Scientific Reports Biology Table of Contents e-alert: 1 September 2015

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01 September 2015      • Visit Scientific Reports • Submit your manuscript to Scientific Reports     Welcome to your Table of Contents e-alert for Scientific Reports         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. Visit our website for further advice on the funding options available, and guidance in approaching funders and institutions, or email openaccess@nature.com for more information.            Biological Sciences               Connectivity in grey reef sharks (Carcharhinus amblyrhynchos) determined using empirical and simulated genetic data ▶     Paolo Momigliano, Robert Harcourt, William D. Robbins et al.     Grey reef sharks (Carcharhinus amblyrhynchos) can be one of the numerically dominant high order predators on pristine coral reefs, yet their numbers have declined even in the …             Probiotic Bifidobacterium longum alters gut luminal metabolism through modification of the gut microbial community ▶     Hirosuke Sugahara, Toshitaka Odamaki, Shinji Fukuda et al.     Probiotics are well known as health-promoting agents that modulate intestinal microbiota. However, the molecular mechanisms underlying this effect remain unclear. Using …             Dissecting the role of distinct OCT4-SOX2 heterodimer configurations in pluripotency ▶     Natalia Tapia, Caitlin MacCarthy, Daniel Esch et al.     The transcription factors OCT4 and SOX2 are required for generating induced pluripotent stem cells (iPSCs) and for maintaining embryonic stem cells (ESCs). OCT4 and SOX2 …             Stability analysis of a model gene network links aging, stress resistance, and negligible senescence ▶     Valeria Kogan, Ivan Molodtsov, Leonid I. Menshikov et al.     Several animal species are considered to exhibit what is called negligible senescence, i.e. they do not show signs of functional decline or any increase of mortality with age. …             In vivo reprogrammed pluripotent stem cells from teratomas share analogous properties with their in vitro counterparts ▶     Hyun Woo Choi, Jong Soo Kim, Yean Ju Hong et al.     Recently, induced pluripotent stem cells (iPSCs) have been generated in vivo from reprogrammable mice. These in vivo iPSCs display features of totipotency, i.e., they …             Collapse of the echinoid Paracentrotus lividus populations in the Eastern Mediterranean—result of climate change? ▶     Erez Yeruham, Gil Rilov, Muki Shpigel et al.     The European purple sea urchin (Paracentrotus lividus) is considered to be a key herbivore throughout its distribution range—North-East Atlantic and Mediterranean Sea. It was …             Retinal synaptic regeneration via microfluidic guiding channels ▶     Ping-Jung Su, Zongbin Liu, Kai Zhang et al.     In vitro culture of dissociated retinal neurons is an important model for investigating retinal synaptic regeneration (RSR) and exploring potentials in artificial retina. Here, …             Mathematical Modelling and Prediction of the Effect of Chemotherapy on Cancer Cells ▶     Hamidreza Namazi, Vladimir V. Kulish, Albert Wong     Cancer is a class of diseases characterized by out-of-control cells’ growth which affect DNAs and make them damaged. Many treatment options for cancer exist, with the primary …             Spatial differentiation of gene expression in Aspergillus niger colony grown for sugar beet pulp utilization ▶     Isabelle Benoit, Miaomiao Zhou, Alexandra Vivas Duarte et al.     Degradation of plant biomass to fermentable sugars is of critical importance for the use of plant materials for biofuels. Filamentous fungi are ubiquitous organisms and major …             The inhibitory effects of AR/miR-190a/YB-1 negative feedback loop on prostate cancer and underlying mechanism ▶     Shaohua Xu, Tao Wang, Wen Song et al.     Prostate cancer at advanced stages including metastatic and castration-resistant cancer remains incurable due to the lack of effective therapies. MiR-190a belongs to the small …             Solution structure of the transmembrane domain of the mouse erythropoietin receptor in detergent micelles ▶     Qingxin Li, Ying Lei Wong, Michelle Yueqi Lee et al.     Erythropoiesis is regulated by the erythropoietin receptor (EpoR) binding to its ligand. The transmembrane domain (TMD) and the juxtamembrane (JM) regions of the EpoR are …             Genetic association between TRAIL-R1 Thr209Arg and cancer susceptibility ▶     Peiliang Geng, Jianjun Li, Ning Wang et al.     We aimed to determine the indecisive association between tumor necrosis factor-related apoptosis-inducing ligand receptor 1 (TRAIL-R1) Thr209Arg polymorphism and inherited …             An integrated genome-wide approach to discover deregulated microRNAs in non-small cell lung cancer: Clinical significance of miR-23b-3p deregulation ▶     Shahnaz Begum, Masamichi Hayashi, Takenori Ogawa et al.     In spite of significant technical advances, genesis and progression of non-small cell lung cancer (NSCLC) remain poorly understood. We undertook an integrated genetic approach to …             Morphological defects in native Japanese fir trees around the Fukushima Daiichi Nuclear Power Plant ▶     Yoshito Watanabe, San’ei Ichikawa, Masahide Kubota et al.     After the accident at the Fukushima Daiichi Nuclear Power Plant (F1NPP) in March 2011, much attention has been paid to the biological consequences of the released radionuclides …             Enhancing Tabletop X-Ray Phase Contrast Imaging with Nano-Fabrication ▶     Houxun Miao, Andrew A. Gomella, Katherine J. Harmon et al.     X-ray phase-contrast imaging is a promising approach for improving soft-tissue contrast and lowering radiation dose in biomedical applications. While current tabletop imaging …             Involvement of normalized NMDA receptor and mTOR-related signaling in rapid antidepressant effects of Yueju and ketamine on chronically stressed mice ▶     Juanjuan Tang, Wenda Xue, Baomei Xia et al.     Yueju, a Traditional Chinese Medicine formula, exhibited fast-onset antidepressant responses similar to ketamine. This study focused on assessing the rapid and persistent …             GADD34-deficient mice develop obesity, nonalcoholic fatty liver disease, hepatic carcinoma and insulin resistance ▶     Naomi Nishio, Ken-ichi Isobe     The prevalence of nonalcoholic fatty liver disease (NAFLD) is increasing in parallel with the prevalence of obesity. DNA damage-inducible protein 34 (GADD34/Ppp1r15a), originally …             Coumarin derivatives from Ainsliaea fragrans and their anticoagulant activity ▶     Liang Lei, Yong-bo Xue, Zhong Liu et al.     Coumarin derivatives are an important class of C6–C3 plant metabolites that show a variety of bioactivities. Currently, most clinical anticoagulant agents are coumarins, such as …             Identification of the interaction of VP1 with GM130 which may implicate in the pathogenesis of CVB3-induced acute pancreatitis ▶     Xiuzhen Li, Yanhua Xia, Shengping Huang et al.     Coxsackievirus B3 (CVB3) is a causative agent of viral myocarditis, pancreatitis, and meningitis in humans. Although the susceptibility of CVB3-induced acute pancreatitis is …             A Novel Designed Bioreactor for Recovering Precious Metals from Waste Printed Circuit Boards ▶     Ruan Jujun, Zheng Jie, Hu Jian et al.     For recovering precious metals from waste printed circuit boards (PCBs), a novel hybrid technology including physical and biological methods was developed. It consisted of …             Structural Changes and Proton Transfer in Cytochrome c Oxidase ▶     Jóhanna Vilhjálmsdóttir, Ann-Louise Johansson, Peter Brzezinski     In cytochrome c oxidase electron transfer from cytochrome c to O2 is linked to transmembrane proton pumping, which contributes to maintaining a proton electrochemical gradient …             Decreased Na+ influx lowers hippocampal neuronal excitability in a mouse model of neonatal influenza infection ▶     Hoyong Park, Ji Eun Yu, Sungmin Kim et al.     Influenza virus infection is one of common infectious diseases occurring worldwide. The human influenza virus can infect the central nervous system and cause brain dysfunctions …             Bridging the gap between in vitro and in vivo: Dose and schedule predictions for the ATR inhibitor AZD6738 ▶     Stephen Checkley, Linda MacCallum, James Yates et al.     Understanding the therapeutic effect of drug dose and scheduling is critical to inform the design and implementation of clinical trials. The increasing complexity of both mono, …             Discovery of γ-Mangostin as an Amyloidogenesis Inhibitor ▶     Takeshi Yokoyama, Mitsuharu Ueda, Yukio Ando et al.     Transthyretin (TTR) is a homotetrameric protein involved in human hereditary amyloidoses. The discovery and development of small molecules that inhibit the amyloid fibril …             Erratum: XI-006 induces potent p53-independent apoptosis in Ewing sarcoma ▶     Kathleen I. Pishas, Alaknanda Adwal, Susan J. Neuhaus et al.                 Redefining metamorphosis in spiny lobsters: molecular analysis of the phyllosoma to puerulus transition in Sagmariasus verreauxi ▶     Tomer Ventura, Quinn P. Fitzgibbon, Stephen C. Battaglene et al.     The molecular understanding of crustacean metamorphosis is hindered by small sized individuals and inability to accurately define molt stages. We used the spiny lobster …             A Rich-Club Organization in Brain Ischemia Protein Interaction Network ▶     Ali Alawieh, Zahraa Sabra, Mohammed Sabra et al.     Ischemic stroke involves multiple pathophysiological mechanisms with complex interactions. Efforts to decipher those mechanisms and understand the evolution of cerebral injury is …             Pheromone binding proteins enhance the sensitivity of olfactory receptors to sex pheromones in Chilo suppressalis ▶     Hetan Chang, Yang Liu, Ting Yang et al.     Sexual communication in moths offers a simplified scenario to model and investigate insect sensory perception. Both PBPs (pheromone-binding proteins) and PRs (pheromone …             A biospectroscopic analysis of human prostate tissue obtained from different time periods points to a trans-generational alteration in spectral phenotype ▶     Georgios Theophilou, Kássio M. G. Lima, Matthew Briggs et al.     Prostate cancer is the most commonly-diagnosed malignancy in males worldwide; however, there is marked geographic variation in incidence that may be associated with a Westernised …             FABP4 reversed the regulation of leptin on mitochondrial fatty acid oxidation in mice adipocytes ▶     Lu Gan, Zhenjiang Liu, Weina Cao et al.     Fatty acid binding protein 4 (FABP4), plays key role in fatty acid transportation and oxidation, and increases with leptin synergistically during adipose inflammation process. …             A subset of ocular adnexal marginal zone lymphomas may arise in association with IgG4-related disease ▶     Kyotaro Ohno, Yasuharu Sato, Koh-ichi Ohshima et al.     We previously suggested a relationship between ocular immunoglobulin (Ig)G4-related disease (IgG4-RD) and marginal zone lymphomas (MZLs). However, the cytokine background …             Antennal RNA-sequencing analysis reveals evolutionary aspects of chemosensory proteins in the carpenter ant, Camponotus japonicus ▶     Masaru K. Hojo, Kenichi Ishii, Midori Sakura et al.     Chemical communication is essential for the coordination of complex organisation in ant societies. Recent comparative genomic approaches have revealed that chemosensory genes are …             Overexpression Of Hepatocyte Nuclear Factor-1beta Predicting Poor Prognosis Is Associated With Biliary Phenotype In Patients With Hepatocellular Carcinoma ▶     Dan-Dan Yu, Ying-Ying Jing, Shi-Wei Guo et al.     Hepatocyte nuclear factor-1beta (HNF-1B) is involved in the hepatobiliary specification of hepatoblasts to cholangiocytes during liver development, and is strongly expressed …             Structural analysis of fungus-derived FAD glucose dehydrogenase ▶     Hiromi Yoshida, Genki Sakai, Kazushige Mori et al.     We report the first three-dimensional structure of fungus-derived glucose dehydrogenase using flavin adenine dinucleotide (FAD) as the cofactor. This is currently the most …             Computational DNA hole spectroscopy: A new tool to predict mutation hotspots, critical base pairs, and disease ‘driver’ mutations ▶     Martha Y. Suárez, Villagrán, John H. Miller     We report on a new technique, computational DNA hole spectroscopy, which creates spectra of electron hole probabilities vs. nucleotide position. A hole is a site of positive …             Identification of agents effective against multiple toxins and viruses by host-oriented cell targeting ▶     Leeor Zilbermintz, William Leonardi, Sun-Young Jeong et al.     A longstanding and still-increasing threat to the effective treatment of infectious diseases is resistance to antimicrobial countermeasures. Potentially, the targeting of host …             The RNA-binding protein Sam68 regulates expression and transcription function of the androgen receptor splice variant AR-V7 ▶     Jacqueline Stockley, Elke Markert, Yan Zhou et al.     Castration-resistant (CR) prostate cancer (PCa) partly arises due to persistence of androgen receptor (AR) transcriptional activity in the absence of cognate ligand. An emerging …             Enhanced tactile acuity through mental states ▶     Sebastian T. Philipp, Tobias Kalisch, Thomas Wachtler et al.     Bodily training typically evokes behavioral and perceptual gains, enforcing neuroplastic processes and affecting neural representations. We investigated the effect on …             Novel roles for LIX1L in promoting cancer cell proliferation through ROS1-mediated LIX1L phosphorylation ▶     Satoki Nakamura, Tomoaki Kahyo, Hong Tao et al.     Herein, we report the characterization of Limb expression 1-like, (LIX1L), a putative RNA-binding protein (RBP) containing a double-stranded RNA binding motif, which is highly …             An equation to estimate the difference between theoretically predicted and SDS PAGE-displayed molecular weights for an acidic peptide ▶     Yihong Guan, Qinfang Zhu, Delai Huang et al.     The molecular weight (MW) of a protein can be predicted based on its amino acids (AA) composition. However, in many cases a non-chemically modified protein shows an SDS …             Ethnicity-Dependent and -Independent Heterogeneity in Healthy Normal Breast Hierarchy Impacts Tumor Characterization ▶     Harikrishna Nakshatri, Manjushree Anjanappa, Poornima Bhat-Nakshatri     Recent reports of widespread genetic variation affecting regulation of gene expression raise the possibility of significant inter-individual differences in stem-progenitor-mature …             An efficient system for intracellular delivery of beta-lactam antibiotics to overcome bacterial resistance ▶     Nadia Abed, Fatouma Saïd-Hassane, Fatima Zouhiri et al.     The “Golden era” of antibiotics is definitely an old story and this is especially true for intracellular bacterial infections. The poor intracellular bioavailability of …             Molecular composition and ultrastructure of Jurassic paravian feathers ▶     Johan Lindgren, Peter Sjövall, Ryan M. Carney et al.     Feathers are amongst the most complex epidermal structures known, and they have a well-documented evolutionary trajectory across non-avian dinosaurs and basal birds. Moreover, …             Potential analgesic effects of a novel N-acylethanolamine acid amidase inhibitor F96 through PPAR-α ▶     Longhe Yang, Long Li, Ling Chen et al.     Pharmacological blockade of N-acylethanolamine acid amidase (NAAA) activity is an available approach for inflammation and pain control through restoring the ability of endogenous …             A combined pre-clinical meta-analysis and randomized confirmatory trial approach to improve data validity for therapeutic target validation ▶     Pamela WM. Kleikers, Carlijn Hooijmans, Eva Göb et al.     Biomedical research suffers from a dramatically poor translational success. For example, in ischemic stroke, a condition with a high medical need, over a thousand experimental …             Anti-NMDA Receptor Encephalitis in the Polar Bear (Ursus maritimus) Knut ▶     H. Prüss, J. Leubner, N. K. Wenke et al.     Knut the polar bear of the Berlin Zoological Garden drowned in 2011 following seizures and was diagnosed as having suffered encephalitis of unknown etiology after exhaustive …             The substrate matters in the Raman spectroscopy analysis of cells ▶     Lina Mikoliunaite, Raul D. Rodriguez, Evgeniya Sheremet et al.     Raman spectroscopy is a powerful analytical method that allows deposited and/or immobilized cells to be evaluated without complex sample preparation or labeling. However, a main …             Selective Connexin43 Inhibition Prevents Isoproterenol-Induced Arrhythmias and Lethality in Muscular Dystrophy Mice ▶     J. Patrick Gonzalez, Jayalakshmi Ramachandran, Lai-Hua Xie et al.     Duchenne muscular dystrophy (DMD) is caused by an X-linked mutation that leads to the absence of dystrophin, resulting in life-threatening arrhythmogenesis and associated heart …             Plaque-associated lipids in Alzheimer’s diseased brain tissue visualized by nonlinear microscopy ▶     Juris Kiskis, Helen Fink, Lena Nyberg et al.     By simultaneous coherent anti-Stokes Raman scattering (CARS) and 2-photon fluorescence microscopy of Thioflavin-S stained Alzheimer´s diseased human brain tissues, we show …             Microbial synthesis of Pd/Fe3O4, Au/Fe3O4 and PdAu/Fe3O4 nanocomposites for catalytic reduction of nitroaromatic compounds ▶     Ya Tuo, Guangfei Liu, Bin Dong et al.     Magnetically recoverable noble metal nanoparticles are promising catalysts for chemical reactions. However, the chemical synthesis of these nanocatalysts generally causes …             Susceptibility loci in lung cancer and COPD: association of IREB2 and FAM13A with pulmonary diseases ▶     Iwona Ziółkowska-Suchanek, Maria Mosor, Piotr Gabryel et al.     Genome-wide association studies have identified loci at 15q25 (IREB2) and 4q22 (FAM13A), associated with lung cancer (LC) and chronic obstructive pulmonary disease (COPD). The …             Inhibition of neuraminidase by Ganoderma triterpenoids and implications for neuraminidase inhibitor design ▶     Qinchang Zhu, Tran Hai Bang, Koichiro Ohnuki et al.     Neuraminidase (NA) inhibitors are the dominant antiviral drugs for treating influenza in the clinic. Increasing prevalence of drug resistance makes the discovery of new NA …             The natural compound forskolin synergizes with dexamethasone to induce cell death in myeloma cells via BIM ▶     Virginie Follin-Arbelet, Kristine Misund, Elin Hallan Naderi et al.     We have previously demonstrated that activation of the cyclic adenosine monophosphate (cAMP) pathway kills multiple myeloma (MM) cells both in vitro and in vivo. In the present …             Sandcastle: software for revealing latent information in multiple experimental ChIP-chip datasets via a novel normalisation procedure ▶     Mark Bennett, Katie Ellen Evans, Shirong Yu et al.     ChIP-chip is a microarray based technology for determining the genomic locations of chromatin bound factors of interest, such as proteins. Standard ChIP-chip analyses employ peak …             Network fingerprint: a knowledge-based characterization of biomedical networks ▶     Xiuliang Cui, Haochen He, Fuchu He et al.     It can be difficult for biomedical researchers to understand complex molecular networks due to their unfamiliarity with the mathematical concepts employed. To represent molecular …             Inhibition of human GLUT1 and GLUT5 by plant carbohydrate products; insights into transport specificity ▶     Alayna M. George Thompson, Cristina V. Iancu, Thi Thanh Hanh Nguyen et al.     Glucose transporters GLUT1 (transports glucose) and GLUT5 (transports fructose), in addition to their functions in normal metabolism, have been implicated in several diseases …             The Neuraminidase Stalk Deletion Serves as Major Virulence Determinant of H5N1 Highly Pathogenic Avian Influenza Viruses in Chicken ▶     Olga Stech, Jutta Veits, El-Sayed M. Abdelwhab et al.     Highly pathogenic avian influenza viruses (HPAIV) cause devastating losses in gallinaceous poultry world-wide and raised concerns of a novel pandemic. HPAIV develop from …             Role of mouse Wdr13 in placental growth; a genetic evidence for lifetime body weight determination by placenta during development ▶     Vijay Pratap Singh, Jomini Liza Alex, B. Jyothi Lakshmi et al.     Placental development is essential for implantation and growth of foetus in the uterus of eutherian mammals. Numerous growth factors are responsible for placental development and …             The exosome controls alternative splicing by mediating the gene expression and assembly of the spliceosome complex ▶     Lin Zhang, Yufeng Wan, Guobin Huang et al.     The exosome is a complex with exoribonuclease activity that regulates RNA surveillance and turnover. The exosome also plays a role in regulating the degradation of precursor …             A distinct three-helix centipede toxin SSD609 inhibits Iks channels by interacting with the KCNE1 auxiliary subunit ▶     Peibei Sun, Fangming Wu, Ming Wen et al.     KCNE1 is a single-span transmembrane auxiliary protein that modulates the voltage-gated potassium channel KCNQ1. The KCNQ1/KCNE1 complex in cardiomyocytes exhibited slow …             Multiple loss-of-function variants of taste receptors in modern humans ▶     K. Fujikura     Despite recent advances in the knowledge of interindividual taste differences, the underlying genetic backgrounds have remained to be fully elucidated. Much of the taste …             Engineering catechol 1, 2-dioxygenase by design for improving the performance of the cis, cis-muconic acid synthetic pathway in Escherichia coli ▶     Li Han, Pi Liu, Jixue Sun et al.     Regulating and ameliorating enzyme expression and activity greatly affects the performance of a given synthetic pathway. In this study, a new synthetic pathway for cis, cis…             Nanomicelle formulation for topical delivery of cyclosporine A into the cornea: in vitro mechanism and in vivo permeation evaluation ▶     Chuanlong Guo, Yan Zhang, Zhao Yang et al.     A stable topical ophthalmic cyclosporine A (CsA) formulation with good tolerance and high efficacy is still a desire in pharmaceutics and clinics. This article describes the …             Long noncoding RNA FER1L4 suppresses cancer cell growth by acting as a competing endogenous RNA and regulating PTEN expression ▶     Tian Xia, Shengcan Chen, Zhen Jiang et al.     Aberrantly expressed long noncoding RNAs (lncRNAs) are associated with various cancers. However, the roles of lncRNAs in the pathogenesis of most cancers are unclear. Here, we …             A novel olfactory pathway is essential for fast and efficient blood-feeding in mosquitoes ▶     Je Won Jung, Seung-Jae Baeck, Haribalan Perumalsamy et al.     In mosquitoes, precise and efficient finding of a host animal is crucial for survival. One of the poorly understood aspects of mosquito blood-feeding behavior is how these …             Transposase interaction with the β sliding clamp: effects on insertion sequence proliferation and transposition rate ▶     Héctor Díaz-Maldonado, Manuel J. Gómez, Mercedes Moreno-Paz et al.     Insertion sequences (ISs) are ubiquitous and abundant mobile genetic elements in prokaryotic genomes. ISs often encode only one protein, the transposase, which catalyzes their …             MSIseq: Software for Assessing Microsatellite Instability from Catalogs of Somatic Mutations ▶     Mi Ni Huang, John R. McPherson, Ioana Cutcutache et al.     Microsatellite instability (MSI) is a form of hypermutation that occurs in some tumors due to defects in cellular DNA mismatch repair. MSI is characterized by frequent somatic …             Corrigendum: Real sequence effects on the search dynamics of transcription factors on DNA ▶     Maximilian Bauer, Emil S. Rasmussen, Michael A. Lomholt et al.                 Erratum: Mirror neuron therapy for hemispatial neglect patients ▶     Wei Wang, Xin Zhang, Xiangtong Ji et al.                 Neural stem/progenitor cell properties of glial cells in the adult mouse auditory nerve ▶     Hainan Lang, Yazhi Xing, LaShardai N. Brown et al.     The auditory nerve is the primary conveyor of hearing information from sensory hair cells to the brain. It has been believed that loss of the auditory nerve is irreversible in …             TRIM32 modulates pluripotency entry and exit by directly regulating Oct4 stability ▶     Lamia’a Bahnassawy, Thanneer M. Perumal, Laura Gonzalez-Cano et al.     Induced pluripotent stem cells (iPSCs) have revolutionized the world of regenerative medicine; nevertheless, the exact molecular mechanisms underlying their generation and …             Rational Design of Highly Potent and Slow-Binding Cytochrome bc1 Inhibitor as Fungicide by Computational Substitution Optimization ▶     Ge-Fei Hao, Sheng-Gang Yang, Wei Huang et al.     Hit to lead (H2L) optimization is a key step for drug and agrochemical discovery. A critical challenge for H2L optimization is the low efficiency due to the lack of predictive …             Influences of large sets of environmental exposures on immune responses in healthy adult men ▶     Buqing Yi, Marina Rykova, Gundula Jäger et al.     Environmental factors have long been known to influence immune responses. In particular, clinical studies about the association between migration and increased risk of …             Identification of gene mutation in patients with osteogenesis imperfect using high resolution melting analysis ▶     Jianhai Wang, Xiuzhi Ren, Xue Bai et al.     Osteogenesis imperfecta (OI), a congenital bone disorder, is caused by mutations in COL1A1 and COL1A2 genes, leading to deficiency of type I collagen. The high resolution melting …             Chemopreventive effects of Strobilanthes crispus leaf extract on azoxymethane-induced aberrant crypt foci in rat colon ▶     Nawal Al-Henhena, Shaden A. M. Khalifa, Rozaida Poh Yuen Ying et al.     In this work, microscopic and histological studies suggest that Strobilanthes crispus ethanol extract reduce azoxymethane (AOM)-induced colonic aberrant crypt foci (ACF) in rats. …             Mass Spectrometry-based PhyloProteomics (MSPP): A novel microbial typing Method ▶     Andreas Erich Zautner, Wycliffe Omurwa Masanta, Michael Weig et al.     MALDI-TOF-MS of microorganisms, which identifies microbes based on masses of high abundant low molecular weight proteins, is rapidly advancing to become another standard method …             Hsa-miR-19a is associated with lymph metastasis and mediates the TNF-α induced epithelial-to-mesenchymal transition in colorectal cancer ▶     Lanlan Huang, Xiaoyan Wang, Chuangyu Wen et al.     Lymph node metastasis is an important factor determining the outcome of colorectal cancer. Although epithelial-to-mesenchymal transition (EMT), TNF-α and microRNA (miRNA) have …             Histone demethylase JMJD3 is required for osteoblast differentiation in mice ▶     Feng Zhang, Longyong Xu, Longxia Xu et al.     JMJD3 (KDM6B) is an H3K27me3 demethylases and emerges as an important player in developmental processes. Although some evidence indicated the involvement of JMJD3 in osteoblast …             High density linkage mapping of genomic and transcriptomic SNPs for synteny analysis and anchoring the genome sequence of chickpea ▶     Rashmi Gaur, Ganga Jeena, Niraj Shah et al.     This study presents genome-wide discovery of SNPs through next generation sequencing of the genome of Cicer reticulatum. Mapping of the C. reticulatum sequenced reads onto the …             The effects of graded levels of calorie restriction: IV. Non-linear change in behavioural phenotype of mice in response to short-term calorie restriction ▶     David Lusseau, Sharon E. Mitchell, Ceres Barros et al.     Animals have to adjust their activities when faced with caloric restriction (CR) to deal with reduced energy intake. If CR is pronounced, allostasis can push individuals into …             CADBURE: A generic tool to evaluate the performance of spliced aligners on RNA-Seq data ▶     Praveen Kumar Raj Kumar, Thanh V. Hoang, Michael L. Robinson et al.     The fundamental task in RNA-Seq-based transcriptome analysis is alignment of millions of short reads to the reference genome or transcriptome. Choosing the right tool for the …             Behavioural innovation and cultural transmission of communication signal in black howler monkeys ▶     M. Briseño-Jaramillo, A. Estrada, A. Lemasson     Social traditions based on communication signals are widespread in birds, cetaceans and humans, but surprisingly rare in nonhuman primates known for having genetically-determined …             SPAD-based leaf nitrogen estimation is impacted by environmental factors and crop leaf characteristics ▶     Dongliang Xiong, Jia Chen, Tingting Yu et al.     Chlorophyll meters are widely used to guide nitrogen (N) management by monitoring leaf N status in agricultural systems, but the effects of environmental factors and leaf …             The effect of exogenous calcium on mitochondria, respiratory metabolism enzymes and ion transport in cucumber roots under hypoxia ▶     Lizhong He, Bin Li, Xiaomin Lu et al.     Hypoxia induces plant stress, particularly in cucumber plants under hydroponic culture. In plants, calcium is involved in stress signal transmission and growth. The ultimate goal …             Functional Identification of a Novel Gene, moaE, for 3-Succinoylpyridine Degradation in Pseudomonas putida S16 ▶     Yi Jiang, Hongzhi Tang, Geng Wu et al.     Microbial degradation of N-heterocyclic compounds, including xanthine, quinoline, nicotinate, and nicotine, frequently requires molybdenum hydroxylases. The intramolecular …             Marine amoebae with cytoplasmic and perinuclear symbionts deeply branching in the Gammaproteobacteria ▶     Frederik Schulz, Tomáš Tyml, Ilaria Pizzetti et al.     Amoebae play an important ecological role as predators in microbial communities. They also serve as niche for bacterial replication, harbor endosymbiotic bacteria and have …             Comparison of four digital PCR platforms for accurate quantification of DNA copy number of a certified plasmid DNA reference material ▶     Lianhua Dong, Ying Meng, Zhiwei Sui et al.     Digital polymerase chain reaction (dPCR) is a unique approach to measurement of the absolute copy number of target DNA without using external standards. However, the …             Left brain cortical activity modulates stress effects on social behavior ▶     Eunee Lee, Jiso Hong, Young-Gyun Park et al.     When subjected to stress, some individuals develop maladaptive symptoms whereas others retain normal behavior. The medial prefrontal cortex (mPFC) is known to control these …             Differential responses of gut microbiota to the same prebiotic formula in oligotrophic and eutrophic batch fermentation systems ▶     Wenmin Long, Zhengsheng Xue, Qianpeng Zhang et al.     The same prebiotics have produced inconsistent effects on microbiota when evaluated in different batch fermentation studies. To understand the reasons behind these discrepancies, …             Role of phosphatase activity of soluble epoxide hydrolase in regulating simvastatin-activated endothelial nitric oxide synthase ▶     Hsin-Han Hou, Yi-Jen Liao, Sheng-Huang Hsiao et al.     Soluble epoxide hydrolase (sEH) has C-terminal epoxide hydrolase and N-terminal lipid phosphatase activity. Its hydrolase activity is associated with endothelial nitric oxide …             Glycosyltransferase ST6GAL1 contributes to the regulation of pluripotency in human pluripotent stem cells ▶     Yu-Chieh Wang, Jason W. Stein, Candace L. Lynch et al.     Many studies have suggested the significance of glycosyltransferase-mediated macromolecule glycosylation in the regulation of pluripotent states in human pluripotent stem cells …             Cordycepin induced MA-10 mouse Leydig tumor cell apoptosis by regulating p38 MAPKs and PI3K/AKT signaling pathways ▶     Bo-Syong Pan, Yang-Kao Wang, Meng-Shao Lai et al.     The p38 MAPKs play important roles in the regulation of balance between cell survival and cell death on the development of various cancers. However, the roles of p38 MAPKs …             Nuclear Localization of the DNA Repair Scaffold XRCC1: Uncovering the Functional Role of a Bipartite NLS ▶     Thomas W. Kirby, Natalie R. Gassman, Cassandra E. Smith et al.     We have characterized the nuclear localization signal (NLS) of XRCC1 structurally using X-ray crystallography and functionally using fluorescence imaging. Crystallography and …             Radiant energy required for infrared neural stimulation ▶     Xiaodong Tan, Suhrud Rajguru, Hunter Young et al.     Infrared neural stimulation (INS) has been proposed as an alternative method to electrical stimulation because of its spatial selective stimulation. Independent of the mechanism …             Bile acids induce hepatic differentiation of mesenchymal stem cells ▶     Iris Sawitza, Claus Kordes, Silke Götze et al.     Mesenchymal stem cells (MSC) have the potential to differentiate into multiple cell lineages and their therapeutic potential has become obvious. In the liver, MSC are represented …             Integrated Transcriptomics Establish Macrophage Polarization Signatures and have Potential Applications for Clinical Health and Disease ▶     Matheus Becker, Marco A. De Bastiani, Mariana M. Parisi et al.     Growing evidence defines macrophages (Mφ) as plastic cells with wide-ranging states of activation and expression of different markers that are time and location dependent. …             HCRP-1 regulates cell migration and invasion via EGFR-ERK mediated up-regulation of MMP-2 with prognostic significance in human renal cell carcinoma ▶     Feifei Chen, Junpeng Deng, Xin Liu et al.     Previous studies indicated a role of hepatocellular carcinoma-related protein-1(HCRP-1) in human cancers, however, its expression pattern in renal cell carcinoma (RCC) and the …             Studying Ancient Anthropogenic Impacts on Current Floral Biodiversity in the Southern Levant as reflected by the Philistine Migration ▶     Suembikya Frumin, Aren M. Maeir, Liora Kolska Horwitz et al.     Human migrations across geographic boundaries can facilitate the introduction of new husbandry practices and dispersal of plants and animals, resulting in changes in …             Wave trains induced by circularly polarized electric fields in cardiac tissues ▶     Xia Feng, Xiang Gao, Juan-Mei Tang et al.     Clinically, cardiac fibrillation caused by spiral and turbulent waves can be terminated by globally resetting electric activity in cardiac tissues with a single high-voltage …             Selective enrichment of mycobacterial proteins from infected host macrophages ▶     Ajit G. Chande, Zaved Siddiqui, Mukul Kumar Midha et al.     Upon infection, Mycobacterium tuberculosis (Mtb) deploys specialized secretion machinery to deliver virulent proteins with the capacity to modulate a variety of host-cellular …             UCP-3 uncoupling protein confers hypoxia resistance to renal epithelial cells and is upregulated in renal cell carcinoma ▶     Norbert Braun, Dominik Klumpp, Jörg Hennenlotter et al.     Tumor cells can adapt to a hostile environment with reduced oxygen supply. The present study aimed to identify mechanisms that confer hypoxia resistance. Partially …             Glyceraldehyde caused Alzheimer’s disease-like alterations in diagnostic marker levels in SH-SY5Y human neuroblastoma cells ▶     Yoshiki Koriyama, Ayako Furukawa, Michiru Muramatsu et al.     Clinical evidence has implicated diabetes mellitus as one of the risk factors for the development and progression of Alzheimer’s disease (AD). However, the neurotoxic pathway …             Mice repeatedly exposed to Group-A β-Haemolytic Streptococcus show perseverative behaviors, impaired sensorimotor gating, and immune activation in rostral diencephalon ▶     Simone Macrì, Chiara Ceci, Martina Proietti Onori et al.     Repeated exposure to Group-A β-Haemolytic Streptococcus (GAS) may constitute a vulnerability factor in the onset and course of pediatric motor disturbances. 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