S. Seara, Vikrant Yadav, Ian Linsmeier, A. Pasha Tabatabai, Patrick W. Oakes, S. M. Ali Tabei, Shiladitya Banerjee & Michael P. Murrell Myosin motors drive the actin cytoskeleton out-of-equilibrium, but the role of myosin-driven active stresses in the accumulation and dissipation of mechanical work is unclear. Here, the authors synthesize an actomyosin material and find that the rate of entropy production increases non-monotonically with increasing accumulation of active stresses. 23 November 2018 | doi: 10.1038/s41467-018-07413-5 Biochemistry  Bioinspired materials  Biological physics  Biophysics  Autophagy is a gatekeeper of hepatic differentiation and carcinogenesis by controlling the degradation of Yap OPEN Youngmin A. Lee, Luke A. Noon, Kemal M. Akat, Maria D. Ybanez, Ting-Fang Lee, Marie-Luise Berres, Naoto Fujiwara, Nicolas Goossens, Hsin-I Chou, Fatemeh P. Parvin-Nejad, Bilon Khambu, Elisabeth G. M. Kramer, Ronald Gordon, Cathie Pfleger, Doris Germain, Gareth R. John, Kirk N. Campbell, Zhenyu Yue, Xiao-Ming Yin, Ana Maria Cuervo et al. Increased levels of the Yap oncoprotein stimulate liver growth and promote hepatocarcinogenesis. Here the authors show that hepatocyte-specific loss of Atg7 in mice leads to decreased autophagic degradation of Yap and liver overgrowth, and further establish this association in human liver cancer tissues. 23 November 2018 | doi: 10.1038/s41467-018-07338-z Autophagy  Cancer  HIPPO signalling  Mechanisms of disease  Understanding structure-activity relationships in linear polymer photocatalysts for hydrogen evolution OPEN Michael Sachs, Reiner Sebastian Sprick, Drew Pearce, Sam A. J. Hillman, Adriano Monti, Anne A. Y. Guilbert, Nick J. Brownbill, Stoichko Dimitrov, Xingyuan Shi, Frédéric Blanc, Martijn A. Zwijnenburg, Jenny Nelson, James R. Durrant & Andrew I. Cooper While inorganic semiconductors are well-studied for their solar-to-fuel energy conversion abilities, organic materials receive far less attention. Here, authors prepare linear conjugated polymers as H2 evolution photocatalysts and rationalize photocatalytic activities with fundamental properties. 23 November 2018 | doi: 10.1038/s41467-018-07420-6 Artificial photosynthesis  Conjugated polymers  Photocatalysis  Oncogenic KRAS supports pancreatic cancer through regulation of nucleotide synthesis OPEN Naiara Santana-Codina, Anjali A. Roeth, Yi Zhang, Annan Yang, Oksana Mashadova, John M. Asara, Xiaoxu Wang, Roderick T. Bronson, Costas A. Lyssiotis, Haoqiang Ying & Alec C. Kimmelman Pancreatic ductal adenocarcinoma (PDAC) cells display varying degrees of reliance on oncogenic KRAS. Here the authors show that KRAS-resistant PDAC cells maintain nucleotides synthesis through a KRAS-independent upregulation of the non-oxidative pentose phosphate pathway gene RPIA and that targeting nucleotide metabolism restore sensitivity to KRAS pathway inhibition. 23 November 2018 | doi: 10.1038/s41467-018-07472-8 Cancer metabolism  Gastrointestinal cancer  Metabolomics  Oncogenes  Pancreatic cancer  Studies into the mechanism of measles-associated immune suppression during a measles outbreak in the Netherlands OPEN Brigitta M. Laksono, Rory D. de Vries, R. Joyce Verburgh, Eline G. Visser, Alwin de Jong, Pieter L. A. Fraaij, Wilhemina L. M. Ruijs, David F. Nieuwenhuijse, Henk-Jan van den Ham, Marion P. G. Koopmans, Menno C. van Zelm, Albert D. M. E. Osterhaus & Rik L. de Swart The mechanisms by which measles virus infection induces transient immune suppression in humans are poorly understood. Here, Laksono and colleagues characterise the pathogenesis of measles-associated immune suppression in unvaccinated children, and shed new light on the long-term effects of measles on the host. 23 November 2018 | doi: 10.1038/s41467-018-07515-0 Immune cell death  Measles virus  Viral infection  Viral pathogenesis  Normal faulting and viscous buckling in the Tibetan Plateau induced by a weak lower crust OPEN Sarah H. Bischoff & Lucy M. Flesch Weak lower crustal flow in Tibet has been invoked to reconcile geophysical observations, yet viscosity estimates vary from 1016 to 1021 Pa·s. Here the authors show that viscous buckling of the upper crust in response to lower crust flow (viscosity ~1020 Pa·s) is responsible for the observed extension in Tibet. 23 November 2018 | doi: 10.1038/s41467-018-07312-9 Geodynamics  Tectonics  In situ monitoring of molecular aggregation using circular dichroism OPEN Haoke Zhang, Xiaoyan Zheng, Ryan T. K. Kwok, Jia Wang, Nelson L. C. Leung, Lin Shi, Jing Zhi Sun, Zhiyong Tang, Jacky W. Y. Lam, Anjun Qin & Ben Zhong Tang Molecular aggregation is a widespread and important process in physiological metabolism, but details regarding conformational changes during the process are hard to probe. Here, the authors use circular dichroism to monitor in-situ the conformational changes occurring during molecular aggregation. 23 November 2018 | doi: 10.1038/s41467-018-07299-3 Circular dichroism  Fluorescence spectroscopy  Thermodynamics  Quantum-enhanced sensing using non-classical spin states of a highly magnetic atom OPEN Thomas Chalopin, Chayma Bouazza, Alexandre Evrard, Vasiliy Makhalov, Davide Dreon, Jean Dalibard, Leonid A. Sidorenkov & Sylvain Nascimbene Moderate-size coherent superpositions of spin states allow quantum enhancements in metrology. Here, the authors exploit the large electronic spin of dysprosium atoms to realize mesoscopic spin superpositions, allowing a 14-fold quantum enhancement in magnetic field sensitivity, close to the Heisenberg limit. 23 November 2018 | doi: 10.1038/s41467-018-07433-1 Quantum metrology  Ultracold gases  Orchestration of protein acetylation as a toggle for cellular defense and virus replication OPEN L. A. Murray, X. Sheng & I. M. Cristea The dynamics of protein acetylation during infection remains unexplored. Here, Murray et al. characterize spatio-temporal acetylations of both cellular and viral proteins during HCMV infection, providing new functional insights into the host-virus acetylome that might help identify new antiviral targets. 23 November 2018 | doi: 10.1038/s41467-018-07179-w Post-translational modifications  Proteomics  Virology  Cobalt-catalyzed difluoroalkylation of tertiary aryl ketones for facile synthesis of quaternary alkyl difluorides OPEN Chao Li, Yi-Xuan Cao, Rui Wang, Yi-Ning Wang, Quan Lan & Xi-Sheng Wang The catalytic C(sp3)-CF2 bond formation is of high interest in drug design and discovery. Here, the authors report a cobalt-catalyzed difluoroalkylation of tertiary α-C-H bonds of aryl ketones for facile synthesis of quaternary alkyl difluorides and show the late-stage functionalization of marketed drugs. 23 November 2018 | doi: 10.1038/s41467-018-07525-y Homogeneous catalysis  Synthetic chemistry methodology  Reaction mechanisms  The fluid membrane determines mechanics of erythrocyte extracellular vesicles and is softened in hereditary spherocytosis OPEN Daan Vorselen, Susan M. van Dommelen, Raya Sorkin, Melissa C. Piontek, Jürgen Schiller, Sander T. Döpp, Sander A. A. Kooijmans, Brigitte A. van Oirschot, Birgitta A. Versluijs, Marc B. Bierings, Richard van Wijk, Raymond M. Schiffelers, Gijs J. L. Wuite & Wouter H. Roos Red blood cell disorders are often accompanied by increased release of extracellular vesicles (EVs), but their structural and mechanical properties are not fully understood. Here, the authors show that red blood cell EVs show liposome-like mechanical features and are softened in blood disorder patients. 23 November 2018 | doi: 10.1038/s41467-018-07445-x Atomic force microscopy  Haematological diseases  Membrane biophysics  Major intensification of Atlantic overturning circulation at the onset of Paleogene greenhouse warmth OPEN S. J. Batenburg, S. Voigt, O. Friedrich, A. H. Osborne, A. Bornemann, T. Klein, L. Pérez-Díaz & M. Frank Ocean circulation likely played a major role in past episodes of global warming. Here the authors show that converging neodymium isotope values indicate intensification of the Atlantic overturning circulation at 59 million years ago, which may have contributed to a more efficient distribution of heat over the planet. 23 November 2018 | doi: 10.1038/s41467-018-07457-7 Climate sciences  Ocean sciences  Palaeoceanography  Palaeoclimate  Topoisomerase 3β interacts with RNAi machinery to promote heterochromatin formation and transcriptional silencing in Drosophila OPEN Seung Kyu Lee, Yutong Xue, Weiping Shen, Yongqing Zhang, Yuyoung Joo, Muzammil Ahmad, Madoka Chinen, Yi Ding, Wai Lim Ku, Supriyo De, Elin Lehrmann, Kevin G. Becker, Elissa P. Lei, Keji Zhao, Sige Zou, Alexei Sharov & Weidong Wang Topoisomerases solve topological problems during DNA metabolism, but their role in RNA metabolism remains unclear. Here the authors provide evidence that in Drosophila, Topoisomerase 3β interacts biochemically and genetically with the RNAi-induced silencing complex (RISC) to promote heterochromatin formation and transcriptional silencing. 23 November 2018 | doi: 10.1038/s41467-018-07101-4 Chromatin  Enzyme mechanisms  Gene silencing  RNAi  Mediated nuclear import and export of TAZ and the underlying molecular requirements OPEN Michael Kofler, Pam Speight, Darby Little, Caterina Di Ciano-Oliveira, Katalin Szászi & András Kapus The transcriptional co-factors Yap and TAZ are regulated by Hippo signalling and mechanical forces via their nucleocytoplasmic shuttling. Here the authors identify a RhoA-regulated C-terminal nuclear localization signal and a TEAD-regulated N-terminal nuclear export signal of TAZ in an epithelial cell line. 23 November 2018 | doi: 10.1038/s41467-018-07450-0 HIPPO signalling  Nuclear transport  Inflammasome activation negatively regulates MyD88-IRF7 type I IFN signaling and anti-malaria immunity OPEN Xiao Yu, Yang Du, Chunmei Cai, Baowei Cai, Motao Zhu, Changsheng Xing, Peng Tan, Meng Lin, Jian Wu, Jian Li, Mingjun Wang, Helen Y. Wang, Xin-zhuan Su & Rong-Fu Wang The inflammasome is an essential component of inflammatory processes and the host response to infection. Here the authors show that inflammasome activation modulates MyD88-IRF7 type I IFN signalling and anti-malaria immunity. 23 November 2018 | doi: 10.1038/s41467-018-07384-7 Inflammasome  Innate immunity  Malaria  Parasite host response  Comparative expression profiling reveals widespread coordinated evolution of gene expression across eukaryotes OPEN Trevor Martin & Hunter B. Fraser Gene pairs that are coexpressed across various environmental conditions in multiple species suggest functional similarity. Here the authors analyze patterns of gene expression co-evolution across diverse eukaryotes, and identify hundreds of protein complexes and pathways whose gene expression levels have co-evolved since their ancient divergence. 23 November 2018 | doi: 10.1038/s41467-018-07436-y Genome informatics  Marine biology  Molecular evolution  Energy landscape underlying spontaneous insertion and folding of an alpha-helical transmembrane protein into a bilayer OPEN Wei Lu, Nicholas P. Schafer & Peter G. Wolynes The detailed folding mechanisms of membrane proteins in their natural bilayer-like environments remains poorly understood due to the lack of tools for measuring stabilities and kinetics. Here, by simulating the folding of GlpG in a bilayer, the authors provide support for the helical-hairpin hypothesis and prompt a re-evaluation of a long-standing paradigm, the two-stage hypothesis. 23 November 2018 | doi: 10.1038/s41467-018-07320-9 Biological physics  Computational biophysics  Molecular biophysics  High throughput in situ metagenomic measurement of bacterial replication at ultra-low sequencing coverage OPEN Akintunde Emiola & Julia Oh Bacterial growth rate can change under different environmental conditions and reveals important biological and ecological information. Here, the authors develop GRiD, a bioinformatics tool for high-throughput estimation of growth rate using low coverage metagenomic data. 23 November 2018 | doi: 10.1038/s41467-018-07240-8 Computational biology and bioinformatics  Metagenomics  Microbiome  Encryption and steganography of synthetic gene circuits OPEN Oliver Purcell, Jerry Wang, Piro Siuti & Timothy K. Lu Artificial gene circuits represent intellectual property that under some circumstances may need to be obfuscated to prevent discovery by third parties. Here the authors use encryption by overlapping recombinase sites and steganography by the introduction of superfluous components, to obscure circuit topology. 22 November 2018 | doi: 10.1038/s41467-018-07144-7 Biotechnology  Molecular biology  Synthetic biology  Interconvertible vanadium-seamed hexameric pyrogallol[4]arene nanocapsules OPEN Kongzhao Su, Mingyan Wu, Daqiang Yuan & Maochun Hong Adapting the cavity of a coordination capsule generally involves the addition or removal of subcomponents. Here, the authors report two vanadium-organic coordination nanocapsules with the same number of components but variable cavity sizes—an expanded ball and contracted octahedron—whose solvent-controlled interconversion is attributed to the versatile coordination geometry of the vanadium centers. 22 November 2018 | doi: 10.1038/s41467-018-07427-z Coordination chemistry  Molecular capsules  Vortex rectenna powered by environmental fluctuations OPEN J. Lustikova, Y. Shiomi, N. Yokoi, N. Kabeya, N. Kimura, K. Ienaga, S. Kaneko, S. Okuma, S. Takahashi & E. Saitoh Devices that generate electricity from electric fluctuations are promising for wireless power transmission as well as energy harvesting from environmental radio waves. Here the authors report the electric power generation from environmental fluctuations by using superconducting vortex strings in MoGe/YIG bilayer system. 22 November 2018 | doi: 10.1038/s41467-018-07352-1 Magnetic properties and materials  Superconducting properties and materials  Surfaces, interfaces and thin films  Molecular insights into genome-wide association studies of chronic kidney disease-defining traits OPEN Xiaoguang Xu, James M. Eales, Artur Akbarov, Hui Guo, Lorenz Becker, David Talavera, Fehzan Ashraf, Jabran Nawaz, Sanjeev Pramanik, John Bowes, Xiao Jiang, John Dormer, Matthew Denniff, Andrzej Antczak, Monika Szulinska, Ingrid Wise, Priscilla R. Prestes, Maciej Glyda, Pawel Bogdanski, Ewa Zukowska-Szczechowska et al. The molecular mechanisms that underlie associations in GWAS, incl. chronic kidney disease (CKD), are largely unknown. Here, the authors perform an integrative analysis of genetic, transcriptomic and epigenomic data from human kidney to pinpoint plausible molecular pathways of CKD genetic associations. 22 November 2018 | doi: 10.1038/s41467-018-07260-4 Chronic kidney disease  Genetics research  Genome-wide association studies  Kidney  An oviduct-on-a-chip provides an enhanced in vitro environment for zygote genome reprogramming OPEN Marcia A. M. M. Ferraz, Hoon Suk Rho, Daiane Hemerich, Heiko H. W. Henning, Helena T. A. van Tol, Michael Hölker, Urban Besenfelder, Michal Mokry, Peter L. A. M. Vos, Tom A. E. Stout, Séverine Le Gac & Bart M. Gadella In vitro culture has detrimental effects on transcriptomes and epigenetic programming of zygotes. Here the authors use microfluidic technology to co-culture bovine oviduct epithelial cells with zygotes and show that the transcriptomes and global methylation patterns of these zygotes are more similar to in vivo zygotes than to conventionally cultured zygotes. 22 November 2018 | doi: 10.1038/s41467-018-07119-8 Embryology  Epigenetic memory  Reprogramming  Microwave emission from superconducting vortices in Mo/Si superlattices OPEN O. V. Dobrovolskiy, V. M. Bevz, M. Yu. Mikhailov, O. I. Yuzephovich, V. A. Shklovskij, R. V. Vovk, M. I. Tsindlekht, R. Sachser & M. Huth Emission of electromagnetic waves is expected when superconducting vortices cross sample edges, but such a radiation has not been observed so far. Here, Dobrovolskiy et al. evidence the electromagnetic radiation from vortices crossing the layers of a Mo/Si superlattice, where the emission spectra can be tuned by dc bias current and coarsely by the in-plane magnetic field. 22 November 2018 | doi: 10.1038/s41467-018-07256-0 Electronic properties and materials  Superconducting devices  Superconducting properties and materials  Tunneling time probed by quantum shot noise OPEN Pierre Février & Julien Gabelli The time that a particle takes to traverse an electronic junction by tunneling has been discussed in theory but not detected directly. Here, the authors take advantage of both optical and electronic information from a tunnelling event to estimate this traversal time at around 1.1 femtosecond. 22 November 2018 | doi: 10.1038/s41467-018-07369-6 Nanophotonics and plasmonics  Quantum mechanics  Air quality co-benefits for human health and agriculture counterbalance costs to meet Paris Agreement pledges OPEN Toon Vandyck, Kimon Keramidas, Alban Kitous, Joseph V. Spadaro, Rita Van Dingenen, Mike Holland & Bert Saveyn Local air quality co-benefits can provide convincing support for climate action. Here the authors revisited air quality co-benefits of climate action in the context of NDCs and found that 71–99 thousand premature deaths can be avoided each year by 2030, offsetting the climate mitigation costs on a global level. 22 November 2018 | doi: 10.1038/s41467-018-06885-9 Climate-change mitigation  Climate-change policy  Energy policy  Risk factors  Sustainability  Machine learning analysis of extreme events in optical fibre modulation instability OPEN Mikko Närhi, Lauri Salmela, Juha Toivonen, Cyril Billet, John M. Dudley & Goëry Genty Real-time characterisation of nonlinear processes in the time domain is challenging. Here, Närhi et al. show that machine learning techniques can help overcome this limitation and use them to infer time-domain properties of optical fibre modulation instability from spectral intensity measurements. 22 November 2018 | doi: 10.1038/s41467-018-07355-y Nonlinear optics  Solitons  Techniques and instrumentation  Ultrafast photonics  Locally anchoring enzymes to tissues via extracellular glycan recognition OPEN Shaheen A. Farhadi, Evelyn Bracho-Sanchez, Margaret M. Fettis, Dillon T. Seroski, Sabrina L. Freeman, Antonietta Restuccia, Benjamin G. Keselowsky & Gregory A. Hudalla The use of enzymes as drugs requires that they persist within target tissues over therapeutically relevant time frames. Here the authors use a galectin-3 fusion to anchor enzymes at injection sites for up to 14 days. 22 November 2018 | doi: 10.1038/s41467-018-07129-6 Protein design  Recombinant protein therapy  Coral-associated bacteria demonstrate phylosymbiosis and cophylogeny OPEN F. Joseph Pollock, Ryan McMinds, Styles Smith, David G. Bourne, Bette L. Willis, Mónica Medina, Rebecca Vega Thurber & Jesse R. Zaneveld Associations between corals and symbiotic microorganisms could be driven by the environment or shared evolutionary history. Here, the authors examine relationships between coral phylogenies and associated microbiomes, finding evidence of phylosymbiosis in microbes from coral skeleton and tissue, but not mucus. 22 November 2018 | doi: 10.1038/s41467-018-07275-x Coevolution  Microbial ecology  Symbiosis  Tropical ecology  A robust zirconium amino acid metal-organic framework for proton conduction OPEN Sujing Wang, Mohammad Wahiduzzaman, Louisa Davis, Antoine Tissot, William Shepard, Jérôme Marrot, Charlotte Martineau-Corcos, Djemel Hamdane, Guillaume Maurin, Sabine Devautour-Vinot & Christian Serre Metal-organic frameworks are promising materials for proton exchange membrane fuel cells, but cumbersome ligand preparation and use of toxic metals or solvents hinders their application. Here, the authors report the green synthesis of a zirconium, amino acid-based MOF that displays high proton conductivity and excellent stability. 22 November 2018 | doi: 10.1038/s41467-018-07414-4 Fuel cells  Metal–organic frameworks  Porous materials  Renewable energy  Deep-subwavelength control of acoustic waves in an ultra-compact metasurface lens OPEN Jian Chen, Jing Xiao, Danylo Lisevych, Amir Shakouri & Zheng Fan Here, the authors propose an acoustic metasurface design to extend the wave manipulations to both far- and near-fields while reducing the complexity with a simple structure, which consists of an array of deep-subwavelength-spaced slits perforated in a thin plate. 22 November 2018 | doi: 10.1038/s41467-018-07315-6 Acoustics  Materials for devices  Phase and structure engineering of copper tin heterostructures for efficient electrochemical carbon dioxide reduction OPEN Pengtang Wang, Man Qiao, Qi Shao, Yecan Pi, Xing Zhu, Yafei Li & Xiaoqing Huang While CO2 removal will play a crucial role in limiting climate change, it is challenging to understand the factors that control materials' selectivity to convert CO2 to valuable products. Here, authors show copper and tin oxide interfaces to impact activities for CO2 reduction products. 22 November 2018 | doi: 10.1038/s41467-018-07419-z Electrocatalysis  Metals and alloys  Nanoparticles  Renewable energy  Longitudinal single-cell RNA sequencing of patient-derived primary cells reveals drug-induced infidelity in stem cell hierarchy OPEN Ankur Sharma, Elaine Yiqun Cao, Vibhor Kumar, Xiaoqian Zhang, Hui Sun Leong, Angeline Mei Lin Wong, Neeraja Ramakrishnan, Muhammad Hakimullah, Hui Min Vivian Teo, Fui Teen Chong, Shumei Chia, Matan Thangavelu Thangavelu, Xue Lin Kwang, Ruta Gupta, Jonathan R. Clark, Giridharan Periyasamy, N. Gopalakrishna Iyer & Ramanuj DasGupta Drug resistance is one of the major causes of cancer-related deaths. Here, the authors using single cell RNA-seq of oral squamous cell carcinoma patient samples pre- and post-cisplatin treatment show that phenotypically homogenous cell populations display cell state plasticity, with poised chromatin marks at mesenchymal genes in epithelial cells, and that the loss of stem factor Sox2 but gain of Sox9 expression (with de novo gain of H3K27ac sites) is associated with drug-induced adaptation. 22 November 2018 | doi: 10.1038/s41467-018-07261-3 Cancer models  Tumour heterogeneity  Visible light-promoted CO2 fixation with imines to synthesize diaryl α-amino acids OPEN Xinyuan Fan, Xu Gong, Mengyue Ma, Rui Wang & Patrick J. Walsh Fixation of CO2 in organic molecules is an area of great interest due to the implications in sustainable chemistry. Here, the authors show a visible light-mediated hydrocarboxylation of ketimines with atmospheric CO2 to afford a number of α,α–diaryl α-amino acid derivatives. 22 November 2018 | doi: 10.1038/s41467-018-07351-2 Homogeneous catalysis  Synthetic chemistry methodology  Photochemistry  Frequency-dependent decoupling of domain-wall motion and lattice strain in bismuth ferrite OPEN Lisha Liu, Tadej Rojac, Dragan Damjanovic, Marco Di Michiel & John Daniels Conductive domain walls of ferroelectric materials are considered for device applications demanding a fundamental understanding of their dynamics. Here, frequency-dependent decoupling of strains upon electric field cycling in BiFeO3 is demonstrated to arise from conductive domain walls. 22 November 2018 | doi: 10.1038/s41467-018-07363-y Materials for devices  Materials science  Structural materials    Nature Communications EVENT World Congress on Internet Security (WorldCIS-2018) 10.12.18 Cambridge, UK More science events from     Latest Author Corrections     Author Correction: Mechanically tunable conductive interpenetrating network hydrogels that mimic the elastic moduli of biological tissue OPEN Vivian R. Feig, Helen Tran, Minah Lee & Zhenan Bao 23 November 2018 | doi: 10.1038/s41467-018-07487-1 Electronic materials  Gels and hydrogels  Polymers  Author Correction: Iron restriction inside macrophages regulates pulmonary host defense against Rhizopus species OPEN Angeliki M. Andrianaki , Irene Kyrmizi, Kalliopi Thanopoulou, Clara Baldin, Elias Drakos, Sameh S. M. Soliman, Amol C. Shetty, Carrie McCracken, Tonia Akoumianaki, Kostas Stylianou, Petros Ioannou, Charalampos Pontikoglou, Helen A. Papadaki, Maria Tzardi, Valerie Belle, Emilien Etienne, Anne Beauvais, George Samonis, Dimitrios P. Kontoyiannis, Evangelos Andreakos et al. 22 November 2018 | doi: 10.1038/s41467-018-07301-y Fungal host response  Fungal infection  Fungal pathogenesis  Infection      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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