Scientific Reports Biology Table of Contents e-alert: 11 November 2014

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11 November 2014      • Visit Scientific Reports • Submit your manuscript to Scientific Reports     Welcome to your Table of Contents e-alert for Scientific Reports               Biological Sciences               Identification of novel tyrosine kinase inhibitors for drug resistant T315I mutant BCR-ABL: a virtual screening and molecular dynamics simulations study ▶     Hemanth Naick Banavath, Om Prakash Sharma, Muthuvel Suresh Kumar et al.     BCR-ABL tyrosine kinase plays a major role in the pathogenesis of chronic myeloid leukemia (CML) and is a proven target for drug development. Currently available drugs in the …             Trend of telomerase activity change during human iPSC self-renewal and differentiation revealed by a quartz crystal microbalance based assay ▶     Yitian Zhou, Ping Zhou, Yinqiang Xin et al.     Telomerase plays an important role in governing the life span of cells for its capacity to extend telomeres. As high activity of telomerase has been found in stem cells and …             Broad Integration of Expression Maps and Co-Expression Networks Compassing Novel Gene Functions in the Brain ▶     Yuko Okamura-Oho, Kazuro Shimokawa, Masaomi Nishimura et al.     Using a recently invented technique for gene expression mapping in the whole-anatomy context, termed transcriptome tomography, we have generated a dataset of 36,000 maps of …             Development and use of a quantum dot probe to track multiple yeast strains in mixed culture ▶     Frida S. Gustafsson, Matthew D. Whiteside, Vladimir Jiranek et al.     Saccharomyces cerevisiae strains vary in their ability to develop and enhance sensory attributes of alcoholic beverages and are often found growing in mixed strain fermentations; …             Community dynamics of prokaryotic and eukaryotic microbes in an estuary reservoir ▶     Zhen Sun, Guoping Li, Chengwei Wang et al.     This study demonstrates both prokaryotic and eukaryotic community structures and dominant taxonomies in different positions of the greatest estuary reservoir for drinking water …             Assessing Telomere Length Using Surface Enhanced Raman Scattering ▶     Shenfei Zong, Zhuyuan Wang, Hui Chen et al.     Telomere length can provide valuable insight into telomeres and telomerase related diseases, including cancer. Here, we present a brand-new optical telomere length measurement …             Development and trunk segmentation of early instars of a ptychopariid trilobite from Cambrian Stage 5 of China ▶     Cen Shen, Euan N. K. Clarkson, Jie Yang et al.     Many three-dimensionally preserved exoskeletons found from the middle Cambrian (Stage 5) Gaotai Formation in Guizhou, southern China, have been assigned to the ptychopariid …             β-cateninC429S mice exhibit sterility consequent to spatiotemporally sustained Wnt signalling in the internal genitalia ▶     Takuya Murata, Yuichi Ishitsuka, Kumiko Karouji et al.     Wnt/β-catenin signalling regulates numerous developmental and homeostatic processes. Ctnnb1 (also known as β-catenin) is the only protein that transmits signals from various Wnt …             Assessment of quality control approaches for metagenomic data analysis ▶     Qian Zhou, Xiaoquan Su, Kang Ning     Currently there is an explosive increase of the next-generation sequencing (NGS) projects and related datasets, which have to be processed by Quality Control (QC) procedures …             Mutual modulation between norepinephrine and nitric oxide in haemocytes during the mollusc immune response ▶     Qiufen Jiang, Zhi Zhou, Lingling Wang et al.     Nitric oxide (NO) is one of the most important immune molecules in innate immunity of invertebrates, and it can be regulated by norepinephrine in ascidian haemocytes. In the …             Ultrafast propagation of β-amyloid fibrils in oligomeric cloud ▶     Hirotsugu Ogi, Masahiko Fukukshima, Hiroki Hamada et al.     Interaction between monomer peptides and seeds is essential for clarifying the fibrillation mechanism of amyloid β (Aβ) peptides. We monitored the deposition reaction of Aβ1–40 …             UbcH10 overexpression increases carcinogenesis and blocks ALLN susceptibility in colorectal cancer ▶     Shang-Ze Li, Yang Song, Hui-Hui Zhang et al.     Cyclins are essential for cell proliferation, the cell cycle and tumorigenesis in all eukaryotes. UbcH10 regulates the degradation of cyclins in a ubiquitin-dependent manner. …             Understanding of how Propionibacterium acidipropionici respond to propionic acid stress at the level of proteomics ▶     Ningzi Guan, Hyun-dong Shin, Rachel R. Chen et al.     Propionic acid (PA) is an important platform chemical in the food, agriculture, and pharmaceutical industries and is mainly biosynthesized by propionibacteria. Acid tolerance in …             PINK1-mediated Phosphorylation of Miro Inhibits Synaptic Growth and Protects Dopaminergic Neurons in Drosophila ▶     Pei-I Tsai, Meredith M. Course, Jonathan R. Lovas et al.     Mutations in the mitochondrial Ser/Thr kinase PINK1 cause Parkinson's disease. One of the substrates of PINK1 is the outer mitochondrial membrane protein Miro, which regulates …             Rab2A is a pivotal switch protein that promotes either secretion or ER-associated degradation of (pro)insulin in insulin-secreting cells ▶     Taichi Sugawara, Fumi Kano, Masayuki Murata     Rab2A, a small GTPase localizing to the endoplasmic reticulum (ER)-Golgi intermediate compartment (ERGIC), regulates COPI-dependent vesicular transport from the ERGIC. Rab2A …             Electricity-driven metabolic shift through direct electron uptake by electroactive heterotroph Clostridiumpasteurianum ▶     Okkyoung Choi, Taeyeon Kim, Han Min Woo et al.     Although microbes directly accepting electrons from a cathode have been applied for CO2 reduction to produce multicarbon-compounds, a high electron demand and low product …             Mad linker phosphorylations control the intensity and range of the BMP-activity gradient in developing Drosophila tissues ▶     Abigail Aleman, Marlyn Rios, Matthew Juarez et al.     The BMP ligand Dpp, operates as a long range morphogen to control many important functions during Drosophila development from tissue patterning to growth. The BMP signal is …             Novel mutations and mutation combinations of ryanodine receptor in a chlorantraniliprole resistant population of Plutella xylostella (L.) ▶     Lei Guo, Pei Liang, Xuguo Zhou et al.     A previous study documented a glycine to glutamic acid mutation (G4946E) in ryanodine receptor (RyR) was highly correlated to diamide insecticide resistance in field populations …             Monitoring Phospholipase A2 Activity with Gd-encapsulated Phospholipid Liposomes ▶     Zhiliang Cheng, Andrew Tsourkas     To date, numerous analytical methods have been developed to monitor phospholipase A2 (PLA2) activity. However, many of these methods require the use of unnatural PLA2 substrates …             Probing Mechanoregulation of Neuronal Differentiation by Plasma Lithography Patterned Elastomeric Substrates ▶     Ki-Hwan Nam, Nima Jamilpour, Etienne Mfoumou et al.     Cells sense and interpret mechanical cues, including cell-cell and cell-substrate interactions, in the microenvironment to collectively regulate various physiological functions. …             Loop formation and self-fasciculation of cortical axon using photonic guidance at long working distance ▶     Argha Mondal, Bryan Black, Young-tae Kim et al.     The accuracy of axonal pathfinding and the formation of functional neural circuitry are crucial for an organism to process, store, and retrieve information from internal networks …             Nitrogen acquisition in Agave tequilana from degradation of endophytic bacteria ▶     Miguel J. Beltran-Garcia, James F. White, Jr., Fernanda M. Prado et al.     Plants form symbiotic associations with endophytic bacteria within tissues of leaves, stems, and roots. It is unclear whether or how plants obtain nitrogen from these endophytic …             Vangl2 Regulates E-Cadherin in Epithelial Cells ▶     Tadahiro Nagaoka, Ayumu Inutsuka, Khadiza Begum et al.     E-cadherin belongs to the classic cadherin subfamily of calcium-dependent cell adhesion molecules and is crucial for the formation and function of epithelial adherens junctions. …             Profiling status epilepticus-induced changes in hippocampal RNA expression using high-throughput RNA sequencing ▶     Katelin F. Hansen, Kensuke Sakamoto, Carl Pelz et al.     Status epilepticus (SE) is a life-threatening condition that can give rise to a number of neurological disorders, including learning deficits, depression, and epilepsy. Many of …             Molecular Characterization of the Monoclonal Antibodies Composing ZMAb: A Protective Cocktail Against Ebola Virus ▶     Jonathan Audet, Gary Wong, Han Wang et al.     Ebola virus (EBOV) causes severe viral hemorrhagic fever in humans and non-human primates, with a case fatality rate of up to 88% in human outbreaks. Over the past 3 years, …             Reduction of endoplasmic reticulum stress inhibits neointima formation after vascular injury ▶     Shutaro Ishimura, Masato Furuhashi, Tomohiro Mita et al.     Endoplasmic reticulum (ER) stress and inappropriate adaptation through the unfolded protein response (UPR) are predominant features of pathological processes. However, little is …             A recurrent deletion mutation in OPA1 causes autosomal dominant optic atrophy in a Chinese family ▶     Liping Zhang, Wei Shi, Liming Song et al.     Autosomal dominant optic atrophy (ADOA) is the most frequent form of hereditary optic neuropathy and occurs due to the degeneration of the retinal ganglion cells. To identify the …             Reconstruction of lactate utilization system in Pseudomonas putida KT2440: a novel biocatalyst for l-2-hydroxy-carboxylate production ▶     Yujiao Wang, Min Lv, Yingxin Zhang et al.     As an important method for building blocks synthesis, whole cell biocatalysis is hindered by some shortcomings such as unpredictability of reactions, utilization of opportunistic …             Construction of a high-performance magnetic enzyme nanosystem for rapid tryptic digestion ▶     Gong Cheng, Si-Yang Zheng     A magnetic enzyme nanosystem have been designed and constructed by a polydopamine (PDA)-modification strategy. The magnetic enzyme nanosystem has well defined core-shell …             Self in vivo production of a synthetic biological drug CTLA4Ig using a minicircle vector ▶     Yeri Alice Rim, Hyoju Yi, Youngkyun Kim et al.     Cytotoxic T lymphocyte-associated antigen 4 immunoglobulin fusion protein (CTLA4Ig, abatacept) is a B7/CD28 costimulation inhibitor that can ward off the immune response by …             Uptake of liquid from wet surfaces by the brush-tipped proboscis of a butterfly ▶     Seung Chul Lee, Sang Joon Lee     This study investigated the effect of the brush-tipped proboscis of the Asian comma (Polygonia c-aureum) on wet-surface feeding. The tip region of this proboscis was observed, …             Preen secretions encode information on MHC similarity in certain sex-dyads in a monogamous seabird ▶     Sarah Leclaire, Wouter F. D. van Dongen, Steeve Voccia et al.     Animals are known to select mates to maximize the genetic diversity of their offspring in order to achieve immunity against a broader range of pathogens. Although several bird …             Embryonic origin and compartmental organization of the external genitalia ▶     Ana M. Herrera, Martin J. Cohn     Genital malformations occur at a high frequency in humans, affecting ~1:250 live births. The molecular mechanisms of external genital development are beginning to be identified; …             Efficient bi-allelic gene knockout and site-specific knock-in mediated by TALENs in pigs ▶     Jing Yao, Jiaojiao Huang, Tang Hai et al.     Pigs are ideal organ donors for xenotransplantation and an excellent model for studying human diseases, such as neurodegenerative disease. Transcription activator-like effector …             The first report of a Pelecaniformes defensin cluster: Characterization of β-defensin genes in the crested ibis based on BAC libraries ▶     Hong Lan, Hui Chen, Li-Cheng Chen et al.     Defensins play a key role in the innate immunity of various organisms. Detailed genomic studies of the defensin cluster have only been reported in a limited number of birds. …             Continuity of states between the cholesteric → line hexatic transition and the condensation transition in DNA solutions ▶     Selcuk Yasar, Rudolf Podgornik, Jessica Valle-Orero et al.     A new method of finely temperature-tuning osmotic pressure allows one to identify the cholesteric → line hexatic transition of oriented or unoriented long-fragment DNA bundles in …             Citric Acid-based Hydroxyapatite Composite Scaffolds Enhance Calvarial Regeneration ▶     Dawei Sun, Yuhui Chen, Richard T. Tran et al.     Citric acid-based polymer/hydroxyapatite composites (CABP-HAs) are a novel class of biomimetic composites that have recently attracted significant attention in tissue …             Genetic markers for toxicity of adjuvant oxaliplatin and fluoropyrimidines in the phase III TOSCA trial in high-risk colon cancer patients ▶     Annamaria Ruzzo, Francesco Graziano, Fabio Galli et al.     We investigated 17 polymorphisms in 11 genes (TS, MTHFR, ERCC1, XRCC1, XRCC3, XPD, GSTT1, GSTP1, GSTM1, ABCC1, ABCC2) for their association with the toxicity of fluoropyrimidines …             Separating sensitivity from exposure in assessing extinction risk from climate change ▶     Maria G. Dickinson, C. David L. Orme, K. Blake Suttle et al.     Predictive frameworks of climate change extinction risk generally focus on the magnitude of climate change a species is expected to experience and the potential for that species …             The Dynamic Dielectric at a Brain Functional Site and an EM Wave Approach to Functional Brain Imaging ▶     X. P. Li, Q. Xia, D. Qu et al.     Functional brain imaging has tremendous applications. The existing methods for functional brain imaging include functional Magnetic Resonant Imaging (fMRI), scalp …             In vitro molecular evolution yields an NEIBM with a potential novel IgG binding property ▶     Peipei Qi, Ying-Ying Ding, Ting He et al.     Staphylococcus aureus protein A (SpA) and protein G of groups C and G streptococci (SpG) are two well-defined bacterial immunoglobulin (Ig)-binding proteins (IBPs) with high …             Survival of the anaerobic fungus Orpinomyces sp. strain C1A after prolonged air exposure ▶     Christopher G. Struchtemeyer, Abhaya Ranganathan, M. B. Couger et al.     Anaerobic fungi are efficient plant biomass degraders and represent promising agents for a variety of biotechnological applications. We evaluated the tolerance of an anaerobic …             ABCB4 is frequently epigenetically silenced in human cancers and inhibits tumor growth ▶     Steffen Kiehl, Stefanie C. Herkt, Antje M. Richter et al.     Epigenetic silencing through promoter hypermethylation is an important hallmark for the inactivation of tumor-related genes in carcinogenesis. Here we identified the ATP-binding …             Short-term parasite-infection alters already the biomass, activity and functional diversity of soil microbial communities ▶     Jun-Min Li, Ze-Xin Jin, Frank Hagedorn et al.     Native parasitic plants may be used to infect and control invasive plants. 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