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Singh Krishn Pratap KP Laboratory of Molecular Biochemistry and Cell Biology, Department of Biochemistry, Rajendra Memorial Research Institute of Medical Sciences, Agamkuan, Patna, - - 2014
The cysteine desulfurase, IscS, is a highly conserved and essential component of mitochondrial Iron-Sulfur Cluster (ISC) system that serves as a sulfur donor for Fe-S clusters biogenesis. Fe-S clusters are versatile and labile cofactors of proteins that orchestrate a wide array of essential metabolic processes such as energy generation, ribosome ...
Ishizuka Yuta Y Department of Neurobiology and behavior, Gunma University Graduate School of Medicine, 3-39-22 Showa-machi, Maebashi, Gunma 371-8511, - - 2014
Dendritic spine defects are found in a number of cognitive disorders, including Alzheimer's disease (AD). Amyloid beta (Aβ) toxicity is mediated not only by the fibrillar form of the protein, but also by the soluble oligomers (Aβ-derived diffusible ligands, ADDLs). Drebrin is an actin-binding protein that is located at mature ...
Hernandez-Torres Francisco F Cardiovascular Research Group, Department of Experimental Biology, University of Jaén, Jaén, - - 2014
miRNAs are small non-coding RNAs that significantly regulate the translation of protein coding genes in higher organisms. MicroRNAs are involved in almost every biological process, including early development, lineage commitment, growth and differentiation, cell death, and metabolic control. Misregulation of miRNAs belonging to the intergenic miR-23a~miR-27a~miR-24-2 cluster have been recently ...
Emmrich Stephan - - 2014
Long non-coding RNAs (lncRNAs) are recognized as pivotal players during developmental ontogenesis and pathogenesis of cancer. The intronic microRNA (miRNA) clusters miR-99a ~ 125b-2 and miR-100 ~ 125b-1 promote progression of acute megakaryoblastic leukemia (AMKL), an aggressive form of hematologic cancers. The function of the lncRNA hostgenes MONC and MIR100HG ...
Suzuki Toshihiro T Division of Pathogenetic Signaling, Department of Biochemistry and Molecular Biology, Kobe University Graduate School of Medicine, 1-5-6 Minatojima-minamimachi, Chuo-ku, Kobe, Hyogo, 650-0047, Japan; Division of Molecular and Cellular Biology, Department of Biochemistry and Molecular Biology, Kobe University Graduate School of Medicine, 7-5-1 Kusunoki-cho, Chuo-ku, Kobe, Hyogo, 650-0017, Japan; Division of Surgical Oncology, Department of Surgery, Nagoya University Graduate School of Medicine, 65 Tsurumai-cho, Showa-ku, Nagoya, Aichi, 466-8550, - - 2014
MicroRNA miR-199a is clustered with miR-214 on chromosome 1 and its expression is up-regulated by various factors that are associated with epithelial-to-mesenchymal transition (EMT), such as a transcriptional repressor Twist1 and transforming growth factor (TGF)-β. miR-199a is either up-regulated or down-regulated in a variety of cancers, although EMT is associated ...
Ishihara Tomoaki T Department of Urology, Graduate School of Medical and Dental Sciences, Kagoshima University, - - 2014
Abnormal expression of the microRNA-23b/27b (miR-23b/27b) cluster was observed in our previous study of miRNA expression signatures. However, the relationship between aberrant expression of miRNAs and ccRCC is not well established. The aim of this study was to investigate the functional significance of the miR-23b/27b cluster in ccRCC cells and ...
Tsanakas Georgios F - - 2014
The petal senescence of ethylene insensitive species has not been investigated thoroughly while little is known about the temporal and tissue specific expression patterns of transcription factors (TFs) in this developmental process. Even less is known on flower senescence of the ornamental pot plant Gardenia jasminoides, a non climacteric flower ...
Salomon Dor D Department of Molecular Biology, University of Texas Southwestern Medical Center, - - 2014
The marine bacterium Vibrio parahaemolyticus, a major cause of food-borne gastroenteritis, employs Type VI Secretion System 1 (T6SS1), a recently discovered protein secretion system, to combat competing bacteria. Environmental signals such as temperature, salinity, cell density, and surface-sensing, as well as the quorum sensing master regulator OpaR, were previously reported ...
Zhang Zhao Z Program in Molecular Medicine, University of Massachusetts Medical School, 373 Plantation Street, Worcester, MA 01605, USA; Department of Biochemistry and Molecular Pharmacology, University of Massachusetts Medical School, 364 Plantation Street, Worcester MA 01605, USA; RNA Therapeutics Institute, University of Massachusetts Medical School, 368 Plantation Street, Worcester MA 01605, - - 2014
piRNAs guide an adaptive genome defense system that silences transposons during germline development. The Drosophila HP1 homolog Rhino is required for germline piRNA production. We show that Rhino binds specifically to the heterochromatic clusters that produce piRNA precursors, and that binding directly correlates with piRNA production. Rhino colocalizes to germline ...
Sapetschnig Alexandra A Wellcome Trust/Cancer Research Gurdon Institute, Department of Biochemistry and Department of Genetics, University of Cambridge, Tennis Court Road, Cambridge CB2 1QN, - - 2014
The generation of piRNAs from long primary transcripts requires specialized factors that distinguish these precursors from canonical RNA polymerase II transcripts. Mohn et al. and Zhang et al. provide evidence that in Drosophila melanogaster noncanonical transcription coupled with splicing inhibition differentiates piRNA precursors from mRNAs and ensures their correct processing.
Yu Yongkang Y Department of Thoracic Surgery, General Hospital of Chengdu Military Region of People's Liberation Army, Chengdu, Sichuan 610083, P.R. - - 2014
The aim of the present study was to investigate the correlation between the expression levels of excision repair cross complementing 1 (ERCC1), thymidylate synthase (TYMS), class III β-tubulin (TUBB3), ribonucleoside-diphosphate reductase (RRM1) and topoisomerase IIα (TOP2A) with the clinical characteristics of patients with esophageal squamous cell carcinoma (ESCC). A total ...
Xu Derong D Laboratory of Non-coding RNA, Institute of Biophysics, University of Chinese Academy of Sciences, Beijing, 100101, - - 2014
In recent years, large numbers of non-coding RNAs (ncRNAs) have been identified in C. elegans but their functions are still not well studied. In C. elegans, CEP-1 is the sole homolog of the p53 family of genes. In order to obtain transcription profiles of ncRNAs regulated by CEP-1 under normal ...
Contrant Maud M Architecture et Réactivité de l'ARN - UPR 9002, Institut de Biologie Moléculaire et Cellulaire du CNRS, Université de Strasbourg, 15 rue René Descartes, F-67084 Strasbourg Cedex, - - 2014
Micro (mi)RNAs are small non-coding RNAs with key regulatory functions. Recent advances in the field allowed researchers to identify their targets. However, much less is known regarding the regulation of miRNAs themselves. The accumulation of these tiny regulators can be modulated at various levels during their biogenesis from the transcription ...
Schoberle Taylor J TJ The University of Texas Graduate School of Biomedical Sciences at Houston, The University of Texas MD Anderson Cancer Center, Houston, Texas, United States of - - 2014
Secondary metabolites are produced by numerous organisms and can either be beneficial, benign, or harmful to humans. Genes involved in the synthesis and transport of these secondary metabolites are frequently found in gene clusters, which are often coordinately regulated, being almost exclusively dependent on transcription factors that are located within ...
Corrado Gianluca - - 2014
The progress in mapping RNA-protein and RNA-RNA interactions at the transcriptome-wide level paves the way to decipher possible combinatorial patterns embedded in post-transcriptional regulation of gene expression. Here we propose an innovative computational tool to extract clusters of mRNA trans-acting co-regulators (RNA binding proteins and non-coding RNAs) from pairwise interaction ...
Wang Feng F Zhejiang University, College of Life Sciences, Hangzhou 310058, China; Key Laboratory of Microbial Biochemistry and Metabolism Engineering of Zhejiang Province, Hangzhou 310058, - - 2014
Daptomycin, a novel cyclic lipopeptide antibiotic against Gram-positive bacteria, is produced by Streptomyces roseosporus. Though its biosynthetic mechanism, structural shuffling and fermentation optimization have been extensively studied, little is understood about its production regulation at the transcriptional levels. Here we reported that dptR2, encoding a DeoR-type regulator located close to ...
Molina-Pinelo Sonia S HUVR, CSIC, Universidad de Sevilla, Seville, - - 2014
Lung adenocarcinoma and chronic obstructive pulmonary disease (COPD) are pulmonary diseases that share common aetiological factors (tobacco smoking) and probable dysregulated pathways. MicroRNAs (miRNAs) play an essential role in regulating numerous physiological and pathological processes. The purpose of this study was to assess global miRNA expression patterns in patients with ...
Paul Sushmita S Biomedical Imaging and Bioinformatics Lab, and Machine Intelligence Unit, Indian Statistical Institute, Kolkata, 700 108, India. sushmita_t@isical.ac.in, - - 2014
The microRNAs or miRNAs are short, endogenous RNAs having ability to regulate mRNA expression at the post-transcriptional level. Various studies have revealed that miRNAs tend to cluster on chromosomes. The members of a cluster that are in close proximity on chromosomes are highly likely to be processed as co-transcribed units. ...
Nguyen Tung T - - 2014
The circadian clock is a critical regulator of biological functions controlling behavioral, physiological and biochemical processes. Because the liver is the primary regulator of metabolites within the mammalian body and the disruption of circadian rhythms in liver is associated with severe illness, circadian regulators would play a strong role in ...
Llobet-Navas David D Institute for Cancer Genetics, Department of Pathology, Columbia University, New York, New York 10032, - - 2014
The mammary gland is a very dynamic organ that undergoes continuous remodeling. The critical regulators of this process are not fully understood. Here we identify the microRNA cluster miR-424(322)/503 as an important regulator of epithelial involution after pregnancy. Through the generation of a knockout mouse model, we found that regression ...
Joshi Dipesh D Schizophrenia Research Institute, Liverpool St, Darlinghurst, NSW 2011, Australia; Neuroscience Research Australia, Barker St, Randwick, NSW 2031, Australia; School of Psychiatry, Faculty of Medicine, University of New South Wales, Sydney, NSW 2052, - - 2014
Neuregulin 1 and its receptor ErbB4 are confirmed risk genes for schizophrenia, but the neuropathological alterations in NRG1-ErbB4 in schizophrenia are unclear. The present investigations therefore focused on determining lamina specific (ErbB4-pan) and quantitative (pan, JMa, JMb, CYT1 and CYT2) ErbB4 mRNA changes in the dorsolateral prefrontal cortex (DLPFC) in ...
Shen Yanyue Y State Key Laboratory of Hybrid Rice, College of Life Sciences, Wuhan University, Wuhan, 430072, - - 2014
Polyploidy has played an important role in promoting plant evolution through genomic merging and doubling. We used high-throughput sequencing to compare miRNA expression profiles between Brassica hexaploid and its parents. A total of 613, 784 and 742 known miRNAs were identified in Brassica rapa, Brassica carinata, and Brassica hexaploid, respectively. ...
Zhang Zhonghui Z 1 Section of Hematology/Oncology, Department of Medicine, and UIC Cancer Center, University of Illinois at Chicago. Chicago , IL, - - 2014
Abstract Small-molecule inhibitors and microRNAs (miRNAs) are two newly emerging classes of tools for optimizing induced pluripotent stem cell (iPSC) generation. We report here that sodium butyrate (NaB), a small-molecule inhibitor of histone deacetylases (HDACs), upregulates transcriptional levels of the miR-302/367 cluster by enhancing Oct4 transcriptional activity at the miR-302/367 ...
Goriaux Coline C Clermont Université Université d'Auvergne, Clermont-Ferrand, - - 2014
In Drosophila, the piRNA cluster, flamenco, produces most of the piRNAs (PIWI-interacting RNAs) that silence transposable elements in the somatic follicle cells during oogenesis. These piRNAs are thought to be processed from a long single-stranded precursor transcript. Here, we demonstrate that flamenco transcription is initiated from an RNA polymerase II ...
Kerr Kimberly S KS Department of Neurobiology, University of Massachusetts Medical School, Worcester, Massachusetts 01605, Howard Hughes Medical Institute, Worcester, Massachusetts 01605, and National Center for Behavioral Genomics, Department of Biology, Brandeis University, Waltham, Massachusetts - - 2014
Glial cells are emerging as important regulators of synapse formation, maturation, and plasticity through the release of secreted signaling molecules. Here we use chromatin immunoprecipitation along with Drosophila genomic tiling arrays to define potential targets of the glial transcription factor Reversed polarity (Repo). Unexpectedly, we identified wingless (wg), a secreted ...
Laas Enora E Service de Gynécologie-Obstétrique, Hôpital Tenon, AP-HP, 4 rue de la Chine 75020 Paris, France; Institut Universitaire de Cancérologie, Université Pierre et Marie Curie, Paris 6, France. Electronic address: - - 2014
Differentiation between grade-1 endometrial cancer (EC) and atypical endometrial hyperplasia (AEH) is crucial to determine optimal surgical management. However, discrepancies exist between preoperative diagnosis of AEH and final histology. Our aim was to establish clusters of immunohistochemical markers to distinguish AEH from grade-1 EC. We studied 13 immunohistochemical markers (steroid ...
Geisberg Joseph V JV Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, - - 2014
We measured half-lives of 21,248 mRNA 3' isoforms in yeast by rapidly depleting RNA polymerase II from the nucleus and performing direct RNA sequencing throughout the decay process. Interestingly, half-lives of mRNA isoforms from the same gene, including nearly identical isoforms, often vary widely. Based on clusters of isoforms with ...
Chaulk Steven G SG Department of Biochemistry, University of Alberta, Edmonton, Alberta T6G 2H7, Canada and Department of Oncology, University of Alberta, Edmonton, Alberta T6G 2H7, - - 2014
While functional mature microRNAs (miRNAs) are small ∼22 base oligonucleotides that target specific mRNAs, miRNAs are initially expressed as long transcripts (pri-miRNAs) that undergo sequential processing to yield the mature miRNAs. We have previously reported that the pri-miR-17∼92 cluster adopts a compact globular folded structure that internalizes a 3' core ...
Zatakia Hardik M HM Department of Biological Sciences, Virginia Tech, Life Sciences I, Blacksburg, VA - - 2014
Type IVb pili in enteropathogenic bacteria function as a host-colonization factor by mediating tight adherence to host cells, but their role in bacteria-plant symbiosis is currently unknown. The genome of the symbiotic soil bacterium Sinorhizobium meliloti contains two clusters encoding proteins for Type IVb pili of the Flp (fimbrial low-molecular-weight ...
Hoss Andrew G AG Department of Neurology, Boston University School of Medicine, Boston, Massachusetts, United States of America ; Graduate Program in Genetics and Genomics, Boston University School of Medicine, Boston, Massachusetts, United States of - - 2014
Transcriptional dysregulation has long been recognized as central to the pathogenesis of Huntington's disease (HD). MicroRNAs (miRNAs) represent a major system of post-transcriptional regulation, by either preventing translational initiation or by targeting transcripts for storage or for degradation. Using next-generation miRNA sequencing in prefrontal cortex (Brodmann Area 9) of twelve ...
Agranat-Tamir Lily L Department of Genetics, The Hebrew University of Jerusalem, Jerusalem 91904, Israel, Department of Cell and Developmental Biology, Sackler Faculty of Medicine, Tel Aviv University, 69978 Tel Aviv, Israel and Department of Organic Chemistry, The Weizmann Institute of Science, Rehovot 76100, - - 2014
MicroRNAs (miRNAs) are central regulators of gene expression, and a large fraction of them are encoded in introns of RNA polymerase II transcripts. Thus, the biogenesis of intronic miRNAs by the microprocessor and the splicing of their host introns by the spliceosome require coordination between these processing events. This cross-talk ...
Velazquez-Fernandez David D D Velazquez-fernandez, DEPARTMENT OF MOLECULAR MEDICINE AND SURGERY, KAROLINSKA INSTITUTET, SWEDEN, - - 2014
The adrenocortical adenoma (ACA) entity includes aldosterone-producing (APA), cortisol-producing (CPA) and non-hyperfunctioning (NHFA) phenotypes. While gene mutations and mRNA expression profiles have been partly characterized, less is known about alterations involving microRNA (miRNA) expression. To characterize miRNA expression profile in relation to the subtypes of ACAs. miRNA expression profiles were ...
Boguslawska J J Department of Biochemistry and Molecular Biology, Centre of Postgraduate Medical Education, Warsaw, - - 2014
microRNAs, short non-coding RNAs, influence key physiological processes, including hormonal regulation, by affecting the expression of genes. In this study we hypothesized that the expression of microRNAs targeting thyroid hormone pathway genes may be in turn regulated by thyroid hormone signalling. It is known that the expression of DIO1, a ...
Wang Minghua M Department of Biochemical and Molecular Biology, Medical College, Soochow University, Suzhou, Jiangsu, - - 2014
MicroRNAs (miRNAs) are a class of small non-coding RNAs generated from endogenous transcripts that form hairpin structures. The hairpin precursor is processed into two mature miRNAs that form major/minor duplexes. Mature miRNAs regulate gene expression by cleaving mRNA or repressing protein translation. Numerous miRNAs have been discovered via deep sequencing. ...
Guo Li L Department of Epidemiology and Biostatistics, School of Public Health, Nanjing Medical University, Nanjing 211166, - - 2014
MicroRNAs (miRNAs) are small, noncoding regulatory molecules. They are involved in many essential biological processes and act by suppressing gene expression. The present work reports an integrative analysis of miRNA-mRNA and miRNA-miRNA interactions and their regulatory patterns using high-throughput miRNA and mRNA datasets. Aberrantly expressed miRNA and mRNA profiles were ...
Ma Hongming H Center of Excellence for Infectious Diseases, Department of Biomedical Sciences, Paul L. Foster School of Medicine, Texas Tech University Health Sciences Center, El Paso, Texas, - - 2014
Pol III promoters such as U6 are commonly used to express small RNAs, including small interfering RNA, short hairpin RNA, and guide RNA, for the clustered regularly interspaced short palindromic repeats genome-editing system. However, whether the small RNAs were precisely expressed as desired has not been studied. Here, using deep ...
Mouillet Jean-Francois JF Magee-Womens Research Institute, Department of Obstetrics, Gynecology and Reproductive Sciences, University of Pittsburgh, Pittsburgh, Pennsylvania, - - 2014
During the past decade, various types of small non-coding RNAs were found to be expressed in all kingdoms and phyla of life. Intense research efforts have begun to shed light on their biological functions, although much remains to be determined in order to fully characterize their scope of biological action. ...
Li Xiao Ling - - 2013
The tumor suppressor p21 acts as a cell cycle inhibitor and has also been shown to regulate gene expression by functioning as a transcription co-repressor. Here, we identified p21-regulated microRNAs (miRNAs) by sequencing small RNAs from isogenic p21+/+ and p21-/- cells. Three abundant miRNA clusters, miR-200b-200a-429, miR-200c-141 and miR-183-96-182 were ...
Ramalingam Pradeep - - 2013
miRNAs are generally classified as "intergenic" or "intronic" based upon their genomic location. Intergenic miRNAs are known to be transcribed as independent transcription units, while intronic miRNAs are believed to be processed from the introns of their hosting transcription units and hence share common regulatory mechanisms and expression patterns with ...
Liu Chang-Zheng - - 2013
Methods The expression of myoD and miR-29 family was detected by using real-time PCR and Western blot analysis. The potential promoter and transcription factors binding sites of miR-29 clusters were predicted by Promoter scan and transcriptional factor search. The promoter sequence of miR-29b1-a and miR-29b2-c cluster was cloned into a ...
Garg Neha - - 2013
The transcription factor Nanog plays a critical role in the self-renewal of embryonic stem cells as well as in neural stem cells (NSCs). microRNAs (miRNAs) are also involved in stemness regulation. However, the miRNA network downstream of Nanog is still poorly understood. High-throughput screening of miRNA expression profiles in response ...
Kishikawa Takahiro - - 2013
Hepatocellular carcinoma (HCC) is a threat to public health worldwide. We previously identified the association of a single nucleotide polymorphism (SNP) at the promoter region of the MHC class I polypeptide-related sequence A (MICA) gene with the risk of hepatitis-virus-related HCC. Because this SNP affects MICA expression levels, regulating MICA ...
Xiao Jun - - 2013
The circadian clock enables organisms to adjust to daily environmental changes and synchronize multiple molecular, biochemical, physiological, and behavioral processes accordingly. In mammalian clock work, Bmal1 is the most important core clock gene, which works with another core clock gene Clock to drive the expression of other clock genes and ...
Yu Ai-Qing - - 2013
Dorsal as a crucial component of Toll signaling pathway, played important roles in induction and regulation of innate immune responses. In this study, we cloned a NF-κB-like transcription factor Dorsal from Eriocheir sinensis and designated it as EsDorsal. The full-length cDNA of EsDorsal was 2,493 bp with a 2,022-bp open ...
Wu Yan - - 2013
microRNAs (miRNAs) have been reported to play an essential role in the regulation of brown adipocyte adipogenesis. In the present study, we investigated the role of the miR-106b-93 cluster in the differentiation of brown adipocytes. We found that knockdown of miR-106b and miR-93 significantly induced the expression of brown fat-specific ...
Schreiner Alexandra E - - 2013
Astrocytes express two sodium-coupled transporters, GLAST and GLT-1, which are essential for the maintenance of low extracellular glutamate levels. Here, we performed a comparative analysis of the laminar and subcellular expression profile of GLAST and GLT-1 in the developing postnatal mouse hippocampus using immunohistochemistry and western blotting and employing high-resolution ...
Dubash Adi D AD Department of Pathology, Northwestern University Feinberg School of Medicine, Chicago, IL 60611, - - 2013
Although much is known about signaling factors downstream of Rho GTPases that contribute to epidermal differentiation, little is known about which upstream regulatory proteins (guanine nucleotide exchange factors [GEFs] or GTPase-activating proteins [GAPs]) are involved in coordinating Rho signaling in keratinocytes. Here we identify the GEF breakpoint cluster region (Bcr) ...
Thomas-Jinu Swapna - - 2013
Neurexophilin 1 (Nxph1) is a specific endoligand of α-neurexins that is essential for trans-synaptic activation. Here, we report its dynamic expression during development in zebrafish. Our study revealed an early onset of expression of nxph1. RT-PCR on a series of embryonic stages showed that it is maternally deposited, although only ...
Engelsvold David H DH Department of Ophthalmology, Stavanger University Hospital, Stavanger, Norway; Department of Clinical Medicine, Section of Ophthalmology, University of Bergen, Bergen, - - 2013
The current study investigates whether microRNA (miRNA) regulators of epithelial-mesenchymal transition (EMT), tissue fibrosis, and angiogenesis are differentially expressed in human primary pterygium. Genome-wide miRNA and mRNA expression profiling of paired pterygium and normal conjunctiva was performed in the context of conventional excision of pterygium with autotransplantation of conjunctiva (n = 8). ...
Schillig Rebecca - - 2013
The zinc cluster proteins are a family of transcription factors that are unique to the fungal kingdom. In the pathogenic yeast Candida albicans, zinc cluster transcription factors control the expression of virulence-associated traits and play key roles in the development of antifungal drug resistance. Gain-of-function mutations in several zinc cluster ...
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