Nature Communications - 21 August 2013

Advertisement A*STAR Research  Highlighting the best of research at the Agency for Science, Technology and Research (A*STAR), Singapore's premier research organization Recent Highlights Pathology: All sorted on a single microchip | Data storage: Maintaining privacy on the cloud | Cancer biology: In search of stem cell origins | Optics: Nanotechnology's benefits brought into focus | Imaging: A brighter future for cell tracking     Weekly Content Alert 21 August 2013  Featured image: Seim et al. sequence the genome and transcriptome of the Brandt's bat (Myotis brandtii) and reveal adaptations to echolocation and hibernation. Latest content: Articles Corrigendum Journal homepage Recommend to library Web feed   Advertisement Nature Reprint Collection MicroRNAs from bench to clinic This Nature Reprint Collection presents some of the recent advances in moving microRNAs from basic research into the clinic both as diagnostic biomarkers and therapeutic targets.  Click here to access the Collection for free! Produced with support from:        Latest Articles View all Articles     Marine protected area improves yield without disadvantaging fishers Sven E. Kerwath, Henning Winker, Albrecht Götz and Colin G. Attwood Potential fishery benefits of Marine Protected Areas are widely acknowledged, yet their impact on fishery dynamics remains poorly understood. Here, the authors provide evidence that Marine Protected Areas can rapidly increase catch rates in adjacent areas, without measurable disadvantages for fishers. 20 August 2013 | doi: 10.1038/ncomms3347 Biological Sciences  Ecology  Genome analysis reveals insights into physiology and longevity of the Brandt's bat Myotis brandtii OPEN Inge Seim, Xiaodong Fang, Zhiqiang Xiong, Alexey V. Lobanov, Zhiyong Huang, Siming Ma, Yue Feng, Anton A. Turanov, Yabing Zhu, Tobias L. Lenz, Maxim V. Gerashchenko, Dingding Fan, Sun Hee Yim, Xiaoming Yao, Daniel Jordan, Yingqi Xiong, Yong Ma, Andrey N. Lyapunov, Guanxing Chen, Oksana I. Kulakova et al. Bats account for 20 per cent of all mammals, these are the only mammals with powered flight, and are among the few animals that echolocate. Here, Seim et al. sequence the genome of the long-lived (>40 years) Brandt's bat, Myotis brandtii and provide clues to its evolution, longevity and other traits. 20 August 2013 | doi: 10.1038/ncomms3212 Biological Sciences  Evolution  Genetics  Tetragonal phase of epitaxial room-temperature antiferromagnet CuMnAs P. Wadley, V. Novák, R.P. Campion, C. Rinaldi, X. Martí, H. Reichlová, J. Železný, J. Gazquez, M.A. Roldan, M. Varela, D. Khalyavin, S. Langridge, D. Kriegner, F. Máca, J. Mašek, R. Bertacco, V. Holý, A.W. Rushforth, K.W. Edmonds, B.L. Gallagher et al. The use of antiferromagnetic materials in spintronic devices has been proposed as an attractive alternative to ferromagnets, but only a few suitable materials are known. Here, the authors synthesize a new antiferromagnet (AFM)—tetragonal epitaxial CuMnAs—and show that it is ideal for spintronic applications. 20 August 2013 | doi: 10.1038/ncomms3322 Physical Sciences  Applied physics  Materials science  Patterned prevascularised tissue constructs by assembly of polyelectrolyte hydrogel fibres Meng Fatt Leong, Jerry K. C. Toh, Chan Du, Karthikeyan Narayanan, Hong Fang Lu, Tze Chiun Lim, Andrew C. A. Wan and Jackie Y. Ying Tissue engineering relies on the vascular compatibility of the synthesised constructs with target tissues. Here, the authors fabricate a prevascularised tissue construct of cell-laden hydrogel fibres as a framework that allows the formation of vascularised adipose and hepatic tissues. 19 August 2013 | doi: 10.1038/ncomms3353 Biological Sciences  Bioengineering  Biotechnology Materials science Medical research  Scaling laws for van der Waals interactions in nanostructured materials OPEN Vivekanand V. Gobre and Alexandre Tkatchenko Van der Waals interactions have a large influence on phenomena that occur at short-length scales. Gobre et al. demonstrate that van der Waals interactions in low-dimensional materials act at very large distances, and can significantly influence the self-assembly of nanostructured systems. 19 August 2013 | doi: 10.1038/ncomms3341 Physical Sciences  Materials science  Nanotechnology  FLOWERING LOCUS C in monocots and the tandem origin of angiosperm-specific MADS-box genes Philip Ruelens, Ruud A. de Maagd, Sebastian Proost, Günter Theißen, Koen Geuten and Kerstin Kaufmann MADS-box genes regulate flowering plant development, but their evolutionary origins are unclear. Here, Ruelens et al. show that three major, apparently flowering plant-specific, MADS-box gene clades are derived from a single ancestral tandem duplication, and identify FLOWERING LOCUS C-like genes in cereals. 19 August 2013 | doi: 10.1038/ncomms3280 Biological Sciences  Evolution  Plant sciences  Local orthogonality as a multipartite principle for quantum correlations T. Fritz, A.B. Sainz, R. Augusiak, J Bohr Brask, R. Chaves, A. Leverrier and A. Acín The correlations exhibited by multipartite quantum systems composed of more than two entangled subsystems are more difficult to describe than those of bipartite quantum systems. Fritz et al. propose a principle of 'local orthogonality' as a key element to describing multipartite quantum correlations. 16 August 2013 | doi: 10.1038/ncomms3263 Physical Sciences  Theoretical physics  Membrane-less hydrogen bromine flow battery William A. Braff, Martin Z. Bazant and Cullen R. Buie Membrane-less electrochemical systems eliminate the need for costly ion-exchange membranes, but typically suffer from low-power densities. Braff et al. propose a hydrogen bromine laminar flow battery, which rivals the performance of the best membrane-based systems. 16 August 2013 | doi: 10.1038/ncomms3346 Physical Sciences  Fluids and plasma physics Physical chemistry  Thermodynamic behaviour of supercritical matter Dima Bolmatov, V. V. Brazhkin and K. Trachenko A physical description of supercritical fluids remains challenging because common approximations for solids and gases do not apply to liquids. Bolmatov et al. identify a liquid/gas dynamic crossover of specific heat above the critical point, and formulate a theory to shed light on its nature. 16 August 2013 | doi: 10.1038/ncomms3331 Physical Sciences  Fluids and plasma physics Theoretical physics  Mutation in the seed storage protein kafirin creates a high-value food trait in sorghum Yongrui Wu, Lingling Yuan, Xiaomei Guo, David R. Holding and Joachim Messing Sorghum is an important crop species for the African continent but the grain is difficult to digest. The authors of this study examine a previously identified sorghum mutant known for improved digestion and find that the mutant is the result of a point mutation in the seed-processing protein kafirin. 16 August 2013 | doi: 10.1038/ncomms3217 Biological Sciences  Plant sciences  Selective anion exchange with nanogated isoreticular positive metal-organic frameworks Xiang Zhao, Xianhui Bu, Tao Wu, Shou-Tian Zheng, Le Wang and Pingyun Feng Crystalline porous materials are commonly based around negatively charged frameworks, so ion-exchange is limited to cations. Here, the authors report a series of positive metal-organic frameworks, capable of ion exchange of large organic anions, with potential in separation and purification applications. 16 August 2013 | doi: 10.1038/ncomms3344 Chemical Sciences  Inorganic chemistry  Nanoconfinement effects on hydrated excess protons in layered materials Daniel Muñoz-Santiburcio, Carsten Wittekindt and Dominik Marx An understanding of excess protons in nanoconfined water is highly relevant to technological applications such as fuel cell membranes. Here, ab initio simulation reveals almost barrier-free proton transfer even in the limit of molecularly thin water films confined by mineral sheets. 16 August 2013 | doi: 10.1038/ncomms3349 Physical Sciences  Condensed matter  Fluids and plasma physics Physical chemistry  Depinning probability of a magnetic domain wall in nanowires by spin-polarized currents S. Fukami, M. Yamanouchi, S. Ikeda and H. Ohno The ability to move magnetic domain walls within magnetic nanowires is a potentially useful means of manipulating and storing digital information. Fukami et al. report a systematic study of the conditions under which these walls can be depinned from a pinning site in a magnetic nanowire. 15 August 2013 | doi: 10.1038/ncomms3293 Physical Sciences  Applied physics  Condensed matter  Visualizing charge separation in bulk heterojunction organic solar cells D. Amarasinghe Vithanage, A. Devižis, V. Abramavičius, Y. Infahsaeng, D. Abramavičius, R. C. I. MacKenzie, P. E. Keivanidis, A. Yartsev, D. Hertel, J. Nelson, V. Sundström and V. Gulbinas A better design of organic bulk heterojunction solar cells needs a deeper understanding of the behaviour of photo-induced electron–hole pairs. Vithanage et al. experimentally identify fast initial carrier diffusion as the main driving force for charge separation against the Coulomb attraction. 15 August 2013 | doi: 10.1038/ncomms3334 Physical Sciences  Condensed matter  Materials science  Estimating the tolerance of species to the effects of global environmental change Serguei Saavedra, Rudolf P. Rohr, Vasilis Dakos and Jordi Bascompte Global environmental change is affecting the strength of interspecific interactions. The authors here estimate how much change species can tolerate before becoming extinct, and they find that species tolerance is very sensitive to the net direction of change. 15 August 2013 | doi: 10.1038/ncomms3350 Biological Sciences  Ecology  Atomic-scale dynamic process of deformation-induced stacking fault tetrahedra in gold nanocrystals Jiang Wei Wang, Sankar Narayanan, Jian Yu Huang, Ze Zhang, Ting Zhu and Scott X. Mao Stacking fault tetrahedra are crystalline defects known to occur in face centred cubic metals, and originate from vacancies. Wang et al. demonstrate a new variety of stacking fault tetrahedra in nanometre-scale gold nanocrystals, formed by the interaction and cross-slip of partial dislocations. 15 August 2013 | doi: 10.1038/ncomms3340 Physical Sciences  Materials science  ATG5 is induced by DNA-damaging agents and promotes mitotic catastrophe independent of autophagy OPEN Dipak Maskey, Shida Yousefi, Inès Schmid, Inti Zlobec, Aurel Perren, Robert Friis and Hans-Uwe Simon The protein ATG5 is known to be involved in the formation of autophagosomes. Here, Maskey et al. identify a new role of ATG5 in response to drug-induced DNA damage whereby ATG5 translocates to the nucleus, leading to chromosome misalignment and mitotic catastrophe. 15 August 2013 | doi: 10.1038/ncomms3130 Biological Sciences  Cell biology  Axonal and subcellular labelling using modified rabies viral vectors Ian R. Wickersham, Heather A. Sullivan and H. Sebastian Seung Viral vectors can be used both to map and manipulate neural circuits in vivo; however, their use is limited by weak expression levels, especially when expression of more than one protein is required. Here, the authors overcome this limitation using deletion-mutant rabies viruses. 15 August 2013 | doi: 10.1038/ncomms3332 Biological Sciences  Neuroscience  Ballistic interferences in suspended graphene Peter Rickhaus, Romain Maurand, Ming-Hao Liu, Markus Weiss, Klaus Richter and Christian Schönenberger Exploiting the optics-like dynamics of low-energy electronic excitations in graphene requires the challenging combination of ballistic transport and complex gating. Here, the fabrication and characterization of suspended graphene p–n junctions is reported, paving the way for future electron optics experiments. 15 August 2013 | doi: 10.1038/ncomms3342 Physical Sciences  Condensed matter  Nanotechnology  Rotating-frame relaxation as a noise spectrum analyser of a superconducting qubit undergoing driven evolution Fei Yan, Simon Gustavsson, Jonas Bylander, Xiaoyue Jin, Fumiki Yoshihara, David G. Cory, Yasunobu Nakamura, Terry P. Orlando and William D. Oliver Quantum computing relies on logic gates operated by different pulse sequences, but their efficiency is limited by decoherence. Yan et al. identify an analogy between free- and driven-evolution sequences, and use it to develop a driven-evolution-based noise spectroscopy on a superconducting flux qubit. 15 August 2013 | doi: 10.1038/ncomms3337 Physical Sciences  Condensed matter  Quantum criticality in electron-doped BaFe2-xNixAs2 R. Zhou, Z. Li, J. Yang, D. L. Sun, C. T. Lin and Guo-qing Zheng A system that undergoes a phase transition at absolute zero is said to exhibit a quantum critical point. Zhou et al. identify the signatures of not one but two quantum critical points in the finite-temperature characteristics of an iron-based superconductor. 15 August 2013 | doi: 10.1038/ncomms3265 Physical Sciences  Condensed matter  Interaction of independent single photons based on integrated nonlinear optics T. Guerreiro, E. Pomarico, B. Sanguinetti, N. Sangouard, J. S. Pelc, C. Langrock, M. M. Fejer, H. Zbinden, R. T. Thew and N. Gisin Nonlinear interactions of single photons are important for future quantum technologies, but they are weak and hard to detect. By performing sum-frequency generation between single photons and single-photon level coherent states, Guerreiro et al. show that high-efficiency waveguides can overcome this. 15 August 2013 | doi: 10.1038/ncomms3324 Physical Sciences  Optical physics  Cooling-by-measurement and mechanical state tomography via pulsed optomechanics M. R. Vanner, J. Hofer, G. D. Cole and M. Aspelmeyer Controlling quantum systems requires measurements that do not blur their delicate quantum features. Vanner et al. use optical pulses to measure the position and reconstruct the state of a mechanical oscillator without back-action, paving the way to observing non-classical motional states. 15 August 2013 | doi: 10.1038/ncomms3295 Physical Sciences  Applied physics  Optical physics  LRRFIP2 negatively regulates NLRP3 inflammasome activation in macrophages by promoting Flightless-I-mediated caspase-1 inhibition OPEN Jing Jin, Qian Yu, Chaofeng Han, Xiang Hu, Sheng Xu, Qingqing Wang, Jianli Wang, Nan Li and Xuetao Cao Inflammasomes promote the maturation of inflammatory cytokines in response to signals associated with damage and infection, but it remains unclear how these signals are attenuated. Here, the authors show that the NLRP3 inflammasome is inhibited by LRRFIP2 through recruitment of the protein Flightless I. 14 August 2013 | doi: 10.1038/ncomms3075 Biological Sciences  Immunology  Bcl-wav and the mitochondrial calcium uniporter drive gastrula morphogenesis in zebrafish Julien Prudent, Nikolay Popgeorgiev, Benjamin Bonneau, Julien Thibaut, Rudy Gadet, Jonathan Lopez, Philippe Gonzalo, Ruth Rimokh, Stephen Manon, Corinne Houart, Philippe Herbomel, Abdel Aouacheria and Germain Gillet Ca2+ is an intracellular messenger that has a critical role in zebrafish development. Here, Prudent et al. show that during gastrulation, the newly identified Bcl-2 homologue, Bcl-wav and the mitochondrial calcium uniporter regulate cell migration by controlling mitochondrial Ca2+ storage. 14 August 2013 | doi: 10.1038/ncomms3330 Biological Sciences  Cell biology  Developmental biology  Complement anaphylatoxin C3a is a potent inducer of embryonic chick retina regeneration OPEN Tracy Haynes, Agustin Luz-Madrigal, Edimara S. Reis, Nancy P. Echeverri Ruiz, Erika Grajales-Esquivel, Apostolia Tzekou, Panagiotis A. Tsonis, John D. Lambris and Katia Del Rio-Tsonis Components of the complement system have been shown to promote liver regeneration. Haynes et al. demonstrate that the complement fragment C3a can induce regeneration of the embryonic chick retina from stem and progenitor cells of the ciliary margin via activation of STAT3 and other downstream signalling pathways. 14 August 2013 | doi: 10.1038/ncomms3312 Biological Sciences  Developmental biology  Formation of nitrogen-doped graphene nanoscrolls by adsorption of magnetic γ-Fe2O3 nanoparticles Tiva Sharifi, Eduardo Gracia-Espino, Hamid Reza Barzegar, Xueen Jia, Florian Nitze, Guangzhi Hu, Per Nordblad, Cheuk-Wai Tai and Thomas Wågberg Graphene nanoscrolls are known to display interesting electronic structures and properties. Sharifi et al. demonstrate a 100% efficient process for their reversible formation, based on decorating nitrogen-doped graphene with magnetic iron oxide particles. 14 August 2013 | doi: 10.1038/ncomms3319 Physical Sciences  Materials science  Nanotechnology  PhyloPhlAn is a new method for improved phylogenetic and taxonomic placement of microbes Nicola Segata, Daniela Börnigen, Xochitl C. Morgan and Curtis Huttenhower Sequencing whole microbial genomes has become standard practice and methods to examine their phylogenetic relationships need to match the increasing demand. Segata et al. present a new computational pipeline that allows fast and accurate taxonomic assignment of microbial species. 14 August 2013 | doi: 10.1038/ncomms3304 Biological Sciences  Bioinformatics  Microbiology  The Capsaspora genome reveals a complex unicellular prehistory of animals OPEN Hiroshi Suga, Zehua Chen, Alex de Mendoza, Arnau Sebé-Pedrós, Matthew W. Brown, Eric Kramer, Martin Carr, Pierre Kerner, Michel Vervoort, Núria Sánchez-Pons, Guifré Torruella, Romain Derelle, Gerard Manning, B. Franz Lang, Carsten Russ, Brian J. Haas, Andrew J. Roger, Chad Nusbaum and Iñaki Ruiz-Trillo Unicellular ancestors of metazoans can provide significant insights into the origin of multicellularity. Suga et al. present the first complete genome of the filasterean Capsaspora owczarzaki and suggest an evolutionary mechanism for the transition from unicellular protists to metazoans. 14 August 2013 | doi: 10.1038/ncomms3325 Biological Sciences  Evolution  Genetics    Nature Communiactions JOBS of the week Postdoctoral fellow University of South Alabama College of Medicine Research Associate The University of Manchester Research Fellow University of Edinburgh Post doctoral fellow (m / f) KU Leuven - Belgium Inpatient Geriatric Psychiatrist Yale Univeristy School of Medicine Research Associate King's College London Postdoctoral Fellow National University of Singapore (NUS) Post-Doctoral Fellow Inserm (French Institute of Health and Medical Research) Postdoctoral Research Assistant University of Oxford More Science jobs from Nature Communiactions EVENT Next Generation Sequencing 13.04.14 Cambridge, UK More science events from       Latest Corrigendum     Corrigendum: Genome sequences of wild and domestic bactrian camels null null, Zhen Wang, Guohui Ding, Gangliang Chen, Yamin Sun, Zhihong Sun, Heping Zhang, Lei Wang, Surong Hasi, Yan Zhang, Jianmei Li, Yixiang Shi, Ze Xu, Chuan He, Siriguleng Yu, Shengdi Li, Wenbin Zhang, Mijiddorj Batmunkh, Batsukh Ts, Narenbatu et al. 16 August 2013 | doi: 10.1038/ncomms3089 Biological Sciences  Evolution  Genetics    Advertisement Nature Medicine and Helmholtz Zentrum München present: 1st Annual Helmholtz-Nature Medicine Diabetes Conference September 22-24, 2013 Residenz München Munich, Germany Click here for more information or to register for this conference today!      Natureevents is a fully searchable, multi-disciplinary database designed to maximise exposure for events organisers. 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