4-thiouridine inhibits rRNA synthesis and causes a nucleolar stress response.

abstract：:We previously showed that miR-122 was frequently downregulated in hepatocellular carcinoma (HCC) and C/EBPα transactivated miR-122 expression. In this study, we found that Sp1 bound to the miR-122 promoter at two different sites. Interestingly, either inhibition or overexpression of Sp1 could decrease the miR-122 prom...

journal_title：RNA biology

authors： Zeng C,Sang Y,Wang FY,Zhuang SM

更新日期：2020-02-01 00:00:00

abstract：:MicroRNA (miRs) are short non-coding RNAs that fine-tune the regulation of gene expression to coordinate a wide range of biological processes. MicroRNAs are transcribed from miR genes and primary miR transcripts are processed to approximately 22 nucleotide single strand mature forms that function as repressors of tran...

journal_title：RNA biology

authors： Desvignes T,Contreras A,Postlethwait JH

更新日期：2014-01-01 00:00:00

abstract：:Alternative splicing (AS) of pre-messenger RNAs is a major process contributing to both transcriptome and proteome diversity in various physiological and pathological situations. There is also accumulating evidence that various stresses impact on AS. In particular, recent analyses of the transcriptome reveal large num...

journal_title：RNA biology

authors： Dutertre M,Sanchez G,Barbier J,Corcos L,Auboeuf D

更新日期：2011-09-01 00:00:00

abstract：:Long non-coding RNAs have emerged as an important regulatory layer in biological systems. Of the various types of lncRNAs, one class (designated as divergent RNAs/XH), which is in head-to-head overlap with the coding genes, has emerged as a critical biotype that regulates development and cellular differentiation. This...

journal_title：RNA biology

authors： Prajapati B,Fatma M,Maddhesiya P,Sodhi MK,Fatima M,Dargar T,Bhagat R,Seth P,Sinha S

更新日期：2019-01-01 00:00:00

abstract：:A very conserved pseudoknot structure has been shown to fold in influenza virus RNA. The pseudoknot encompasses the 3' splice site of segment 8 RNA in both influenza A and B viruses. By sequence comparison of influenza virus strains, we derive a consensus motif that defines a novel RNA pseudoknot family. The orientati...

journal_title：RNA biology

authors： Gultyaev AP,Olsthoorn RC

更新日期：2010-03-01 00:00:00

abstract：:The development of rigorous molecular taxonomy pioneered by Carl Woese has freed evolution science to explore numerous cellular activities that lead to genome change in evolution. These activities include symbiogenesis, inter- and intracellular horizontal DNA transfer, incorporation of DNA from infectious agents, and ...

journal_title：RNA biology

authors： Shapiro JA

更新日期：2014-01-01 00:00:00

abstract：:The immaculate annotation of all microRNAs (miRNAs) is a prerequisite to study their biological function on a genome-wide scale. However, the original criteria for proper miRNA annotation seem unsuited for the automated analysis of the immense number of small RNA reads available in next generation sequencing (NGS) dat...

journal_title：RNA biology

authors： Hansen TB,Kjems J,Bramsen JB

更新日期：2011-05-01 00:00:00

abstract：:The HIV-1 nucleocapsid protein (NC) is a nucleic acid chaperone, which remodels nucleic acid structures so that the most thermodynamically stable conformations are formed. This activity is essential for virus replication and has a critical role in mediating highly specific and efficient reverse transcription. NC's fun...

journal_title：RNA biology

authors： Levin JG,Mitra M,Mascarenhas A,Musier-Forsyth K

更新日期：2010-11-01 00:00:00

abstract：:Type II CRISPR-Cas9 systems require a small RNA called the trans-activating CRISPR RNA (tracrRNA) in order to function. The prediction of these non-coding RNAs in prokaryotic genomes is challenging because they have dissimilar structures, having short stems (3-6 bp) and non-canonical base-pairs e.g. G-A. Much of the t...

journal_title：RNA biology

authors： Chyou TY,Brown CM

更新日期：2019-04-01 00:00:00

abstract：:Long noncoding RNAs (lncRNAs) are pervasively transcribed and critical regulators of the epigenome[1, 2]. These long, polyadenylated RNAs do not code for proteins, but function directly as RNAs, recruiting chromatin modifiers to mediate transcriptional changes in processes ranging from X-inactivation (XIST) to imprint...

journal_title：RNA biology

authors： Hung T,Chang HY

更新日期：2010-09-01 00:00:00

abstract：:tRNA-dependent addition of amino acids to lipids on the outer surface of the bacterial membrane results in decreased effectiveness of antimicrobials such as cationic antimicrobial peptides (CAMPs) that target the membrane, and increased virulence of several pathogenic species. After a brief introduction to CAMPs and t...

journal_title：RNA biology

authors： Fields RN,Roy H

更新日期：2018-01-01 00:00:00

abstract：:Nonsense-mediated decay (NMD) is a RNA surveillance pathway that degrades subsets of normal and aberrant mRNAs. Mutations that perturb NMD cause neurological disorders in humans, suggesting that NMD has roles in the brain. Recently, it was shown that NMD is repressed during neural development to allow for the stabiliz...

journal_title：RNA biology

authors： Karam R,Wilkinson M

更新日期：2012-01-01 00:00:00

abstract：:Previous mRNA transcriptome studies of Euglena gracilis have shown that this organism possesses a large and diverse complement of protein coding genes; however, the study of non-coding RNA classes has been limited. The natural extensive fragmentation of the E. gracilis large subunit ribosomal RNA presents additional b...

journal_title：RNA biology

authors： Moore AN,McWatters DC,Hudson AJ,Russell AG

更新日期：2018-01-01 00:00:00

abstract：:We investigated the gene-expression variation among humans by analysing previously published mRNA-seq and ribosome footprint profiling of heart left-ventricles from healthy donors. We ranked the genes according to their coefficient of variation values and found that the top 5% most variable genes had special features ...

journal_title：RNA biology

authors： Domitrovic T,Moreira MH,Carneiro RL,Ribeiro-Alves M,Palhano FL

更新日期：2020-12-11 00:00:00

abstract：:The genus Xanthomonas comprises a large group of plant-pathogenic bacteria. The infection and bacterial multiplication in the plant tissue depends on the type III secretion system and other virulence determinants. Recent studies revealed that bacterial virulence is also controlled at the post-transcriptional level by ...

journal_title：RNA biology

authors： Abendroth U,Schmidtke C,Bonas U

更新日期：2014-01-01 00:00:00

abstract：:The two major steps of gene expression are transcription and translation. While hundreds of studies regarding the effect of sequence features on the translation elongation process have been published, very few connect sequence features to the transcription elongation rate. We suggest, for the first time, that short tr...

journal_title：RNA biology

authors： Cohen E,Zafrir Z,Tuller T

更新日期：2018-01-02 00:00:00

abstract：:Significant structural and mechanistic similarities between the spliceosomal snRNAs and catalytically critical domains of self-splicing group II introns have led to the hypothesis that the spliceosomes and group II introns may be evolutionarily related. We have previously shown that in vitro-transcribed, protein-free ...

journal_title：RNA biology

authors： Jaladat Y,Zhang B,Mohammadi A,Valadkhan S

更新日期：2011-05-01 00:00:00

abstract：:Conserved RNA secondary structures were predicted in the nucleoprotein (NP) segment of the influenza A virus genome using comparative sequence and structure analysis. A number of structural elements exhibiting nucleotide covariations were identified over the whole segment length, including protein-coding regions. Calc...

journal_title：RNA biology

authors： Gultyaev AP,Tsyganov-Bodounov A,Spronken MI,van der Kooij S,Fouchier RA,Olsthoorn RC

更新日期：2014-01-01 00:00:00

abstract：:I am honored to have been asked to contribute to this memorial issue, although I cannot claim to have known Carl Woese well. Carl's insights and the discoveries that his research group made over the years certainly stimulated my own research program, and at several points early on, interactions with him were pivotal i...

journal_title：RNA biology

authors： Gray MW

更新日期：2014-01-01 00:00:00

abstract：:At low temperatures the Escherichia coli rpoS mRNA, encoding the stationary phase sigma factor RpoS, forms an intramolecular secondary structure (iss) that impedes translation initiation. Under these conditions the small RNA DsrA, which is stabilzed by Hfq, forms a duplex with rpoS mRNA sequences opposite of the ribos...

journal_title：RNA biology

authors： Hämmerle H,Večerek B,Resch A,Bläsi U

更新日期：2013-12-01 00:00:00

abstract：:Amplification or overexpression of neuronal MYC (MYCN) is associated with poor prognosis of human neuroblastoma. Three isoforms of the MYCN protein have been described as well as a protein encoded by an antisense transcript (MYCNOS) that originates from the opposite strand at the MYCN locus. Recent findings suggest th...

journal_title：RNA biology

authors： Vadie N,Saayman S,Lenox A,Ackley A,Clemson M,Burdach J,Hart J,Vogt PK,Morris KV

更新日期：2015-01-01 00:00:00

abstract：:The synthesis of RNA is highly regulated at all stages by transcription factors. As an essential transcription elongation factor, NusA has been studied biochemically for more than 30 years. However, until now no structural information has been available on NusA-RNAP complexes and the NusA interaction site on RNAP was ...

journal_title：RNA biology

authors： Yang X,Lewis PJ

更新日期：2010-05-01 00:00:00

abstract：:In plants, Potato spindle tuber viroid (PSTVd) replication triggers post-transcriptional gene silencing (PTGS) and RNA-directed DNA methylation (RdDM) of homologous RNA and DNA sequences, respectively. PTGS predominantly occurs in the cytoplasm, but nuclear PTGS has been also reported. In this study, we investigated w...

journal_title：RNA biology

authors： Dalakouras A,Dadami E,Bassler A,Zwiebel M,Krczal G,Wassenegger M

更新日期：2015-01-01 00:00:00

abstract：:Mutations in genes that encode tRNAs, aminoacyl-tRNA syntheases, tRNA modifying enzymes and other tRNA interacting partners are associated with neuropathies, cancer, type-II diabetes and hearing loss, but how these mutations cause disease is unclear. We have hypothesized that levels of tRNA decoding error (mistranslat...

journal_title：RNA biology

authors： Reverendo M,Soares AR,Pereira PM,Carreto L,Ferreira V,Gatti E,Pierre P,Moura GR,Santos MA

更新日期：2014-01-01 00:00:00

abstract：:MicroRNAs are small RNAs that post-transcriptionally regulate eukaryotic gene expression. In addition to their involvement in a wide range of physiological and pathological processes, including viral infections, microRNAs are increasingly implicated in the eukaryotic response to bacterial pathogens. Recent studies hav...

journal_title：RNA biology

authors： Eulalio A,Schulte L,Vogel J

更新日期：2012-06-01 00:00:00

abstract：:All organisms must keep their DNA intact and free of lesions to obtain faithful transmission of genetic information, and many cellular proteins are involved in genome maintenance. However, also other macromolecules may be subject to repair. Deleterious lesions in proteins can be reversed by several mechanisms, and thi...

journal_title：RNA biology

authors： Falnes PØ

更新日期：2005-01-01 00:00:00

abstract：:Transcriptional regulation of microRNA (miRNA) expression is one of the least understood aspects of miRNA biogenesis. In C. elegans the list of miRNAs whose transcriptional control has been described in some detail is currently limited to four: let-7, lin-4, lsy-6, and mir-61. Each of these genes has been shown experi...

journal_title：RNA biology

authors： Turner MJ,Slack FJ

更新日期：2009-01-01 00:00:00

abstract：:Enzymes of the cytosine-5 RNA methyltransferase Trm4/NSun2 family methylate tRNAs at C48 and C49 in multiple tRNAs, as well as C34 and C40 in selected tRNAs. In contrast to most other organisms, fission yeast Schizosaccharomyces pombe carries two Trm4/NSun2 homologs, Trm4a (SPAC17D4.04) and Trm4b (SPAC23C4.17). Here, ...

journal_title：RNA biology

authors： Müller M,Samel-Pommerencke A,Legrand C,Tuorto F,Lyko F,Ehrenhofer-Murray AE

更新日期：2019-03-01 00:00:00

abstract：:Population bottlenecks often cause strong reductions in genetic diversity and alter population structure. In the context of host-parasite interactions, bottlenecks could in theory benefit either the host or the pathogen. We predicted that bottlenecking of bacterial populations that evolve CRISPR immunity against bacte...

journal_title：RNA biology

authors： Common J,Westra ER

更新日期：2019-04-01 00:00:00

abstract：:Epstein-Barr virus (EBV) was the first human cancer-causing virus to be discovered over fifty years ago. Given its relatively large genome size for a virus and hence the capacity to store more than mere protein-coding information, EBV also harbours genetic material for producing an array of distinct noncoding (nc)RNAs...

journal_title：RNA biology

authors： Lee N

更新日期：2021-01-30 00:00:00