RNase E is involved in 5′-end 23S rRNA processing in α-Proteobacteria

Biochemical and Biophysical Research Communications

Volumn 299, Issue 5, 2002, Pages 780-786

  Klein, Franziska ^a   Evguenieva Hackenberg, Elena ^a  

^a JUSTUS LIEBIG UNIVERSITY   (Germany)

Author keywords

Proteobacteria; 23S rRNA; Internal transcribed spacer; Intervening sequence; Rhizobium leguminosarum; Rhodobacter capsulatus; RNA decay; RNase E; RNase III; rRNA processing

Indexed keywords

INTERNAL TRANSCRIBED SPACER; RIBONUCLEASE; RIBOSOME RNA;

ARTICLE; GRAM NEGATIVE BACTERIUM; NONHUMAN; PRIORITY JOURNAL; RHIZOBIUM LEGUMINOSARUM; RHODOBACTER CAPSULATUS; RNA PROCESSING;

ALPHAPROTEOBACTERIA; BASE SEQUENCE; ENDORIBONUCLEASES; INTRONS; MOLECULAR SEQUENCE DATA; NUCLEIC ACID CONFORMATION; RHIZOBIUM; RHODOBACTER; RIBONUCLEASE III; RNA PROCESSING, POST-TRANSCRIPTIONAL; RNA, BACTERIAL; RNA, RIBOSOMAL, 23S; SUBSTRATE SPECIFICITY;

ALPHAPROTEOBACTERIA; RHIZOBIUM; RHIZOBIUM LEGUMINOSARUM; RHODOBACTER; RHODOBACTER CAPSULATUS;

EID: 0036915036     PISSN: 0006291X     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0006-291X(02)02738-9     Document Type: Article

References (33)

1. D.K. Jemiolo, Processing of prokaryotic ribosomal RNA, in: R.A. Zimmermann, A.E. Dahlberg (Eds.), Ribosomal RNA-structure, Evolution, Processing and Function in Protein Biosynthesis, CRC Press, New York, 1996, pp. 453-468.
2. B.K. Ghora, D. Apirion, Structural analysis and in vitro processing to p5 rRNA of a 9S RNA molecule isolated from an rne mutant of E. coli, Cell 15 (1978) 1055-1066.
3. T.K. Misra, D. Apirion, RNase E, an RNA processing enzyme from Escherichia coli, J. Biol. Chem. 254 (1979) 11154-11159.
4. Z. Li, S. Pandit, M.P. Deutscher, RNase G (CafA protein) and RNase E are both required for the 5′ maturation of 16S ribosomal RNA, EMBO J. 18 (1999) 2878-2885.
5. M. Wachi, G. Umitsuki, M. Shimizu, A. Takada, K. Nagai, Escherichia coli cafA gene encodes a novel RNase, designated as RNase G, involved in processing of the 5′ end of 16S rRNA, Biochem. Biophys. Res. Commun. 259 (1999) 483-488.
6. Z. Li, M.P. Deutscher, The tRNA processing enzyme RNase T is essential for maturation of 5S RNA, Proc. Natl. Acad. Sci. USA 92 (1995) 6883-6886.
7. Z. Li, S. Pandit, M.P. Deutscher, Maturation of 23S ribosomal RNA requires the exoribonuclease RNase T, RNA 5 (1999) 139-146.
8. S. Selenska-Pobell, E. Evguenieva-Hackenberg, Fragmentations of the large-subunit rRNA in the family Rhizobiaceae, J. Bacteriol. 177 (1995) 6993-6998.
9. K. Zahn, M. Inui, H. Yukawa, Characterization of a separate small domain derived from the 5′ end of 23S rRNA of an a-proteobacterium, Nucleic Acids Res. 27 (1999) 4241-4250.
10. E. Evguenieva-Hackenberg, G. Klug, RNase III processing of intervening sequences found in helix 9 of 23S rRNA in α-Proteobacteria, J. Bacteriol. 182 (2000) 4719-4729.
11. E. Kordes, S. Jock, J. Fritsch, F. Bosch, G. Klug, Cloning of a gene involved in rRNA precursor processing and 23S rRNA cleavage in Rhodobacter capsulatus, J. Bacteriol. 176 (1994) 1121-1127.
12. F. Klein, R. Samorski, G. Klug, E. Evguenieva-Hackenberg, Atypical processing in domain III of 23S rRNA of Rhizobium leguminosarum ATCC 10004 at a position homologous to an rRNA fragmentation site in protozoa, J. Bacteriol. 184 (2002) 3176-3185.
13. S. Selenska-Pobell, H. Döring, Sequences around the fragmentation sites of the large subunit ribosomal rRNA in the family Rhizobiaceae, Antonie van Leeuwenhoek 73 (1998) 55-67.
14. R. Rauhut, G. Klug, mRNA degradation in bacteria, FEMS Microbiol. Rev. 23 (1999) 353-370.
15. G. Drews, Mikrobiologisches Praktikum, Third Ed., Springer, Berlin, Germany, 1976.
16. J.E. Beringer, R-Factor transfer in Rhizobium leguminosarum, J. Gen. Microbiol. 84 (1974) 188-198.
17. A. von Gabain, J.G. Belasco, J.L. Schottel, A.C.Y. Chang, S.N. Cohen, Decay of mRNA in Escherichia coli: Investigation of the fate of specific segments of transcripts, Proc. Natl. Acad. Sci. USA 80 (1983) 653-657.
18. C. Heck, A. Balzer, O. Fuhrmann, G. Klug, Initial events in the degradation of the polycistronic puf mRNA in Rhodobacter capsulatus and consequences for further processing steps, Mol. Microbiol. 35 (2000) 90-100.
19. J.F. Milligan, O.C. Uhlenbeck, Synthesis of small RNAs using T7 RNA polymerase, Methods Enzymol. 180 (1989) 51-62.
20. C. Conrad, R. Rauhut, G. Klug, Different cleavage specificities of RNases III from Rhodobacter capsulatus and Escherichia coli, Nucleic Acids Res. 26 (1998) 4446-4453.
21. S. Jager, O. Fuhrmann, C. Heck, M. Hebermehl, E. Schiltz, R. Rauhut, G. Klug, An mRNA degrading complex in Rhodobacter capsulatus, Nucleic Acids Res. 29 (2001) 4581-4588.
22. D.H. Mathews, J. Sabina, M. Zuker, D.H. Turner, Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure, J. Mol. Biol. 288 (1999) 911-940.
23. G.A. Mackie, Ribonuclease E is a 5′-end-dependent endonuclease, Nature 395 (1998) 720-723.
24. M.W. Gray, M.N. Schnare, Evolution of rRNA gene organization, in: R.A Zimmermann, A.E. Dahlberg (Eds.), Ribosomal RNA-structure, Evolution, Processing and Function in Protein Biosynthesis, CRC Press, New York, 1996, pp. 49-69.
25. W.P. Donovan, S.R. Kushner, Polynucleotide phosphorylase and ribonuclease II are required for cell viability and mRNA turnover in Escherichia coli K-12, Proc. Natl. Acad. Sci. USA 83 (1986) 120-124.
26. R. Zilhao, F. Cairrao, P. Regnier, C.M. Arraiano, PNPase modulates RNase II expression in Escherichia coli: Implications for mRNA decay and cell metabolism, Mol. Microbiol. 20 (1996) 1033-1042.
27. G. Guarneros, C. Portier, Different specificities of ribonuclease II and polynucleotide phosphorylase in 3′mRNA decay, Biochimie 73 (1991) 543-549.
28. C. Pepe, M.S. Maslesa-Galic, R.W. Simons, Decay of the IS10 antisense RNA by 3′ exoribonucleases: Evidence that RNase II stabilizes RNA-OUT against PNPase attack, Mol. Microbiol. 13 (1994) 1133-1142.
29. A.C. Jarrige, N. Mathy, C. Portier, PNPase autocontrols its expression by degrading a double-stranded structure in the pnp mRNA leader, EMBO J. 20 (2001) 6845-6855.
30. G.G. Liou, H.Y. Chang, C.S. Lin, S. Lin-Chao, DEAD box RhlB RNA helicase physically associates with exoribonuclease PNPase to degrade double-stranded RNA independent of the degradosome-assembling region of RNaseE, J. Biol. Chem. 277 (2002) 41157-41162.
31. A.B. Burgin, K. Parodos, D.J. Lane, N.R. Pace, The excision of intervening sequences from Salmonella 23S ribosomal RNA, Cell 60 (1990) 405-414.
32. D. Ralph, M. McClelland, Intervening sequence with conserved open reading frame in eubacterial 23S rRNA genes, Proc. Natl. Acad. Sci. USA 90 (1993) 6864-6868.
33. S.T. Gregory, M. O'Connor, A.E. Dahlberg, Functional Escherichia coli 23S rRNAs containing processed and unprocessed intervening sequences from Salmonella typhimurium, Nucleic Acids Res. 24 (1996) 4918-4923.