Expression of small RNAs in Rhizobiales and protection of a small RNA and its degradation products by Hfq in Sinorhizobium meliloti

Biochemical and Biophysical Research Communications

Volumn 390, Issue 2, 2009, Pages 331-336

  Voss, Björn ^a   Hölscher, Marion ^b   Baumgarth, Birgit ^a   Kalbfleisch, Andreas ^b   Kaya, Ceren ^b   Hess, Wolfgang R ^a   Becker, Anke ^a   Evguenieva Hackenberg, Elena ^b  

^a UNIVERSITY OF FREIBURG   (Germany)

^b Institut fur Mikrobiologie und Molekularbiologie   (Germany)

Author keywords

6S RNA; Bradyrhizobium; Hfq; RNA stability; Sinorhizobium; Small RNA

Indexed keywords

RIFAMPICIN; RNA; SIGNAL RECOGNITION PARTICLE;

ARTICLE; BACTERIAL GROWTH; BRADYRHIZOBIUM JAPONICUM; CONTROLLED STUDY; ESCHERICHIA COLI; GENE EXPRESSION; NONHUMAN; PRIORITY JOURNAL; REGULATORY RNA SEQUENCE; RHIZOBIALES; RNA DEGRADATION; RNA STABILITY; RNA TRANSCRIPTION; SINORHIZOBIUM; SINORHIZOBIUM MELILOTI; TRANSCRIPTION REGULATION;

BASE SEQUENCE; BRADYRHIZOBIUM; HOST FACTOR 1 PROTEIN; MOLECULAR SEQUENCE DATA; NUCLEIC ACID CONFORMATION; RNA STABILITY; RNA, BACTERIAL; SINORHIZOBIUM MELILOTI;

BACTERIA (MICROORGANISMS); BRADYRHIZOBIUM; BRADYRHIZOBIUM JAPONICUM; ESCHERICHIA COLI; RHIZOBIALES; RHIZOBIUM; SINORHIZOBIUM; SINORHIZOBIUM MELILOTI;

EID: 70350129683     PISSN: 0006291X     EISSN: 10902104     Source Type: Journal    
DOI: 10.1016/j.bbrc.2009.09.125     Document Type: Article

References (21)

1. Altuvia S. Identification of bacterial small non-coding RNAs: experimental approaches. Curr. Opin. Microbiol. 10 (2007) 257-261
2. Voss B., Georg J., Schon V., Ude S., and Hess W.R. Biocomputational prediction of non-coding RNAs in model cyanobacteria. BMC Genomics 10 (2009) 123
3. del Val C., Rivas E., Torres-Quesada O., Toro N., and Jimenez-Zurdo J.I. Identification of differentially expressed small non-coding RNAs in the legume endosymbiont Sinorhizobium meliloti by comparative genomics. Mol. Microbiol. 66 (2007) 1080-1091
4. Ulve V.M., Sevin E.W., Cheron A., and Barloy-Hubler F. Identification of chromosomal alpha-proteobacterial small RNAs by comparative genome analysis and detection in Sinorhizobium meliloti strain 1021. BMC Genomics 8 (2007) 467
5. Valverde C., Livny J., Schluter J.P., Reinkensmeier J., Becker A., and Parisi G. Prediction of Sinorhizobium meliloti sRNA genes and experimental detection in strain 2011. BMC Genomics 9 (2008) 416
6. Brennan R.G., and Link T.M. Hfq structure, function and ligand binding. Curr. Opin. Microbiol. 10 (2007) 125-133
7. Moll I., Afonyushkin T., Vytvytska O., Kaberdin V.R., and Blasi U. Coincident Hfq binding and RNase E cleavage sites on mRNA and small regulatory RNAs. RNA 9 (2003) 1308-1314
8. Masse E., Escorcia F.E., and Gottesman S. Coupled degradation of a small regulatory RNA and its mRNA targets in Escherichia coli. Genes Dev. 17 (2003) 2374-2383
9. Carpousis A.J. The RNA degradosome of Escherichia coli: an mRNA-degrading machine assembled on RNase E. Annu. Rev. Microbiol. 61 (2007) 71-87
10. Aiba H. Mechanism of RNA silencing by Hfq-binding small RNAs. Curr. Opin. Microbiol. 10 (2007) 134-139
11. Kaminski P.A., Desnoues N., and Elmerich C. The expression of nifA in Azorhizobium caulinodans requires a gene product homologous to Escherichia coli HF-I, an RNA-binding protein involved in the replication of phage Q beta RNA. Proc. Natl. Acad. Sci. USA 91 (1994) 4663-4667
12. Robertson G.T., and Roop Jr. R.M. The Brucella abortus host factor I (HF-I) protein contributes to stress resistance during stationary phase and is a major determinant of virulence in mice. Mol. Microbiol. 34 (1999) 690-700
13. Evguenieva-Hackenberg E., and Klug G. RNase III processing of intervening sequences found in helix 9 of 23S rRNA in the alpha subclass of Proteobacteria. J. Bacteriol. 182 (2000) 4719-4729
14. Madhugiri R., and Evguenieva-Hackenberg E. RNase J is involved in the 5′-end maturation of 16S rRNA and 23S rRNA in Sinorhizobium meliloti. FEBS Lett. 583 (2009) 2339-2342
15. Becker A., Schmidt M., Jager W., and Puhler A. New gentamicin-resistance and lacZ promoter-probe cassettes suitable for insertion mutagenesis and generation of transcriptional fusions. Gene 162 (1995) 37-39
16. Barrick J.E., Sudarsan N., Weinberg Z., Ruzzo W.L., and Breaker R.R. 6S RNA is a widespread regulator of eubacterial RNA polymerase that resembles an open promoter. RNA 11 (2005) 774-784
17. Wassarman K.M. 6S RNA: a regulator of transcription. Mol. Microbiol. 65 (2007) 1425-1431
18. Axmann I.M., Holtzendorff J., Voss B., Kensche P., and Hess W.R. Two distinct types of 6S RNA in Prochlorococcus. Gene 406 (2007) 69-78
19. Jensen C.G., and Pedersen S. Concentrations of 4.5S RNA and Ffh protein in Escherichia coli: the stability of Ffh protein is dependent on the concentration of 4.5S RNA. J. Bacteriol. 176 (1994) 7148-7154
20. Nakamura K., Fujii Y., Shibata T., and Yamane K. Depletion of Escherichia coli 4.5S RNA leads to an increase in the amount of protein elongation factor EF-G associated with ribosomes. Eur. J. Biochem. 259 (1999) 543-550
21. Evguenieva-Hackenberg E., and Klug G. RNA degradation in Archaea and Gram-negative bacteria different from Escherichia coli. Prog. Mol. Biol. Transl. Sci. 85 (2009) 275-317