High-affinity interaction of hnRNP A1 with conserved RNA structural elements is required for translation and replication of enterovirus 71.

abstract：:Processing bodies (P-bodies) are cytoplasmatic mRNP granules containing non-translating mRNAs and proteins from the mRNA decay and silencing machineries. The mechanism of P-body assembly has been typically addressed by depleting P-body components. Here we apply a complementary approach and establish an automated cell-...

journal_title：RNA biology

authors： Martínez JP,Pérez-Vilaró G,Muthukumar Y,Scheller N,Hirsch T,Diestel R,Steinmetz H,Jansen R,Frank R,Sasse F,Meyerhans A,Díez J

更新日期：2013-11-01 00:00:00

abstract：:With a minimal (250-400 nt), non-protein-coding, circular RNA genome, viroids rely on sequence/structural motifs for replication and colonization of their host plants. These motifs are embedded in a compact secondary structure whose elucidation is crucial to understand how they function. Viroid RNA structure has been ...

journal_title：RNA biology

authors： López-Carrasco A,Flores R

更新日期：2017-08-03 00:00:00

abstract：:Wobble uridines (U34) are generally modified in all species. U34 modifications can be essential in metazoans but are not required for viability in fungi. In this review, we provide an overview on the types of modifications and how they affect the physico-chemical properties of wobble uridines. We describe the molecula...

journal_title：RNA biology

authors： Schaffrath R,Leidel SA

更新日期：2017-09-02 00:00:00

abstract：:MicroRNAs (miRNAs) are a class of small noncoding RNAs about 22-nucleotide (nt) in length that collectively regulate more than 60% of coding genes. Aberrant miRNA expression is associated with numerous diseases, including cancer. miRNA biogenesis is licenced by the ribonuclease (RNase) III enzyme Drosha, the regulatio...

journal_title：RNA biology

authors： Dai L,Hallmark L,Bofill De Ros X,Crouch H,Chen S,Shi T,Yang A,Lian C,Zhao Y,Tran B,Gu S

更新日期：2020-11-01 00:00:00

abstract：:By differential high-throughput RNA sequencing (dRNA-seq) we have identified "product RNAs" (pRNAs) as short as 8-12 nucleotides that are synthesized by Bacillus subtilis RNA polymerase (RNAP) in vivo using the regulatory 6S-1 RNA as template. The dRNA-seq data were confirmed by in vitro transcription experiments and ...

journal_title：RNA biology

authors： Beckmann BM,Burenina OY,Hoch PG,Kubareva EA,Sharma CM,Hartmann RK

更新日期：2011-09-01 00:00:00

abstract：:RNA methylation, catalysed by a set of RNA methyltransferases (RNMTs), modulates RNA structures, properties, and biological functions. RNMTs are increasingly documented to be dysregulated in various human diseases, particularly developmental disorders and cancer. However, the genomic and transcriptomic alterations of ...

journal_title：RNA biology

authors： Manning M,Jiang Y,Wang R,Liu L,Rode S,Bonahoom M,Kim S,Yang ZQ

更新日期：2020-04-01 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：: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：:microRNAs (miRNAs) are critical regulators of gene expression. For elucidating functional roles of miRNAs, it is critical to identify their direct targets. There are debates about whether pulldown of biotinylated miRNA mimics can be used to identify miRNA targets or not. Here we show that biotin-labelled miR-34a can b...

journal_title：RNA biology

authors： Awan HM,Shah A,Rashid F,Wei S,Chen L,Shan G

更新日期：2018-01-02 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：:RBM10 is an RNA binding protein and alternative splicing regulator frequently mutated in lung adenocarcinomas. Recent results indicate that RBM10 inhibits proliferation of lung cancer cells by promoting skipping of exon 9 of the gene NUMB, a frequent alternative splicing change in lung cancer generating a negative reg...

journal_title：RNA biology

authors： Hernández J,Bechara E,Schlesinger D,Delgado J,Serrano L,Valcárcel J

更新日期：2016-01-01 00:00:00

abstract：:In a series of conceptual articles published around the millennium, Carl Woese emphasized that evolution of cells is the central problem of evolutionary biology, that the three-domain ribosomal tree of life is an essential framework for reconstructing cellular evolution, and that the evolutionary dynamics of functiona...

journal_title：RNA biology

authors： Koonin EV

更新日期：2014-01-01 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：:Many splicing regulators bind to their own pre-mRNAs to induce alternative splicing that leads to formation of unstable mRNA isoforms. This provides an autoregulatory feedback mechanism that regulates the cellular homeostasis of these factors. We have described such an autoregulatory mechanism for two core protein com...

journal_title：RNA biology

authors： Niemelä EH,Verbeeren J,Singha P,Nurmi V,Frilander MJ

更新日期：2015-01-01 00:00:00

abstract：:High concentrations (> 100 µM) of the ribonucleoside analog 4-thiouridine (4sU) is widely used in methods for RNA analysis like photoactivatable-ribonucleoside-enhanced crosslinking and immunoprecipitation (PAR-CLIP) and nascent messenger (m)RNA labeling (4sU-tagging). Here, we show that 4sU-tagging at low concentrati...

journal_title：RNA biology

authors： Burger K,Mühl B,Kellner M,Rohrmoser M,Gruber-Eber A,Windhager L,Friedel CC,Dölken L,Eick D

更新日期：2013-10-01 00:00:00

abstract：:Seryl-tRNA synthetase (SerRS) catalyzes the ligation of serine to the 3'-end of serine tRNA (tRNA(Ser)), which is typical of the type-2 tRNAs characterized by a long extra arm. The SerRSs are divided into two types, the archaeal/eukaryal and bacterial types. In this study, we solved the crystal structures of the SerRS...

journal_title：RNA biology

authors： Itoh Y,Sekine S,Kuroishi C,Terada T,Shirouzu M,Kuramitsu S,Yokoyama S

更新日期：2008-07-01 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：:Heterogeneous nuclear ribonucleoprotein L (hnRNP L) is a multifunctional RNA-binding protein that is involved in many different processes, such as regulation of transcription, translation, and RNA stability. We have previously characterized hnRNP L as a global regulator of alternative splicing, binding to CA-repeat, a...

journal_title：RNA biology

authors： Rossbach O,Hung LH,Khrameeva E,Schreiner S,König J,Curk T,Zupan B,Ule J,Gelfand MS,Bindereif A

更新日期：2014-01-01 00:00:00

abstract：:5-fluorouracil (5-FU) was isolated as an inhibitor of thymidylate synthase, which is important for DNA synthesis. The drug was later found to also affect the conserved 3'-5' exoribonuclease EXOSC10/Rrp6, a catalytic subunit of the RNA exosome that degrades and processes protein-coding and non-coding transcripts. Work ...

journal_title：RNA biology

authors： Xie B,Becker E,Stuparevic I,Wery M,Szachnowski U,Morillon A,Primig M

更新日期：2019-06-01 00:00:00

abstract：:Sin Nombre hantavirus (SNV) is a New World hantavirus and causes hantavirus cardiopulmonary syndrome. The viral nucleocapsid protein (N) is an RNA chaperone and has multiple functions important in virus replication. The three negative sense RNA segments of hantaviruses form panhandle structures through imperfect hydro...

journal_title：RNA biology

authors： Brown BA,Panganiban AT

更新日期：2010-11-01 00:00:00

abstract：:Post-transcriptional control of messenger RNA (mRNA) is an important layer of gene regulation that modulates mRNA decay, translation, and localization. Eukaryotic mRNA decay begins with the catalytic removal of the 3' poly-adenosine tail by deadenylase enzymes. Multiple deadenylases have been identified in vertebrates...

journal_title：RNA biology

authors： Hughes KL,Abshire ET,Goldstrohm AC

更新日期：2018-01-01 00:00:00

abstract：:Viroids are the smallest autonomous infectious nucleic acids known today. They are non-coding, unencapsidated, circular RNAs with sizes ranging from 250 to 400 nucleotides and infect certain plants. These RNAs are transcribed by rolling-circle mechanisms in the plant host's nuclei (Pospiviroidae) or chloroplasts (Avsu...

journal_title：RNA biology

authors： Hammann C,Steger G

更新日期：2012-06-01 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：:Studies on the regulation of gene expression in eukaryotes in the past 20 years have consistently revealed increasing levels of complexity. Thirty years ago it seemed that we had understood the basic principles of gene regulation in eukaryotes. It was thought that regulation of transcription was the first and most imp...

journal_title：RNA biology

authors： Collart MA,Reese JC

更新日期：2014-01-01 00:00:00

abstract：:The RIG-I-like receptors (RLRs)--RIG-I, MDA5, and LGP2--detect intracellular pathogenic RNA and elicit an antiviral immune response during viral infection. The protein architecture of the RLR family consists of multiple functional domains, including N-terminal Caspase Activation and Recruitment Domains (CARDs) for sig...

journal_title：RNA biology

authors： Luo D

更新日期：2014-01-01 00:00:00

abstract：:The NOVA (neuro-oncological ventral antigen) protein family, composed of two paralogs, NOVA1 and NOVA2, consists of RNA-binding proteins involving in processes such as alternative splicing and transport of some target mRNAs. The function of NOVA has been well studied, and increasing evidence has shown that NOVA protei...

journal_title：RNA biology

authors： Tang S,Zhao Y,He X,Zhu J,Chen S,Wen J,Deng Y

更新日期：2020-06-01 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：:This review emphasizes the function and regulation of the Csr regulatory system in the human enteropathogen Yersinia pseudotuberculosis and compares its features with the homologous Csr/Rsm systems of related pathogens. The Csr/Rsm systems of eubacteria form a complex regulatory network in which redundant non-translat...

journal_title：RNA biology

authors： Heroven AK,Böhme K,Dersch P

更新日期：2012-04-01 00:00:00

abstract：:Proper base-pairing of a miRNA with its target mRNA is a key step in miRNA-mediated mRNA repression. RNA remodelling by RNA-binding proteins (RBPs) can improve access of miRNAs to their target mRNAs. The largest isoform p45 of the RBP AUF1 has previously been shown to remodel viral or AU-rich RNA elements. Here, we sh...

journal_title：RNA biology

authors： Sänger L,Bender J,Rostowski K,Golbik R,Lilie H,Schmidt C,Behrens SE,Friedrich S

更新日期：2020-09-29 00:00:00

abstract：:Editing by ADAR enzymes is essential for mammalian life. Still, knowledge of the spatio-temporal editing patterns in mammals is limited. By use of 454 amplicon sequencing we examined the editing status of 12 regionally extracted mRNAs from porcine developing brain encompassing a total of 64 putative ADAR editing sites...

journal_title：RNA biology

authors： Venø MT,Bramsen JB,Bendixen C,Panitz F,Holm IE,Öhman M,Kjems J

更新日期：2012-08-01 00:00:00