A new yeast poly(A) polymerase complex involved in RNA quality control.

Abstract:

:Eukaryotic cells contain several unconventional poly(A) polymerases in addition to the canonical enzymes responsible for the synthesis of poly(A) tails of nuclear messenger RNA precursors. The yeast protein Trf4p has been implicated in a quality control pathway that leads to the polyadenylation and subsequent exosome-mediated degradation of hypomethylated initiator tRNAMet (tRNAiMet). Here we show that Trf4p is the catalytic subunit of a new poly(A) polymerase complex that contains Air1p or Air2p as potential RNA-binding subunits, as well as the putative RNA helicase Mtr4p. Comparison of native tRNAiMet with its in vitro transcribed unmodified counterpart revealed that the unmodified RNA was preferentially polyadenylated by affinity-purified Trf4 complex from yeast, as well as by complexes reconstituted from recombinant components. These results and additional experiments with other tRNA substrates suggested that the Trf4 complex can discriminate between native tRNAs and molecules that are incorrectly folded. Moreover, the polyadenylation activity of the Trf4 complex stimulated the degradation of unmodified tRNAiMet by nuclear exosome fractions in vitro. Degradation was most efficient when coupled to the polyadenylation activity of the Trf4 complex, indicating that the poly(A) tails serve as signals for the recruitment of the exosome. This polyadenylation-mediated RNA surveillance resembles the role of polyadenylation in bacterial RNA turnover.

journal_name

PLoS Biol

journal_title

PLoS biology

authors

Vanácová S,Wolf J,Martin G,Blank D,Dettwiler S,Friedlein A,Langen H,Keith G,Keller W

doi

10.1371/journal.pbio.0030189

keywords:

subject

Has Abstract

pub_date

2005-06-01 00:00:00

pages

e189

issue

6

eissn

1544-9173

issn

1545-7885

pii

05-PLBI-RA-0095R2

journal_volume

3

pub_type

杂志文章
  • Munc18-bound syntaxin readily forms SNARE complexes with synaptobrevin in native plasma membranes.

    abstract::Munc18-1, a protein essential for regulated exocytosis in neurons and neuroendocrine cells, belongs to the family of Sec1/Munc18-like (SM) proteins. In vitro, Munc18-1 forms a tight complex with the SNARE syntaxin 1, in which syntaxin is stabilized in a closed conformation. Since closed syntaxin is unable to interact ...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.0040330

    authors: Zilly FE,Sørensen JB,Jahn R,Lang T

    更新日期:2006-10-01 00:00:00

  • Research chimpanzees may get a break.

    abstract::A recent report by the Institute of Medicine leaves few urgent reasons standing for the continued use of chimpanzees in biomedical research. It is high time to think about their retirement, Frans de Waal argues, without neglecting prospects for non-invasive research on behavior, cognition, and genetics. ...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1001291

    authors: de Waal FB

    更新日期:2012-01-01 00:00:00

  • Protein interaction networks by proteome peptide scanning.

    abstract::A substantial proportion of protein interactions relies on small domains binding to short peptides in the partner proteins. Many of these interactions are relatively low affinity and transient, and they impact on signal transduction. However, neither the number of potential interactions mediated by each domain nor the...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.0020014

    authors: Landgraf C,Panni S,Montecchi-Palazzi L,Castagnoli L,Schneider-Mergener J,Volkmer-Engert R,Cesareni G

    更新日期:2004-01-01 00:00:00

  • The BEACH Domain Protein SPIRRIG Is Essential for Arabidopsis Salt Stress Tolerance and Functions as a Regulator of Transcript Stabilization and Localization.

    abstract::Members of the highly conserved class of BEACH domain containing proteins (BDCPs) have been established as broad facilitators of protein-protein interactions and membrane dynamics in the context of human diseases like albinism, bleeding diathesis, impaired cellular immunity, cancer predisposition, and neurological dys...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1002188

    authors: Steffens A,Bräutigam A,Jakoby M,Hülskamp M

    更新日期:2015-07-02 00:00:00

  • Development of axon-target specificity of ponto-cerebellar afferents.

    abstract::The function of neuronal networks relies on selective assembly of synaptic connections during development. We examined how synaptic specificity emerges in the pontocerebellar projection. Analysis of axon-target interactions with correlated light-electron microscopy revealed that developing pontine mossy fibers elabora...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1001013

    authors: Kalinovsky A,Boukhtouche F,Blazeski R,Bornmann C,Suzuki N,Mason CA,Scheiffele P

    更新日期:2011-02-08 00:00:00

  • Authentication: A Standard Problem or a Problem of Standards?

    abstract::Reproducibility and transparency in biomedical sciences have been called into question, and scientists have been found wanting as a result. Putting aside deliberate fraud, there is evidence that a major contributor to lack of reproducibility is insufficient quality assurance of reagents used in preclinical research. C...

    journal_title:PLoS biology

    pub_type: 评论,杂志文章

    doi:10.1371/journal.pbio.1002477

    authors: Capes-Davis A,Neve RM

    更新日期:2016-06-14 00:00:00

  • Determination of stromal signatures in breast carcinoma.

    abstract::Many soft tissue tumors recapitulate features of normal connective tissue. We hypothesize that different types of fibroblastic tumors are representative of different populations of fibroblastic cells or different activation states of these cells. We examined two tumors with fibroblastic features, solitary fibrous tumo...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.0030187

    authors: West RB,Nuyten DS,Subramanian S,Nielsen TO,Corless CL,Rubin BP,Montgomery K,Zhu S,Patel R,Hernandez-Boussard T,Goldblum JR,Brown PO,van de Vijver M,van de Rijn M

    更新日期:2005-06-01 00:00:00

  • Haves and have nots must find a better way: The case for open scientific hardware.

    abstract::Many efforts are making science more open and accessible; they are mostly concentrated on issues that appear before and after experiments are performed: open access journals, open databases, and many other tools to increase reproducibility of science and access to information. However, these initiatives do not promote...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.3000014

    authors: Maia Chagas A

    更新日期:2018-09-27 00:00:00

  • Host sexual dimorphism and parasite adaptation.

    abstract::In species with separate sexes, parasite prevalence and disease expression is often different between males and females. This effect has mainly been attributed to sex differences in host traits, such as immune response. Here, we make the case for how properties of the parasites themselves can also matter. Specifically...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1001271

    authors: Duneau D,Ebert D

    更新日期:2012-01-01 00:00:00

  • Correction: Publication reform to safeguard wildlife from researcher harm.

    abstract::[This corrects the article DOI: 10.1371/journal.pbio.3000193.]. ...

    journal_title:PLoS biology

    pub_type: 杂志文章,已发布勘误

    doi:10.1371/journal.pbio.3000752

    authors: Field KA,Paquet PC,Artelle K,Proulx G,Brook RK,Darimont CT

    更新日期:2020-05-18 00:00:00

  • The Economics of Reproducibility in Preclinical Research.

    abstract::Low reproducibility rates within life science research undermine cumulative knowledge production and contribute to both delays and costs of therapeutic drug development. An analysis of past studies indicates that the cumulative (total) prevalence of irreproducible preclinical research exceeds 50%, resulting in approxi...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1002165

    authors: Freedman LP,Cockburn IM,Simcoe TS

    更新日期:2015-06-09 00:00:00

  • Measuring global trends in the status of biodiversity: red list indices for birds.

    abstract::The rapid destruction of the planet's biodiversity has prompted the nations of the world to set a target of achieving a significant reduction in the rate of loss of biodiversity by 2010. However, we do not yet have an adequate way of monitoring progress towards achieving this target. Here we present a method for produ...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.0020383

    authors: Butchart SH,Stattersfield AJ,Bennun LA,Shutes SM,Akçakaya HR,Baillie JE,Stuart SN,Hilton-Taylor C,Mace GM

    更新日期:2004-12-01 00:00:00

  • Misguided transcriptional elongation causes mixed lineage leukemia.

    abstract::Fusion proteins composed of the histone methyltransferase mixed-lineage leukemia (MLL) and a variety of unrelated fusion partners are highly leukemogenic. Despite their prevalence, particularly in pediatric acute leukemia, many molecular details of their transforming mechanism are unknown. Here, we provide mechanistic...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1000249

    authors: Mueller D,García-Cuéllar MP,Bach C,Buhl S,Maethner E,Slany RK

    更新日期:2009-11-01 00:00:00

  • Organized unidirectional waves of ATP hydrolysis within a RecA filament.

    abstract::The RecA protein forms nucleoprotein filaments on DNA, and individual monomers within the filaments hydrolyze ATP. Assembly and disassembly of filaments are both unidirectional, occurring on opposite filament ends, with disassembly requiring ATP hydrolysis. When filaments form on duplex DNA, RecA protein exhibits a fu...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.0030052

    authors: Cox JM,Tsodikov OV,Cox MM

    更新日期:2005-02-01 00:00:00

  • Combinatorial mutagenesis of rapidly evolving residues yields super-restrictor antiviral proteins.

    abstract::Antagonistic interactions drive host-virus evolutionary arms races, which often manifest as recurrent amino acid changes (i.e., positive selection) at their protein-protein interaction interfaces. Here, we investigated whether combinatorial mutagenesis of positions under positive selection in a host antiviral protein ...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.3000181

    authors: Colón-Thillet R,Hsieh E,Graf L,McLaughlin RN Jr,Young JM,Kochs G,Emerman M,Malik HS

    更新日期:2019-10-01 00:00:00

  • Structure-guided recombination creates an artificial family of cytochromes P450.

    abstract::Creating artificial protein families affords new opportunities to explore the determinants of structure and biological function free from many of the constraints of natural selection. We have created an artificial family comprising 3,000 P450 heme proteins that correctly fold and incorporate a heme cofactor by recombi...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.0040112

    authors: Otey CR,Landwehr M,Endelman JB,Hiraga K,Bloom JD,Arnold FH

    更新日期:2006-05-01 00:00:00

  • The Plasmodium falciparum transcriptome in severe malaria reveals altered expression of genes involved in important processes including surface antigen-encoding var genes.

    abstract::Within the human host, the malaria parasite Plasmodium falciparum is exposed to multiple selection pressures. The host environment changes dramatically in severe malaria, but the extent to which the parasite responds to-or is selected by-this environment remains unclear. From previous studies, the parasites that cause...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.2004328

    authors: Tonkin-Hill GQ,Trianty L,Noviyanti R,Nguyen HHT,Sebayang BF,Lampah DA,Marfurt J,Cobbold SA,Rambhatla JS,McConville MJ,Rogerson SJ,Brown GV,Day KP,Price RN,Anstey NM,Papenfuss AT,Duffy MF

    更新日期:2018-03-12 00:00:00

  • An unexpected sequence of events: mismatch detection in the human hippocampus.

    abstract::The ability to identify and react to novelty within the environment is fundamental to survival. Computational models emphasize the potential role of the hippocampus in novelty detection, its unique anatomical circuitry making it ideally suited to act as a comparator between past and present experience. The hippocampus...

    journal_title:PLoS biology

    pub_type: 杂志文章,随机对照试验

    doi:10.1371/journal.pbio.0040424

    authors: Kumaran D,Maguire EA

    更新日期:2006-11-01 00:00:00

  • Regulation of mammary stem/progenitor cells by PTEN/Akt/beta-catenin signaling.

    abstract::Recent evidence suggests that many malignancies, including breast cancer, are driven by a cellular subcomponent that displays stem cell-like properties. The protein phosphatase and tensin homolog (PTEN) is inactivated in a wide range of human cancers, an alteration that is associated with a poor prognosis. Because PTE...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1000121

    authors: Korkaya H,Paulson A,Charafe-Jauffret E,Ginestier C,Brown M,Dutcher J,Clouthier SG,Wicha MS

    更新日期:2009-06-02 00:00:00

  • The "backdoor pathway" of androgen synthesis in human male sexual development.

    abstract::Mammalian sex determination (male versus female) is largely controlled by genes, whereas sex differentiation (development of reproductive structures) is largely controlled by hormones. Work in the 20th century indicated that female external anatomy was a "default" pathway of development not requiring steroids, whereas...

    journal_title:PLoS biology

    pub_type: 评论,杂志文章

    doi:10.1371/journal.pbio.3000198

    authors: Miller WL,Auchus RJ

    更新日期:2019-04-03 00:00:00

  • Asymmetric diversification of mating pheromones in fission yeast.

    abstract::In fungi, mating between partners depends on the molecular recognition of two peptidyl mating pheromones by their respective receptors. The fission yeast Schizosaccharomyces pombe (Sp) has two mating types, Plus (P) and Minus (M). The mating pheromones P-factor and M-factor, secreted by P and M cells, are recognized b...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.3000101

    authors: Seike T,Shimoda C,Niki H

    更新日期:2019-01-22 00:00:00

  • Structure, function, and control of the human musculoskeletal network.

    abstract::The human body is a complex organism, the gross mechanical properties of which are enabled by an interconnected musculoskeletal network controlled by the nervous system. The nature of musculoskeletal interconnection facilitates stability, voluntary movement, and robustness to injury. However, a fundamental understandi...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.2002811

    authors: Murphy AC,Muldoon SF,Baker D,Lastowka A,Bennett B,Yang M,Bassett DS

    更新日期:2018-01-18 00:00:00

  • The Drosophila sterile-20 kinase slik controls cell proliferation and apoptosis during imaginal disc development.

    abstract::Cell proliferation and programmed cell death are closely controlled during animal development. Proliferative stimuli generally also induce apoptosis, and anti-apoptotic factors are required to allow net cell proliferation. Genetic studies in Drosophila have led to identification of a number of genes that control both ...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.0000035

    authors: Hipfner DR,Cohen SM

    更新日期:2003-11-01 00:00:00

  • Polarized Exocytosis Induces Compensatory Endocytosis by Sec4p-Regulated Cortical Actin Polymerization.

    abstract::Polarized growth is maintained by both polarized exocytosis, which transports membrane components to specific locations on the cell cortex, and endocytosis, which retrieves these components before they can diffuse away. Despite functional links between these two transport pathways, they are generally considered to be ...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1002534

    authors: Johansen J,Alfaro G,Beh CT

    更新日期:2016-08-15 00:00:00

  • A functional context for heterogeneity of the circadian clock in cells.

    abstract::Characterization of circadian systems at the organism level-a top-down approach-has led to definition of unifying properties, a hallmark of the science of chronobiology. The next challenge is to use a bottom-up approach to show how the molecular workings of the cellular circadian clock work as building blocks of those...

    journal_title:PLoS biology

    pub_type: 评论,杂志文章

    doi:10.1371/journal.pbio.3000927

    authors: Merrow M,Harrington M

    更新日期:2020-10-14 00:00:00

  • Bet hedging in yeast by heterogeneous, age-correlated expression of a stress protectant.

    abstract::Genetically identical cells grown in the same culture display striking cell-to-cell heterogeneity in gene expression and other traits. A crucial challenge is to understand how much of this heterogeneity reflects the noise tolerance of a robust system and how much serves a biological function. In bacteria, stochastic g...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1001325

    authors: Levy SF,Ziv N,Siegal ML

    更新日期:2012-01-01 00:00:00

  • The atonal proneural transcription factor links differentiation and tumor formation in Drosophila.

    abstract::The acquisition of terminal cell fate and onset of differentiation are instructed by cell type-specific master control genes. Loss of differentiation is frequently observed during cancer progression, but the underlying causes and mechanisms remain poorly understood. We tested the hypothesis that master regulators of d...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1000040

    authors: Bossuyt W,De Geest N,Aerts S,Leenaerts I,Marynen P,Hassan BA

    更新日期:2009-02-24 00:00:00

  • DEAD-box helicase proteins disrupt RNA tertiary structure through helix capture.

    abstract::DEAD-box helicase proteins accelerate folding and rearrangements of highly structured RNAs and RNA-protein complexes (RNPs) in many essential cellular processes. Although DEAD-box proteins have been shown to use ATP to unwind short RNA helices, it is not known how they disrupt RNA tertiary structure. Here, we use sing...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1001981

    authors: Pan C,Potratz JP,Cannon B,Simpson ZB,Ziehr JL,Tijerina P,Russell R

    更新日期:2014-10-28 00:00:00

  • Cell aging preserves cellular immortality in the presence of lethal levels of damage.

    abstract::Cellular aging, a progressive functional decline driven by damage accumulation, often culminates in the mortality of a cell lineage. Certain lineages, however, are able to sustain long-lasting immortality, as prominently exemplified by stem cells. Here, we show that Escherichia coli cell lineages exhibit comparable pa...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.3000266

    authors: Proenca AM,Rang CU,Qiu A,Shi C,Chao L

    更新日期:2019-05-23 00:00:00

  • A new type of Na(+)-driven ATP synthase membrane rotor with a two-carboxylate ion-coupling motif.

    abstract::The anaerobic bacterium Fusobacterium nucleatum uses glutamate decarboxylation to generate a transmembrane gradient of Na⁺. Here, we demonstrate that this ion-motive force is directly coupled to ATP synthesis, via an F₁F₀-ATP synthase with a novel Na⁺ recognition motif, shared by other human pathogens. Molecular model...

    journal_title:PLoS biology

    pub_type: 杂志文章

    doi:10.1371/journal.pbio.1001596

    authors: Schulz S,Iglesias-Cans M,Krah A,Yildiz O,Leone V,Matthies D,Cook GM,Faraldo-Gómez JD,Meier T

    更新日期:2013-01-01 00:00:00