Type i toxin-antitoxin systems in Bacillus subtilis

RNA Biology

Volumn 9, Issue 12, 2012, Pages 1491-1497

  Durand, Sylvain ^a   Jahn, Natalie ^b   Condon, Ciarán ^a   Brantl, Sabine ^b  

^a UNIVERSITÉ PARIS DESCARTES   (France)

^b FRIEDRICH SCHILLER UNIVERSITY JENA   (Germany)

Author keywords

Antisense RNA; Antitoxins; Post segregational killing; Prophage; RNA degradation; Toxins

Indexed keywords

ANTITOXIN; BACTERIAL TOXIN; COMPLEMENTARY RNA;

BACILLUS SUBTILIS; GENE CONTROL; GENE LOCUS; GENE OVEREXPRESSION; GENETIC REGULATION; GENETIC STABILITY; GENETIC TRANSCRIPTION; NONHUMAN; NORTHERN BLOTTING; REVIEW; RNA DEGRADATION; RNA TRANSLATION; SPOROGENESIS;

EID: 84874197735     PISSN: 15476286     EISSN: 15558584     Source Type: Journal    
DOI: 10.4161/rna.22358     Document Type: Review

References (33)

1. Van Melderen L, Saavedra De Bast M. Bacterial toxin-antitoxin systems: more than selfish entities? PLoS Genet 2009; 5:e1000437; PMID:19325885; http://dx.doi.org/10.1371/journal.pgen.1000437.
2. Van Melderen L. Toxin-antitoxin systems: why so many, what for? Curr Opin Microbiol 2010; 13:781-5; PMID:21041110; http://dx.doi.org/10.1016/j. mib.2010.10.006.
3. Fineran PC, Blower TR, Foulds IJ, Humphreys D P, Lilley KS, Salmond G P. The phage abortive infection system, ToxIN, functions as a protein-RNA toxin-antitoxin pair. Proc Natl Acad Sci USA 2009; 106:894-9; PMID:19124776; http://dx.doi.org/10.1073/pnas.0808832106.
4. Blower TR, Short FL, Rao F, Mizuguchi K, Pei XY, Fineran PC, et al. Identification and classification of bacterial Type III toxin-antitoxin systems encoded in chromosomal and plasmid genomes. Nucleic Acids Res 2012; 40:6158-73; PMID:22434880; http://dx.doi. org/10.1093/nar/gks231.
5. Greenfield TJ, Weaver KE. Antisense RNA regulation of the pAD1 par post-segregational killing system requires interaction at the 5' and 3' ends of the RNAs. Mol Microbiol 2000; 37:661-70; PMID:10931359; http://dx.doi.org/10. 1046/j.1365-2958.2000.02034.x. (Pubitemid 30611846)
6. Weaver KE, Jensen KD, Colwell A, Sriram SI. Functional analysis of the Enterococcus faecalis plas-mid pAD1-encoded stability determinant par. Mol Microbiol 1996; 20:53-63; PMID:8861204; http://dx.doi.org/10.1111/j.1365-2958. 1996.tb02488.x. (Pubitemid 26124789)
7. Weaver KE, Reddy SG, Brinkman CL, Patel S, Bayles KW, Endres JL. Identification and characterization of a family of toxin-antitoxin systems related to the Enterococcus faecalis plasmid pAD1 par addiction module. Microbiology 2009; 155:2930-40; PMID:19542006; http://dx.doi.org/10.1099/mic.0. 030932-0.
8. Silvaggi JM, Perkins JB, Losick R. Small untranslated RNA antitoxin in Bacillus subtilis. J Bacteriol 2005; 187:6641-50; PMID:16166525; http://dx.doi. org/10.1128/JB.187.19.6641-6650.2005. (Pubitemid 41356236)
9. Irnov I, Sharma CM, Vogel J, Winkler WC. Identification of regulatory RNAs in Bacillus subtilis. Nucleic Acids Res 2010; 38:6637-51; PMID:20525796; http://dx.doi.org/10.1093/nar/gkq454.
10. Fozo EM, Makarova KS, Shabalina SA, Yutin N, Koonin E V, Storz G. Abundance of type I toxin-antitoxin systems in bacteria: searches for new candidates and discovery of novel families. Nucleic Acids Res 2010; 38:3743-59; PMID:20156992; http://dx.doi. org/10.1093/nar/gkq054.
11. Jahn N, Preis H, Wiedemann C, Brantl S. BsrG/SR4 from Bacillus subtilis-the first temperature-dependent type I toxin-antitoxin system. Mol Microbiol 2012; 83:579-98; PMID:22229825; http://dx.doi. org/10.1111/j.1365- 2958.2011.07952.x.
12. Brantl S. Regulatory mechanisms employed by cis-encoded antisense RNAs. Curr Opin Microbiol 2007; 10:102-9; PMID:17387036; http://dx.doi. org/10.1016/j.mib.2007.03.012. (Pubitemid 46590052)
13. Nakano MM, Zuber P, Glaser P, Danchin A, Hulett FM. Two-component regulatory proteins ResD-ResE are required for transcriptional activation of fnr upon oxygen limitation in Bacillus subtilis. J Bacteriol 1996; 178:3796-802; PMID:8682783. (Pubitemid 26227195)
14. Saito S, Kakeshita H, Nakamura K. Novel small RNA-encoding genes in the intergenic regions of Bacillus subtilis. Gene 2009; 428:2-8; PMID:18948176; http://dx.doi.org/10.1016/j.gene.2008.09.024.
15. Kodama T, Matsubayashi T, Yanagihara T, Komoto H, Ara K, Ozaki K, et al. A novel small protein of Bacillus subtilis involved in spore germination and spore coat assembly. Biosci Biotechnol Biochem 2011; 75:1119-28; PMID:21670523; http://dx.doi.org/10.1271/bbb.110029.
16. Nicolas P, Mäder U, Dervyn E, Rochat T, Leduc A, Pigeonneau N, et al. Condition-dependent tran-scriptome reveals high-level regulatory architecture in Bacillus subtilis. Science 2012; 335:1103-6; PMID:22383849; http://dx.doi.org/10.1126/sci-ence.1206848.
17. Durand S, Gilet L, Bessières P, Nicolas P, Condon C. Three essential ribonucleases-RNase Y, J1 and III-control the abundance of a majority of Bacillus subtilis mRNAs. PLoS Genet 2012; 8:e1002520; PMID:22412379; http://dx.doi.org/10.1371/journal. pgen.1002520.
18. Fozo EM, Kawano M, Fontaine F, Kaya Y, Mendieta KS, Jones KL, et al. Repression of small toxic protein synthesis by the Sib and OhsC small RNAs. Mol Microbiol 2008; 70:1076-93; PMID:18710431; http://dx.doi.org/10.1111/j.1365- 2958.2008.06394.x.
19. Gerdes K, Wagner EG. RNA antitoxins. Curr Opin Microbiol 2007; 10:117-24; PMID:17376733; http://dx.doi.org/10.1016/j.mib.2007.03.003. (Pubitemid 46590043)
20. Fozo EM, Hemm MR, Storz G. Small toxic proteins and the antisense RNAs that repress them. Microbiol Mol Biol Rev 2008; 72:579-89; PMID:19052321; http://dx.doi.org/10.1128/MMBR.00025-08.
21. Condon C, Bechhofer DH. Regulated RNA stability in the Gram positives. Curr Opin Microbiol 2011; 14:148-54; PMID:21334965; http://dx.doi. org/10.1016/j.mib.2011.01.010.
22. Shokeen S, Patel S, Greenfield TJ, Brinkman C, Weaver KE. Translational regulation by an intramolecular stem-loop is required for intermolecular RNA regulation of the par addiction module. J Bacteriol 2008; 190:6076-83; PMID:18641135; http://dx.doi.org/10.1128/JB.00660-08.
23. Daou-Chabo R, Mathy N, Bénard L, Condon C. Ribosomes initiating translation of the hbs mRNA protect it from 5'-to-3' exoribonucleolytic degradation by RNase J1. Mol Microbiol 2009; 71:1538-50; PMID:19210617; http://dx.doi.org/10.1111/j.1365-2958.2009.06620.x.
24. Li GW, Oh E, Weissman JS. The anti-Shine-Dal-garno sequence drives translational pausing and codon choice in bacteria. Nature 2012; 484:538-41; PMID:22456704; http://dx.doi.org/10.1038/nature10965.
25. Hajnsdorf E, Boni IV. Multiple activities of RNA-binding proteins S1 and Hfq. Biochimie 2012; 94:1544-53; PMID:22370051; http://dx.doi. org/10.1016/j.biochi.2012.02.010.
26. Nielsen JS, Lei LK, Ebersbach T, Olsen AS, Klitgaard JK, Valentin-Hansen P, et al. Defining a role for Hfq in Gram-positive bacteria: evidence for Hfq-dependent antisense regulation in Listeria monocytogenes. Nucleic Acids Res 2010; 38:907-19; PMID:19942685; http://dx.doi.org/10.1093/nar/gkp1081.
27. Heidrich N, Moll I, Brantl S. In vitro analysis of the interaction between the small RNA SR1 and its primary target ahrC mRNA. Nucleic Acids Res 2007; 35:4331-46; PMID:17576690; http://dx.doi. org/10.1093/nar/gkm439. (Pubitemid 47244587)
28. Vogel J, Argaman L, Wagner EG, Altuvia S. The small RNA IstR inhibits synthesis of an SOS-induced toxic peptide. Curr Biol 2004; 14:2271-6; PMID:15620655; http://dx.doi.org/10.1016/j.cub.2004.12.003. (Pubitemid 40033365)
29. Kawano M, Aravind L, Storz G. An antisense RNA controls synthesis of an SOS-induced toxin evolved from an antitoxin. Mol Microbiol 2007; 64:738-54; PMID:17462020; http://dx.doi.org/10.1111/j.1365-2958.2007.05688.x. (Pubitemid 46653211)
30. Dörr T, Vulic M, Lewis K. Ciprofloxacin causes persist-er formation by inducing the TisB toxin in Escherichia coli. PLoS Biol 2010; 8:e1000317; PMID:20186264; http://dx.doi.org/10.1371/journal.pbio.1000317.
31. Kunkel B, Losick R, Stragier P. The Bacillus subtilis gene for the development transcription factor sigma K is generated by excision of a dispensable DNA element containing a sporulation recombinase gene. Genes Dev 1990; 4:525-35; PMID:2163341; http://dx.doi. org/10.1101/gad.4.4.525.
32. Popham DL, Stragier P. Binding of the Bacillus subtilis spoIVCA product to the recombination sites of the element interrupting the sigma K-encoding gene. Proc Natl Acad Sci USA 1992; 89:5991-5; PMID:1631085; http://dx.doi.org/ 10.1073/pnas.89.13.5991.
33. Krogh S, O'Reilly M, Nolan N, Devine KM. The phage-like element PBSX and part of the skin element, which are resident at different locations on the Bacillus subtilis chromosome, are highly homologous. Microbiology 1996; 142:2031-40; PMID:8760915; http://dx.doi.org/10.1099/13500872-142-8-2031. (Pubitemid 26288075)