| | Advertisement | | | | | | | | | Advertisement | | | | | Advertisement | | | | | Advertisement | | | | | | | Nature Communications - fully open access All new submissions, if accepted, will be published open access and an article processing charge (APC) will apply. For more information visit the website. Visit our open access funding page or contact openaccess@nature.com to learn more about APC funding. | | | | Latest Articles | View all Articles | | | In situ functional dissection of RNA cis-regulatory elements by multiplex CRISPR-Cas9 genome engineering OPEN | | Qianxin Wu, Quentin R. V. Ferry, Toni A. Baeumler, Yale S. Michaels, Dimitrios M. Vitsios, Omer Habib, Roland Arnold, Xiaowei Jiang, Stefano Maio, Bruno R. Steinkraus, Marta Tapia, Paolo Piazza, Ni Xu, Georg A. Holländer, Thomas A. Milne, Jin-Soo Kim, Anton J. Enright, Andrew R. Bassett & Tudor A. Fulga | | | RNA regulatory elements (RREs) are important post-transcriptional control features but studying them requires disrupting their activity without disturbing cellular homeostasis. Here the authors present GenERA, a CRISPR-Cas9 screening platform of in situ analysis of native RREs. | | 13 December 2017 | doi: 10.1038/s41467-017-00686-2 | | CRISPR-Cas9 genome editing Genetic engineering miRNAs | SYK kinase mediates brown fat differentiation and activation OPEN | | Marko Knoll, Sally Winther, Anirudh Natarajan, Huan Yang, Mengxi Jiang, Prathapan Thiru, Aliakbar Shahsafaei, Tony E. Chavarria, Dudley W. Lamming, Lei Sun, Jacob B. Hansen & Harvey F. Lodish | | | Spleen protein tyrosine kinase (Syk) has so far been mainly studied in haematopoietic and immune cells. Here, the authors show that Syk also has a role in brown adipose tissue, where it regulates the formation of brown adipocytes and their thermogenic activation in response to β-adrenergic stimulation. | | 13 December 2017 | doi: 10.1038/s41467-017-02162-3 | | Cell signalling Differentiation Metabolism Transcription | Structural and functional dissection of the DH and PH domains of oncogenic Bcr-Abl tyrosine kinase OPEN | | Sina Reckel, Charlotte Gehin, Delphine Tardivon, Sandrine Georgeon, Tim Kükenshöner, Frank Löhr, Akiko Koide, Lena Buchner, Alejandro Panjkovich, Aline Reynaud, Sara Pinho, Barbara Gerig, Dmitri Svergun, Florence Pojer, Peter Güntert, Volker Dötsch, Shohei Koide, Anne-Claude Gavin & Oliver Hantschel | | | The Bcr-Abl tyrosine kinases p210 and p190 are linked to different leukemias and differ by the Dbl homology (DH) and Pleckstrin-homology (PH) domains. Here the authors characterize structures of the Bcr-Abl p210 DH and PH domains and find that the PH domain is important for the cellular localization and signaling network of p210. | | 13 December 2017 | doi: 10.1038/s41467-017-02313-6 | | Kinases SAXS Solution-state NMR X-ray crystallography | Targeted inhibition of STAT/TET1 axis as a therapeutic strategy for acute myeloid leukemia OPEN | | Xi Jiang, Chao Hu, Kyle Ferchen, Ji Nie, Xiaolong Cui, Chih-Hong Chen, Liting Cheng, Zhixiang Zuo, William Seibel, Chunjiang He, Yixuan Tang, Jennifer R. Skibbe, Mark Wunderlich, William C. Reinhold, Lei Dong, Chao Shen, Stephen Arnovitz, Bryan Ulrich, Jiuwei Lu, Hengyou Weng et al. | | | Ten-eleven translocation 1 (TET1) is a critical oncoprotein in AML. Here, the authors identify 2 compounds that target the binding of STAT3/5 specifically to the TET1 promoter, inhibiting its expression and AML cell viability. | | 13 December 2017 | doi: 10.1038/s41467-017-02290-w | | Acute myeloid leukaemia Drug development Target validation | Infection via mosquito bite alters Zika virus tissue tropism and replication kinetics in rhesus macaques OPEN | | Dawn M. Dudley, Christina M. Newman, Joseph Lalli, Laurel M. Stewart, Michelle R. Koenig, Andrea M. Weiler, Matthew R. Semler, Gabrielle L. Barry, Katie R. Zarbock, Mariel S. Mohns, Meghan E. Breitbach, Nancy Schultz-Darken, Eric Peterson, Wendy Newton, Emma L. Mohr, Saverio Capuano III, Jorge E. Osorio, Shelby L. O’Connor, David H. O’Connor, Thomas C. Friedrich et al. | | | Vector saliva can affect infectivity and pathogenesis of vector-borne viruses, but this hasn’t been studied for Zika virus infection. Here, Dudley et al. show that mosquito-mediated Zika infection of macaques results in altered replication kinetics and greater sequence heterogeneity. | | 13 December 2017 | doi: 10.1038/s41467-017-02222-8 | | Viral evolution Viral pathogenesis Virus–host interactions | A large multi-ethnic genome-wide association study identifies novel genetic loci for intraocular pressure OPEN | | Hélène Choquet, Khanh K. Thai, Jie Yin, Thomas J. Hoffmann, Mark N. Kvale, Yambazi Banda, Catherine Schaefer, Neil Risch, K. Saidas Nair, Ronald Melles & Eric Jorgenson | | | Intraocular pressure (IOP) is a major risk factor for glaucoma. Here, Choquet and co-authors perform a multi-ethnic genome-wide association study of repeat IOP measurements in 69,756 individuals and identify 40 novel loci, 36 of which show directionally consistent effects in glaucoma. | | 13 December 2017 | doi: 10.1038/s41467-017-01913-6 | | Genetics research Genome-wide association studies Risk factors | Lipoteichoic acid deficiency permits normal growth but impairs virulence of Streptococcus pneumoniae OPEN | | Nathalie Heß, Franziska Waldow, Thomas P. Kohler, Manfred Rohde, Bernd Kreikemeyer, Alejandro Gómez-Mejia, Torsten Hain, Dominik Schwudke, Waldemar Vollmer, Sven Hammerschmidt & Nicolas Gisch | | | Teichoic acid is bound to peptidoglycan (wall teichoic acid, WTA) or to membrane glycolipids (lipoteichoic acid, LTA) in most Gram-positive bacteria. Here, the authors identify a putative ligase required for the assembly of LTA, but not WTA, and important for Streptococcus pneumoniae virulence in mouse models. | | 12 December 2017 | doi: 10.1038/s41467-017-01720-z | | Bacterial pathogenesis Bacteriology Glycobiology Pathogens | Reproducible flaws unveil electrostatic aspects of semiconductor electrochemistry OPEN | | Yan B. Vogel, Long Zhang, Nadim Darwish, Vinicius R. Gonçales, Anton Le Brun, J. Justin Gooding, Angela Molina, Gordon G. Wallace, Michelle L. Coote, Joaquin Gonzalez & Simone Ciampi | | | Most electrical devices must pass charges across semiconductor interfaces, yet redox-active molecular behavior obscures comprehension of these processes. Here, the authors develop a model to describe redox processes on semiconductor surfaces and gauge these interactions electrochemically. | | 12 December 2017 | doi: 10.1038/s41467-017-02091-1 | | Electrochemistry Electronic devices Electronic properties and materials | Structure of outer membrane protein G in lipid bilayers OPEN | | Joren S. Retel, Andrew J. Nieuwkoop, Matthias Hiller, Victoria A. Higman, Emeline Barbet-Massin, Jan Stanek, Loren B. Andreas, W. Trent Franks, Barth-Jan van Rossum, Kutti R. Vinothkumar, Lieselotte Handel, Gregorio Giuseppe de Palma, Benjamin Bardiaux, Guido Pintacuda, Lyndon Emsley, Werner Kühlbrandt & Hartmut Oschkinat | | | Porins, like OmpG, are embedded in the outer membrane of bacteria and facilitate uptake and secretion of nutrients and ions. Here the authors present a protocol for solid state NMR structure determination of proteins larger than 25 kDa and use it to structurally characterize membrane embedded OmpG. | | 12 December 2017 | doi: 10.1038/s41467-017-02228-2 | | Protein folding Solid-state NMR | The mitochondrial negative regulator MCJ is a therapeutic target for acetaminophen-induced liver injury OPEN | | Lucía Barbier-Torres, Paula Iruzubieta, David Fernández-Ramos, Teresa C. Delgado, Daniel Taibo, Virginia Guitiérrez-de-Juan, Marta Varela-Rey, Mikel Azkargorta, Nicolas Navasa, Pablo Fernández-Tussy, Imanol Zubiete-Franco, Jorge Simon, Fernando Lopitz-Otsoa, Sofia Lachiondo-Ortega, Javier Crespo, Steven Masson, Misti Vanette McCain, Erica Villa, Helen Reeves, Felix Elortza et al. | | | Acetaminophen-induced liver injury is one of the most common causes of liver failure and has to be treated within hours of the overdose. Here Barbier-Torres et al. show that targeting MCJ, a mitochondrial negative regulator, even 24 h after the overdose protects liver from acetaminophen-induced damage. | | 12 December 2017 | doi: 10.1038/s41467-017-01970-x | | Hepatotoxicity Mitochondria | IRF8-dependent molecular complexes control the Th9 transcriptional program OPEN | | Etienne Humblin, Marion Thibaudin, Fanny Chalmin, Valentin Derangère, Emeric Limagne, Corentin Richard, Richard A. Flavell, Sandy Chevrier, Sylvain Ladoire, Hélène Berger, Romain Boidot, Lionel Apetoh, Frédérique Végran & François Ghiringhelli | | | Interferon regulatory factors IRF regulate lymphoid development, but the specific function of IRF8 in helper T-cell polarization is unclear. Here the authors show that IRF8 forms a complex with IRF4, PU.1 and BATF to modulate the Th9 transcription program and expression of IL-4 and IL-9. | | 12 December 2017 | doi: 10.1038/s41467-017-01070-w | | CD4-positive T cells Tumour immunology | Bri2 BRICHOS client specificity and chaperone activity are governed by assembly state OPEN | | Gefei Chen, Axel Abelein, Harriet E. Nilsson, Axel Leppert, Yuniesky Andrade-Talavera, Simone Tambaro, Lovisa Hemmingsson, Firoz Roshan, Michael Landreh, Henrik Biverstål, Philip J. B. Koeck, Jenny Presto, Hans Hebert, André Fisahn & Jan Johansson | | | The BRICHOS domain is a chaperone that can act against amyloid-β peptide fibril formation and non-fibrillar protein aggregation. Here the authors use a multidisciplinary approach and show that the Bri2 BRICHOS domain has qualitatively different chaperone activities depending on its quaternary structure. | | 12 December 2017 | doi: 10.1038/s41467-017-02056-4 | | Biophysical methods Chaperones Diseases of the nervous system Electron microscopy Electrophysiology | Identification and characterization of two functional variants in the human longevity gene FOXO3 OPEN | | Friederike Flachsbart, Janina Dose, Liljana Gentschew, Claudia Geismann, Amke Caliebe, Carolin Knecht, Marianne Nygaard, Nandini Badarinarayan, Abdou ElSharawy, Sandra May, Anne Luzius, Guillermo G. Torres, Marlene Jentzsch, Michael Forster, Robert Häesler, Kathrin Pallauf, Wolfgang Lieb, Céline Derbois, Pilar Galan, Dmitriy Drichel et al. | | | FOXO3 is one of the few established longevity genes. Here, the authors fine-map the FOXO3-longevity association to two intronic SNPs and, using luciferase assays and EMSAs, show that these SNPs affect binding of transcription factors CTCF and SRF and associate with FOXO3 expression. | | 12 December 2017 | doi: 10.1038/s41467-017-02183-y | | Functional genomics Genetic association study Genetics | Multiplexed 3D super-resolution imaging of whole cells using spinning disk confocal microscopy and DNA-PAINT OPEN | | Florian Schueder, Juanita Lara-Gutiérrez, Brian J. Beliveau, Sinem K. Saka, Hiroshi M. Sasaki, Johannes B. Woehrstein, Maximilian T. Strauss, Heinrich Grabmayr, Peng Yin & Ralf Jungmann | | | Existing methods for nanoscale visualization of biological targets in thick samples require complex hardware. Here, the authors combine the standard spinning disk confocal (SDC) microscopy with DNA points accumulation for imaging in nanoscale topography (DNA-PAINT) to image proteins, DNA and RNA deep in cells. | | 12 December 2017 | doi: 10.1038/s41467-017-02028-8 | | Confocal microscopy Single-molecule biophysics Super-resolution microscopy | H3K14ac is linked to methylation of H3K9 by the triple Tudor domain of SETDB1 OPEN | | Renata Z. Jurkowska, Su Qin, Goran Kungulovski, Wolfram Tempel, Yanli Liu, Pavel Bashtrykov, Judith Stiefelmaier, Tomasz P. Jurkowski, Srikanth Kudithipudi, Sara Weirich, Raluca Tamas, Hong Wu, Ludmila Dombrovski, Peter Loppnau, Richard Reinhardt, Jinrong Min & Albert Jeltsch | | | SETDB1 is a histone methyltransferase that generates H3K9me3 marks in euchromatic regions. Here the authors show that the triple Tudor domain (3TD) of SETDB1 binds histone H3 tails containing K14 acetylation combined with K9 methylation, and that the K9me–K14ac modification defines a novel chromatin state enriched at SETDB1 binding sites. | | 12 December 2017 | doi: 10.1038/s41467-017-02259-9 | | Epigenetics Histone analysis Histone post-translational modifications Transferases | An oomycete plant pathogen reprograms host pre-mRNA splicing to subvert immunity OPEN | | Jie Huang, Lianfeng Gu, Ying Zhang, Tingxiu Yan, Guanghui Kong, Liang Kong, Baodian Guo, Min Qiu, Yang Wang, Maofeng Jing, Weiman Xing, Wenwu Ye, Zhe Wu, Zhengguang Zhang, Xiaobo Zheng, Mark Gijzen, Yuanchao Wang & Suomeng Dong | | | Various effectors of plant pathogens modulate host cell biology. Here, Huang et al. show PsAvr3c, an avirulence effector from oomycete plant pathogen Phytophthora sojae, can reprogram host pre-mRNA splicing for immune modulation. | | 12 December 2017 | doi: 10.1038/s41467-017-02233-5 | | Effectors in plant pathology Plant molecular biology | Structural basis for genome wide recognition of 5-bp GC motifs by SMAD transcription factors OPEN | | Pau Martin-Malpartida, Marta Batet, Zuzanna Kaczmarska, Regina Freier, Tiago Gomes, Eric Aragón, Yilong Zou, Qiong Wang, Qiaoran Xi, Lidia Ruiz, Angela Vea, José A. Márquez, Joan Massagué & Maria J. Macias | | | Smad transcription factors are part of the TGF-β signal transduction pathways and are recruited to the genome by cell lineage-defining factors. Here, the authors identify specific Smad binding GC-rich motifs and provide structural information showing Smad3 and Smad4 bound to these motifs. | | 12 December 2017 | doi: 10.1038/s41467-017-02054-6 | | Molecular biology Structural biology Transcription | A miR-327–FGF10–FGFR2-mediated autocrine signaling mechanism controls white fat browning OPEN | | Carina Fischer, Takahiro Seki, Sharon Lim, Masaki Nakamura, Patrik Andersson, Yunlong Yang, Jennifer Honek, Yangang Wang, Yanyan Gao, Fang Chen, Nilesh J. Samani, Jun Zhang, Masato Miyake, Seiichi Oyadomari, Akihiro Yasue, Xuri Li, Yun Zhang, Yizhi Liu & Yihai Cao | | | White adipocytes can be stimulated to express thermogenic genes in a process known as beiging. Here, the authors show that miR-327 is downregulated during beiging, which releases FGF10 from inhibition and supports beige adipocyte formation via signaling through FGFR2. | | 12 December 2017 | doi: 10.1038/s41467-017-02158-z | | miRNAs Obesity Type 2 diabetes | Balancing mcr-1 expression and bacterial survival is a delicate equilibrium between essential cellular defence mechanisms OPEN | | Qiue Yang, Mei Li, Owen B. Spiller, Diego O. Andrey, Philip Hinchliffe, Hui Li, Craig MacLean, Pannika Niumsup, Lydia Powell, Manon Pritchard, Andrei Papkou, Yingbo Shen, Edward Portal, Kirsty Sands, James Spencer, Uttapoln Tansawai, David Thomas, Shaolin Wang, Yang Wang, Jianzhong Shen et al. | | | The plasmid-encoded MCR-1 enzyme modifies bacterial lipid A, thus conferring resistance to the antibiotic colistin. Here, Yang et al. show that MCR-1 expression can decrease in vitro growth rate, fitness and immune stimulation, and can reduce virulence in a Galleria mellonella infection model. | | 12 December 2017 | doi: 10.1038/s41467-017-02149-0 | | Antimicrobial resistance Cellular microbiology | Multiplexed in vivo homology-directed repair and tumor barcoding enables parallel quantification of Kras variant oncogenicity OPEN | | Ian P. Winters, Shin-Heng Chiou, Nicole K. Paulk, Christopher D. McFarland, Pranav V. Lalgudi, Rosanna K. Ma, Leszek Lisowski, Andrew J. Connolly, Dmitri A. Petrov, Mark A. Kay & Monte M. Winslow | | | Genome editing technologies enable the rapid interrogation of genetic alterations. Here, the authors present a CRISPR/Cas9-based platform to simultaneously investigate multiple activating point mutations in de novo cancers in mice; and generate panels of Kras-variants in different tissues to induce cancer. | | 12 December 2017 | doi: 10.1038/s41467-017-01519-y | | Cancer genetics Cancer models Functional genomics Genetic engineering Oncogenes | Loss of the molecular clock in myeloid cells exacerbates T cell-mediated CNS autoimmune disease OPEN | | Caroline E. Sutton, Conor M. Finlay, Mathilde Raverdeau, James O. Early, Joseph DeCourcey, Zbigniew Zaslona, Luke A. J. O’Neill, Kingston H. G. Mills & Annie M. Curtis | | | Circadian controls of immune responses by the molecular clock have been reported, but the underlying mechanisms are unclear. Here the authors show that the master circadian gene, Bmal1, is essential for modulating the homeostasis of myeloid cells to control pro-inflammatory IL-17+/IFN-γ+ T cells in autoimmunity. | | 12 December 2017 | doi: 10.1038/s41467-017-02111-0 | | Autoimmunity CD4-positive T cells Circadian regulation Monocytes and macrophages | Multinational patterns of seasonal asymmetry in human movement influence infectious disease dynamics OPEN | | Amy Wesolowski, Elisabeth zu Erbach-Schoenberg, Andrew J. Tatem, Christopher Lourenço, Cecile Viboud, Vivek Charu, Nathan Eagle, Kenth Engø-Monsen, Taimur Qureshi, Caroline O. Buckee & C. J. E. Metcalf | | | Fine scale mobile phone data is improving capacity to understand seasonal patterns in human movement. Here, the authors use multi-year movement data across three nations, as well as a model of pathogen spread, to understand the consequences of seasonal travel for disease dynamics. | | 12 December 2017 | doi: 10.1038/s41467-017-02064-4 | | Developing world Ecological epidemiology Ecological modelling Environmental social sciences | Whole-genome sequencing for an enhanced understanding of genetic variation among South Africans OPEN | | Ananyo Choudhury, Michèle Ramsay, Scott Hazelhurst, Shaun Aron, Soraya Bardien, Gerrit Botha, Emile R. Chimusa, Alan Christoffels, Junaid Gamieldien, Mahjoubeh J. Sefid-Dashti, Fourie Joubert, Ayton Meintjes, Nicola Mulder, Raj Ramesar, Jasper Rees, Kathrine Scholtz, Dhriti Sengupta, Himla Soodyall, Philip Venter, Louise Warnich et al. | | | African populations show a high level of genetic diversity and extensive regional admixture. Here, the authors sequence the whole genomes of 24 South African individuals of different ethnolinguistic origin and find substantive genomic divergence between two southeastern Bantu-speaking groups. | | 12 December 2017 | doi: 10.1038/s41467-017-00663-9 | | Evolutionary biology Genetic variation Population genetics | Protein quantitative trait locus study in obesity during weight-loss identifies a leptin regulator OPEN | | Jérôme Carayol, Christian Chabert, Alessandro Di Cara, Claudia Armenise, Gregory Lefebvre, Dominique Langin, Nathalie Viguerie, Sylviane Metairon, Wim H. M. Saris, Arne Astrup, Patrick Descombes, Armand Valsesia & Jörg Hager | | | Although many genetic variants are known for obesity, their function remains largely unknown. Here, in a weight-loss intervention cohort, the authors identify protein quantitative trait loci associated with BMI at baseline and after weight loss and find FAM46A to be a regulator of leptin in adipocytes. | | 12 December 2017 | doi: 10.1038/s41467-017-02182-z | | Gene regulation Obesity Proteome Quantitative trait | parasitised feathered dinosaurs as revealed by Cretaceous amber assemblages OPEN | | Enrique Peñalver, Antonio Arillo, Xavier Delclòs, David Peris, David A. Grimaldi, Scott R. Anderson, Paul C. Nascimbene & Ricardo Pérez-de la Fuente | | | Fossils of ticks are rare, and little is known about their ancient hosts. Here, Peñalver and colleagues describe ticks in Cretaceous amber, including representatives of the new family Deinocrotonidae, which are associated with a dinosaur feather and nest biota. | | 12 December 2017 | doi: 10.1038/s41467-017-01550-z | | Palaeoecology Palaeontology | Coupling between oxygen redox and cation migration explains unusual electrochemistry in lithium-rich layered oxides OPEN | | William E. Gent, Kipil Lim, Yufeng Liang, Qinghao Li, Taylor Barnes, Sung-Jin Ahn, Kevin H. Stone, Mitchell McIntire, Jihyun Hong, Jay Hyok Song, Yiyang Li, Apurva Mehta, Stefano Ermon, Tolek Tyliszczak, David Kilcoyne, David Vine, Jin-Hwan Park, Seok-Kwang Doo, Michael F. Toney, Wanli Yang et al. | | | Lithium ion battery electrodes employing anion redox exhibit high energy densities but suffer from poor cyclability. Here the authors reveal that the voltage of anion redox is strongly affected by structural changes that occur during battery cycling, explaining its unique electrochemical properties. | | 12 December 2017 | doi: 10.1038/s41467-017-02041-x | | Batteries Solid-state chemistry | Direction of actin flow dictates integrin LFA-1 orientation during leukocyte migration OPEN | | Pontus Nordenfelt, Travis I. Moore, Shalin B. Mehta, Joseph Mathew Kalappurakkal, Vinay Swaminathan, Nobuyasu Koga, Talley J. Lambert, David Baker, Jennifer C. Waters, Rudolf Oldenbourg, Tomomi Tani, Satyajit Mayor, Clare M. Waterman & Timothy A. Springer | | | Integrin αβ heterodimer cell surface receptors mediate adhesive interactions that provide traction for cell migration. Here the authors show that actin flow can orient cell surface integrins during leukocyte migration, suggesting integrin activation by cytoskeletal force. | | 11 December 2017 | doi: 10.1038/s41467-017-01848-y | | Actin Integrin signalling Integrins Molecular imaging Polarization microscopy | Identification of regulatory targets for the bacterial Nus factor complex OPEN | | Gabriele Baniulyte, Navjot Singh, Courtney Benoit, Richard Johnson, Robert Ferguson, Mauricio Paramo, Anne M. Stringer, Ashley Scott, Pascal Lapierre & Joseph T. Wade | | | The Nus factor complex regulates rRNA folding and prevents Rho-dependent transcription termination in bacteria. Here, Baniulyte et al. show that it also inhibits translation of one of the Nus factor-encoding genes, suhB, and probably regulates the expression of other genes in diverse bacterial species. | | 11 December 2017 | doi: 10.1038/s41467-017-02124-9 | | Bacterial genetics Bacterial transcription Gene regulation | Pseudogap phase of cuprate superconductors confined by Fermi surface topology OPEN | | N. Doiron-Leyraud, O. Cyr-Choinière, S. Badoux, A. Ataei, C. Collignon, A. Gourgout, S. Dufour-Beauséjour, F. F. Tafti, F. Laliberté, M.-E. Boulanger, M. Matusiak, D. Graf, M. Kim, J.-S. Zhou, N. Momono, T. Kurosawa, H. Takagi & Louis Taillefer | | | High-temperature superconductors exhibit pseudogap behaviour that remains of unknown origin, despite many years of intensive study. Here the authors study the onset of the pseudogap under pressure, providing evidence that it requires a hole-like Fermi surface and constraining future theoretical developments. | | 11 December 2017 | doi: 10.1038/s41467-017-02122-x | | Electronic properties and materials Superconducting properties and materials | Cell cycle-dependent phosphorylation regulates RECQL4 pathway choice and ubiquitination in DNA double-strand break repair OPEN | | Huiming Lu, Raghavendra A. Shamanna, Jessica K. de Freitas, Mustafa Okur, Prabhat Khadka, Tomasz Kulikowicz, Priscella P. Holland, Jane Tian, Deborah L. Croteau, Anthony J. Davis & Vilhelm A. Bohr | | | DNA double-strand break (DSB) repair is a tightly regulated process that can occur via non-homologous end joining (NHEJ) or homologous recombination (HR). Here, the authors investigate how RECQL4 modulates DSB repair pathway choice by differentially regulating NHEJ and HR in a cell cycle-dependent manner. | | 11 December 2017 | doi: 10.1038/s41467-017-02146-3 | | DNA Mechanisms of disease | The LPS-inducible lncRNA Mirt2 is a negative regulator of inflammation OPEN | | Meng Du, Lin Yuan, Xin Tan, Dandan Huang, Xiaojing Wang, Zhe Zheng, Xiaoxiang Mao, Xiangrao Li, Liu Yang, Kun Huang, Fengxiao Zhang, Yan Wang, Xi Luo, Dan Huang & Kai Huang | | | Excessive inflammation can be tissue destructive and contributes to auotinflammatory diseases and sepsis pathology. Here the authors show that the lncRNA Mirt2 is an endogenous negative feedback regulator of LPS-induced inflammation by limiting ubiquitination of TRAF6 and NF-κB activation. | | 11 December 2017 | doi: 10.1038/s41467-017-02229-1 | | Acute inflammation Long non-coding RNAs | Magnetostriction-polarization coupling in multiferroic Mn2MnWO6 OPEN | | Man-Rong Li, Emma E. McCabe, Peter W. Stephens, Mark Croft, Liam Collins, Sergei V. Kalinin, Zheng Deng, Maria Retuerto, Arnab Sen Gupta, Haricharan Padmanabhan, Venkatraman Gopalan, Christoph P. Grams, Joachim Hemberger, Fabio Orlandi, Pascal Manuel, Wen-Min Li, Chang-Qing Jin, David Walker & Martha Greenblatt | | | Double corundum-related polar magnets are promising for multiferroic and magnetoelectric applications in spintronics, but are limited by the challenging design and synthesis. Here the authors report the synthesis of Mn2MnWO6 as well as its appealing multiferroic and magnetoelectric properties. | | 11 December 2017 | doi: 10.1038/s41467-017-02003-3 | | Ferroelectrics and multiferroics Solid-state chemistry | Calcination does not remove all carbon from colloidal nanocrystal assemblies OPEN | | Pratyasha Mohapatra, Santosh Shaw, Deyny Mendivelso-Perez, Jonathan M. Bobbitt, Tiago F. Silva, Fabian Naab, Bin Yuan, Xinchun Tian, Emily A. Smith & Ludovico Cademartiri | | | Synthesis of all-inorganic nanomaterials often relies on organic templates, which are assumed to then be fully removed by calcination. Here, the authors use elastic backscattering spectroscopy to challenge this assumption, finding that calcination leaves behind considerable carbon content that can severely affect material function. | | 11 December 2017 | doi: 10.1038/s41467-017-02267-9 | | Design, synthesis and processing Nanoscale materials | EGFR feedback-inhibition by Ran-binding protein 6 is disrupted in cancer OPEN | | Barbara Oldrini, Wan-Ying Hsieh, Hediye Erdjument-Bromage, Paolo Codega, Maria Stella Carro, Alvaro Curiel-García, Carl Campos, Maryam Pourmaleki, Christian Grommes, Igor Vivanco, Daniel Rohle, Craig M. Bielski, Barry S. Taylor, Travis J. Hollmann, Marc Rosenblum, Paul Tempst, John Blenis, Massimo Squatrito & Ingo K. Mellinghoff | | | The epidermal growth factor receptor (EGFR) signalling is regulated at multiple levels. Here the authors show that the importin RanBP6 acts as a tumor suppressor in Glioblastoma and regulates EGFR signalling through promoting translocation of STAT3 to the nuclei and repressing EGFR transcription. | | 11 December 2017 | doi: 10.1038/s41467-017-02185-w | | CNS cancer Growth factor signalling | Two-dimensional topological superconductivity in Pb/Co/Si(111) OPEN | | Gerbold C. Ménard, Sébastien Guissart, Christophe Brun, Raphaël T. Leriche, Mircea Trif, François Debontridder, Dominique Demaille, Dimitri Roditchev, Pascal Simon & Tristan Cren | | | One-dimensional topological superconductors are predicted to host zero-energy Majorana fermions at their extremities. Here, the authors observe dispersive edge states in a monolayer of Pb/Si(111) coupled to a ferromagnetic domain. | | 11 December 2017 | doi: 10.1038/s41467-017-02192-x | | Superconducting properties and materials Surfaces, interfaces and thin films Two-dimensional materials | Alloy-assisted deposition of three-dimensional arrays of atomic gold catalyst for crystal growth studies OPEN | | Yin Fang, Yuanwen Jiang, Mathew J. Cherukara, Fengyuan Shi, Kelliann Koehler, George Freyermuth, Dieter Isheim, Badri Narayanan, Alan W. Nicholls, David N. Seidman, Subramanian K. R. S. Sankaranarayanan & Bozhi Tian | | | Parallel patterning of atoms over a large surface would represent a major advance over current serial methods of single atom manipulation. Here, the authors explore a periodic instability from liquid alloy droplets for high-throughput atom printing. | | 08 December 2017 | doi: 10.1038/s41467-017-02025-x | | Nanowires Self-assembly Solid-state chemistry Synthesis and processing | Redox-switchable breathing behavior in tetrathiafulvalene-based metal–organic frameworks OPEN | | Jian Su, Shuai Yuan, Hai-Ying Wang, Lan Huang, Jing-Yuan Ge, Elizabeth Joseph, Junsheng Qin, Tahir Cagin, Jing-Lin Zuo & Hong-Cai Zhou | | | Modulating the adsorption behaviours of metal-organic frameworks using external stimuli is desirable, but challenging to achieve. Here, Zhou and colleagues design an indium-based MOF in which tetrathiafulvalene ligands undergo reversible redox reactions that alter the framework breathing behaviour. | | 08 December 2017 | doi: 10.1038/s41467-017-02256-y | | Inorganic chemistry Metal–organic frameworks Porous materials | Tuning the interactions between chiral plasmonic films and living cells OPEN | | Xueli Zhao, Liguang Xu, Maozhong Sun, Wei Ma, Xiaoling Wu, Chuanlai Xu & Hua Kuang | | | Chiral surfaces are emerging as important biomaterial components, as they can modulate cell behavior. Here, the authors modify plasmonic nanoparticle films with amino acid isomers, and find that the chirality of the film remarkably affects cell proliferation, adhesion, and directional differentiation. | | 08 December 2017 | doi: 10.1038/s41467-017-02268-8 | | Biomedical materials Nanobiotechnology Nanoscale materials | Spatial competition constrains resistance to targeted cancer therapy OPEN | | Katarina Bacevic, Robert Noble, Ahmed Soffar, Orchid Wael Ammar, Benjamin Boszonyik, Susana Prieto, Charles Vincent, Michael E. Hochberg, Liliana Krasinska & Daniel Fisher | | | Adaptive therapy aims to control tumours by exploiting competition between therapy-sensitive and resistant cells. Here, the authors show that tumour spatial structure is a critical parameter for adaptive therapy as competition for space increases fitness differentials, allowing suppression of resistance with low-dose treatments. | | 08 December 2017 | doi: 10.1038/s41467-017-01516-1 | | Cancer therapeutic resistance Cell division | Bioinspired graphene membrane with temperature tunable channels for water gating and molecular separation OPEN | | Jingchong Liu, Nü Wang, Li-Juan Yu, Amir Karton, Wen Li, Weixia Zhang, Fengyun Guo, Lanlan Hou, Qunfeng Cheng, Lei Jiang, David A. Weitz & Yong Zhao | | | The smart regulation of substance permeability is highly desirable for membrane separation technologies. Here, the authors design a poly(N-isopropylacrylamide)-grafted graphene oxide membrane with temperature tunable lamellar spaces, allowing for water gating and size-variable molecular separations. | | 08 December 2017 | doi: 10.1038/s41467-017-02198-5 | | Graphene Organic–inorganic nanostructures Soft materials | Input-dependent regulation of excitability controls dendritic maturation in somatosensory thalamocortical neurons OPEN | | Laura Frangeul, Vassilis Kehayas, Jose V. Sanchez-Mut, Sabine Fièvre, K. Krishna-K, Gabrielle Pouchelon, Ludovic Telley, Camilla Bellone, Anthony Holtmaat, Johannes Gräff, Jeffrey D. Macklis & Denis Jabaudon | | | Sensory input and neuronal activity are crucial for proper morphological development of neurons. Here, Frangeul and colleagues show that membrane excitability is a critical component of dendritic development in mouse somatosensory thalamocortical neurons. | | 08 December 2017 | doi: 10.1038/s41467-017-02172-1 | | Development of the nervous system Somatosensory system Synaptic plasticity | Brain insulin resistance impairs hippocampal synaptic plasticity and memory by increasing GluA1 palmitoylation through FoxO3a OPEN | | Matteo Spinelli, Salvatore Fusco, Marco Mainardi, Federico Scala, Francesca Natale, Rosita Lapenta, Andrea Mattera, Marco Rinaudo, Domenica Donatella Li Puma, Cristian Ripoli, Alfonso Grassi, Marcello D’Ascenzo & Claudio Grassi | | | Metabolic diseases have been associated with cognitive impairment. Here, the authors show that brain insulin resistance induced by high-fat diet leads to increased palmitoylation of AMPA receptors and thus changes in hippocampal plasticity, learning and memory. | | 08 December 2017 | doi: 10.1038/s41467-017-02221-9 | | Metabolism Molecular neuroscience Synaptic plasticity | Robust RNA-based in situ mutation detection delineates colorectal cancer subclonal evolution OPEN | | Ann-Marie Baker, Weini Huang, Xiao-Ming Mindy Wang, Marnix Jansen, Xiao-Jun Ma, Jeffrey Kim, Courtney M. Anderson, Xingyong Wu, Liuliu Pan, Nan Su, Yuling Luo, Enric Domingo, Timon Heide, Andrea Sottoriva, Annabelle Lewis, Andrew D. Beggs, Nicholas A. Wright, Manuel Rodriguez-Justo, Emily Park, Ian Tomlinson et al. | | | Methods that analyze intra-tumor genetic heterogeneity often do not preserve the spatial context of tumor subclones. Here, the authors present BaseScope, a mutation-specific RNA in situ hybridization assay and spatially map colorectal cancer and adenoma KRAS, BRAF and PIK3CA driver gene mutant subclones. | | 08 December 2017 | doi: 10.1038/s41467-017-02295-5 | | Colorectal cancer Genetic techniques Tumour heterogeneity | Induced unconventional superconductivity on the surface states of Bi2Te3 topological insulator OPEN | | Sophie Charpentier, Luca Galletti, Gunta Kunakova, Riccardo Arpaia, Yuxin Song, Reza Baghdadi, Shu Min Wang, Alexei Kalaboukhov, Eva Olsson, Francesco Tafuri, Dmitry Golubev, Jacob Linder, Thilo Bauch & Floriana Lombardi | | | Proximity effect may induce unconventional superconductivity in the topologically protected surface states of a topological insulator, however experimental evidence remains rare. Here, Charpentier et al. report proximity effect induced superconductivity in nanoscale Josephson junctions and suggest an unconventional p-wave order parameter. | | 08 December 2017 | doi: 10.1038/s41467-017-02069-z | | Superconducting devices Superconducting properties and materials Topological insulators | Crystal structure of an RNA-cleaving DNAzyme OPEN | | Hehua Liu, Xiang Yu, Yiqing Chen, Jing Zhang, Baixing Wu, Lina Zheng, Phensinee Haruehanroengra, Rui Wang, Suhua Li, Jinzhong Lin, Jixi Li, Jia Sheng, Zhen Huang, Jinbiao Ma & Jianhua Gan | | | RNA-cleaving DNA enzymes are catalytic DNA that can cleave RNA in a sequence-specific manner. Here, the authors report three crystal structures of the 8–17 DNAzyme that include the pre-catalytic state of the RNA cleavage reaction, providing insight into the catalytic mechanism and may guide the rational design of DNAzymes. | | 08 December 2017 | doi: 10.1038/s41467-017-02203-x | | DNA Enzyme mechanisms Ribozymes X-ray crystallography | An assessment of the global impact of 21st century land use change on soil erosion OPEN | | Pasquale Borrelli, David A. Robinson, Larissa R. Fleischer, Emanuele Lugato, Cristiano Ballabio, Christine Alewell, Katrin Meusburger, Sirio Modugno, Brigitta Schütt, Vito Ferro, Vincenzo Bagarello, Kristof Van Oost, Luca Montanarella & Panos Panagos | | | Human activity and related land use change are the primary cause of soil erosion. Here, the authors show the impacts of 21st century global land use change on soil erosion based on an unprecedentedly high resolution global model that provides insights into the mitigating effects of conservation agriculture. | | 08 December 2017 | doi: 10.1038/s41467-017-02142-7 | | Carbon cycle Environmental impact Geomorphology Sustainability | HEB is required for the specification of fetal IL-17-producing γδ T cells OPEN | | Tracy S. H. In, Ashton Trotman-Grant, Shawn Fahl, Edward L. Y. Chen, Payam Zarin, Amanda J. Moore, David L. Wiest, Juan Carlos Zúñiga-Pflücker & Michele K. Anderson | | | The γδ T cell pool includes abundant IL-17-producing cells that protect mucosal surfaces, but the signals that control γδ T cell specification are unclear. Here the authors identify a role for the transcription factor HEB, and antagonistic activity of Id3, in the development of these cells. | | 08 December 2017 | doi: 10.1038/s41467-017-02225-5 | | Gammadelta T cells Gene regulation in immune cells Lymphopoiesis | low neurotrophin receptor CD271 regulates phenotype switching in melanoma OPEN | | Gaetana Restivo, Johanna Diener, Phil F. Cheng, Gregor Kiowski, Mario Bonalli, Thomas Biedermann, Ernst Reichmann, Mitchell P. Levesque, Reinhard Dummer & Lukas Sommer | | | The aggressive nature of melanoma cells relies on their ability to switch from a high-proliferative/low-invasive to a low-proliferative/high-invasive state; however, the mechanisms governing this switch are unclear. Here, using in vivo models of human melanoma, the authors show that CD271 is a key regulator of phenotype switching and metastasis formation. | | 07 December 2017 | doi: 10.1038/s41467-017-01573-6 | | Melanoma Metastasis | Malaria parasite DNA-harbouring vesicles activate cytosolic immune sensors OPEN | | Xavier Sisquella, Yifat Ofir-Birin, Matthew A. Pimentel, Lesley Cheng, Paula Abou Karam, Natália G. Sampaio, Jocelyn Sietsma Penington, Dympna Connolly, Tal Giladi, Benjamin J. Scicluna, Robyn A. Sharples, Andreea Waltmann, Dror Avni, Eli Schwartz, Louis Schofield, Ziv Porat, Diana S. Hansen, Anthony T. Papenfuss, Emily M. Eriksson, Motti Gerlic et al. | | | STING is an intracellular DNA sensor that can alter response to infection, but in the case of malaria it is unclear how parasite DNA in red blood cells (RBCs) reaches DNA sensors in immune cells. Here the authors show that STING in human monocytes can sense P. falciparum nucleic acids transported from infected RBCs via parasite extracellular vesicles. | | 07 December 2017 | doi: 10.1038/s41467-017-02083-1 | | Parasite host response Pattern recognition receptors | Differentially evolved glucosyltransferases determine natural variation of rice flavone accumulation and UV-tolerance OPEN | | Meng Peng, Raheel Shahzad, Ambreen Gul, Hizar Subthain, Shuangqian Shen, Long Lei, Zhigang Zheng, Junjie Zhou, Dandan Lu, Shouchuang Wang, Elsayed Nishawy, Xianqing Liu, Takayuki Tohge, Alisdair R. Fernie & Jie Luo | | | In contrast to flavonols, the functions of plant flavones are largely unknown. Here, the authors report the two differentially evolved glucosyltranferases (flavone 7-O-glucosyltransferase and flavone 5-O-glucosyltransferase) determine natural variation of rice flavone accumulation and UV-tolerance. | | 07 December 2017 | doi: 10.1038/s41467-017-02168-x | | Agricultural genetics Genome-wide association studies Natural variation in plants Plant genetics | Characterization of a membrane-bound C-glucosyltransferase responsible for carminic acid biosynthesis in Dactylopius coccus Costa OPEN | | Rubini Kannangara, Lina Siukstaite, Jonas Borch-Jensen, Bjørn Madsen, Kenneth T. Kongstad, Dan Staerk, Mads Bennedsen, Finn T. Okkels, Silas A. Rasmussen, Thomas O. Larsen, Rasmus J. N. Frandsen & Birger Lindberg Møller | | | Carminic acid is a widely applied red colorant that is still harvested from insects because its biosynthesis is not fully understood. Here, the authors identify and characterize a membrane-bound C-glucosyltransferase catalyzing the final step during carminic acid biosynthesis. | | 07 December 2017 | doi: 10.1038/s41467-017-02031-z | | Glycosylation Natural product synthesis Transferases | Rhythmic potassium transport regulates the circadian clock in human red blood cells OPEN | | Erin A. Henslee, Priya Crosby, Stephen J. Kitcatt, Jack S. W. Parry, Andrea Bernardini, Rula G. Abdallat, Gabriella Braun, Henry O. Fatoyinbo, Esther J. Harrison, Rachel S. Edgar, Kai F. Hoettges, Akhilesh B. Reddy, Rita I. Jabr, Malcolm von Schantz, John S. O’Neill & Fatima H. Labeed | | | Circadian rhythms usually rely on cyclic variations in gene expression. Red blood cells, however, display circadian rhythms while being devoid of nuclear DNA. Here, Henslee and colleagues show that circadian rhythms in isolated human red blood cells are dependent on rhythmic transport of K+ ions. | | 07 December 2017 | doi: 10.1038/s41467-017-02161-4 | | Blood flow Circadian rhythms Electrophysiology | Allosteric pyruvate kinase-based “logic gate” synergistically senses energy and sugar levels in Mycobacterium tuberculosis OPEN | | Wenhe Zhong, Liang Cui, Boon Chong Goh, Qixu Cai, Peiying Ho, Yok Hian Chionh, Meng Yuan, Abbas El Sahili, Linda A. Fothergill-Gilmore, Malcolm D. Walkinshaw, Julien Lescar & Peter C. Dedon | | | Pyruvate kinase (PYK) controls glycolytic flux. Here, the authors combine biochemical, structural and computational modelling studies to characterize the allosteric mechanisms regulating Mycobacterium tuberculosis PYK activity and show that AMP and glucose-6-phosphate are synergistic allosteric activators of the enzyme. | | 07 December 2017 | doi: 10.1038/s41467-017-02086-y | | Enzyme mechanisms Infectious diseases Metabolomics Pathogens X-ray crystallography | | | | | | | | Advertisement | | | | | Advertisement | | Do you have a career question? The Naturejobs podcast features one-on-one Q&As, panel discussions and other exclusive content to help scientists with their careers. Hosted on the Naturejobs blog, the podcast is also available on iTunes and Soundcloud. Listen today! | | | | | | Advertisement | | | | | | | | | | | Natureevents is a fully searchable, multi-disciplinary database designed to maximise exposure for events organisers. The contents of the Natureevents Directory are now live. 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