Pentatricopeptide repeats: modular blocks for building RNA-binding proteins.

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：: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：:Bacteria, like mammals, have to constantly defend themselves from viral attack. Like mammals, they use both innate and adaptive defense mechanisms. In this point of view we highlight the commonalities between defense systems of bacteria and mammals. Our focus is on the recently discovered bacterial adaptive immune sys...

journal_title：RNA biology

authors： Goren M,Yosef I,Edgar R,Qimron U

更新日期：2012-05-01 00:00:00

abstract：:The non-coding roX1 and roX2 RNAs are components of the MSL dosage compensation complex in Drosophila. We found that multiple species of roX2 RNA are produced by alternative splicing, with one major and at least 20 different minor forms associated with MSL proteins. The alternative forms are generated by variable usag...

journal_title：RNA biology

authors： Park Y,Oh H,Meller VH,Kuroda MI

更新日期：2005-10-01 00:00:00

abstract：:Amphioxus is the closest living proxy for exploring the evolutionary origin of the immune system in vertebrates. To understand the immune responses of amphioxus to lipopolysaccharide (LPS), 5 ribosomal RNA (rRNA)-depleted libraries of amphioxus were constructed, including one control (0 h) library and 4 treatment libr...

journal_title：RNA biology

authors： Zhang QL,Zhu QH,Xie ZQ,Xu B,Wang XQ,Chen JY

更新日期：2017-12-02 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：:The importance of telomere function for human health is exemplified by a collection of Mendelian disorders referred to as the telomere biology disorders (TBDs), telomeropathies, or syndromes of telomere shortening. Collectively, the TBDs cover a spectrum of conditions from multisystem disease presenting in infancy to ...

journal_title：RNA biology

authors： Bertuch AA

更新日期：2016-08-02 00:00:00

abstract：:RNA interference (RNAi) is a powerful tool for gene functional analysis of plant-parasitic nematodes (PPNs). RNAi involving soaking in a dsRNA solution and in planta methods is commonly applied in the study of gene function in PPNs. However, certain problems restrict the application of these methods. Therefore, more c...

journal_title：RNA biology

authors： Ding S,Wang D,Xu C,Yang S,Cheng X,Peng X,Chen C,Xie H

更新日期：2020-12-14 00:00:00

abstract：:The ribosome binding site of Escherichia coli rpoS mRNA, encoding the stationary sigma-factor RpoS, is sequestered by an inhibitory stem-loop structure (iss). Translational activation of rpoS mRNA at low temperature and during exponential growth includes Hfq-facilitated duplex formation between rpoS and the small regu...

journal_title：RNA biology

authors： Resch A,Većerek B,Palavra K,Bläsi U

更新日期：2010-11-01 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：:A-to-I RNA editing by adenosine deaminases acting on RNA is a post-transcriptional modification that is crucial for normal life and development in vertebrates. RNA editing has been shown to be very abundant in the human transcriptome, specifically at the primate-specific Alu elements. The functional role of this wide-...

journal_title：RNA biology

authors： Liscovitch N,Bazak L,Levanon EY,Chechik G

更新日期：2014-01-01 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：:Human Enterovirus 71 (EV71) is an emerging pathogen of infectious disease and a serious threat to public health. Currently, there are no antivirals or vaccines to slow down or prevent EV71 infections, thus underscoring the urgency to better understand mechanisms of host-enterovirus interactions. EV71 uses a type I int...

journal_title：RNA biology

authors： Levengood JD,Tolbert M,Li ML,Tolbert BS

更新日期：2013-07-01 00:00:00

abstract：:RNase J is a prokaryotic 5'-3' exo/endoribonuclease that functions in mRNA decay and rRNA maturation. Here, we report a novel duplex unwinding activity of mpy-RNase J, an archaeal RNase J from Methanolobus psychrophilus, which enables it to degrade duplex RNAs with hairpins up to 40 bp when linking a 5' single-strande...

journal_title：RNA biology

authors： Li J,Hou Y,Gu X,Yue L,Guo L,Li D,Dong X

更新日期：2020-10-01 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：: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：:AU-rich elements (AREs) are cis-acting instability and translation inhibition elements that are present in the 3'UTR of most inducible inflammatory mRNAs such as TNF and Cxcl2. mRNAs that contain AREs are, by default, repressed and only transiently expressed in response to stimuli. They are targeted by the inducible R...

journal_title：RNA biology

authors： Mahmoud L,Moghrabi W,Khabar KSA,Hitti EG

更新日期：2019-03-01 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：:How have the branchpoint motifs evolved in organisms of different complexity? Here we identified and examined the consensus motifs (R1C2T3R4A5Y6, R: A or G, Y: C or T) of 898 fungal genomes. In Ascomycota unicellular yeasts, the G4/A4 ratio is mostly (98%) below 0.125 but increases sharply in multicellular species by ...

journal_title：RNA biology

authors： Nguyen H,Das U,Xie J

更新日期：2020-03-01 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：: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：:tmRNA employs both tRNA-like and mRNA-like properties as it rescues stalled bacterial ribosomes, while targeting the defective mRNA and incomplete nascent protein for degradation. We describe variation of the tmRNA gene (ssrA) and how it informs tmRNA structure and function. Endosymbiont tmRNAs tend to lose secondary ...

journal_title：RNA biology

authors： Mao C,Bhardwaj K,Sharkady SM,Fish RI,Driscoll T,Wower J,Zwieb C,Sobral BW,Williams KP

更新日期：2009-09-01 00:00:00

abstract：:Alternative splicing (AS) plays a central role during cell-fate determination. However, how the core spliceosomal factors (CSFs) are involved in this process is poorly understood. Here, we report the down-regulation of the U2AF1 CSF during stem cell differentiation. To investigate its function in stemness and differen...

journal_title：RNA biology

authors： Laaref AM,Manchon L,Bareche Y,Lapasset L,Tazi J

更新日期：2020-06-01 00:00:00

abstract：:In eukaryotes, the 3' ends of RNA polymerase II-transcribed RNAs are generated in the majority of cases by site-specific endonucleolytic cleavage, followed by the addition of a poly(A) tail. Through alternative polyadenylation, a gene can give rise to multiple mRNA isoforms that differ in the length of their 3' UTRs a...

journal_title：RNA biology

authors： Gruber AR,Martin G,Keller W,Zavolan M

更新日期：2012-12-01 00:00:00

abstract：:Eukaryotic gene expression must be coordinated for the proper functioning of biological processes. This coordination can be achieved both at the transcriptional and post-transcriptional levels. In both cases, regulatory sequences placed at either promoter regions or on UTRs function as markers recognized by regulators...

journal_title：RNA biology

authors： Yoon K,Ko D,Doderer M,Livi CB,Penalva LO

更新日期：2008-10-01 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：: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：:We report here an in-depth characterization of the aptamer domain of the transcriptional adenine-sensing riboswitch (pbuE) by NMR and fluorescence spectroscopy. By NMR studies, the structure of two aptamer sequences with different lengths of the helix P1, the central element involved in riboswitch conformational switc...

journal_title：RNA biology

authors： Nozinovic S,Reining A,Kim YB,Noeske J,Schlepckow K,Wöhnert J,Schwalbe H

更新日期：2014-01-01 00:00:00

abstract：:microRNAs (miRNAs) play significant regulatory roles in gene expression at the post-transcriptional level. This includes modulating processes such as development, immunity, cancer, and host-pathogen interactions. It was recently shown that the phylogenetically deeply conserved miRNA, miR-8, plays a role in maintaining...

journal_title：RNA biology

authors： Etebari K,Asgari S

更新日期：2013-08-01 00:00:00

abstract：:Alzheimer's disease (AD) has devastating consequences for patients during its slow, progressive course. It is important to understand the pathology of AD onset. Recently, circular RNAs (circRNAs) have been found to participate in many human diseases including cancers and neurodegenerative conditions. In this study, we...

journal_title：RNA biology

authors： Lo I,Hill J,Vilhjálmsson BJ,Kjems J

更新日期：2020-12-01 00:00:00