Scientific Reports Biology Table of Contents e-alert: 11 August 2015

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11 August 2015      • Visit Scientific Reports • Submit your manuscript to Scientific Reports     Welcome to your Table of Contents e-alert for Scientific Reports               Biological Sciences               Multiple paternity and hybridization in two smooth-hound sharks ▶     Ilaria A. M. Marino, Emilio Riginella, Michele Gristina et al.     Multiple paternity appears to be a common trait of elasmobranch mating systems, with its occurrence likely driven by convenience, due to females seeking to minimize the stress of …             Attention is necessary for subliminal instrumental conditioning ▶     Tommaso Mastropasqua, Massimo Turatto     The capacity of humans and other animals to provide appropriate responses to stimuli anticipating motivationally significant events is exemplified by instrumental conditioning. …             Effects of the properties of short peptides conjugated with cell-penetrating peptides on their internalization into cells ▶     Ryo Matsumoto, Mina Okochi, Kazunori Shimizu et al.     Peptides, especially intracellular functional peptides that can play a particular role inside a cell, have attracted attention as promising materials to control cell fate. …             Quantitative activation-induced manganese-enhanced MRI reveals severity of Parkinson’s disease in mice ▶     Satomi Kikuta, Yukiyo Nakamura, Yukio Yamamura et al.     We demonstrate that activation-induced manganese-enhanced magnetic resonance imaging with quantitative determination of the longitudinal relaxation time (qAIM-MRI) reveals the …             PDZ interaction of Vangl2 links PSD-95 and Prickle2 but plays only a limited role in the synaptic localisation of Vangl2 ▶     Tadahiro Nagaoka, Katsuhiko Tabuchi, Masashi Kishi     Postsynaptic density-95/Discs large/Zonula occludens-1 (PDZ) domain-mediated protein interactions play pivotal roles in various molecular biological events, including protein …             STIM1 accelerates cell senescence in a remodeled microenvironment but enhances the epithelial-to-mesenchymal transition in prostate cancer ▶     Yingxi Xu, Shu Zhang, Haiying Niu et al.     The importance of store-operated Ca2+ entry (SOCE) and the role of its key molecular regulators, STIM1 and ORAI1, in the development of cancer are emerging. Here, we report an …             miR-378a-3p modulates tamoxifen sensitivity in breast cancer MCF-7 cells through targeting GOLT1A ▶     Kazuhiro Ikeda, Kuniko Horie-Inoue, Toshihide Ueno et al.     Breast cancer is a hormone-dependent cancer and usually treated with endocrine therapy using aromatase inhibitors or anti-estrogens such as tamoxifen. A majority of breast …             Feeding regulates sex pheromone attraction and courtship in Drosophila females ▶     Sébastien Lebreton, Federica Trona, Felipe Borrero-Echeverry et al.     In Drosophila melanogaster, gender-specific behavioural responses to the male-produced sex pheromone cis-vaccenyl acetate (cVA) rely on sexually dimorphic, third-order neural …             Evaluation of genetic susceptibility of common variants in CACNA1D with schizophrenia in Han Chinese ▶     Fanglin Guan, Lu Li, Chuchu Qiao et al.     The heritability of schizophrenia (SCZ) has been estimated to be as high as 80%, suggesting that genetic factors may play an important role in the etiology of SCZ. Cav1.2 encoded …             Ornithine Transcarbamylase ArgK Plays a Dual role for the Self-defense of Phaseolotoxin Producing Pseudomonas syringae pv. phaseolicola ▶     Li chen, Pin li, Zixin deng et al.     Pseudomonas syringae is a phytopathogenic bacterium widely spread on terrestrial plants. Sulfodiaminophosphinyl tripeptide Phaseolotoxins (PHTs), produced by P. syringae pv. …             Subalpine Pyrenees received higher nitrogen deposition than predicted by EMEP and CHIMERE chemistry-transport models ▶     Marion Boutin, Thierry Lamaze, Florian Couvidat et al.     Deposition of reactive nitrogen (N) from the atmosphere is expected to be the third greatest driver of biodiversity loss by the year 2100. Chemistry-transport models are …             Slow mitochondrial repair of 5′-AMP renders mtDNA susceptible to damage in APTX deficient cells ▶     Mansour Akbari, Peter Sykora, Vilhelm A. Bohr     Aborted DNA ligation events in eukaryotic cells can generate 5′-adenylated (5′-AMP) DNA termini that can be removed from DNA by aprataxin (APTX). Mutations in APTX cause an …             Systematic analyses reveal uniqueness and origin of the CFEM domain in fungi ▶     Zhen-Na Zhang, Qin-Yi Wu, Gui-Zhi Zhang et al.     CFEM domain commonly occurs in fungal extracellular membrane proteins. To provide insights for understanding putative functions of CFEM, we investigate the evolutionary dynamics …             Bacterioplankton community shifts associated with epipelagic and mesopelagic waters in the Southern Ocean ▶     Zheng Yu, Jun Yang, Lemian Liu et al.     The Southern Ocean is among the least explored marine environments on Earth, and still little is known about regional and vertical variability in the diversity of Antarctic …             Streptomyces natalensis programmed cell death and morphological differentiation are dependent on oxidative stress ▶     Tiago Beites, Paulo Oliveira, Beatriz Rioseras et al.     Streptomyces are aerobic Gram-positive bacteria characterized by a complex life cycle that includes hyphae differentiation and spore formation. Morphological differentiation is …             Multiple conversion between the genes encoding bacterial class-I release factors ▶     Sohta A. Ishikawa, Ryoma Kamikawa, Yuji Inagaki     Bacteria require two class-I release factors, RF1 and RF2, that recognize stop codons and promote peptide release from the ribosome. RF1 and RF2 were most likely established …             Systems biology approach to studying proliferation-dependent prognostic subnetworks in breast cancer ▶     Qianqian Song, Hongyan Wang, Jiguang Bao et al.     Tumor proliferative capacity is a major biological correlate of breast tumor metastatic potential. In this paper, we developed a systems approach to investigate associations …             Surface Plasmon Resonance Biosensor Based on Smart Phone Platforms ▶     Yun Liu, Qiang Liu, Shimeng Chen et al.     We demonstrate a fiber optic surface plasmon resonance (SPR) biosensor based on smart phone platforms. The light-weight optical components and sensing element are connected by …             White matter alterations in first episode treatment-naïve patients with deficit schizophrenia: a combined VBM and DTI study ▶     Wei Lei, Na Li, Wei Deng et al.     Categorizing ‘deficit schizophrenia’ (DS) as distinct from ‘non-deficit’ schizophrenia (NDS) may help reduce heterogeneity within schizophrenia. However, it is unknown if DS has …             Denitrifying capability and community dynamics of glycogen accumulating organisms during sludge granulation in an anaerobic-aerobic sequencing batch reactor ▶     Zhang Bin, Xue Bin, Qiu Zhigang et al.     Denitrifying capability of glycogen accumulating organisms (GAOs) has received great attention in environmental science and microbial ecology. Combining this ability with granule …             Polymorphisms in MicroRNA Genes And Genes Involving in NMDAR Signaling and Schizophrenia: A Case-Control Study in Chinese Han Population ▶     Yanxia Zhang, Mei Fan, Qingzhong Wang et al.     Disturbances in glutamate signaling caused by disruption of N-methyl-D-aspartate-type glutamate receptor (NMDAR) have been implicated in schizophrenia. Findings suggested that …             DNA sequencing with MspA: Molecular Dynamics simulations reveal free-energy differences between sequencing and non-sequencing mutants ▶     Richard M.A. Manara, E. Jayne Wallace, Syma Khalid     MspA has been identified as a promising candidate protein as a component of a nanopore-based DNA-sequencing device. However the wildtype protein must be engineered to incorporate …             Gene expression in breastmilk cells is associated with maternal and infant characteristics ▶     Alecia-Jane Twigger, Anna R. Hepworth, Ching Tat Lai et al.     Breastmilk is a rich source of cells with a heterogeneous composition comprising early-stage stem cells, progenitors and more differentiated cells. The gene expression profiles …             S-maltoheptaose targets syndecan-bound effectors to reduce smoking-related neutrophilic inflammation ▶     David CL Lam, Stanley CH Chan, Judith CW Mak et al.     Cigarette smoke induces injury and neutrophilic inflammation in the airways of smokers. The stability and activity of inflammatory effectors, IL8 and neutrophil elastase (NE), …             Growth differentiation factor-15: a p53- and demethylation-upregulating gene represses cell proliferation, invasion, and tumorigenesis in bladder carcinoma cells ▶     Ke-Hung Tsui, Shu-Yuan Hsu, Li-Chuan Chung et al.     Growth differentiation factor-15 (GDF15), a member of the TGF-β superfamily, affects tumor biology of certain cancers, but remains poorly understood in bladder cancer cells. This …             Examining the safety of respiratory and intravenous inoculation of Bdellovibrio bacteriovorus and Micavibrio aeruginosavorus in a mouse model ▶     Kenneth Shatzkes, Richard Chae, Chi Tang et al.     Bdellovibrio spp. and Micavibrio spp. are Gram-negative predators that feed on other Gram-negative bacteria, making predatory bacteria potential alternatives to antibiotics for …             Effects of Exendin-4 on bone marrow mesenchymal stem cell proliferation, migration and apoptosis in vitro ▶     Hao Zhou, Dandan Li, Chen Shi et al.     Mesenchymal stem cells (MSC) are regarded as an attractive source of therapeutic stem cells for myocardial infarction. However, their limited self-renewal capacity, low migration …             Sex hormones have pervasive effects on thymic epithelial cells ▶     Maude Dumont-Lagacé, Charles St-Pierre, Claude Perreault     The goal of our study was to evaluate at the systems-level, the effect of sex hormones on thymic epithelial cells (TECs). To this end, we sequenced the transcriptome of cortical …             Basal Autophagy Is Required for Herpes simplex Virus-2 Infection ▶     Abraam M. Yakoub, Deepak Shukla     Autophagy is a conserved catabolic process of the cell, which plays an important role in regulating plethora of infections. The role of autophagy in Herpes simplex virus-2 …             Non-classical MHC I-E negatively regulates macrophage activation and Th17 cell development in NOD mice ▶     Chunhui Yang, Nining Guo, Jinhua Liu et al.     Transgenic expression of I-E molecules prevents diabetes in NOD mice. So far, the precise role of these non-classical MHC II molecules remains elusive. Here, we showed that …             M. tuberculosis Secretory Protein ESAT-6 Induces Metabolic Flux Perturbations to Drive Foamy Macrophage Differentiation ▶     Varshneya Singh, Charanpreet Kaur, Vijay K. Chaudhary et al.     The Foamy Macrophage (FM) differentiation forms a major component of the host dependent survival axis of M. tuberculosis. The FM which are characterized by the intracellular …             The Use of Hebbian Cell Assemblies for Nonlinear Computation ▶     Christian Tetzlaff, Sakyasingha Dasgupta, Tomas Kulvicius et al.     When learning a complex task our nervous system self-organizes large groups of neurons into coherent dynamic activity patterns. During this, a network with multiple, …             Transcriptome analysis provides insights into the regulatory function of alternative splicing in antiviral immunity in grass carp (Ctenopharyngodon idella) ▶     Quanyuan Wan, Jianguo Su     Characterization of the transcriptomic response to infection is an effective approach to understanding the immune mechanisms. Herein we challenged grass carp (Ctenopharyngodon …             Detection of attempted movement from the EEG during neuromuscular block: proof of principle study in awake volunteers ▶     Yvonne Blokland, Loukianos Spyrou, Jos Lerou et al.     Brain-Computer Interfaces (BCIs) have the potential to detect intraoperative awareness during general anaesthesia. Traditionally, BCI research is aimed at establishing or …             Microfluidic Chip-LC/MS-based Glycomic Analysis Revealed Distinct N-glycan Profile of Rat Serum ▶     Wei-Na Gao, Lee-Fong Yau, Liang Liu et al.     The rat is an important alternative for studying human pathology owing to certain similarities to humans. Glycomic studies on rat serum have revealed that variations in the N…             Leishmania infection modulates beta-1 integrin activation and alters the kinetics of monocyte spreading over fibronectin ▶     Cláudio Pereira Figueira, Djalma Gomes Ferrão Carvalhal, Rafaela Andrade Almeida et al.     Contact with Leishmania leads to a decreases in mononuclear phagocyte adherence to connective tissue. In this work, we studied the early stages of bond formation between VLA4 and …             Streptococcus mutans copes with heat stress by multiple transcriptional regulons modulating virulence and energy metabolism ▶     Chengcheng Liu, Yulong Niu, Xuedong Zhou et al.     Dental caries is closely associated with the virulence of Streptococcus mutans. The virulence expression of S. mutans is linked to its stress adaptation to the changes in the …             A tool for developing an automatic insect identification system based on wing outlines ▶     He-Ping Yang, Chun-Sen Ma, Hui Wen et al.     For some insect groups, wing outline is an important character for species identification. We have constructed a program as the integral part of an automated system to identify …             CD73 and AMPD3 deficiency enhance metabolic performance via erythrocyte ATP that decreases hemoglobin oxygen affinity ▶     William G. O’Brien III, Vladimir Berka, Ah-Lim Tsai et al.     Erythrocytes are the key target in 5′-AMP induced hypometabolism. To understand how regulation of endogenous erythrocyte AMP levels modulates systemic metabolism, we generated …             DBC1/CCAR2 is involved in the stabilization of androgen receptor and the progression of osteosarcoma ▶     Sajeev Wagle, See-Hyoung Park, Kyoung Min Kim et al.     Deleted in breast cancer 1 (DBC1/CCAR2) is a protein of interest because of its diverse roles in tumorigenesis and its possible role as an androgen receptor (AR) co-activator. …             Serum miRNA expression profile as a prognostic biomarker of stage II/III colorectal adenocarcinoma ▶     Jialu Li, Yang Liu, Cheng Wang et al.     We sought to identify a serum miRNA expression profile to improve disease surveillance and to predict post-operative disease recurrence for stage II/III colorectal cancer (CRC) …             Co-evolution in a landrace meta-population: two closely related pathogens interacting with the same host can lead to different adaptive outcomes ▶     Domenico Rau, Monica Rodriguez, Maria Leonarda Murgia et al.     We examined the local adaptation patterns in a system comprising several interconnected heterogeneous plant populations from which populations of two phylogenetically closely …             Decellularized human liver as a natural 3D-scaffold for liver bioengineering and transplantation ▶     Giuseppe Mazza, Krista Rombouts, Andrew Rennie Hall et al.     Liver synthetic and metabolic function can only be optimised by the growth of cells within a supportive liver matrix. This can be achieved by the utilisation of decellularised …             Calcitonin gene-related peptide pre-administration acts as a novel antidepressant in stressed mice ▶     Narumi Hashikawa-Hobara, Takumi Ogawa, Yusuke Sakamoto et al.     Calcitonin gene-related peptide (CGRP) is a neuropeptide that has potent vasodilator properties and is involved in various behavioral disorders. The relationship between CGRP and …             Metabolomics analysis reveals the association between lipid abnormalities and oxidative stress, inflammation, fibrosis, and Nrf2 dysfunction in aristolochic acid-induced nephropathy ▶     Ying-Yong Zhao, Hui-Ling Wang, Xian-Long Cheng et al.     Alternative medicines are commonly used for the disease prevention and treatment worldwide. Aristolochic acid (AAI) nephropathy (AAN) is a common and rapidly progressive …             First Miocene rodent from Lebanon provides the 'missing link' between Asian and African gundis (Rodentia: Ctenodactylidae) ▶     Raquel López-Antoñanzas, Fabien Knoll, Sibelle Maksoud et al.     Ctenodactylinae (gundis) is a clade of rodents that experienced, in Miocene time, their greatest diversification and widest distribution. They expanded from the Far East, their …             Neurochemical characterization of pERK-expressing spinal neurons in histamine-induced itch ▶     Guan-Yu Jiang, Meng-Han Dai, Kun Huang et al.     Acute itch is divided into histamine- and non-histamine-dependent subtypes, and our previous study has shown that activation of ERK signaling in the spinal dorsal horn (SDH) is …             Ultrafast excited-state dynamics and fluorescence deactivation of near-infrared fluorescent proteins engineered from bacteriophytochromes ▶     Jingyi Zhu, Daria M. Shcherbakova, Yusaku Hontani et al.     Near-infrared fluorescent proteins, iRFPs, are recently developed genetically encoded fluorescent probes for deep-tissue in vivo imaging. Their functions depend on the …             Regional patterns of postglacial changes in the Palearctic mammalian diversity indicate retreat to Siberian steppes rather than extinction ▶     Věra Pavelková Řičánková, Jan Robovský, Jan Riegert et al.     We examined the presence of possible Recent refugia of Pleistocene mammalian faunas in Eurasia by analysing regional differences in the mammalian species composition, occurrence …             Distinct roles of basal forebrain cholinergic neurons in spatial and object recognition memory ▶     Kana Okada, Kayo Nishizawa, Tomoko Kobayashi et al.     Recognition memory requires processing of various types of information such as objects and locations. Impairment in recognition memory is a prominent feature of amnesia and a …             Diacetin, a reliable cue and private communication channel in a specialized pollination system ▶     Irmgard Schäffler, Kim E. Steiner, Mark Haid et al.     The interaction between floral oil secreting plants and oil-collecting bees is one of the most specialized of all pollination mutualisms. Yet, the specific stimuli used by the …             Deacetylation of α-tubulin and cortactin is required for HDAC6 to trigger ciliary disassembly ▶     Jie Ran, Yunfan Yang, Dengwen Li et al.     Cilia play important roles in sensing extracellular signals and directing fluid flow. Ciliary dysfunction is associated with a variety of diseases known as ciliopathies. Histone …             Estrogen deficiency heterogeneously affects tissue specific stem cells in mice ▶     Yuriko Kitajima, Hanako Doi, Yusuke Ono et al.     Postmenopausal disorders are frequently observed in various organs, but their relationship with estrogen deficiency and mechanisms remain unclear. As tissue-specific stem cells …             Dairy Streptococcus thermophilus improves cell viability of Lactobacillus brevis NPS-QW-145 and its γ-aminobutyric acid biosynthesis ability in milk ▶     Qinglong Wu, Yee-Song Law, Nagendra P. Shah     Most high γ-aminobutyric acid (GABA) producers are Lactobacillus brevis of plant origin, which may be not able to ferment milk well due to its poor proteolytic nature as …             Network analysis reveals a stress-affected common gene module among seven stress-related diseases/systems which provides potential targets for mechanism research ▶     Liyuan Guo, Yang Du, Jing Wang     Chronic stress (CS) was reported to associate with many complex diseases and stress-related diseases show strong comorbidity; however, molecular analyses have not been performed …             The thorax morphology of Epiophlebia (Insecta: Odonata) nymphs – including remarks on ontogenesis and evolution ▶     Sebastian Büsse, Benjamin Helmker, Thomas Hörnschemeyer     The species of Epiophlebia are unique among the recent Odonata in showing a mixture of morphological characters of dragonflies (Anisoptera) and damselflies (Zygoptera). The …             Quantitative and qualitative characterization of expanded CD4+ T cell clones in rheumatoid arthritis patients ▶     Kazuyoshi Ishigaki, Hirofumi Shoda, Yuta Kochi et al.     Rheumatoid arthritis (RA) is an autoimmune destructive arthritis associated with CD4+ T cell-mediated immunity. Although expanded CD4+ T cell clones (ECs) has already been …             Inhibition of protein kinase C by isojacareubin suppresses hepatocellular carcinoma metastasis and induces apoptosis in vitro and in vivo ▶     Xing Yuan, Hao Chen, Xia Li et al.     Targeted inhibition of protein kinase C (PKC) inhibits hepatocellular carcinoma (HCC) proliferation and metastasis. We previously reported the cytotoxicity of a series of …             Crystal structures of Mycobacterium tuberculosis GlgE and complexes with non-covalent inhibitors ▶     Jared J. Lindenberger, Sri Kumar Veleti, Brittney N. Wilson et al.     GlgE is a bacterial maltosyltransferase that catalyzes the elongation of a cytosolic, branched α-glucan. In Mycobacterium tuberculosis (M. tb), inactivation of GlgE (Mtb GlgE) …             The variability and seasonality of the environmental reservoir of Mycobacterium bovis shed by wild European badgers ▶     Hayley C. King, Andrew Murphy, Phillip James et al.     The incidence of Mycobacterium bovis, the causative agent of bovine tuberculosis, has been increasing in UK cattle herds resulting in substantial economic losses. The European …             Herpes virus entry mediator licenses Listeria infection induced immunopathology through control of type I interferon ▶     Mengjie Lv, Weiwei Wu, Yuejiao Zhang et al.     Apoptosis of the splenic lymphocytes is often induced during the acute phase of Listeria infection in mice. However, the underlying mechanism remains incompletely understood. …             Homologues of xenobiotic metabolizing N-acetyltransferases in plant-associated fungi: Novel functions for an old enzyme family ▶     Eleni P. Karagianni, Evanthia Kontomina, Britton Davis et al.     Plant-pathogenic fungi and their hosts engage in chemical warfare, attacking each other with toxic products of secondary metabolism and defending themselves via an arsenal of …             Molecular and chemical dialogues in bacteria-protozoa interactions ▶     Chunxu Song, Mark Mazzola, Xu Cheng et al.     Protozoan predation of bacteria can significantly affect soil microbial community composition and ecosystem functioning. Bacteria possess diverse defense strategies to resist or …             Reconstruction of micron resolution mouse brain surface from large-scale imaging dataset using resampling-based variational model ▶     Jing Li, Tingwei Quan, Shiwei Li et al.     Brain surface profile is essential for brain studies, including registration, segmentation of brain structure and drawing neuronal circuits. Recent advances in high-throughput …             Latency of auditory evoked potential monitoring the effects of general anesthetics on nerve fibers and synapses ▶     Bowan Huang, Feixue Liang, Lei Zhong et al.     Auditory evoked potential (AEP) is an effective index for the effects of general anesthetics. However, it’s unknown if AEP can differentiate the effects of general anesthetics on …             High-throughput sequencing enhanced phage display enables the identification of patient-specific epitope motifs in serum ▶     Anders Christiansen, Jens V. Kringelum, Christian S. Hansen et al.     Phage display is a prominent screening technique with a multitude of applications including therapeutic antibody development and mapping of antigen epitopes. In this study, …             Differences in the regeneration traits of Potamogeton crispus turions from macrophyte- and phytoplankton-dominated lakes ▶     Dong Xie, Hengjie Zhou, Hong Zhu et al.     Potamogeton crispus is widely used in submerged macrophyte restoration in China. Turions are an important means of reproduction in this species. To compare the regeneration …             Tumor necrosis factor (TNF)-receptor 1 and 2 mediate homeostatic synaptic plasticity of denervated mouse dentate granule cells ▶     Denise Becker, Thomas Deller, Andreas Vlachos     Neurological diseases are often accompanied by neuronal cell death and subsequent deafferentation of connected brain regions. To study functional changes after denervation we …             Inhibition of miR-29 has a significant lipid-lowering benefit through suppression of lipogenic programs in liver ▶     C. Lisa Kurtz, Emily E. Fannin, Cynthia L. Toth et al.     MicroRNAs (miRNAs) are important regulators and potential therapeutic targets of metabolic disease. In this study we show by in vivo administration of locked nucleic acid (LNA) …             Antibacterial and residual antimicrobial activities against Enterococcus faecalis biofilm: A comparison between EDTA, chlorhexidine, cetrimide, MTAD and QMix ▶     Rui Zhang, Min Chen, Yan Lu et al.     We compared the antibacterial and residual antimicrobial activities of five root canal irrigants (17% EDTA,2% chlorhexidine,0.2% cetrimide, MTAD, and QMix) in a model of …             Understanding complex biogeographic responses to climate change ▶     Rui Seabra, David S. Wethey, António M. Santos et al.     Predicting the extent and direction of species’ range shifts is a major priority for scientists and resource managers. Seminal studies have fostered the notion that biological …             Erratum: OsTCP19 influences developmental and abiotic stress signaling by modulating ABI4-mediated pathways ▶     Pradipto Mukhopadhyay, Akhilesh Kumar Tyagi                 Determination of the Cytosolic NADPH/NADP Ratio in Saccharomyces cerevisiae using Shikimate Dehydrogenase as Sensor Reaction ▶     Jinrui Zhang, Angela ten Pierick, Harmen M. van Rossum et al.     Eukaryotic metabolism is organised in complex networks of enzyme catalysed reactions which are distributed over different organelles. To quantify the compartmentalised reactions, …             CRISPR/Cas9-based generation of knockdown mice by intronic insertion of artificial microRNA using longer single-stranded DNA ▶     Hiromi Miura, Channabasavaiah B Gurumurthy, Takehito Sato et al.     Knockdown mouse models, where gene dosages can be modulated, provide valuable insights into gene function. Typically, such models are generated by embryonic stem (ES) cell-based …             Neural signatures of response planning occur midway through an incoming question in conversation ▶     Sara Bögels, Lilla Magyari, Stephen C. Levinson     A striking puzzle about language use in everyday conversation is that turn-taking latencies are usually very short, whereas planning language production takes much longer. This …             Novel mechanism of gene transfection by low-energy shock wave ▶     Chang Hoon Ha, Seok Cheol Lee, Sunghyen Kim et al.     Extracorporeal shock wave (SW) therapy has been studied in the transfection of naked nucleic acids into various cell lines through the process of sonoporation, a process that …             The effect of SUV discretization in quantitative FDG-PET Radiomics: the need for standardized methodology in tumor texture analysis ▶     Ralph T.H. Leijenaar, Georgi Nalbantov, Sara Carvalho et al.     FDG-PET-derived textural features describing intra-tumor heterogeneity are increasingly investigated as imaging biomarkers. As part of the process of quantifying heterogeneity, …             A Novel Role of Numb as A Regulator of Pro-inflammatory Cytokine Production in Macrophages in Response to Toll-like Receptor 4 ▶     Patipark Kueanjinda, Sittiruk Roytrakul, Tanapat Palaga     Activation of macrophages triggers the release of pro-inflammatory cytokines leading to inflammation. Numb is a negative regulator of Notch signaling, but the role of Numb in …             Arteriovenous Blood Metabolomics: A Readout of Intra-Tissue Metabostasis ▶     Julijana Ivanisevic, Darlene Elias, Hiroshi Deguchi et al.     The human circulatory system consists of arterial blood that delivers nutrients to tissues, and venous blood that removes the metabolic by-products. Although it is well …             Erratum: Plant growth improvement mediated by nitrate capture in co-composted biochar ▶     Claudia I. Kammann, Hans-Peter Schmidt, Nicole Messerschmidt et al.                 Regulation of PLCβ2 by the electrostatic and mechanical properties of lipid bilayers ▶     Alessia Arduin, Piers R. J. Gaffney, Oscar Ces     Phosphoinositide-specific phospholipase C (PLC) is an important family of enzymes constituting a junction between phosphoinositide lipid signaling and the trans-membrane signal …             Erratum: Modulation of Igβ is essential for the B cell selection in germinal center ▶     Kagefumi Todo, Orie Koga, Miwako Nishikawa et al.                 Corrigendum: Functional transformations of bile acid transporters induced by high-affinity macromolecules ▶     Taslim A. Al-Hilal, Seung Woo Chung, Farzana Alam et al.                 RNA-seq reveals the critical role of OtpR in regulating Brucella melitensis metabolism and virulence under acidic stress ▶     Wenxiao Liu, Hao Dong, Jing Li et al.     The response regulator OtpR is critical for the growth, morphology and virulence of Brucella melitensis. Compared to its wild type strain 16 M, B. melitensis 16 MΔotpR mutant has …             Erratum: Electroporation enables the efficient mRNA delivery into the mouse zygotes and facilitates CRISPR/Cas9-based genome editing ▶     Masakazu Hashimoto, Tatsuya Takemoto                 Conserved features in TamA enable interaction with TamB to drive the activity of the translocation and assembly module ▶     Joel Selkrig, Matthew J. Belousoff, Stephen J. Headey et al.     The biogenesis of membranes from constituent proteins and lipids is a fundamental aspect of cell biology. In the case of proteins assembled into bacterial outer membranes, an …             Social Eavesdropping in Zebrafish: Tuning of Attention to Social Interactions ▶     Rodrigo Abril-de-Abreu, José Cruz, Rui F. Oliveira     Group living animals may eavesdrop on signalling interactions between conspecifics in order to collect adaptively relevant information obtained from others, without incurring in …             miRegulome: a knowledge-base of miRNA regulomics and analysis ▶     Debmalya Barh, Bhanu Kamapantula, Neha Jain et al.     miRNAs regulate post transcriptional gene expression by targeting multiple mRNAs and hence can modulate multiple signalling pathways, biological processes, and …             Localization of a bacterial group II intron-encoded protein in human cells ▶     Mercedes Reinoso-Colacio, Fernando Manuel García-Rodríguez, Marta García-Cañadas et al.     Group II introns are mobile retroelements that self-splice from precursor RNAs to form ribonucleoparticles (RNP), which can invade new specific genomic DNA sites. This …             Crystal structure of E. coli endonuclease V, an essential enzyme for deamination repair ▶     Zhemin Zhang, Qian Jia, Chun Zhou et al.     Endonuclease V (EndoV) is a ubiquitous protein present in all three kingdoms of life, responsible for the specific cleavages at the second phosphodiester bond 3’ to inosine. E. …             Methanogenesis from wastewater stimulated by addition of elemental manganese ▶     Sen Qiao, Tian Tian, Benyu Qi et al.     This study presents a novel procedure for accelerating methanogenesis from wastewater by adding elemental manganese into the anaerobic digestion system. The results indicated …             Fertilization competence of the egg-coating envelope is regulated by direct interaction of dicalcin and gp41, the Xenopus laevis ZP3 ▶     Naofumi Miwa, Motoyuki Ogawa, Mayu Hanaue et al.     Fertilization begins with species-restricted interaction of sperm and the egg-coating envelope, which includes a three-dimensional meshwork of filaments composed of glycoproteins …             Glyphosate-based herbicides reduce the activity and reproduction of earthworms and lead to increased soil nutrient concentrations ▶     Mailin Gaupp-Berghausen, Martin Hofer, Boris Rewald et al.     Herbicide use is increasing worldwide both in agriculture and private gardens. However, our knowledge of potential side-effects on non-target soil organisms, even on such eminent …             Manipulating the banana rhizosphere microbiome for biological control of Panama disease ▶     Chao Xue, C. Ryan Penton, Zongzhuan Shen et al.     Panama disease caused by Fusarium oxysporum f. sp. cubense infection on banana is devastating banana plantations worldwide. Biological control has been proposed to suppress …             Reduced Expression of Argonaute 1, Argonaute 2, and TRBP Changes Levels and Intracellular Distribution of RNAi Factors ▶     Masayuki Matsui, Liande Li, Bethany A. Janowski et al.     Until recently, Argonaute 2 (AGO2) and other RNA factors were believed to be restricted to the cytoplasm of mammalian somatic cells. It is now becoming appreciated that RNAi …             Sodium-driven energy conversion for flagellar rotation of the earliest divergent hyperthermophilic bacterium ▶     Norihiro Takekawa, Masayoshi Nishiyama, Tsuyoshi Kaneseki et al.     Aquifex aeolicus is a hyperthermophilic, hydrogen-oxidizing and carbon-fixing bacterium that can grow at temperatures up to 95 °C. A. aeolicus has an almost complete set of …             Morphological and community changes of turf algae in competition with corals ▶     Neidy P. Cetz-Navarro, Lizette I. Quan-Young, Julio Espinoza-Avalos     The morphological plasticity and community responses of algae competing with corals have not been assessed. We evaluated eight morphological characters of four species of …             Auxiliary KCNE subunits modulate both homotetrameric Kv2.1 and heterotetrameric Kv2.1/Kv6.4 channels ▶     Jens-Peter David, Jeroen I. Stas, Nicole Schmitt et al.     The diversity of the voltage-gated K+ (Kv) channel subfamily Kv2 is increased by interactions with auxiliary β-subunits and by assembly with members of the modulatory so-called …             Inhibition of dipeptidyl peptidase 8/9 impairs preadipocyte differentiation ▶     Ruijun Han, Xinying Wang, William Bachovchin et al.     Adipocytes are the primary cells in adipose tissue, and adipocyte dysfunction causes lipodystrophy, obesity and diabetes. The dipeptidyl peptidase (DPP) 4 family includes four …             Corrigendum: Effects of weight loss via high fat vs. low fat alternate day fasting diets on free fatty acid profiles ▶     Krista A. Varady, Vi T. Dam, Monica C. Klempel et al.                 Corrigendum: Structural and functional characterization of a novel scFv anti-HSP60 of Strongyloides sp. ▶     Marcelo Arantes Levenhagen, Fabiana de Almeida Araújo Santos, Patrícia Tiemi Fujimura et al.                 Corrigendum: Identification of a novel selective agonist of PPARγ with no promotion of adipogenesis and less inhibition of osteoblastogenesis ▶     Chang Liu, Tingting Feng, Ningyu Zhu et al.                 Structure-based Mechanistic Insights into Terminal Amide Synthase in Nosiheptide-Represented Thiopeptides Biosynthesis ▶     Shanshan Liu, Heng Guo, Tianlong Zhang et al.     Nosiheptide is a parent compound of thiopeptide family that exhibit potent activities against various bacterial pathogens. Its C-terminal amide formation is catalyzed by NosA, …             An optimised direct lysis method for gene expression studies on low cell numbers ▶     Anh Viet-Phuong Le, Dexing Huang, Tony Blick et al.     There is increasing interest in gene expression analysis of either single cells or limited numbers of cells. One such application is the analysis of harvested circulating tumour …             Validated prediction of pro-invasive growth factors using a transcriptome-wide invasion signature derived from a complex 3D invasion assay ▶     Bettina Oehrle, Gerald Burgstaller, Martin Irmler et al.     The invasion of activated fibroblasts represents a key pathomechanism in fibrotic diseases, carcinogenesis and metastasis. Invading fibroblasts contribute to fibrotic …             ADAM12 and ADAM17 are essential molecules for hypoxia-induced impairment of neural vascular barrier function ▶     Dan Cui, Mitsuru Arima, Keiyo Takubo et al.     Neural vascular barrier is essential for the life of multicellular organisms, and its impairment by tissue hypoxia is known to be a central of pathophysiology accelerating the …             A Broadly Cross-protective Vaccine Presenting the Neighboring Epitopes within the VP1 GH Loop and VP2 EF Loop of Enterovirus 71 ▶     Longfa Xu, Delei He, Lisheng Yang et al.     Human enterovirus 71 (EV71) and coxsackievirus A16 (CA16) are the major etiological agents of hand, foot and mouth disease (HFMD) and are often associated with neurological …             MiR-210 inhibits NF-κB signaling pathway by targeting DR6 in osteoarthritis ▶     Dawei Zhang, Xiaorui Cao, Jun Li et al.     Osteoarthritis (OA) is characterized by degradation of articular cartilage and joint inflammation. MicroRNAs have been proved to play an important role in the regulation of …             Sensory recalibration integrates information from the immediate and the cumulative past ▶     Patrick Bruns, Brigitte Röder     Vision usually provides the most accurate and reliable information about the location of objects in our environment, and thus serves as a reference for recalibrating auditory …             Human IL-21+IFN-γ+CD4+ T cells in nasal polyps are regulated by IL-12 ▶     Li Xiao, Lei Jia, Yannan Zhang et al.     In the previous study, we found that the levels of IL-21 in nasal polyps (NPs) were significantly increased and associated with polyp size and recurrence. However, it is unclear …             A Systems Level Analysis of Vasopressin-mediated Signaling Networks in Kidney Distal Convoluted Tubule Cells ▶     Lei Cheng, Qi Wu, Marleen L. A. Kortenoeven et al.     The kidney distal convoluted tubule (DCT) plays an essential role in maintaining body sodium balance and blood pressure. The major sodium reabsorption pathway in the DCT is the …             OsPRR37 and Ghd7 are the major genes for general combining ability of DTH, PH and SPP in rice ▶     Chuan Liu, Gaoyuan Song, Yanhao Zhou et al.     Artificial selection of high yield crops and better livestock is paramount importance in breeding programs. Selection of elite parents with preferred traits from a phalanx of …             Glucocorticoid affects dendritic transport of BDNF-containing vesicles ▶     Naoki Adachi, Tadahiro Numakawa, Shingo Nakajima et al.     Brain-derived neurotrophic factor (BDNF) is essential for neuronal survival, differentiation, and functions in the central nervous system (CNS). Because BDNF protein is sorted …             Sensitivity of mRNA Translation ▶     Gilad Poker, Michael Margaliot, Tamir Tuller     Using the dynamic mean-field approximation of the totally asymmetric simple exclusion process (TASEP), we investigate the effect of small changes in the initiation, elongation, …             CACUL1/CAC1 Regulates the Antioxidant Response by Stabilizing Nrf2 ▶     Yu Kigoshi, Tomomi Fukuda, Tomoyuki Endo et al.     Nrf2 is the pre-dominant transcription activator responsible for coordinated up-regulation of ARE-driven antioxidant and detoxification genes. The activity of Nrf2 is tightly …             Social penalty promotes cooperation in a cooperative society ▶     Hiromu Ito, Jin Yoshimura     Why cooperation is well developed in human society is an unsolved question in biological and human sciences. Vast studies in game theory have revealed that in non-cooperative …             Genome-wide hydroxymethylcytosine pattern changes in response to oxidative stress ▶     Benjamin Delatte, Jana Jeschke, Matthieu Defrance et al.     The TET enzymes convert methylcytosine to the newly discovered base hydroxymethylcytosine. While recent reports suggest that TETs may play a role in response to oxidative stress, …             A highly sensitive and specific method for the screening detection of genetically modified organisms based on digital PCR without pretreatment ▶     Wei Fu, Pengyu Zhu, Chenguang Wang et al.     Digital PCR has developed rapidly since it was first reported in the 1990s. It was recently reported that an improved method facilitated the detection of genetically modified …             N-myc is a key switch regulating the proliferation cycle of postnatal cerebellar granule cell progenitors ▶     Ming Ma, Wenting Wu, Qing Li et al.     N-myc plays an important role in early cerebellar development; however, the role of N-myc in postnatal cerebellar development is still unknown. In this study, inducible and …             CD59 mediates cartilage patterning during spontaneous tail regeneration ▶     Xue Bai, Yingjie Wang, Lili Man et al.     The regeneration-competent adult animals have ability to regenerate their lost complex appendages with a near-perfect replica, owing to the positional identity acquired by the …             HAUSP-nucleolin interaction is regulated by p53-Mdm2 complex in response to DNA damage response ▶     Key-Hwan Lim, Jang-Joon Park, Bon-Hee Gu et al.     HAUSP (herpes virus-associated ubiquitin specific protease, known as ubiquitin specific protease 7), one of DUBs, regulates the dynamics of the p53 and Mdm2 network in response …             Spatiotemporal regulation of Heterochromatin Protein 1- alpha oligomerization and dynamics in live cells ▶     Elizabeth Hinde, Francesco Cardarelli, Enrico Gratton     Heterochromatin protein 1 (HP1) is a central factor in establishing and maintaining the heterochromatin state. As consequence of playing a structural role in heterochromatin, HP1 …             IRF6 is the mediator of TGFβ3 during regulation of the epithelial mesenchymal transition and palatal fusion ▶     Chen-Yeh Ke, Wen-Lin Xiao, Chun-Ming Chen et al.     Mutation in interferon regulatory factor 6 (IRF6) is known to cause syndromic and non-syndromic cleft lip/palate in human. In this study, we investigated the molecular mechanisms …             USP18 negatively regulates NF-κB signaling by targeting TAK1 and NEMO for deubiquitination through distinct mechanisms ▶     Zhifen Yang, Huifang Xian, Jiajia Hu et al.     Nuclear factor κB (NF-κB) is a key transcription factor in inflammatory immune responses and cell survival. Multiple types of ubiquitination play critical roles in the activation …             Systematically Prioritizing Functional Differentially Methylated Regions (fDMRs) by Integrating Multi-omics Data in Colorectal Cancer ▶     Huihui Fan, Hongying Zhao, Lin Pang et al.     While genome-wide differential DNA methylation regions (DMRs) have been extensively identified, the comprehensive prioritization of their functional importance is still poorly …             Vitroprocines, new antibiotics against Acinetobacter baumannii, discovered from marine Vibrio sp. QWI-06 using mass-spectrometry-based metabolomics approach ▶     Chih-Chuang Liaw, Pei-Chin Chen, Chao-Jen Shih et al.     A robust and convenient research strategy integrating state-of-the-art analytical techniques is needed to efficiently discover novel compounds from marine microbial resources. In …             Down-regulation of HMGB1 expression by shRNA constructs inhibits the bioactivity of urothelial carcinoma cell lines via the NF-κB pathway ▶     Zhichao Huang, Zhaohui Zhong, Lei Zhang et al.     The high mobility group box 1 (HMGB1), which is a highly conserved and evolutionarily non-histone nuclear protein, has been shown to associate with a variety of biological …             Chlorophyll catalyse the photo-transformation of carcinogenic benzo[a]pyrene in water ▶     Lijuan Luo, Xueying Lai, Baowei Chen et al.     Algal blooms cause great damage to water quality and aquaculture. However, this study showed that dead algal cells and chlorophyll could accelerate the photo-transformation of …             Diterpenoid alkaloids of Aconitum laciniatum and mitigation of inflammation by 14-O-acetylneoline in a murine model of ulcerative colitis ▶     Phurpa Wangchuk, Severine Navarro, Catherine Shepherd et al.     Aconitum laciniatum is used in Bhutanese traditional medicine for treating various chronic infections and inflammatory conditions. We carried out in-depth isolation and …             Real-Time MRI-Guided Catheter Tracking Using Hyperpolarized Silicon Particles ▶     Nicholas Whiting, Jingzhe Hu, Jay V. Shah et al.     Visualizing the movement of angiocatheters during endovascular interventions is typically accomplished using x-ray fluoroscopy. There are many potential advantages to developing …             Reduction of butyrate- and methane-producing microorganisms in patients with Irritable Bowel Syndrome ▶     Marta Pozuelo, Suchita Panda, Alba Santiago et al.     The pathophysiology of irritable bowel syndrome (IBS) remains unclear. Here we investigated the microbiome of a large cohort of patients to identify specific signatures for IBS …             Approaching rational epitope vaccine design for hepatitis C virus with meta-server and multivalent scaffolding ▶     Linling He, Yushao Cheng, Leopold Kong et al.     Development of a prophylactic vaccine against hepatitis C virus (HCV) has been hampered by the extraordinary viral diversity and the poor host immune response. Scaffolding, by …             Comprehensive functional characterization of murine infantile Batten disease including Parkinson-like behavior and dopaminergic markers ▶     Joshua T. Dearborn, Steven K. Harmon, Stephen C. Fowler et al.     Infantile neuronal ceroid lipofuscinosis (INCL, Infantile Batten disease) is a neurodegenerative lysosomal storage disease caused by a deficiency in palmitoyl protein …                 Nature Publishing Group offers a free open access funding support service to enable authors to discover and apply for article processing charge funding available to them. 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