Scientific Reports Biology Table of Contents e-alert: 31 July 2018

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31 July 2018       •Visit Scientific Reports •Submit your manuscript to Scientific Reports     Welcome to your Table of Contents e-alert for Scientific Reports           Biological Sciences               Comprehensive organic profiling of biological particles derived from blood ▶     Cheng-Yeu Wu, Jan Martel, John D. Young             Long-term Rescue of Photoreceptors in a Rodent Model of Retinitis Pigmentosa Associated with MERTK Mutation ▶     H. Lorach, S. Kang, R. Dalal et al.             Engineered Protein Model of the ATP synthase H+- Channel Shows No Salt Bridge at the Rotor-Stator Interface ▶     Hannah E. Pierson, Mandeep Kaler, Christopher O’Grady et al.             Radiomic analysis of contrast-enhanced ultrasound data ▶     Benjamin Theek, Tatjana Opacic, Zuzanna Magnuska et al.             Increased aqueous autotaxin and lysophosphatidic acid levels are potential prognostic factors after trabeculectomy in different types of glaucoma ▶     Nozomi Igarashi, Megumi Honjo, Makoto Kurano et al.             Hordes of Phages in the Gut of the Tilapia Sarotherodon melanotheron ▶     Yvan Bettarel, Marine Combe, Antoinette Adingra et al.             Hippo Signaling Pathway Dysregulation in Human Huntington’s Disease Brain and Neuronal Stem Cells ▶     Kaly A. Mueller, Kelly E. Glajch, Megan N. Huizenga et al.             RNA-seq and flow-cytometry of conventional, scalp, and palmoplantar psoriasis reveal shared and distinct molecular pathways ▶     Richard Ahn, Di Yan, Hsin-Wen Chang et al.             Endoscopic Transplantation of Mesenchymal Stem Cell Sheets in Experimental Colitis in Rats ▶     Sehyung Pak, Sung Wook Hwang, In Kyong Shim et al.             Palmitate-induced lipotoxicity is crucial for the pathogenesis of nonalcoholic fatty liver disease in cooperation with gut-derived endotoxin ▶     Yuji Ogawa, Kento Imajo, Yasushi Honda et al.             MiR-146a induction by cyanobacterial lipopolysaccharide antagonist (CyP) mediates endotoxin cross-tolerance ▶     Monica Molteni, Annalisa Bosi, Vincenzo Saturni et al.             Distribution of magnetic remanence carriers in the human brain ▶     Stuart A. Gilder, Michael Wack, Leon Kaub et al.             Primary human nasal epithelial cells: a source of poly (I:C) LMW-induced IL-6 production ▶     Mahnaz Ramezanpour, Harrison Bolt, Alkis James Psaltis et al.             Using whole genome scores to compare three clinical phenotyping methods in complex diseases ▶     Wenyu Song, Hailiang Huang, Cheng-Zhong Zhang et al.             Complementary intestinal mucosa and microbiota responses to caloric restriction ▶     Kalina Duszka, Sandrine Ellero-Simatos, Ghim Siong Ow et al.             ClpB mutants of Francisella tularensis subspecies holarctica and tularensis are defective for type VI secretion and intracellular replication ▶     Athar Alam, Igor Golovliov, Eram Javed et al.             Transcriptional alterations during proliferation and lignification in Phyllostachys nigra cells ▶     Shinjiro Ogita, Taiji Nomura, Yasuo Kato et al.             Deoxynivalenol induces structural alterations in epidermoid carcinoma cells A431 and impairs the response to biomechanical stimulation ▶     Giorgia Del Favero, Lydia Woelflingseder, Lukas Janker et al.             Evaluation and validation of HPV real-time PCR assay for the detection of HPV DNA in oral cytobrush and FFPE samples ▶     Alexandre Harlé, Julie Guillet, Jacques Thomas et al.             Genome-wide atlas of alternative polyadenylation in the forage legume red clover ▶     Manohar Chakrabarti, Randy D. Dinkins, Arthur G. Hunt             Blast exposure elicits blood-brain barrier disruption and repair mediated by tight junction integrity and nitric oxide dependent processes ▶     Aric F. Logsdon, James S. Meabon, Marcella M. Cline et al.             Streptozotocin-induced β-cell damage, high fat diet, and metformin administration regulate Hes3 expression in the adult mouse brain ▶     Polyxeni Nikolakopoulou, Antonios Chatzigeorgiou, Ioannis Kourtzelis et al.             Types of tobacco consumption and the oral microbiome in the United Arab Emirates Healthy Future (UAEHFS) Pilot Study ▶     Yvonne Vallès, Claire K. Inman, Brandilyn A. Peters et al.             Ocean acidification drives community shifts towards simplified non-calcified habitats in a subtropical−temperate transition zone ▶     Sylvain Agostini, Ben P. Harvey, Shigeki Wada et al.             Inflammatory response of microglia to prions is controlled by sialylation of PrPSc ▶     Saurabh Srivastava, Elizaveta Katorcha, Natallia Makarava et al.             Transcriptomic Analysis of Hepatic Cells in Multicellular Organotypic Liver Models ▶     Allison N. Tegge, Richard R. Rodrigues, Adam L. Larkin et al.             Enhancing cellulose functionalities by size reduction using media-mill ▶     Rajni Dubey, Yon-Rui Toh, An-I Yeh             Exploring the pathology of an epidermal disease affecting a circum-Antarctic sea star ▶     Laura Núñez-Pons, Thierry M. Work, Carlos Angulo-Preckler et al.             Histone deacetylase 8 protects human proximal tubular epithelial cells from hypoxia-mimetic cobalt- and hypoxia/reoxygenation-induced mitochondrial fission and cytotoxicity ▶     Soon-Duck Ha, Ori Solomon, Masoud Akbari et al.             Partial migration in savanna elephant populations distributed across southern Africa ▶     Andrew Purdon, Michael A. Mole, Michael J. Chase et al.             Validating Antibodies for Quantitative Western Blot Measurements with Microwestern Array ▶     Rick J. Koch, Anne Marie Barrette, Alan D. Stern et al.             Automatic microscopic detection of mycobacteria in sputum: a proof-of-concept ▶     D. Zingue, P. Weber, F. Soltani et al.             Precoce and opposite response of proteasome activity after acute or chronic exposure of C. elegans to γ-radiation ▶     Cécile Dubois, Catherine Lecomte, Sébastien Pyr dit Ruys et al.             Gut microbiota is associated with obesity and cardiometabolic disease in a population in the midst of Westernization ▶     Jacobo de la Cuesta-Zuluaga, Vanessa Corrales-Agudelo, Eliana P. Velásquez-Mejía et al.             Trees represent community composition of other plant life-forms, but not their diversity, abundance or responses to fragmentation ▶     Bonifacio O. Pasion, Mareike Roeder, Jiajia Liu et al.             Sputum Detection of Predisposing Genetic Mutations in Women with Pulmonary Nontuberculous Mycobacterial Disease ▶     Julie V. Philley, Kate L. Hertweck, Anbarasu Kannan et al.             Matrine inhibits itching by lowering the activity of calcium channel ▶     Xiao Geng, Hao Shi, Fan Ye et al.             Metal-cation regulation of enzyme dynamics is a key factor influencing the activity of S-adenosyl-l-homocysteine hydrolase from Pseudomonas aeruginosa ▶     Justyna Czyrko, Joanna Sliwiak, Barbara Imiolczyk et al.             Hormetic dose response to L-ascorbic acid as an anti-cancer drug in colorectal cancer cell lines according to SVCT-2 expression ▶     Sungrae Cho, Jin Sung Chae, Hocheol Shin et al.             Audiovisual Temporal Processing in Postlingually Deafened Adults with Cochlear Implants ▶     Iliza M. Butera, Ryan A. Stevenson, Brannon D. Mangus et al.             An integrative omics approach to unravel toxicity mechanisms of environmental chemicals: effects of a formulated herbicide ▶     Tiago Simões, Sara C. Novais, Tiago Natal-da-Luz et al.             Immunophenotyping and transcriptional profiling of in vitro cultured human adipose tissue derived stem cells ▶     Alina Mieczkowska, Adriana Schumacher, Natalia Filipowicz et al.             Milk exosomes are bioavailable and distinct microRNA cargos have unique tissue distribution patterns ▶     Sonia Manca, Bijaya Upadhyaya, Ezra Mutai et al.             Analysis of naturally occurring mutations in the human uptake transporter NaCT important for bone and brain development and energy metabolism ▶     Stefan Selch, Anja Chafai, Heinrich Sticht et al.             miRNAs regulate acute transcriptional changes in broiler embryos in response to modification of incubation temperature ▶     Watcharapong Naraballobh, Nares Trakooljul, Eduard Murani et al.             Cotton rat lung transcriptome reveals host immune response to Respiratory Syncytial Virus infection ▶     Seesandra V. Rajagopala, Harinder Singh, Mira C. Patel et al.             Effect of Thrombin-Induced MCP-1 and MMP-3 Production Via PAR1 Expression in Murine Intervertebral Discs ▶     Yoshihiro Takayama, Takashi Ando, Jiro Ichikawa et al.             Absorbance measurements of oxidation of homogentisic acid accelerated by the addition of alkaline solution with sodium hypochlorite pentahydrate ▶     Yasunori Tokuhara, Kenichi Shukuya, Masami Tanaka et al.             Progesterone Receptors in Prostate Cancer: Progesterone receptor B is the isoform associated with disease progression ▶     Thea Grindstad, Elin Richardsen, Sigve Andersen et al.             Sirt1 activator induces proangiogenic genes in preadipocytes to rescue insulin resistance in diet-induced obese mice ▶     Allah Nawaz, Arshad Mehmood, Yukiko Kanatani et al.             Skeletal muscle cutoff values for sarcopenia diagnosis using T10 to L5 measurements in a healthy US population ▶     Brian A. Derstine, Sven A. Holcombe, Brian E. Ross et al.             Gut microbiota modulation accounts for the neuroprotective properties of anthocyanins ▶     Cláudia Marques, Iva Fernandes, Manuela Meireles et al.             Metabolomic and lipidomic profile in men with obstructive sleep apnoea: implications for diagnosis and biomarkers of cardiovascular risk ▶     Adriana Lebkuchen, Valdemir M. Carvalho, Gabriela Venturini et al.             Small litter size impairs spatial memory and increases anxiety- like behavior in a strain-dependent manner in male mice ▶     Ali-Akbar Salari, Hanieh Samadi, Judith R. Homberg et al.             Bacterial inactivation by plasma treated water enhanced by reactive nitrogen species ▶     Priyanka Shaw, Naresh Kumar, Hyong Sin Kwak et al.             Imaging the development of chronic Chagas disease after oral transmission ▶     Michael D. Lewis, Amanda F. Francisco, Shiromani Jayawardhana et al.             Flavonoids inhibit cell proliferation and induce apoptosis and autophagy through downregulation of PI3Kγ mediated PI3K/AKT/mTOR/p70S6K/ULK signaling pathway in human breast cancer cells ▶     Hong-Wei Zhang, Jin-Jiao Hu, Ruo-Qiu Fu et al.             Nuclear Pore Complex Components in the Malaria Parasite Plasmodium berghei ▶     Jessica Kehrer, Claudia Kuss, Amparo Andres-Pons et al.             Statistical modelling of navigational decisions based on intensity versus directionality in Drosophila larval phototaxis ▶     Lucia de Andres-Bragado, Christian Mazza, Walter Senn et al.             Tear eicosanoids in healthy people and ocular surface disease ▶     Yohannes Abere Ambaw, Cecilia Chao, Shanshan Ji et al.             Crystal structure of the membrane attack complex assembly inhibitor BGA71 from the Lyme disease agent Borrelia bavariensis ▶     Kalvis Brangulis, Inara Akopjana, Ivars Petrovskis et al.             Estrogen Action in the Epithelial Cells of the Mouse Vagina Regulates Neutrophil Infiltration and Vaginal Tissue Integrity ▶     Shuai Li, Gerardo G. Herrera, Keila K. Tam et al.             SVM-SulfoSite: A support vector machine based predictor for sulfenylation sites ▶     Hussam J. AL-barakati, Evan W. McConnell, Leslie M. Hicks et al.             The identification of novel single nucleotide polymorphisms to assist in mapping the spread of Bacillus anthracis across the Southern Caucasus ▶     Mitat Sahin, Fatih Buyuk, Les Baillie et al.             Structural and Biochemical Characterization of AaL, a Quorum Quenching Lactonase with Unusual Kinetic Properties ▶     Celine Bergonzi, Michael Schwab, Tanushree Naik et al.             Analysis of the genotype-phenotype correlation in patients with phenylketonuria in mainland China ▶     Nana Li, Chunhua He, Jing Li et al.             Computational Design of Epitope-Enriched HIV-1 Gag Antigens with Preserved Structure and Function for Induction of Broad CD8+ T Cell Responses ▶     Benedikt Asbach, Johannes P. Meier, Matthias Pfeifer et al.             Intracellular oligonucleotide delivery using the cell penetrating peptide Xentry ▶     Frazer P. Coutinho, Colin R. Green, Ilva D. Rupenthal             Decoding microglia responses to psychosocial stress reveals blood-brain barrier breakdown that may drive stress susceptibility ▶     Michael L. Lehmann, Thaddeus K. Weigel, Hannah A. Cooper et al.             The habu genome reveals accelerated evolution of venom protein genes ▶     Hiroki Shibata, Takahito Chijiwa, Naoko Oda-Ueda et al.             Magnetite-Gold nanohybrids as ideal all-in-one platforms for theranostics ▶     Maria V. Efremova, Victor A. Naumenko, Marina Spasova et al.             The probiotic strain Escherichia coli Nissle 1917 prevents papain-induced respiratory barrier injury and severe allergic inflammation in mice ▶     Thomas Secher, Isabelle Maillet, Claire Mackowiak et al.             Glyco-engineered cell line and computational docking studies reveals enterotoxigenic Escherichia coli CFA/I fimbriae bind to Lewis a glycans ▶     Lynda Mottram, Jining Liu, Sonali Chavan et al.             Identification of an I Na-dependent and I to-mediated proarrhythmic mechanism in cardiomyocytes derived from pluripotent stem cells of a Brugada syndrome patient ▶     Dongrui Ma, Zhenfeng Liu, Li Jun Loh et al.             Involvement of median preoptic nucleus and medullary noradrenergic neurons in cardiovascular and sympathetic responses of hemorrhagic rats ▶     Lara Marques Naves, Stefanne Madalena Marques, Aline Andrade Mourão et al.             Stratifying ocean sampling globally and with depth to account for environmental variability ▶     Mark John Costello, Zeenatul Basher, Roger Sayre et al.             Mediation analysis reveals common mechanisms of RUNX1 point mutations and RUNX1/RUNX1T1 fusions influencing survival of patients with acute myeloid leukemia ▶     Roman Hornung, Vindi Jurinovic, Aarif M. N. Batcha et al.             Annexin A2 overexpression associates with colorectal cancer invasiveness and TGF-ß induced epithelial mesenchymal transition via Src/ANXA2/STAT3 ▶     Murilo R. Rocha, Pedro Barcellos-de-Souza, Annie Cristhine M. Sousa-Squiavinato et al.             Vrk1 partial Knockdown in Mice Results in Reduced Brain Weight and Mild Motor Dysfunction, and Indicates Neuronal VRK1 Target Pathways ▶     Hadar Vinograd-Byk, Paul Renbaum, Ephrat Levy-Lahad             Questioning Seasonality of Neuronal Plasticity in the Adult Avian Brain ▶     Tatyana Pozner, Yulia Vistoropsky, Stan Moaraf et al.             Automated analysis of lipid drug-response markers by combined fast and high-resolution whole cell MALDI mass spectrometry biotyping ▶     David Weigt, Denis A. Sammour, Timon Ulrich et al.             Quantitative Profiling of the Lymph Node Clearance Capacity ▶     Cristina C. Clement, Wei Wang, Monika Dzieciatkowska et al.             Functional expression of TLR5 of different vertebrate species and diversification in intestinal pathogen recognition ▶     Eugenia Faber, Karsten Tedin, Yvonne Speidel et al.             Comparative genomics of Mycobacterium africanum Lineage 5 and Lineage 6 from Ghana suggests distinct ecological niches ▶     Isaac Darko Otchere, Mireia Coscollá, Leonor Sánchez-Busó et al.             Periostin contributes to the maturation and shape retention of tissue-engineered cartilage ▶     Ryoko Inaki, Yuko Fujihara, Akira Kudo et al.             Landscape limits gene flow and drives population structure in Agassiz’s desert tortoise (Gopherus agassizii) ▶     Santiago Sánchez-Ramírez, Yessica Rico, Kristin H. Berry et al.             KampoDB, database of predicted targets and functional annotations of natural medicines ▶     Ryusuke Sawada, Michio Iwata, Masahito Umezaki et al.             Differential regulation of the Wnt/β-catenin pathway by hepatitis C virus recombinants expressing core from various genotypes ▶     Stephanie Aicher, Athanasios Kakkanas, Lisette Cohen et al.             Surface plasmon resonance based sensor for the detection of glycopeptide antibiotics in milk using rationally designed nanoMIPs ▶     Zeynep Altintas             Spatially restricted subcellular Ca2+ signaling downstream of store-operated calcium entry encoded by a cortical tunneling mechanism ▶     Raphael Courjaret, Maya Dib, Khaled Machaca             L-Carnitine and extendin-4 improve outcomes following moderate brain contusion injury ▶     Hui Chen, Yik Lung Chan, Claire Linnane et al.             Temperature responsiveness of gilthead sea bream bone; an in vitro and in vivo approach ▶     Natàlia Riera-Heredia, Rute Martins, Ana Patrícia Mateus et al.             Effects of Threat Conditioning on the Negative Valanced Systems and Cognitive Systems ▶     Rodrigo S. Fernández, Soledad Picco, Fernando Messore et al.             Intradermal immunization by Ebola virus GP subunit vaccines using microneedle patches protects mice against lethal EBOV challenge ▶     Ying Liu, Ling Ye, Fang Lin et al.             Gonadal steroid levels in rock pigeon eggs do not represent adequately maternal allocation ▶     Neeraj Kumar, Martijn van Faassen, Bonnie de Vries et al.             Neutrophils enhance early Trypanosoma brucei infection onset ▶     Guy Caljon, Dorien Mabille, Benoît Stijlemans et al.             The histone chaperone NAP1L3 is required for haematopoietic stem cell maintenance and differentiation ▶     Yaser Heshmati, Shabnam Kharazi, Gözde Türköz et al.             Toll-Like Receptor 4 (TLR4) Expression Affects Schwann Cell Behavior in vitro ▶     Huanhuan Zhang, Zhiwei Shao, Yun Zhu et al.             Overexpression of Tisochrysis lutea Akd1 identifies a key cold-induced alkenone desaturase enzyme ▶     Hirotoshi Endo, Yutaka Hanawa, Hiroya Araie et al.             Dissociable functional activities of cortical theta and beta oscillations in the lateral prefrontal cortex during intertemporal choice ▶     Dan-Yang Gui, Tao Yu, Zhenhong Hu et al.             Infant temperament and family socio-economic status in relation to the emergence of attention regulation ▶     Ángela Conejero, M. Rosario Rueda             Runx1-Stat3-Tgfb3 signaling network regulating the anterior palatal development ▶     Safiye E. Sarper, Hiroshi Kurosaka, Toshihiro Inubushi et al.             Determination of system level alterations in host transcriptome due to Zika virus (ZIKV) Infection in retinal pigment epithelium ▶     Pawan Kumar Singh, Indu Khatri, Alokkumar Jha et al.             Analysis of public RNA-sequencing data reveals biological consequences of genetic heterogeneity in cell line populations ▶     Erik Fasterius, Cristina Al-Khalili Szigyarto             Weighted Symbolic Dependence Metric (wSDM) for fMRI resting-state connectivity: A multicentric validation for frontotemporal dementia ▶     Sebastian Moguilner, Adolfo M. García, Ezequiel Mikulan et al.             Relationship between Anaemia, Haemolysis, Inflammation and Haem Oxygenase-1 at Admission with Sepsis: a pilot study ▶     Phebe Ekregbesi, Manu Shankar-Hari, Christian Bottomley et al.             Metabolomic analysis of mouse prefrontal cortex reveals upregulated analytes during wakefulness compared to sleep ▶     Allen K. Bourdon, Giovanna Maria Spano, William Marshall et al.             Structural determinants of the catalytic mechanism of Plasmodium CCT, a key enzyme of malaria lipid biosynthesis ▶     Ewelina Guca, Gergely N. Nagy, Fanni Hajdú et al.             Species Richness, Molecular Taxonomy and Biogeography of the Radicine Pond Snails (Gastropoda: Lymnaeidae) in the Old World ▶     Olga V. Aksenova, Ivan N. Bolotov, Mikhail Yu. Gofarov et al.             Anti-angiogenic drug scheduling optimisation with application to colorectal cancer ▶     M. Sturrock, I. S. Miller, G. Kang et al.             Isosteviol Derivative Inhibits Osteoclast Differentiation and Ameliorates Ovariectomy-Induced Osteoporosis ▶     Huey-En Tzeng, Po-Hao Huang, Chun-Hao Tsai et al.             Novel 3D Structure Based Model for Activity Prediction and Design of Antimicrobial Peptides ▶     Shicai Liu, Jingxiao Bao, Xingzhen Lao et al.             Comparative mangrove metagenome reveals global prevalence of heavy metals and antibiotic resistome across different ecosystems ▶     Madangchanok Imchen, Ranjith Kumavath, Debmalya Barh et al.             Metagenomics of pigmented and cholesterol gallstones: the putative role of bacteria ▶     S. H. Kose, K. Grice, W. D. Orsi et al.             Sentinel nurseries to assess the phytosanitary risks from insect pests on importations of live plants ▶     Marc Kenis, Hongmei Li, Jian-ting Fan et al.             Preferences and beliefs about financial risk taking mediate the association between anterior insula activation and self-reported real-life stock trading ▶     Alexander N. Häusler, Camelia M. Kuhnen, Sarah Rudorf et al.             Trichlorfon and spinosad resistance survey and preliminary determination of the resistance mechanism in Pakistani field strains of Bactrocera dorsalis ▶     Hafiz Azhar Ali Khan, Waseem Akram             Gut Bacterial Microbiota and its Resistome Rapidly Recover to Basal State Levels after Short-term Amoxicillin-Clavulanic Acid Treatment in Healthy Adults ▶     Chad W. MacPherson, Olivier Mathieu, Julien Tremblay et al.               • Careers & Jobs           naturejobs.com Science jobs of the week       Scientific Officer - Translational Immunotherapy Team     Institute of Cancer Research (ICR)            Scientist Cell Biology     University of Dundee            Director of Science     Royal Botanic Gardens, Kew            Postdoctoral positions in Neuroscience     Thomas Jefferson University (TJU)            Proteomics Scientist     Fred Hutchinson Cancer Research Center            Post-Doctoral Research Fellow / Staff Scientist     Fred Hutchinson Cancer Research Center            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