Skip to main content
Journal of Bacteriology logoLink to Journal of Bacteriology
. 1984 Nov;160(2):586–590. doi: 10.1128/jb.160.2.586-590.1984

DNA adenine methylation of GATC sequences appeared recently in the Escherichia coli lineage.

T Barbeyron, K Kean, P Forterre
PMCID: PMC214774  PMID: 6094478

Abstract

We have examined the presence of methylated adenine at GATC sequences (Dam phenotype) in the DNA of 23 eubacteria and 13 archaebacteria by using isoshizomer restriction enzymes. We have found a completely Dam+ phenotype in bacteria of nine genera related to the families Enterobacteriaceae, Parvobacteriaceae, and Vibrionaceae, and in the five cyanobacteria tested. We have found a partial Dam+ phenotype in the two archaebacteria Halobacterium saccharovorum and Methanobacterium sp. strain Ivanov. All of the other archaebacteria (three genera) and eubacteria (nine genera) tested were Dam-. Phylogenetic analysis, based on the evolutionary tree of Fox et al. (Science 209:457-463, 1980), indicates that dam methylation in the Escherichia coli lineage appeared recently in bacterial evolution and is restricted to a small range of closely related bacteria.

Full text

PDF
586

Images in this article

Selected References

These references are in PubMed. This may not be the complete list of references from this article.

  1. Baumann P., Baumann L., Woolkalis M. J., Bang S. S. Evolutionary relationships in vibrio and Photobacterium: a basis for a natural classification. Annu Rev Microbiol. 1983;37:369–398. doi: 10.1146/annurev.mi.37.100183.002101. [DOI] [PubMed] [Google Scholar]
  2. Brock T. D., Brock K. M., Belly R. T., Weiss R. L. Sulfolobus: a new genus of sulfur-oxidizing bacteria living at low pH and high temperature. Arch Mikrobiol. 1972;84(1):54–68. doi: 10.1007/BF00408082. [DOI] [PubMed] [Google Scholar]
  3. Brooks J. E., Blumenthal R. M., Gingeras T. R. The isolation and characterization of the Escherichia coli DNA adenine methylase (dam) gene. Nucleic Acids Res. 1983 Feb 11;11(3):837–851. doi: 10.1093/nar/11.3.837. [DOI] [PMC free article] [PubMed] [Google Scholar]
  4. Claverys J. P., Roger M., Sicard A. M. Excision and repair of mismatched base pairs in transformation of Streptococcus pneumoniae. Mol Gen Genet. 1980 Apr;178(1):191–201. doi: 10.1007/BF00267229. [DOI] [PubMed] [Google Scholar]
  5. Dreiseikelmann B., Wackernagel W. Absence in Bacillus subtilis and Staphylococcus aureus of the sequence-specific deoxyribonucleic acid methylation that is conferred in Escherichia coli K-12 by the dam and dcm enzymes. J Bacteriol. 1981 Jul;147(1):259–261. doi: 10.1128/jb.147.1.259-261.1981. [DOI] [PMC free article] [PubMed] [Google Scholar]
  6. Dybvig K., Swinton D., Maniloff J., Hattman S. Cytosine methylation of the sequence GATC in a mycoplasma. J Bacteriol. 1982 Sep;151(3):1420–1424. doi: 10.1128/jb.151.3.1420-1424.1982. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Fox G. E., Stackebrandt E., Hespell R. B., Gibson J., Maniloff J., Dyer T. A., Wolfe R. S., Balch W. E., Tanner R. S., Magrum L. J. The phylogeny of prokaryotes. Science. 1980 Jul 25;209(4455):457–463. doi: 10.1126/science.6771870. [DOI] [PubMed] [Google Scholar]
  8. Gelinas R. E., Myers P. A., Roberts R. J. Two sequence-specific endonucleases from Moraxella bovis. J Mol Biol. 1977 Jul;114(1):169–179. doi: 10.1016/0022-2836(77)90290-x. [DOI] [PubMed] [Google Scholar]
  9. Glickman B., van den Elsen P., Radman M. Induced mutagenesis in dam- mutants of Escherichia coli: a role for 6-methyladenine residues in mutation avoidance. Mol Gen Genet. 1978 Jul 25;163(3):307–312. doi: 10.1007/BF00271960. [DOI] [PubMed] [Google Scholar]
  10. Greene P. J., Heyneker H. L., Bolivar F., Rodriguez R. L., Betlach M. C., Covarrubias A. A., Backman K., Russel D. J., Tait R., Boyer H. W. A general method for the purification of restriction enzymes. Nucleic Acids Res. 1978 Jul;5(7):2373–2380. doi: 10.1093/nar/5.7.2373. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Gómez-Eichelmann M. C. Deoxyribonucleic acid adenine and cytosine methylation in Salmonella typhimurium and Salmonella typhi. J Bacteriol. 1979 Nov;140(2):574–579. doi: 10.1128/jb.140.2.574-579.1979. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. Hori H., Osawa S. Evolutionary change in 5S RNA secondary structure and a phylogenic tree of 54 5S RNA species. Proc Natl Acad Sci U S A. 1979 Jan;76(1):381–385. doi: 10.1073/pnas.76.1.381. [DOI] [PMC free article] [PubMed] [Google Scholar]
  13. Lacks S. A., Dunn J. J., Greenberg B. Identification of base mismatches recognized by the heteroduplex-DNA-repair system of Streptococcus pneumoniae. Cell. 1982 Dec;31(2 Pt 1):327–336. doi: 10.1016/0092-8674(82)90126-x. [DOI] [PubMed] [Google Scholar]
  14. Lacks S., Greenberg B. Complementary specificity of restriction endonucleases of Diplococcus pneumoniae with respect to DNA methylation. J Mol Biol. 1977 Jul;114(1):153–168. doi: 10.1016/0022-2836(77)90289-3. [DOI] [PubMed] [Google Scholar]
  15. Lu A. L., Clark S., Modrich P. Methyl-directed repair of DNA base-pair mismatches in vitro. Proc Natl Acad Sci U S A. 1983 Aug;80(15):4639–4643. doi: 10.1073/pnas.80.15.4639. [DOI] [PMC free article] [PubMed] [Google Scholar]
  16. Marinus M. G., Morris N. R. Biological function for 6-methyladenine residues in the DNA of Escherichia coli K12. J Mol Biol. 1974 May 15;85(2):309–322. doi: 10.1016/0022-2836(74)90366-0. [DOI] [PubMed] [Google Scholar]
  17. McConnell D. J., Searcy D. G., Sutcliffe J. G. A restriction enzyme Tha I from the thermophilic mycoplasma Thermoplasma acidophilum. Nucleic Acids Res. 1978 Jun;5(6):1729–1739. doi: 10.1093/nar/5.6.1729. [DOI] [PMC free article] [PubMed] [Google Scholar]
  18. Radding C. M. Genetic recombination: strand transfer and mismatch repair. Annu Rev Biochem. 1978;47:847–880. doi: 10.1146/annurev.bi.47.070178.004215. [DOI] [PubMed] [Google Scholar]
  19. Radman M., Villani G., Boiteux S., Kinsella A. R., Glickman B. W., Spadari S. Replicational fidelity: mechanisms of mutation avoidance and mutation fixation. Cold Spring Harb Symp Quant Biol. 1979;43(Pt 2):937–946. doi: 10.1101/sqb.1979.043.01.103. [DOI] [PubMed] [Google Scholar]
  20. Razin A., Friedman J. DNA methylation and its possible biological roles. Prog Nucleic Acid Res Mol Biol. 1981;25:33–52. doi: 10.1016/s0079-6603(08)60482-1. [DOI] [PubMed] [Google Scholar]
  21. Roberts R. J. Restriction and modification enzymes and their recognition sequences. Nucleic Acids Res. 1983 Jan 11;11(1):r135–r167. [PMC free article] [PubMed] [Google Scholar]
  22. SEHGAL S. N., GIBBONS N. E. Effect of some metal ions on the growth of Halobacterium cutirubrum. Can J Microbiol. 1960 Apr;6:165–169. doi: 10.1139/m60-018. [DOI] [PubMed] [Google Scholar]
  23. Schnabel H., Zillig W., Pfäffle M., Schnabel R., Michel H., Delius H. Halobacterium halobium phage øH. EMBO J. 1982;1(1):87–92. doi: 10.1002/j.1460-2075.1982.tb01129.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
  24. Streeck R. E. Single-strand and double-strand cleavage at half-modified and fully modified recognition sites for the restriction nucleases Sau3a and Taqi. Gene. 1980 Dec;12(3-4):267–275. doi: 10.1016/0378-1119(80)90109-2. [DOI] [PubMed] [Google Scholar]
  25. Sussenbach J. S., Monfoort C. H., Schiphof R., Stobberingh E. E. A restriction endonuclease from Staphylococcus aureus. Nucleic Acids Res. 1976 Nov;3(11):3193–3202. doi: 10.1093/nar/3.11.3193. [DOI] [PMC free article] [PubMed] [Google Scholar]
  26. Szyf M., Gruenbaum Y., Urieli-Shoval S., Razin A. Studies on the biological role of DNA methylation: V. The pattern of E.coli DNA methylation. Nucleic Acids Res. 1982 Nov 25;10(22):7247–7259. doi: 10.1093/nar/10.22.7247. [DOI] [PMC free article] [PubMed] [Google Scholar]
  27. Vanyushin B. F., Belozersky A. N., Kokurina N. A., Kadirova D. X. 5-methylcytosine and 6-methylamino-purine in bacterial DNA. Nature. 1968 Jun 15;218(5146):1066–1067. doi: 10.1038/2181066a0. [DOI] [PubMed] [Google Scholar]
  28. Zyskind J. W., Cleary J. M., Brusilow W. S., Harding N. E., Smith D. W. Chromosomal replication origin from the marine bacterium Vibrio harveyi functions in Escherichia coli: oriC consensus sequence. Proc Natl Acad Sci U S A. 1983 Mar;80(5):1164–1168. doi: 10.1073/pnas.80.5.1164. [DOI] [PMC free article] [PubMed] [Google Scholar]

Articles from Journal of Bacteriology are provided here courtesy of American Society for Microbiology (ASM)

RESOURCES