Literature DB >> 18641145

Genomic analysis of the role of RNase R in the turnover of Pseudomonas putida mRNAs.

Pilar Fonseca1, Renata Moreno, Fernando Rojo.   

Abstract

RNase R is a 3'-5' highly processive exoribonuclease that can digest RNAs with extensive secondary structure. We analyzed the global effect of eliminating RNase R on the Pseudomonas putida transcriptome and the expression of the rnr gene under diverse conditions. The absence of RNase R led to increased levels of many mRNAs, indicating that it plays an important role in mRNA turnover.

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Year:  2008        PMID： 18641145      PMCID： PMC2546782          DOI： 10.1128/JB.00630-08

Source DB:  PubMed          Journal:  J Bacteriol        ISSN： 0021-9193            Impact factor:   3.490


  38 in total

1.  Protein factors associated with the SsrA.SmpB tagging and ribosome rescue complex.

Authors:  A W Karzai; R T Sauer
Journal:  Proc Natl Acad Sci U S A       Date:  2001-02-27       Impact factor: 11.205

2.  Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method.

Authors:  K J Livak; T D Schmittgen
Journal:  Methods       Date:  2001-12       Impact factor: 3.608

3.  Cold shock induction of RNase R and its role in the maturation of the quality control mediator SsrA/tmRNA.

Authors:  Fátima Cairrão; Ana Cruz; Hiroyuki Mori; Cecília Maria Arraiano
Journal:  Mol Microbiol       Date:  2003-11       Impact factor: 3.501

4.  Normalization of cDNA microarray data.

Authors:  Gordon K Smyth; Terry Speed
Journal:  Methods       Date:  2003-12       Impact factor: 3.608

5.  An important role for RNase R in mRNA decay.

Authors:  Zhuan-Fen Cheng; Murray P Deutscher
Journal:  Mol Cell       Date:  2005-01-21       Impact factor: 17.970

6.  Growth phase-dependent expression of the Pseudomonas putida KT2440 transcriptional machinery analysed with a genome-wide DNA microarray.

Authors:  Luis Yuste; Ana B Hervás; Inés Canosa; Raquel Tobes; José Ignacio Jiménez; Juan Nogales; Manuel M Pérez-Pérez; Eduardo Santero; Eduardo Díaz; Juan-Luis Ramos; Víctor de Lorenzo; Fernando Rojo
Journal:  Environ Microbiol       Date:  2006-01       Impact factor: 5.491

7.  Co-evolution of tRNA 3' trailer sequences with 3' processing enzymes in bacteria.

Authors:  Zhongwei Li; Xin Gong; Vedang H Joshi; Muxin Li
Journal:  RNA       Date:  2005-04-05       Impact factor: 4.942

8.  Inactivation of the Pseudomonas putida cytochrome o ubiquinol oxidase leads to a significant change in the transcriptome and to increased expression of the CIO and cbb3-1 terminal oxidases.

Authors:  Gracia Morales; Ana Ugidos; Fernando Rojo
Journal:  Environ Microbiol       Date:  2006-10       Impact factor: 5.491

9.  Complete genome sequence and comparative analysis of the metabolically versatile Pseudomonas putida KT2440.

Authors:  K E Nelson; C Weinel; I T Paulsen; R J Dodson; H Hilbert; V A P Martins dos Santos; D E Fouts; S R Gill; M Pop; M Holmes; L Brinkac; M Beanan; R T DeBoy; S Daugherty; J Kolonay; R Madupu; W Nelson; O White; J Peterson; H Khouri; I Hance; P Chris Lee; E Holtzapple; D Scanlan; K Tran; A Moazzez; T Utterback; M Rizzo; K Lee; D Kosack; D Moestl; H Wedler; J Lauber; D Stjepandic; J Hoheisel; M Straetz; S Heim; C Kiewitz; J A Eisen; K N Timmis; A Düsterhöft; B Tümmler; C M Fraser
Journal:  Environ Microbiol       Date:  2002-12       Impact factor: 5.491

10.  fleQ, the gene encoding the major flagellar regulator of Pseudomonas aeruginosa, is sigma70 dependent and is downregulated by Vfr, a homolog of Escherichia coli cyclic AMP receptor protein.

Authors:  Nandini Dasgupta; Evan P Ferrell; Kristen J Kanack; Susan E H West; Reuben Ramphal
Journal:  J Bacteriol       Date:  2002-10       Impact factor: 3.490
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  10 in total

1.  Loss of RNase R induces competence development in Legionella pneumophila.

Authors:  Xavier Charpentier; Sébastien P Faucher; Sergey Kalachikov; Howard A Shuman
Journal:  J Bacteriol       Date:  2008-10-10       Impact factor: 3.490

2.  rnr gene from the antarctic bacterium Pseudomonas syringae Lz4W, encoding a psychrophilic RNase R.

Authors:  Shaheen Sulthana; Purusharth I Rajyaguru; Pragya Mittal; Malay K Ray
Journal:  Appl Environ Microbiol       Date:  2011-09-16       Impact factor: 4.792

3.  Transcriptome dynamics of Pseudomonas putida KT2440 under water stress.

Authors:  Gamze Gülez; Arnaud Dechesne; Christopher T Workman; Barth F Smets
Journal:  Appl Environ Microbiol       Date:  2011-12-02       Impact factor: 4.792

4.  The novel two-component regulatory system BfiSR regulates biofilm development by controlling the small RNA rsmZ through CafA.

Authors:  Olga E Petrova; Karin Sauer
Journal:  J Bacteriol       Date:  2010-07-23       Impact factor: 3.490

5.  Mediators of lipid A modification, RNA degradation, and central intermediary metabolism facilitate the growth of Legionella pneumophila at low temperatures.

Authors:  Maria A Söderberg; Nicholas P Cianciotto
Journal:  Curr Microbiol       Date:  2009-09-19       Impact factor: 2.188

6.  Synergies between RNA degradation and trans-translation in Streptococcus pneumoniae: cross regulation and co-transcription of RNase R and SmpB.

Authors:  Ricardo N Moreira; Susana Domingues; Sandra C Viegas; Mónica Amblar; Cecília M Arraiano
Journal:  BMC Microbiol       Date:  2012-11-20       Impact factor: 3.605

7.  Next generation sequencing analysis reveals that the ribonucleases RNase II, RNase R and PNPase affect bacterial motility and biofilm formation in E. coli.

Authors:  Vânia Pobre; Cecília M Arraiano
Journal:  BMC Genomics       Date:  2015-02-14       Impact factor: 3.969

8.  Genome-wide analysis shows that RNase G plays a global role in the stability of mRNAs in Stenotrophomonas maltophilia.

Authors:  Alejandra Bernardini; José L Martínez
Journal:  Sci Rep       Date:  2017-11-22       Impact factor: 4.379

9.  PNPase is involved in the coordination of mRNA degradation and expression in stationary phase cells of Escherichia coli.

Authors:  Clémentine Dressaire; Vânia Pobre; Sandrine Laguerre; Laurence Girbal; Cecilia Maria Arraiano; Muriel Cocaign-Bousquet
Journal:  BMC Genomics       Date:  2018-11-29       Impact factor: 3.969

Review 10.  The world of ribonucleases from pseudomonads: a short trip through the main features and singularities.

Authors:  Patrícia Apura; Luis G Gonçalves; Sandra C Viegas; Cecília M Arraiano
Journal:  Microb Biotechnol       Date:  2021-08-24       Impact factor: 5.813
  10 in total

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