Scientific Reports Biology Table of Contents e-alert: 22 September 2015

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22 September 2015      • Visit Scientific Reports • Submit your manuscript to Scientific Reports     Welcome to your Table of Contents e-alert for Scientific Reports         Have you read this key review published in Experimental & Molecular Medicine? Middle East respiratory syndrome coronavirus: transmission, virology and therapeutic targeting to aid in outbreak control   Read full article           Biological Sciences               Erratum: Novel microscopy-based screening method reveals regulators of contact-dependent intercellular transfer ▶     Dominik Michael Frei, Erlend Hodneland, Ivan Rios-Mondragon et al.                 Long term prevention of disturbance induces the collapse of a dominant species without altering ecosystem function ▶     Qiang Yu, Honghui Wu, Zhengwen Wang et al.     Limitation of disturbances, such as grazing and fire, is a key tool for nature reserve management and ecological restoration. While the role of these disturbances in shaping …             Lessons in Protein Design from Combined Evolution and Conformational Dynamics ▶     Swarnendu Tripathi, M. Neal Waxham, Margaret S. Cheung et al.     Protein-protein interactions play important roles in the control of every cellular process. How natural selection has optimized protein design to produce molecules capable of …             Histone H3 lysine 9 trimethylation is required for suppressing the expression of an embryonically activated retrotransposon in Xenopus laevis ▶     Sarah Herberg, Angela Simeone, Mami Oikawa et al.     Transposable elements in the genome are generally silenced in differentiated somatic cells. However, increasing evidence indicates that some of them are actively transcribed in …             Early changes in corticospinal excitability when seeing fearful body expressions ▶     Sara Borgomaneri, Francesca Vitale, Alessio Avenanti     Quick inhibition of approach tendencies in response to signals of potential threats is thought to promote survival. However, little is known about the effect of viewing fearful …             Nanoparticle conjugation enhances the immunomodulatory effects of intranasally delivered CpG in house dust mite-allergic mice ▶     Marie Ballester, Laura Jeanbart, Alexandre de Titta et al.     An emerging strategy in preventing and treating airway allergy consists of modulating the immune response induced against allergens in the lungs. CpG oligodeoxynucleotides have …             Corrigendum: Sestrin2 inhibits mTORC1 through modulation of GATOR complexes ▶     Jeong Sig Kim, Seung-Hyun Ro, Myungjin Kim et al.                 The energy blockers bromopyruvate and lonidamine lead GL15 glioblastoma cells to death by different p53-dependent routes ▶     Magdalena Davidescu, Lara Macchioni, Gaetano Scaramozzino et al.     The energy metabolism of tumor cells relies on aerobic glycolysis rather than mitochondrial oxidation. This difference between normal and cancer cells provides a biochemical …             Extracellular vesicles from Paracoccidioides pathogenic species transport polysaccharide and expose ligands for DC-SIGN receptors ▶     Roberta Peres da Silva, Christian Heiss, Ian Black et al.     Extracellular vesicles (EVs) mediate non-conventional transport of molecules across the fungal cell wall. We aimed at describing the carbohydrate composition and surface …             Proteomics of the organohalide-respiring Epsilonproteobacterium Sulfurospirillum multivorans adapted to tetrachloroethene and other energy substrates ▶     Tobias Goris, Christian L. Schiffmann, Jennifer Gadkari et al.     Organohalide respiration is an environmentally important but poorly characterized type of anaerobic respiration. We compared the global proteome of the versatile …             Corrigendum: Large-scale identification of encystment-related proteins and genes in Pseudourostyla cristata ▶     Xiuxia Gao, Fenfen Chen, Tao Niu et al.                 Dormant phages of Helicobacter pylori reveal distinct populations in Europe ▶     F. F. Vale, J. Vadivelu, M. Oleastro et al.     Prophages of Helicobacter pylori, a bacterium known to co-evolve in the stomach of its human host, were recently identified. However, their role in the diversity of H. pylori …             Calreticulin is required for development of the cumulus oocyte complex and female fertility ▶     Keizo Tokuhiro, Yuhkoh Satouh, Kaori Nozawa et al.     Calnexin (CANX) and calreticulin (CALR) chaperones mediate nascent glycoprotein folding in the endoplasmic reticulum. Here we report that these chaperones have distinct roles in …             Erratum: 2D map projections for visualization and quantitative analysis of 3D fluorescence micrographs ▶     G. Hernán Sendra, Christian H. Hoerth, Christian Wunder et al.                 Cyanobacterial Light-Harvesting Phycobilisomes Uncouple From Photosystem I During Dark-To-Light Transitions ▶     Volha Chukhutsina, Luca Bersanini, Eva-Mari Aro et al.     Photosynthetic organisms cope with changes in light quality by balancing the excitation energy flow between photosystems I (PSI) and II (PSII) through a process called state …             Marble Algorithm: a solution to estimating ecological niches from presence-only records ▶     Huijie Qiao, Congtian Lin, Zhigang Jiang et al.     We describe an algorithm that helps to predict potential distributional areas for species using presence-only records. The Marble Algorithm is a density-based clustering program …             Re-calibration of the magnetic compass in hand-raised European robins (Erithacus rubecula) ▶     Bianca Alert, Andreas Michalik, Nadine Thiele et al.     Migratory birds can use a variety of environmental cues for orientation. A primary calibration between the celestial and magnetic compasses seems to be fundamental prior to a …             Development of Novel Triazolo-Thiadiazoles from Heterogeneous “Green” Catalysis as Protein Tyrosine Phosphatase 1B Inhibitors ▶     C. P. Baburajeev, Chakrabhavi Dhananjaya Mohan, Hanumappa Ananda et al.     Condensed-bicyclic triazolo-thiadiazoles were synthesized via an efficient “green” catalyst strategy and identified as effective inhibitors of PTP1B in vitro. The lead compound, …             A psittacosaurid-like basal neoceratopsian from the Upper Cretaceous of central China and its implications for basal ceratopsian evolution ▶     Wenjie Zheng, Xingsheng Jin, Xing Xu     Psittacosauridae (parrot-beaked dinosaurs) represents the first major radiation of ceratopsians (horned dinosaurs). However, psittacosaurids are divergent from the general …             Earliest evidence of pollution by heavy metals in archaeological sites ▶     Guadalupe Monge, Francisco J. Jimenez-Espejo, Antonio García-Alix et al.     Homo species were exposed to a new biogeochemical environment when they began to occupy caves. Here we report the first evidence of palaeopollution through geochemical analyses …             The brain antigen-specific B cell response correlates with glatiramer acetate responsiveness in relapsing-remitting multiple sclerosis patients ▶     Damiano M. Rovituso, Cathrina E. Duffy, Michael Schroeter et al.     B cells have only recently begun to attract attention in the immunopathology of multiple sclerosis (MS). Suitable markers for the prediction of treatment success with …             Adaptation of Lactococcus lactis to high growth temperature leads to a dramatic increase in acidification rate ▶     Jun Chen, Jing Shen, Lars Ingvar Hellgren et al.     Lactococcus lactis is essential for most cheese making, and this mesophilic bacterium has its growth optimum around 30 °C. We have, through adaptive evolution, isolated a mutant …             REG4 is a transcriptional target of GATA6 and is essential for colorectal tumorigenesis ▶     Yoshihiro Kawasaki, Kosuke Matsumura, Masaya Miyamoto et al.     The transcription factor GATA6 is a critical regulator of cell proliferation and development in the gastrointestinal tract. We have recently reported that GATA6 induces the …             TRPV4 channel activation selectively inhibits tumor endothelial cell proliferation ▶     Roslin J. Thoppil, Ravi K. Adapala, Holly C. Cappelli et al.     Endothelial cell proliferation is a critical event during angiogenesis, regulated by both soluble factors and mechanical forces. Although the proliferation of tumor cells is …             A new minimally-invasive method for microinjection into the mouse spinal dorsal horn ▶     Yuta Kohro, Emi Sakaguchi, Ryoichi Tashima et al.     Noninvasive gene delivery to the spinal dorsal horn (SDH) remains challenging because existing methods to directly microinject vectors require laminectomy, which leads to tissue …             Gene expression profiling of pre-eclamptic placentae by RNA sequencing ▶     Tea Kaartokallio, Alejandra Cervera, Anjuska Kyllönen et al.     Pre-eclampsia is a common and complex pregnancy disorder that often involves impaired placental development. In order to identify altered gene expression in pre-eclamptic …             A multi-platform metabolomics approach identifies highly specific biomarkers of bacterial diversity in the vagina of pregnant and non-pregnant women ▶     Amy McMillan, Stephen Rulisa, Mark Sumarah et al.     Bacterial vaginosis (BV) increases transmission of HIV, enhances the risk of preterm labour, and is associated with malodour. Clinical diagnosis often relies on microscopy, which …             Erratum: Prevalence and patterns of antimicrobial resistance among Escherichia coli isolated from Zambian dairy cattle across different production systems ▶     Geoffrey Mainda, Paul R. Bessell, John B. Muma et al.                 Corrigendum: Inhomogeneous field in cavities of zero index metamaterials ▶     Yangyang Fu, Yadong Xu, Huanyang Chen                 Combination of transcriptomic and metabolomic analyses reveals a JAZ repressor in the jasmonate signaling pathway of Salvia miltiorrhiza ▶     Qian Ge, Yuan Zhang, Wen-Ping Hua et al.     Jasmonates (JAs) are plant-specific key signaling molecules that respond to various stimuli and are involved in the synthesis of secondary metabolites. However, little is known …             Corrigendum: Microrobotic tentacles with spiral bending capability based on shape-engineered elastomeric microtubes ▶     Jungwook Paek, Inho Cho, Jaeyoun Kim                 Corrigendum: Interactional synchrony in chimpanzees: Examination through a finger-tapping experiment ▶     Lira Yu, Masaki Tomonaga                 Microgravity promotes osteoclast activity in medaka fish reared at the international space station ▶     Masahiro Chatani, Akiko Mantoku, Kazuhiro Takeyama et al.     The bone mineral density (BMD) of astronauts decreases specifically in the weight-bearing sites during spaceflight. It seems that osteoclasts would be affected by a change in …             Phylogeographic structure of cotton pest Adelphocoris suturalis (Hemiptera: Miridae): strong subdivision in China inferred from mtDNA and rDNA ITS markers ▶     Lijuan Zhang, Hu Li, Shujuan Li et al.     Phylogeographic patterns of some extant plant and vertebrate species have been well studied; however, they are poorly understood in the majority of insects. The study documents …             Multiplexed 3D FRET imaging in deep tissue of live embryos ▶     Ming Zhao, Xiaoyang Wan, Yu Li et al.     Current deep tissue microscopy techniques are mostly restricted to intensity mapping of fluorophores, which significantly limit their applications in investigating biochemical …             Organization and evolution of Gorilla centromeric DNA from old strategies to new approaches ▶     C. R. Catacchio, R. Ragone, G. Chiatante et al.     The centromere/kinetochore interaction is responsible for the pairing and segregation of replicated chromosomes in eukaryotes. Centromere DNA is portrayed as scarcely conserved, …             A novel natural product inspired scaffold with robust neurotrophic, neurogenic and neuroprotective action ▶     Sumana Chakravarty, Swati Maitra, R Gajendra Reddy et al.     In search for drugs to treat neuropsychiatric disorders wherein neurotrophic and neurogenic properties are affected, two neurotrophically active small molecules specially crafted …             Enlargement of choroid plexus in complex regional pain syndrome ▶     Guangyu Zhou, Jaakko Hotta, Maria K. Lehtinen et al.     The choroid plexus, located in brain ventricles, has received surprisingly little attention in clinical neuroscience. In morphometric brain analysis, we serendipitously found a …             Specific biological responses of the synovial membrane to carbon nanotubes ▶     Hiroki Nomura, Seiji Takanashi, Manabu Tanaka et al.     Biological evaluation of carbon nanotubes (CNTs) is typically performed in the lung or abdominal cavity; however, biological reactions to CNTs are predicted to be markedly …             Hyperspectral Microscopy of Near-Infrared Fluorescence Enables 17-Chirality Carbon Nanotube Imaging ▶     Daniel Roxbury, Prakrit V. Jena, Ryan M. Williams et al.     The intrinsic near-infrared photoluminescence (fluorescence) of single-walled carbon nanotubes exhibits unique photostability, narrow bandwidth, penetration through biological …             Engineering protein processing of the mammary gland to produce abundant hemophilia B therapy in milk ▶     Jianguo Zhao, Weijie Xu, Jason W. Ross et al.     Both the low animal cell density of bioreactors and their ability to post-translationally process recombinant factor IX (rFIX) limit hemophilia B therapy to <20% of the world’s …             Corrigendum: Responding to the challenge of untreatable gonorrhea: ETX0914, a first-in-class agent with a distinct mechanism-of-action against bacterial Type II topoisomerases ▶     Gregory S. Basarab, Gunther H. Kern, John McNulty et al.                 LINGO-1 antibody ameliorates myelin impairment and spatial memory deficits in experimental autoimmune encephalomyelitis mice ▶     Jun-Jun Sun, Qing-Guo Ren, Lin Xu et al.     More than 50% of multiple sclerosis patients develop cognitive impairment. However, the underlying mechanisms are still unclear, and there is no effective treatment. LINGO-1 (LRR …             Corrigendum: Toll-like receptor-2 deficiency induces schizophrenia-like behaviors in mice ▶     Se Jin Park, Jee Youn Lee, Sang Jeong Kim et al.                 RTB Lectin: a novel receptor-independent delivery system for lysosomal enzyme replacement therapies ▶     Walter Acosta, Jorge Ayala, Maureen C. Dolan et al.     Enzyme replacement therapies have revolutionized patient treatment for multiple rare lysosomal storage diseases but show limited effectiveness for addressing pathologies in …             Corrigendum: Modeling dynamic interactions between pre-exposure prophylaxis interventions & treatment programs: predicting HIV transmission & resistance ▶     Virginie Supervie, Meagan Barrett, James S. Kahn et al.                 Nano-architecture of gustatory chemosensory bristles and trachea in Drosophila wings ▶     Jean Christophe Valmalette, Hussein Raad, Nan Qiu et al.     In the Drosophila wing anterior margin, the dendrites of gustatory neurons occupy the interior of thin and long bristles that present tiny pores at their extremities. Many …             Activity of andrographolide against chikungunya virus infection ▶     Phitchayapak Wintachai, Parveen Kaur, Regina Ching Hua Lee et al.     Chikungunya virus (CHIKV) is a re-emerging mosquito-borne alphavirus that has recently engendered large epidemics around the world. There is no specific antiviral for treatment …             Highly efficient CRISPR/Cas9-mediated transgene knockin at the H11 locus in pigs ▶     Jinxue Ruan, Hegang Li, Kui Xu et al.     Transgenic pigs play an important role in producing higher quality food in agriculture and improving human health when used as animal models for various human diseases in …             Structural basis for the inhibition of voltage-dependent K+ channel by gating modifier toxin ▶     Shin-ichiro Ozawa, Tomomi Kimura, Tomohiro Nozaki et al.     Voltage-dependent K+ (Kv) channels play crucial roles in nerve and muscle action potentials. Voltage-sensing domains (VSDs) of Kv channels sense changes in the transmembrane …             RACK1 antagonizes TNF-α-induced cell death by promoting p38 activation ▶     Qingyang Wang, Silei Zhou, Jing-Yang Wang et al.     p38 mitogen-activated protein kinase (MAPK) activity has been reported to either promote or suppress cell death, which depends on cell type and stimulus. Our previous report …             Small angle X-ray scattering studies of CTNNBL1 dimerization and CTNNBL1/CDC5L complex ▶     Jae-Woo Ahn, Kyeong Sik Jin, Hyeoncheol Francis Son et al.     The hPrp19/CDC5L complex is a non-snRNP spliceosome complex that plays a key role in the spliceosome activation during pre-mRNA splicing, and CTNNBL1 and CDC5L are essential …             Experimental hookworm infection and escalating gluten challenges are associated with increased microbial richness in celiac subjects ▶     Paul Giacomin, Martha Zakrzewski, John Croese et al.     The intestinal microbiota plays a critical role in the development of the immune system. Recent investigations have highlighted the potential of helminth therapy for treating a …             Acid stress mediated adaptive divergence in ion channel function during embryogenesis in Rana arvalis ▶     Longfei Shu, Anssi Laurila, Katja Räsänen     Ion channels and pumps are responsible for ion flux in cells, and are key mechanisms mediating cellular function. Many environmental stressors, such as salinity and …             Effect of exposure to extremely low frequency magnetic fields on melatonin levels in calves is seasonally dependent ▶     Tereza Kolbabová, E. Pascal Malkemper, Luděk Bartoš et al.     The question of health effects of extremely low frequency (50/60 Hz) magnetic fields (ELFMF) has been widely discussed, but the mechanisms of interaction of these fields with …             ‘Obesity’ is healthy for cetaceans? Evidence from pervasive positive selection in genes related to triacylglycerol metabolism ▶     Zhengfei Wang, Zhuo Chen, Shixia Xu et al.     Cetaceans are a group of secondarily adapted marine mammals with an enigmatic history of transition from terrestrial to fully aquatic habitat and subsequent adaptive radiation in …             Dynamic and social behaviors of human pluripotent stem cells ▶     Smruti M. Phadnis, Nathan O. Loewke, Ivan K. Dimov et al.     Human pluripotent stem cells (hPSCs) can self-renew or differentiate to diverse cell types, thus providing a platform for basic and clinical applications. However, pluripotent …             A moment from before 365 Ma frozen in time and space ▶     Błażej Błażejowski, Piotr Gieszcz, Carlton E. Brett et al.     This study presents a detailed analysis of an exceptionally well-preserved articulated specimen of the trilobite Trimerocephalus from the Late Devonian of the Holy Cross …             Full-length soluble urokinase plasminogen activator receptor down-modulates nephrin expression in podocytes ▶     Massimo Alfano, Paola Cinque, Guido Giusti et al.     Increased plasma level of soluble urokinase-type plasminogen activator receptor (suPAR) was associated recently with focal segmental glomerulosclerosis (FSGS). In addition, …             Erratum: Functional BCL-2 regulatory genetic variants contribute to susceptibility of esophageal squamous cell carcinoma ▶     Wenting Pan, Jinyun Yang, Jinyu Wei et al.                 Discovery of small molecule inhibitors of MyD88-dependent signaling pathways using a computational screen ▶     Mark A. Olson, Michael S. Lee, Teri L. Kissner et al.     In this study, we used high-throughput computational screening to discover drug-like inhibitors of the host MyD88 protein-protein signaling interaction implicated in the …             Φ-score: A cell-to-cell phenotypic scoring method for sensitive and selective hit discovery in cell-based assays ▶     Laurent Guyon, Christian Lajaunie, Frédéric fer et al.     Phenotypic screening monitors phenotypic changes induced by perturbations, including those generated by drugs or RNA interference. Currently-used methods for scoring screen hits …             Diabetic pdx1-mutant zebrafish show conserved responses to nutrient overload and anti-glycemic treatment ▶     Robin A. Kimmel, Stefan Dobler, Nicole Schmitner et al.     Diabetes mellitus is characterized by disrupted glucose homeostasis due to loss or dysfunction of insulin-producing beta cells. In this work, we characterize pancreatic islet …             In vivo Monitoring of Transcriptional Dynamics After Lower-Limb Muscle Injury Enables Quantitative Classification of Healing ▶     Carlos A. Aguilar, Anna Shcherbina, Darrell O. Ricke et al.     Traumatic lower-limb musculoskeletal injuries are pervasive amongst athletes and the military and typically an individual returns to activity prior to fully healing, increasing a …             Compensatory T-type Ca2+ channel activity alters D2-autoreceptor responses of Substantia nigra dopamine neurons from Cav1.3 L-type Ca2+ channel KO mice ▶     Christina Poetschke, Elena Dragicevic, Johanna Duda et al.     The preferential degeneration of Substantia nigra dopamine midbrain neurons (SN DA) causes the motor-symptoms of Parkinson’s disease (PD). Voltage-gated L-type calcium channels …             Positive regulation of the Shewanella oneidensis OmpS38, a major porin facilitating anaerobic respiration, by Crp and Fur ▶     Tong Gao, Lili Ju, Jianhua Yin et al.     Major porins are among the most abundant proteins embedded in the outer membrane (OM) of Gram-negative bacteria, playing crucial roles in maintenance of membrane structural …             A field experiment with elevated atmospheric CO2-mediated changes to C4 crop-herbivore interactions ▶     Haicui Xie, Kaiqiang Liu, Dandan Sun et al.     The effects of elevated CO2 (E-CO2) on maize and Asian corn borer (ACB), Ostrinia furnacalis, in open-top chambers were studied. The plants were infested with ACB and exposed to …             SeqMule: automated pipeline for analysis of human exome/genome sequencing data ▶     Yunfei Guo, Xiaolei Ding, Yufeng Shen et al.     Next-generation sequencing (NGS) technology has greatly helped us identify disease-contributory variants for Mendelian diseases. However, users are often faced with issues such …             Sensitive western blotting for detection of endogenous Ser129-phosphorylated α-synuclein in intracellular and extracellular spaces ▶     Asuka Sasaki, Shigeki Arawaka, Hiroyasu Sato et al.     α-Synuclein deposited in Lewy bodies, a pathological hallmark of Parkinson’s disease (PD), is highly phosphorylated at serine 129 (Ser129). In contrast, there is very little …             Replication of Leaf Surface Structures for Light Harvesting ▶     Zhongjia Huang, Sai Yang, Hui Zhang et al.     As one of the most important hosts of natural light harvesting, foliage normally has complicated surface structures to capture solar radiances. Bio-mimicking leaf surface …             Spatiotemporal patterns of non-genetically modified crops in the era of expansion of genetically modified food ▶     Jing Sun, Wenbin Wu, Huajun Tang et al.     Despite heated debates over the safety of genetically modified (GM) food, GM crops have been expanding rapidly. Much research has focused on the expansion of GM crops. However, …             Role of Src in Vascular Hyperpermeability Induced by Advanced Glycation End Products ▶     Weijin Zhang, Qiulin Xu, Jie Wu et al.     The disruption of microvascular barrier in response to advanced glycation end products (AGEs) stimulation contributes to vasculopathy associated with diabetes mellitus. Here, to …             Genetic Variants in the Insulin-like Growth Factor Pathway and Colorectal Cancer Risk in the Netherlands Cohort Study ▶     Colinda C. J. M. Simons, Leo J. Schouten, Roger W. L. Godschalk et al.     Interrelationships between insulin-like growth factors (IGFs), hyperinsulinaemia, diabetes, and colorectal cancer (CRC) indicate involvement of IGFs in colorectal tumorigenesis. …             MicroRNA profiles in hippocampal granule cells and plasma of rats with pilocarpine-induced epilepsy – comparison with human epileptic samples ▶     Paolo Roncon, Marie Soukupovà, Anna Binaschi et al.     The identification of biomarkers of the transformation of normal to epileptic tissue would help to stratify patients at risk of epilepsy following brain injury, and inform new …             Nanobody-targeted E3-ubiquitin ligase complex degrades nuclear proteins ▶     Yeong Ju Shin, Seung Kyun Park, Yoo Jung Jung et al.     Targeted protein degradation is a powerful tool in determining the function of specific proteins or protein complexes. We fused nanobodies to SPOP, an adaptor protein of the …             Large orb-webs adapted to maximise total biomass not rare, large prey ▶     Aaron M. T. Harmer, Philip D. Clausen, Stephen Wroe et al.     Spider orb-webs are the ultimate anti-ballistic devices, capable of dissipating the relatively massive kinetic energy of flying prey. Increased web size and prey stopping …             Erratum: Genome analysis of Excretory/Secretory proteins in Taenia solium reveals their Abundance of Antigenic Regions (AAR) ▶     Sandra Gomez, Laura Adalid-Peralta, Hector Palafox-Fonseca et al.                 Seven neurons memorizing sequences of alphabetical images via spike-timing dependent plasticity ▶     Takayuki Osogami, Makoto Otsuka     An artificial neural network, such as a Boltzmann machine, can be trained with the Hebb rule so that it stores static patterns and retrieves a particular pattern when an …             Structural models of intrinsically disordered and calcium-bound folded states of a protein adapted for secretion ▶     Darragh P. O’Brien, Belen Hernandez, Dominique Durand et al.     Many Gram-negative bacteria use Type I secretion systems, T1SS, to secrete virulence factors that contain calcium-binding Repeat-in-ToXin (RTX) motifs. Here, we present …             Mesoporous CLEAs-silica composite microparticles with high activity and enhanced stability ▶     Jiandong Cui, Shiru Jia, Longhao Liang et al.     A novel enzyme immobilization approach was used to generate mesoporous enzymes-silica composite microparticles by co-entrapping gelatinized starch and cross-linked phenylalanine …             Genomic insights into the taxonomic status of the Bacillus cereus group ▶     Yang Liu, Qiliang Lai, Markus Göker et al.     The identification and phylogenetic relationships of bacteria within the Bacillus cereus group are controversial. This study aimed at determining the taxonomic affiliations of …             Micelle PCR reduces chimera formation in 16S rRNA profiling of complex microbial DNA mixtures ▶     Stefan A. Boers, John P. Hays, Ruud Jansen     16S rRNA gene profiling has revolutionized the field of microbial ecology. Many researchers in various fields have embraced this technology to investigate bacterial compositions …             Three-dimensional morphogenesis of MDCK cells induced by cellular contractile forces on a viscous substrate ▶     Misako Imai, Kazuya Furusawa, Takeomi Mizutani et al.     Substrate physical properties are essential for many physiological events such as embryonic development and 3D tissue formation. Physical properties of the extracellular matrix …             Signatures of selection in tilapia revealed by whole genome resequencing ▶     Jun Hong Xia, Zhiyi Bai, Zining Meng et al.     Natural selection and selective breeding for genetic improvement have left detectable signatures within the genome of a species. Identification of selection signatures is …             Standardization of the antibody-dependent respiratory burst assay with human neutrophils and Plasmodium falciparum malaria ▶     David Llewellyn, Kazutoyo Miura, Michael P. Fay et al.     The assessment of naturally-acquired and vaccine-induced immunity to blood-stage Plasmodium falciparum malaria is of long-standing interest. However, the field has suffered from …             Donkey genome and insight into the imprinting of fast karyotype evolution ▶     Jinlong Huang, Yiping Zhao, Dongyi Bai et al.     The donkey, like the horse, is a promising model for exploring karyotypic instability. We report the de novo whole-genome assemblies of the donkey and the Asiatic wild ass. Our …             Erratum: G Protein-coupled Estrogen Receptor Protects from Atherosclerosis ▶     Matthias R. Meyer, Natalie C. Fredette, Tamara A. Howard et al.                 Characterization of the Transcriptional Complexity of the Receptive and Pre-receptive Endometria of Dairy Goats ▶     Lei Zhang, Xiao-Peng An, Xiao-Rui Liu et al.     Endometrium receptivity is essential for successful embryo implantation in mammals. However, the lack of genetic information remains an obstacle to understanding the mechanisms …             Effects of Nanotexture on Electrical Profiling of Single Tumor Cell and Detection of Cancer from Blood in Microfluidic Channels ▶     Muhymin Islam, Mohammad Motasim Bellah, Adeel Sajid et al.     Microfluidic channels have been implemented to detect cancer cells from blood using electrical measurement of each single cell from the sample. Every cell provided characteristic …             Super-Resolution Imaging Conditions for enhanced Yellow Fluorescent Protein (eYFP) Demonstrated on DNA Origami Nanorulers ▶     Ija Jusuk, Carolin Vietz, Mario Raab et al.     Photostability is one of the crucial properties of a fluorophore which strongly influences the quality of single molecule-based super-resolution imaging. Enhanced yellow …             Discriminative imaging of maternal and fetal blood flow within the placenta using ultrafast ultrasound ▶     Bruno-Felix Osmanski, Edouard Lecarpentier, Gabriel Montaldo et al.     Being able to map accurately placental blood flow in clinics could have major implications in the diagnosis and follow-up of pregnancy complications such as intrauterine growth …             Luteinizing hormone induces ovulation via tumor necrosis factor α-dependent increases in prostaglandin F2α in a nonmammalian vertebrate ▶     Diego Crespo, Frederick W. Goetz, Josep V. Planas     Ovulation is induced by the preovulatory surge of luteinizing hormone (LH) that acts on the ovary and triggers the rupture of the preovulatory ovarian follicle by stimulating …             Background-free in-vivo Imaging of Vitamin C using Time-gateable Responsive Probe ▶     Bo Song, Zhiqing Ye, Yajie Yang et al.     Sensitive optical imaging of active biomolecules in the living organism requires both a molecular probe specifically responsive to the target and a high-contrast approach to …             Protective role of ALDH2 against acetaldehyde-derived DNA damage in oesophageal squamous epithelium ▶     Yusuke Amanuma, Shinya Ohashi, Yoshiro Itatani et al.     Acetaldehyde is an ethanol-derived definite carcinogen that causes oesophageal squamous cell carcinoma (ESCC). Aldehyde dehydrogenase 2 (ALDH2) is a key enzyme that eliminates …             High diversity and rapid diversification in the head louse, Pediculus humanus (Pediculidae: Phthiraptera) ▶     Muhammad Ashfaq, Sean Prosser, Saima Nasir et al.     The study analyzes sequence variation of two mitochondrial genes (COI, cytb) in Pediculus humanus from three countries (Egypt, Pakistan, South Africa) that have received little …             Recovery trajectories of kelp forest animals are rapid yet spatially variable across a network of temperate marine protected areas ▶     Jennifer E. Caselle, Andrew Rassweiler, Scott L. Hamilton et al.     Oceans currently face a variety of threats, requiring ecosystem-based approaches to management such as networks of marine protected areas (MPAs). We evaluated changes in fish …             Robust bioengineered 3D functional human intestinal epithelium ▶     Ying Chen, Yinan Lin, Kimberly M. Davis et al.     Intestinal functions are central to human physiology, health and disease. Options to study these functions with direct relevance to the human condition remain severely limited …             Constant light enhances synchrony among circadian clock cells and promotes behavioral rhythms in VPAC2-signaling deficient mice ▶     Alun T.L. Hughes, Cara. L. Croft, Rayna E. Samuels et al.     Individual neurons in the suprachiasmatic nuclei (SCN) contain an intracellular molecular clock and use intercellular signaling to synchronize their timekeeping activities so …             Identification of bolting-related microRNAs and their targets reveals complex miRNA-mediated flowering-time regulatory networks in radish (Raphanus sativus L.) ▶     Shanshan Nie, Liang Xu, Yan Wang et al.     MicroRNAs (miRNAs) play vital regulatory roles in plant growth and development. The phase transition from vegetative growth to flowering is crucial in the life cycle of plants. …             Complete mitochondrial genome of the medicinal fungus Ophiocordyceps sinensis ▶     Yi Li, Xiao-Di Hu, Rui-Heng Yang et al.     As part of a genome sequencing project for Ophiocordyceps sinensis, strain 1229, a complete mitochondrial (mt) genome was assembled as a single circular dsDNA of 157,510 bp, one …             Hearing in slow-motion: Humans underestimate the speed of moving sounds ▶     Irene Senna, Cesare V. Parise, Marc O. Ernst     Perception can often be described as a statistically optimal inference process whereby noisy and incomplete sensory evidence is combined with prior knowledge about natural scene …             High yield exogenous protein HPL production in the Bombyx mori silk gland provides novel insight into recombinant expression systems ▶     Huan Wang, Lu Wang, Yulong Wang et al.     The silk gland of Bombyx mori (BmSG) has gained significant attention by dint of superior synthesis and secretion of proteins. However, the application of BmSG bioreactor is …             Distribution of Cenozoic plant relicts in China explained by drought in dry season ▶     Yongjiang Huang, Frédéric M. B. Jacques, Tao Su et al.     Cenozoic plant relicts are those groups that were once widespread in the Northern Hemisphere but are now restricted to some small isolated areas as a result of drastic climatic …             A structural dissection of large protein-protein crystal packing contacts ▶     Jiesi Luo, Zhongyu Liu, Yanzhi Guo et al.     With the rapid increase in crystal structures of protein-protein complexes deposited in the Protein Data Bank (PDB), more and more crystal contacts have been shown to have …             Dimethyl adipimidate/Thin film Sample processing (DTS); A simple, low-cost, and versatile nucleic acid extraction assay for downstream analysis ▶     Yong Shin, Swee Yin Lim, Tae Yoon Lee et al.     Sample processing, especially that involving nucleic acid extraction, is a prerequisite step for the isolation of high quantities of relatively pure DNA for downstream analyses …             CD8+NKT-like cells regulate the immune response by killing antigen-bearing DCs ▶     Chao Wang, Xi Liu, Zhengyuan Li et al.     CD1d-dependent NKT cells have been extensively studied; however, the function of CD8+NKT-like cells, which are CD1d-independent T cells with NK markers, remains unknown. Here, we …             Comparative genome-based identification of a cell wall-anchored protein from Lactobacillus plantarum increases adhesion of Lactococcus lactis to human epithelial cells ▶     Bo Zhang, Fanglei Zuo, Rui Yu et al.     Adhesion to host cells is considered important for Lactobacillus plantarum as well as other lactic acid bacteria (LAB) to persist in human gut and thus exert probiotic effects. …             Real-time and label-free analysis of binding thermodynamics of carbohydrate-protein interactions on unfixed cancer cell surfaces using a QCM biosensor ▶     Xueming Li, Siyu Song, Qi Shuai et al.     A novel approach to the study of binding thermodynamics and kinetics of carbohydrate-protein interactions on unfixed cancer cell surfaces using a quartz crystal microbalance …             Identification of novel mureidomycin analogues via rational activation of a cryptic gene cluster in Streptomyces roseosporus NRRL 15998 ▶     Lingjuan Jiang, Lu Wang, Jihui Zhang et al.     Antimicrobial agents are urgently needed to tackle the growing threat of antibiotic-resistant pathogens. An important source of new antimicrobials is the large repertoire of …             Self-sorting heterodimeric coiled coil peptides with defined and tuneable self-assembly properties ▶     Christopher Aronsson, Staffan Dånmark, Feng Zhou et al.     Coiled coils with defined assembly properties and dissociation constants are highly attractive components in synthetic biology and for fabrication of peptide-based hybrid …             OPN gene polymorphisms, rs17524488 GG/G, rs11730582 T/C, and rs9138 C/A, and cancer risk in a Chinese population ▶     Yuanyuan Mi, Kewei Ren, Feng Dai et al.     Previous studies have investigated the association between osteopontin (OPN) gene polymorphisms, rs17524488 (−156 GG/G), rs11730582 (−443 T/C), and rs9138 (C/A) and cancer risk …             Structural and computational analysis of peptide recognition mechanism of class-C type penicillin binding protein, alkaline D-peptidase from Bacillus cereus DF4-B ▶     Shogo Nakano, Seiji Okazaki, Erika Ishitsubo et al.     Alkaline D-peptidase from Bacillus cereus DF4-B, called ADP, is a D-stereospecific endopeptidase reacting with oligopeptides containing D-phenylalanine (D-Phe) at N-terminal …             Imbalance between the expression dosages of X-chromosome and autosomal genes in mammalian oocytes ▶     Atsushi Fukuda, Motohiko Tanino, Ryo Matoba et al.     Oocytes have unique characteristics compared with other cell types. In mouse and human oocytes, two X chromosomes are maintained in the active state. Previous microarray studies …             SENP2 regulates MMP13 expression in a bladder cancer cell line through SUMOylation of TBL1/TBLR1 ▶     Mingyue Tan, Hua Gong, Jun Wang et al.     Bladder cancer (BC) is the most popular malignant urinary cancer in China. BC has the highest incidence and mortality among all genitourinary system tumors. Although the …             Modulation of AMPA receptor mediated current by nicotinic acetylcholine receptor in layer I neurons of rat prefrontal cortex ▶     Bo Tang, Dong Luo, Jie Yang et al.     Layer I neurons in the prefrontal cortex (PFC) exhibit extensive synaptic connections with deep layer neurons, implying their important role in the neural circuit. Study …             Transcriptomic variation of hepatopancreas reveals the energy metabolism and biological processes associated with molting in Chinese mitten crab, Eriocheir sinensis ▶     Shu Huang, Jun Wang, Wucheng Yue et al.     Molting is a critical developmental process for crustaceans, yet the underlying molecular mechanism is unknown. In this study, we used RNA-Seq to investigate transcriptomic …             miRNAs regulated overexpression of ryanodine receptor is involved in chlorantraniliprole resistance in Plutella xylostella (L.) ▶     Xiuxia Li, Lei Guo, Xuguo Zhou et al.     The amino acid mutations in ryanodine receptor (RyR) and elevated activity of detoxification enzymes have been associated with the diamide insecticide resistance in the …             Conditional deletion of nonmuscle myosin II-A in mouse tongue epithelium results in squamous cell carcinoma ▶     Mary Anne Conti, Anthony D. Saleh, Lauren R. Brinster et al.     To investigate the contribution of nonmuscle myosin II-A (NM II-A) to early cardiac development we crossed Myh9 floxed mice and Nkx2.5 cre-recombinase mice. Nkx2.5 is expressed …             The Anti-fibrotic Effects and Mechanisms of MicroRNA-486-5p in Pulmonary Fibrosis ▶     Xiaoming Ji, Baiqun Wu, Jingjing Fan et al.     To identify microRNAs (miRNAs, miRs) with potential roles in lung fibrogenesis, we performed genome-wide profiling of miRNA expression in lung tissues from a silica-induced mouse …             Only watching others making their experiences is insufficient to enhance adult neurogenesis and water maze performance in mice ▶     Deetje Iggena, Charlotte Klein, Alexander Garthe et al.     In the context of television consumption and its opportunity costs the question arises how far experiencing mere representations of the outer world would have the same neural and …             Mutation of histone H3 serine 86 disrupts GATA factor Ams2 expression and precise chromosome segregation in fission yeast ▶     Kim Kiat Lim, Terenze Yao Rui Ong, Yue Rong Tan et al.     Eukaryotic genomes are packed into discrete units, referred to as nucleosomes, by organizing around scaffolding histone proteins. The interplay between these histones and the DNA …             Autoantibody Profiling of Glioma Serum Samples to Identify Biomarkers Using Human Proteome Arrays ▶     Parvez Syed, Shabarni Gupta, Saket Choudhary et al.     The heterogeneity and poor prognosis associated with gliomas, makes biomarker identification imperative. Here, we report autoantibody signatures across various grades of glioma …             Activation of acid-sensing ion channels by localized proton transient reveals their role in proton signaling ▶     Wei-Zheng Zeng, Di-Shi Liu, Lu Liu et al.     Extracellular transients of pH alterations likely mediate signal transduction in the nervous system. Neuronal acid-sensing ion channels (ASICs) act as sensors for extracellular …             Molecular Mechanism of Switching of TrkA/p75NTR Signaling in Monocrotophos Induced Neurotoxicity ▶     Vivek Kumar, Amit Kumar Gupta, Rajendra Kumar Shukla et al.     We demonstrate the role of molecular switching of TrkA/p75NTR signaling cascade in organophosphate pesticide-Monocrotophos (MCP) induced neurotoxicity in stem cell derived …             Animal movements in the Kenya Rift and evidence for the earliest ambush hunting by hominins ▶     Simon Kübler, Peter Owenga, Sally C. Reynolds et al.     Animal movements in the Kenya Rift Valley today are influenced by a combination of topography and trace nutrient distribution. These patterns would have been the same in the past …             The glucocorticoid mometasone furoate is a novel FXR ligand that decreases inflammatory but not metabolic gene expression ▶     Ingrid T. G. W. Bijsmans, Chiara Guercini, José M. Ramos Pittol et al.     The Farnesoid X receptor (FXR) regulates bile salt, glucose and cholesterol homeostasis by binding to DNA response elements, thereby activating gene expression (direct …             The β-cell GHSR and downstream cAMP/TRPM2 signaling account for insulinostatic and glycemic effects of ghrelin ▶     Tomoyuki Kurashina, Katsuya Dezaki, Masashi Yoshida et al.     Gastric hormone ghrelin regulates insulin secretion, as well as growth hormone release, feeding behavior and adiposity. Ghrelin is known to exert its biological actions by …             Promotion of regulatory T cell induction by immunomodulatory herbal medicine licorice and its two constituents ▶     Ao Guo, Dongming He, Hong-Bo Xu et al.     Regulatory T cells (Treg) play a critical role to control immune responses and to prevent autoimmunity, thus selective increase of Treg cells in vivo has broad therapeutic …             Bioaccumulation and biological effects of cigarette litter in marine worms ▶     Stephanie L. Wright, Darren Rowe, Malcolm J. Reid et al.     Marine debris is a global environmental issue. Smoked cigarette filters are the predominant coastal litter item; 4.5 trillion are littered annually, presenting a source of …             AHR promoter variant modulates its transcription and downstream effectors by allele-specific AHR-SP1 interaction functioning as a genetic marker for vitiligo ▶     Xiaowen Wang, Kai Li, Ling Liu et al.     Vitiligo is an acquired depigmentation disorder largely caused by defective melanocyte- or autoimmunity-induced melanocyte destruction. The aryl hydrocarbon receptor (AHR) is …             Post-dispersal seed removal by ground-feeding rodents in tropical peatlands, Central Kalimantan, Indonesia ▶     Grace V. Blackham, Richard T. Corlett     Forested tropical peatlands in Southeast Asia are being rapidly converted to agriculture or degraded into non-forest vegetation. Although large areas have been abandoned, there …             Anti-aging Effect of Transplanted Amniotic Membrane Mesenchymal Stem Cells in a Premature Aging Model of Bmi-1 Deficiency ▶     Chunfeng Xie, Jianliang Jin, Xianhui Lv et al.     To determine whether transplanted amniotic membrane mesenchymal stem cells (AMSCs) ameliorated the premature senescent phenotype of Bmi-1-deficient mice, postnatal 2-day-old Bmi-1…             MicroRNA125b-mediated Hedgehog signaling influences liver regeneration by chorionic plate-derived mesenchymal stem cells ▶     Jeongeun Hyun, Sihyung Wang, Jieun Kim et al.     Although chorionic plate-derived mesenchymal stem cells (CP-MSCs) were shown to promote liver regeneration, the mechanisms underlying the effect remain unclear. 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