当前位置： SCI文献检索 > RNA Biology期刊下所有文献 > Gene expression as a circular process: cross-talk between transcription and mRNA degradation in eukaryotes; International University of Andalusia (UNIA) Baeza, Spain.

Gene expression as a circular process: cross-talk between transcription and mRNA degradation in eukaryotes; International University of Andalusia (UNIA) Baeza, Spain.

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 important stage at which gene expression was regulated, and transcriptional regulation was considered to be very simple, with DNA-binding activators and repressors talking to the basic transcription machinery. This simple model was overthrown when it became clear that other stages of gene expression are also highly regulated. More recently, other dogmas have started to collapse. In particular, the idea that a linkage between the different steps in gene expression is restricted to processes ongoing in the same compartment has fallen out of favor. It is now evident that functional and physical linkage occurs in eukaryotes. We know that factors contributing to transcription in the nucleus can be found in the cytoplasm, and that RNA binding proteins that contribute to RNA decay in the cytoplasm are present in the nucleus. However, shuttling of such factors between nucleus and cytoplasm has traditionally been thought to serve a simple regulatory purpose, for instance, to avoid untimely activation of a transcription factor in the nucleus. Alternatively, it was thought to be necessary to recruit RNA binding proteins to the relevant RNAs. The notion that is now emerging is that factors thought to have evolved to specialize in regulating a single step of gene regulation in one cellular compartment may be contributing to the regulation of mRNAs at multiple steps along the lifecycle of an mRNA.

journal_name

RNA Biol

journal_title

RNA biology

authors

Collart MA,Reese JC

doi

10.4161/rna.28037

subject

Has Abstract

pub_date

2014-01-01 00:00:00

pages

320-3

issue

4

eissn

1547-6286

issn

1555-8584

pii

28037

journal_volume

11

pub_type

相关文献

RNA Biology文献大全
  • TRNA mutations that affect decoding fidelity deregulate development and the proteostasis network in zebrafish.

    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

    pub_type： 杂志文章

    doi：10.4161/rna.32199

    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

  • In vivo and in vitro analysis of 6S RNA-templated short transcripts in Bacillus subtilis.

    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

    pub_type： 杂志文章

    doi：10.4161/rna.8.5.16151

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

    更新日期：2011-09-01 00:00:00

  • Variable splicing of non-coding roX2 RNAs influences targeting of MSL dosage compensation complexes in Drosophila.

    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

    pub_type： 杂志文章

    doi：10.4161/rna.2.4.2473

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

    更新日期：2005-10-01 00:00:00

  • Bi-phased regulation of the post-transcriptional inflammatory response by Tristetraprolin levels.

    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

    pub_type： 杂志文章

    doi：10.1080/15476286.2019.1572437

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

    更新日期：2019-03-01 00:00:00

  • Wobble uridine modifications-a reason to live, a reason to die?!

    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

    pub_type： 杂志文章,评审

    doi：10.1080/15476286.2017.1295204

    authors： Schaffrath R,Leidel SA

    更新日期：2017-09-02 00:00:00

  • Enhancing miRNA annotation confidence in miRBase by continuous cross dataset analysis.

    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

    pub_type： 杂志文章

    doi：10.4161/rna.8.3.14333

    authors： Hansen TB,Kjems J,Bramsen JB

    更新日期：2011-05-01 00:00:00

  • Genome-wide technology for determining RNA stability in mammalian cells: historical perspective and recent advantages based on modified nucleotide labeling.

    abstract：:Changing the abundance of transcripts by regulated RNA degradation is a critical step in the control of various biological pathways. Recently, genome-wide inhibitor-free technologies for determining RNA stabilities in mammalian cells have been developed. In these methods, endogenous RNAs are pulse labeled by uridine a...

    journal_title：RNA biology

    pub_type： 杂志文章,评审

    doi：10.4161/rna.22036

    authors： Tani H,Akimitsu N

    更新日期：2012-10-01 00:00:00

  • RNA-template dependent de novo telomere addition.

    abstract：:De novo addition of telomeric sequences can occur at broken chromosomes and must be well controlled, which is essential during programmed DNA reorganization processes. In ciliated protozoa an extreme form of DNA-reorganization is observed during macronuclear differentiation after sexual reproduction leading to the eli...

    journal_title：RNA biology

    pub_type： 杂志文章

    doi：10.1080/15476286.2015.1134414

    authors： Fuhrmann G,Jönsson F,Weil PP,Postberg J,Lipps HJ

    更新日期：2016-08-02 00:00:00

  • Evolutionarily conserved exon definition interactions with U11 snRNP mediate alternative splicing regulation on U11-48K and U11/U12-65K genes.

    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

    pub_type： 杂志文章

    doi：10.1080/15476286.2015.1096489

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

    更新日期：2015-01-01 00:00:00

  • PPR proteins network as site-specific RNA editing factors in plant organelles.

    abstract：:RNA editing in flowering plant mitochondria targets several hundred C nucleotides mostly in mRNAs to be altered to U. Several nuclear encoded genes have been recently identified predominantly in Arabidopsis thaliana which code for proteins involved in specific RNA editing events in plastids or mitochondria. These nucl...

    journal_title：RNA biology

    pub_type： 杂志文章

    doi：10.4161/rna.8.1.14298

    authors： Zehrmann A,Verbitskiy D,Härtel B,Brennicke A,Takenaka M

    更新日期：2011-01-01 00:00:00

  • CRISPR evolution and bacteriophage persistence in the context of population bottlenecks.

    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

    pub_type： 杂志文章

    doi：10.1080/15476286.2019.1578608

    authors： Common J,Westra ER

    更新日期：2019-04-01 00:00:00

  • FMR1 RNA within the intranuclear inclusions of fragile X-associated tremor/ataxia syndrome (FXTAS).

    abstract：:Fragile X-associated tremor/ataxia syndrome (FXTAS) is a recently identified neurodegenerative disorder affecting older adult males with premutation alleles of the fragile X mental retardation 1 (FMR1) gene. The principal clinical features of FXTAS include progressive intention tremor, gait ataxia, parkinsonism, and a...

    journal_title：RNA biology

    pub_type： 杂志文章

    doi：10.4161/rna.1.2.1035

    authors： Tassone F,Iwahashi C,Hagerman PJ

    更新日期：2004-07-01 00:00:00

  • Bioinformatics of prokaryotic RNAs.

    abstract：:The genome of most prokaryotes gives rise to surprisingly complex transcriptomes, comprising not only protein-coding mRNAs, often organized as operons, but also harbors dozens or even hundreds of highly structured small regulatory RNAs and unexpectedly large levels of anti-sense transcripts. Comprehensive surveys of p...

    journal_title：RNA biology

    pub_type： 杂志文章,评审

    doi：10.4161/rna.28647

    authors： Backofen R,Amman F,Costa F,Findeiß S,Richter AS,Stadler PF

    更新日期：2014-01-01 00:00:00

  • The Rf and Rf-like PPR in higher plants, a fast-evolving subclass of PPR genes.

    abstract：:In the last years, a number of nuclear genes restoring cytoplasmic male sterility (CMS) have been cloned in various crop species. The majority of these genes have been shown to encode pentatricopeptide repeat proteins (PPR) that act by specifically suppressing the expression of sterility-causing mitochondrial transcri...

    journal_title：RNA biology

    pub_type： 杂志文章,评审

    doi：10.4161/rna.25568

    authors： Dahan J,Mireau H

    更新日期：2013-01-01 00:00:00

  • Long non-coding RNAs and human X-chromosome regulation: a coat for the active X chromosome.

    abstract：:In mammals, the genic disequilibrium between males (XY) and females (XX) is resolved through the inactivation of one of the X-chromosomes in females. X-chromosome inactivation (XCI) takes place in all mammalian species, but has mainly been studied in the mouse model where it was shown to be controlled by the interplay...

    journal_title：RNA biology

    pub_type： 杂志文章

    doi：10.4161/rna.25802

    authors： Vallot C,Rougeulle C

    更新日期：2013-08-01 00:00:00

  • Identification of the Selenoprotein S Positive UGA Recoding (SPUR) element and its position-dependent activity.

    abstract：:Selenoproteins are a unique class of proteins that contain the 21st amino acid, selenocysteine (Sec). Addition of Sec into a protein is achieved by recoding of the UGA stop codon. All 25 mammalian selenoprotein mRNAs possess a 3' UTR stem-loop structure, the Selenocysteine Insertion Sequence (SECIS), which is required...

    journal_title：RNA biology

    pub_type： 杂志文章

    doi：10.1080/15476286.2019.1653681

    authors： Cockman EM,Narayan V,Willard B,Shetty SP,Copeland PR,Driscoll DM

    更新日期：2019-12-01 00:00:00

  • Mechanistic insights into mRNA export through structures of Dbp5.

    abstract：:Nuclear export of mRNA is a critical event in mRNA biogenesis. Passage of mature messenger ribonucleoproteins (mRNPs) through nuclear pore complexes (NPCs) is facilitated by the Mex67/Mtr2 heterodimer. At the NPC cytoplasmic face, the DEAD-box RNA helicase Dbp5 remodels mRNPs by removing Mex67/Mtr2. This remodeling pr...

    journal_title：RNA biology

    pub_type： 杂志文章

    doi：10.4161/rna.7.1.10576

    authors： Ling SH,Song H

    更新日期：2010-01-01 00:00:00

  • A new layer of rRNA regulation by small interference RNAs and the nuclear RNAi pathway.

    abstract：:Ribosome biogenesis drives cell growth and proliferation, but mechanisms that modulate this process remain poorly understood. For a long time, small rRNA sequences have been widely treated as non-specific degradation products and neglected as garbage sequences. Recently, we identified a new class of antisense ribosoma...

    journal_title：RNA biology

    pub_type： 杂志文章,评审

    doi：10.1080/15476286.2017.1341034

    authors： Zhou X,Chen X,Wang Y,Feng X,Guang S

    更新日期：2017-11-02 00:00:00

  • RNA structural constraints in the evolution of the influenza A virus genome NP segment.

    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

    pub_type： 杂志文章

    doi：10.4161/rna.29730

    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

  • 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：: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

    pub_type： 杂志文章

    doi：10.1080/15476286.2016.1223005

    authors： López-Carrasco A,Flores R

    更新日期：2017-08-03 00:00:00

  • Identification of NOVA family proteins as novel β-catenin RNA-binding proteins that promote epithelial-mesenchymal transition.

    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

    pub_type： 杂志文章

    doi：10.1080/15476286.2020.1734372

    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

  • Full-length sequence assembly reveals circular RNAs with diverse non-GT/AG splicing signals in rice.

    abstract：:Circular RNAs (circRNAs) have been identified in diverse eukaryotic species and are characterized by RNA backsplicing events. Current available methods for circRNA identification are able to determine the start and end locations of circRNAs in the genome but not their full-length sequences. In this study, we developed...

    journal_title：RNA biology

    pub_type： 杂志文章

    doi：10.1080/15476286.2016.1245268

    authors： Ye CY,Zhang X,Chu Q,Liu C,Yu Y,Jiang W,Zhu QH,Fan L,Guo L

    更新日期：2017-08-03 00:00:00

  • Ribosomal protein mRNAs are primary targets of regulation in RNase-L-induced senescence.

    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

    pub_type： 杂志文章

    doi：10.4161/rna.6.3.8526

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

    更新日期：2009-07-01 00:00:00

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

    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

    pub_type： 杂志文章

    doi：10.4161/rna.25107

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

    更新日期：2013-07-01 00:00:00

  • Tandem RNA isolation reveals functional rearrangement of RNA-binding proteins on CDKN1B/p27Kip1 3'UTRs in cisplatin treated cells.

    abstract：:Post-transcriptional control of gene expression is mediated via RNA-binding proteins (RBPs) that interact with mRNAs in a combinatorial fashion. While recent global RNA interactome capture experiments expanded the repertoire of cellular RBPs quiet dramatically, little is known about the assembly of RBPs on particular ...

    journal_title：RNA biology

    pub_type： 杂志文章

    doi：10.1080/15476286.2019.1662268

    authors： Iadevaia V,Wouters MD,Kanitz A,Matia-González AM,Laing EE,Gerber AP

    更新日期：2020-01-01 00:00:00

  • Diversity in mechanism and function of tRNA methyltransferases.

    abstract：:tRNA molecules undergo extensive post-transcriptional processing to generate the mature functional tRNA species that are essential for translation in all organisms. These processing steps include the introduction of numerous specific chemical modifications to nucleotide bases and sugars; among these modifications, met...

    journal_title：RNA biology

    pub_type： 杂志文章,评审

    doi：10.1080/15476286.2015.1008358

    authors： Swinehart WE,Jackman JE

    更新日期：2015-01-01 00:00:00

  • The anti-cancer drug 5-fluorouracil affects cell cycle regulators and potential regulatory long non-coding RNAs in yeast.

    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

    pub_type： 杂志文章

    doi：10.1080/15476286.2019.1581596

    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

  • RNA-protein coevolution study of Gemin5 uncovers the role of the PXSS motif of RBS1 domain for RNA binding.

    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

    pub_type： 杂志文章

    doi：10.1080/15476286.2020.1762054

    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

  • microRNA-21: a key modulator in oncogenic viral infections.

    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

    pub_type： 杂志文章

    doi：10.1080/15476286.2021.1880756

    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

  • Small non-coding RNAs in plant-pathogenic Xanthomonas spp.

    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

    pub_type： 杂志文章,评审

    doi：10.4161/rna.28240

    authors： Abendroth U,Schmidtke C,Bonas U

    更新日期：2014-01-01 00:00:00