The RecJ DNase strongly suppresses genomic integration of short but not long foreign DNA fragments by homology-facilitated illegitimate recombination during transformation of Acinetobacter baylyi

Molecular Microbiology

Volumn 64, Issue 3, 2007, Pages 691-702

  Harms, Klaus ^a   Schön, Verena ^a   Kickstein, Eva ^a   Wackernagel, Wilfried ^a  

^a UNIVERSITY OF OLDENBURG   (Germany)

Author keywords

[No Author keywords available]

Indexed keywords

DEOXYRIBONUCLEASE; DNA FRAGMENT; EXONUCLEASE; NUCLEOTIDE; RECJ PROTEIN;

ACINETOBACTER; ACINETOBACTER BAYLYI; ARTICLE; BACTERIUM TRANSFORMATION; COMPARATIVE STUDY; DNA DEGRADATION; ENZYME ACTIVITY; ENZYME SYNTHESIS; GENETIC RECOMBINATION; HOMOLOGOUS RECOMBINATION; NONHUMAN; PRIORITY JOURNAL; PROTEIN FOLDING; PROTEIN FUNCTION; SEQUENCE HOMOLOGY; WILD TYPE;

ACINETOBACTER; BACTERIAL PROTEINS; DNA, BACTERIAL; EXODEOXYRIBONUCLEASES; GENOME, BACTERIAL; MODELS, GENETIC; MUTATION; NUCLEIC ACID HETERODUPLEXES; PLASMIDS; POLYMERASE CHAIN REACTION; RECOMBINATION, GENETIC; TRANSFORMATION, BACTERIAL;

ACINETOBACTER BAYLYI;

EID: 34247535425     PISSN: 0950382X     EISSN: 13652958     Source Type: Journal    
DOI: 10.1111/j.1365-2958.2007.05692.x     Document Type: Article

References (42)

1. Alm, E., Huang, K. Arkin, A. (2006) The Evolution of two-component systems in bacteria reveals different strategies for niche adaptation. PLoS Comput Biol 2 : e143.
2. Aravind, L. Koonin, E.V. (1998) A novel family of predicted phosphoesterases includes Drosophila prune protein and bacterial RecJ exonuclease. Trends Biochem Sci 23 : 17 19.
3. Arber, W. (2000) Genetic variation: molecular mechanisms and impact on microbial evolution. FEMS Microbiol Rev 24 : 1 7.
4. Bagdasarian, M., Lurz, R., Rückert, B., Franklin, F.C., Bagdasarian, M.M., Frey, J. Timmis, K.N. (1981) Specific-purpose plasmid cloning vectors. II. Broad host range, high copy number, RSF1010-derived vectors, and a host-vector system for gene cloning in Pseudomonas. Gene 16 : 237 247.
5. Barbe, V., Vallenet, D., Fonknechten, N., Kreimeyer, A., Oztas, S., Labarre, L., et al. (2004) Unique features revealed by the genome sequence of Acinetobacter sp. ADP1, a versatile and naturally transformation competent bacterium. Nucleic Acids Res 32 : 5766 5779.
6. de Boer, H.A., Comstock, L.J. Vasser, M. (1983) The tac promoter: a functional hybrid derived from the trp and lac promoters. Proc Natl Acad Sci USA 80 : 21 25.
7. Burdett, V., Baitinger, C., Viswanathan, M., Lovett, S.T. Modrich, P. (2001) In vivo requirement for RecJ, ExoVII, ExoI, and ExoX in methyl-directed mismatch repair. Proc Natl Acad Sci USA 98 : 6765 6770.
8. Chen, I. Dubnau, D. (2004) DNA uptake during bacterial transformation. Nat Rev Microbiol 2 : 241 249.
9. Claverys, J.P., Lefevre, J.C. Sicard, A.M. (1980) Transformation of Streptococcus pneumoniae with S. pneumoniae-lambda phage hybrid DNA: induction of deletions. Proc Natl Acad Sci USA 77 : 3534 3538.
10. Davis, J., Smith, A.L., Hughes, W.R. Golomb, M. (2001) Evolution of an autotransporter: domain shuffling and lateral transfer from pathogenic Haemophilus to Neisseria. J Bacteriol 183 : 4626 4635.
11. Dianov, G. Lindahl, T. (1994) Reconstitution of the DNA base excision-repair pathway. Curr Biol 4 : 1069 1076.
12. Dubnau, D. Provvedi, R. (2000) Internalizing DNA. Res Microbiol 151 : 475 480.
13. Dutra, B.E., Sutera, V.A. Lovett, S.T. (2007) RecA-independent recombination is efficient but limited by exonucleases. Proc Natl Acad Sci USA 104 : 216 221.
14. Friedman-Ohana, R. Cohen, A. (1998) Heteroduplex joint formation in Escherichia coli recombination is initiated by pairing of a 3′-ending strand. Proc Natl Acad Sci USA 95 : 6909 6914.
15. Kickstein, E., Harms, K. Wackernagel, W. (2007) Deletions of recBCD or recD influence genetic transformation differently and are lethal together with a recJ deletion in Acinetobacter baylyi. Microbiology in press).
16. Kolodner, R., Fishel, R.A. Howard, M. (1985) Genetic recombination of bacterial plasmid DNA: effect of RecF pathway mutations on plasmid recombination in Escherichia coli. J Bacteriol 163 : 1060 1066.
17. Koonin, E.V., Makarova, K.S. Aravind, L. (2001) Horizontal gene transfer in prokaryotes: quantification and classification. Annu Rev Microbiol 55 : 709 742.
18. Kowalczykowski, S.C. (2000) Initiation of genetic recombination and recombination-dependent replication. Trends Biochem Sci 25 : 156 165.
19. Lorenz, M.G. Wackernagel, W. (1994) Bacterial gene transfer by natural genetic transformation in the environment. Microbiol Rev 58 : 563 602.
20. Lovett, S.T. Kolodner, R.D. (1989) Identification and purification of a single-stranded-DNA-specific exonuclease encoded by the recJ gene of Escherichia coli. Proc Natl Acad Sci USA 86 : 2627 2631.
21. Lovett, S.T. Kolodner, R.D. (1991) Nucleotide sequence of the Escherichia coli recJ chromosomal region and construction of recJ-overexpression plasmids. J Bacteriol 173 : 353 364.
22. Lovett, S.T., Luisi-DeLuca, C. Kolodner, R.D. (1988) The genetic dependence of recombination in recD mutants of Escherichia coli. Genetics 120 : 37 45.
23. McIlwraith, M.J. West, S.C. (2001) The efficiency of strand invasion by Escherichia coli RecA is dependent upon the length and polarity of ssDNA tails. J Mol Biol 305 : 23 31.
24. Mashimo, K., Kawata, M. Yamamoto, K. (2003) Roles of the RecJ and RecQ proteins in spontaneous formation of deletion mutations in the Escherichia coli K12 endogenous tonB gene. Mutagenesis 18 : 355 363.
25. Meier, P. Wackernagel, W. (2003) Mechanisms of homology-facilitated illegitimate recombination for foreign DNA acquisition in transformable Pseudomonas stutzeri. Mol Microbiol 48 : 1107 1118.
26. Meier, P. Wackernagel, W. (2005) Impact of mutS inactivation on foreign DNA acquisition by natural transformation in Pseudomonas stutzeri. J Bacteriol 187 : 143 154.
27. Miesel, L. Roth, J.R. (1996) Evidence that SbcB and RecF pathway functions contribute to RecBCD-dependent transductional recombination. J Bacteriol 178 : 3146 3155.
28. Morrison, D.A. Mannarelli, B. (1979) Transformation in Pneumococcus: nuclease resistance of deoxyribonucleic acid in the eclipse complex. J Bacteriol 140 : 655 665.
29. Prudhomme, M., Libante, V. Claverys, J.P. (2002) Homologous recombination at the border: insertion-deletions and the trapping of foreign DNA in Streptococcus pneumoniae. Proc Natl Acad Sci USA 99 : 2100 2105.
30. Razavy, H., Szigety, S.K. Rosenberg, S.M. (1996) Evidence for both 3′ and 5′ single-strand DNA ends in intermediates in chi-stimulated recombination in vivo. Genetics 142 : 333 339.
31. Sambrook, J., Fritsch, E.F. Maniatis, T. (1989) Molecular Cloning: a Laboratory Manual, 2nd edn. Cold Spring Harbor, NY : Cold Spring Harbor Laboratory Press.
32. Tønjum, T., Higgins, J.D. Gibson, T.J. (1995) Fastidious Gram-negative bacteria: meeting the diagnostic challenge with nucleic acid analysis. APMIS 103 : 609 627.
33. Ukita, T. Ikeda, H. (1996) Role of the recJ gene product in UV-induced illegitimate recombination at the hotspot. J Bacteriol 178 : 2362 2367.
34. Vijayakumar, M.N. Morrison, D.A. (1986) Localization of competence-induced proteins in Streptococcus pneumoniae. J Bacteriol 165 : 689 695.
35. Viswanathan, M. Lovett, S.T. (1998) Single-strand DNA-specific exonucleases in Escherichia coli. Roles in repair and mutation avoidance. Genetics 149 : 7 16.
36. Vogel, C., Teichmann, S.A. Pereira-Leal, J. (2005) The relationship between domain duplication and recombination. J Mol Biol 346 : 355 365.
37. de Vries, J. Wackernagel, W. (1998) Detection of nptII (kanamycin resistance) genes in genomes of transgenic plants by marker-rescue transformation. Mol Gen Genet 257 : 606 613.
38. de Vries, J. Wackernagel, W. (2002) Integration of foreign DNA during natural transformation of Acinetobacter sp. by homology-facilitated illegitimate recombination. Proc Natl Acad Sci USA 99 : 2094 2099.
39. de Vries, J., Heine, M., Harms, K. Wackernagel, W. (2003) Spread of recombinant DNA by roots and pollen of transgenic potato plants, identified by highly specific biomonitoring using natural transformation of an Acinetobacter sp. Appl Environ Microbiol 69 : 4455 4462.
40. de Vries, J., Herzfeld, T. Wackernagel, W. (2004) Transfer of plastid DNA from tobacco to the soil bacterium Acinetobacter sp. by natural transformation. Mol Microbiol 53 : 323 334.
41. Wetmur, J.G. (1996) Nucleic Acid Hybrids, Formation and Structure of. In Encyclopedia of Molecular Biology and Molecular Medicine, Vol. 4. Myers, R.A. (ed.). New York : VCH Press, pp. 235 243.
42. Yamagata, A., Masui, R., Kakuta, Y., Kuramitsu, S. Fukuyama, K. (2001) Overexpression, purification and characterization of RecJ protein from Thermus thermophilus HB8 and its core domain. Nucleic Acids Res 29 : 4617 4624.