Dissecting the secondary structure of the circular RNA of a nuclear viroid in vivo: A "naked" rod-like conformation similar but not identical to that observed in vitro.

abstract：:The endoribonuclease toxins of the E. coli toxin-antitoxin systems arrest bacterial growth and protein synthesis by targeting cellular mRNAs. As an exception, E. coli MazF was reported to cleave also 16S rRNA at a single site and separate an anti-Shine-Dalgarno sequence-containing RNA fragment from the ribosome. We no...

journal_title：RNA biology

authors： Mets T,Lippus M,Schryer D,Liiv A,Kasari V,Paier A,Maiväli Ü,Remme J,Tenson T,Kaldalu N

更新日期：2017-01-02 00:00:00

abstract：:Single-stranded oligonucleotides (ssOligos) are efficiently taken up by living cells without the use of transfection reagents. This phenomenon called 'gymnosis' enables the sequence-specific silencing of target genes in various types of cells. Several antisense ssOligos are used for the treatment of human diseases. Ho...

journal_title：RNA biology

authors： Takahashi M,Contu VR,Kabuta C,Hase K,Fujiwara Y,Wada K,Kabuta T

更新日期：2017-11-02 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：: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：:The PDCD1 gene encodes PD-1, an important immune checkpoint protein and key immunotherapy target to treat cancer. PDCD1 is alternatively spliced to generate an exon 3-skipped isoform PD-1Δ3 that has been suggested to play an antagonistic role to PD-1, but the mechanism underlying alternative splicing of PDCD1 has neve...

journal_title：RNA biology

authors： Sun J,Bai J,Jiang T,Gao Y,Hua Y

更新日期：2019-12-01 00:00:00

abstract：:Physical entanglement, and particularly knots arise spontaneously in equilibrated polymers that are sufficiently long and densely packed. Biopolymers are no exceptions: knots have long been known to occur in proteins as well as in encapsidated viral DNA. The rapidly growing number of RNA structures has recently made i...

journal_title：RNA biology

authors： Burton AS,Di Stefano M,Lehman N,Orland H,Micheletti C

更新日期：2016-01-01 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：:Oncogenic viruses are associated with approximately 15% of human cancers. In viral infections, microRNAs play an important role in host-pathogen interactions. miR-21 is a highly conserved non-coding RNA that not only regulates the development of oncogenic viral diseases, but also responds to the regulation of intracel...

journal_title：RNA biology

authors： He G,Ding J,Zhang Y,Cai M,Yang J,Cho WC,Zheng Y

更新日期：2021-01-27 00:00:00

abstract：:The subcellular localization of the nonsense mediated decay (NMD) of mRNA transcripts bearing premature termination codons has been controversial. Recently, it has been demonstrated that RNA tethering of key mediators of NMD, including human UPF3B, accurately recreates NMD. Here, we have used tethered UPF3B, combined ...

journal_title：RNA biology

authors： Lu S,Cullen BR

更新日期：2004-05-01 00:00:00

abstract：:Circular RNAs (circRNAs) are closely associated with the development of non-small cell lung cancer (NSCLC); however, it is still unclear whether circular RNA circ-LDLRAD3 participated in the regulation of NSCLC progression. In this study, we found that circ-LDLRAD3 was high-expressed and miR-137 was low-expressed in N...

journal_title：RNA biology

authors： Xue M,Hong W,Jiang J,Zhao F,Gao X

更新日期：2020-12-01 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：:Deinococcus radiodurans is a highly stress resistant bacterium that encodes universal as well as lineage-specific factors involved in DNA transcription and repair. However, the effects of DNA lesions on RNA synthesis by D. radiodurans RNA polymerase (RNAP) have never been studied. We investigated the ability of this R...

journal_title：RNA biology

authors： Agapov A,Esyunina D,Kulbachinskiy A

更新日期：2019-12-01 00:00:00

abstract：:The muscle specific miRNA, miR-206, is important for the process of myogenesis; however, studying the function of miR-206 in muscle development and differentiation still proves challenging because the complement of mRNA targets it regulates remains undefined. In addition, miR-206 shares close sequence similarity to mi...

journal_title：RNA biology

authors： Salant GM,Tat KL,Goodrich JA,Kugel JF

更新日期：2020-07-01 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：:Telomeres, protective nucleoprotein structures located at the ends of eukaryotic chromosomes and until recently regarded as transcriptionally silent, are now known to be transcribed into non-coding RNA molecules called TERRA. The function(s) of TERRA in telomere metabolism is now the subject of intense study given the...

journal_title：RNA biology

authors： Caslini C

更新日期：2010-01-01 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：:While disruption of alternative splicing underlies many diseases, modulation of splicing using antisense oligonucleotides (AONs) can have therapeutic implications. The most notable example is Duchenne muscular dystrophy (DMD), where antisense-mediated exon skipping can restore the open reading frame and allow the synt...

journal_title：RNA biology

authors： Aartsma-Rus A

更新日期：2010-07-01 00:00:00

abstract：:Regulation of protein synthesis is an essential step of gene expression. This process is under the control of cis-acting RNA elements and trans-acting factors. Gemin5 is a multifunctional RNA-binding protein organized in distinct domains. The protein bears a non-canonical RNA-binding site, designated RBS1, at the C-te...

journal_title：RNA biology

authors： Francisco-Velilla R,Embarc-Buh A,Rangel-Guerrero S,Basu S,Kundu S,Martinez-Salas E

更新日期：2020-09-01 00:00:00

abstract：:Riboswitches are cis-encoded, cis-acting RNA elements that directly sense a physiological signal. Signal response results in a change in RNA structure that impacts gene expression. Elements of this type play an important role in bacteria, where they regulate a variety of fundamental cellular pathways. Riboswitch-media...

journal_title：RNA biology

authors： Smith AM,Fuchs RT,Grundy FJ,Henkin TM

更新日期：2010-01-01 00:00:00

abstract：:Termination of RNA polymerase II (RNAPII) transcription is a fundamental step of gene expression that involves the release of the nascent transcript and dissociation of RNAPII from the DNA template. As transcription termination is intimately linked to RNA 3' end processing, termination pathways have a key decisive inf...

journal_title：RNA biology

authors： Lemay JF,Bachand F

更新日期：2015-01-01 00:00:00

abstract：:Pentatricopeptide repeat (PPR) proteins control diverse aspects of RNA metabolism across the eukaryotic domain. Recent computational and structural studies have provided new insights into how they recognize RNA, and show that the recognition is sequence-specific and modular. The modular code for RNA-binding by PPR pro...

journal_title：RNA biology

authors： Filipovska A,Rackham O

更新日期：2013-01-01 00:00:00

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：: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：:RNA helicases contribute to diverse aspects of RNA metabolism through their functions in re-arranging RNA structures. Identification of the remodelling targets of RNA helicases is a critical step in elucidating their cellular functions. Here, we show that, in contrast to many other ribosome biogenesis factors, the DEx...

journal_title：RNA biology

authors： Choudhury P,Kretschmer J,Hackert P,Bohnsack KE,Bohnsack MT

更新日期：2020-10-13 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：:Differential mRNA stability is an important mechanism for regulation of virulence factors in Streptococcus pyogenes (group A streptococcus, GAS), a serious and prevalent human pathogen. We have described 2 Classes of mRNA in GAS that are distinguishable by 1) stability in the stationary phase of growth, 2) kinetics of...

journal_title：RNA biology

authors： Bugrysheva JV,Scott JR

更新日期：2010-09-01 00:00:00

abstract：:MicroRNAs (miRNAs) are key regulators of gene expression and play critical roles in modulating metabolism, development and physiology in animals and plants. miRNA levels are transcriptionally and post-transcriptionally controlled for their proper function. Recent studies have shown that RNA-binding proteins play impor...

journal_title：RNA biology

authors： Ren G,Yu B

更新日期：2012-12-01 00:00:00

abstract：:The endoribonuclease RNase-L requires 2',5'-linked oligoadenylates for activation, and mediates antiviral and antiproliferative activities. We previously determined that RNase-L activation induces senescence; to determine potential mechanisms underlying this activity, we used microarrays to identify RNase-L-regulated ...

journal_title：RNA biology

authors： Andersen JB,Mazan-Mamczarz K,Zhan M,Gorospe M,Hassel BA

更新日期：2009-07-01 00:00:00

abstract：:The instructions to make proteins and structural RNAs are laid down in gene sequences. Yet, in certain instances, these primary instructions need to be modified considerably during gene expression, most often at the transcript level. Here we review a case of massive post-transcriptional revisions via trans-splicing an...

journal_title：RNA biology

authors： Valach M,Moreira S,Faktorová D,Lukeš J,Burger G

更新日期：2016-12-01 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