A genomic polymorphism located downstream of the gcvP gene of Escherichia coli that correlates with ecological niche

Molecular Ecology

Volumn 6, Issue 11, 1997, Pages 1019-1032

  Turner, S J ^a   Lewis, G D ^a,b   Bellamy, A R ^a  

^a UNIVERSITY OF AUCKLAND   (New Zealand)

^b UNIVERSITY OF AUCKLAND   (New Zealand)

Author keywords

Escherichia coli; GcvP; Human; Niche; RAPD

Indexed keywords

ANIMALIA; BACTERIA (MICROORGANISMS); BOS TAURUS; BOVINAE; ESCHERICHIA COLI; OVIS;

EID: 0031281856     PISSN: 09621083     EISSN: None     Source Type: Journal    
DOI: 10.1046/j.1365-294X.1997.00279.x     Document Type: Article

References (55)

1. American Public Health Association (1992) Standard Methods for the Examination of Water and Wastewater, 17th edn (eds Greenberg AE, Clesceri LS, Eaton AD), pp. 9.60-9.61. American Public Health Association Inc., New York.
2. Anilionis A, Riley M (1980) Conservation and variation of nucleotide sequences within related bacterial genomes: Escherichia coli strains. Journal of Bacteriology, 143, 355-365.
3. Barbut F, Mario N, Delmée M, Gozian J, Petit J-C (1993) Genomic fingerprinting of Clostridium difficile isolates by using a random amplified polymorphic DNA (RAPD) assay. FEMS Microbiology Letters, 114, 161-166.
4. Bettelheim KA, Ismail N, Shinebaum R et al. (1976) The distribution of serotypes of Escherichia coli in cow-pats and other animal material compared with serotypes of E. coli isolated from human sources. Journal of Hygiene, 76, 403-406.
5. Bjourson AJ, Cooper JE (1992) Band-stab PCR: a simple technique for the purification of individual PCR products. Nucleic Acids Research, 20, 4675.
6. Blanchard MM, Taillon-Miller P, Nowotny P, Nowotny V (1993) PCR buffer optimisation with uniform temperature regimen to facilitate automation. PCR Methods and Applications, 2, 234-240.
7. Brikun I, Suziedelis K, Berg DE (1994) DNA sequence divergence among derivatives of Escherichia coli K-12 detected by arbitrary primer PCR (Random Amplified Polymorphic DNA) fingerprinting. Journal of Bacteriology, 176, 1673-1682.
8. Caugant DA, Levin BR, Selander RK (1981) Genetic diversity and temporal variation in the E. coli population of a human host. Genetics, 98, 467-449.
9. Cave' H, Bingen E, Elion J, Denamur E (1994) Differentiation of Escherichia coli strains using randomly amplified polymorphic DNA analysis. Research in Microbiology, 145, 141-150.
10. Chachaty E, Saulnier P, Martin A, Mario N, Andremont A (1994) Comparison of ribotyping, pulsed-field gel electrophoresis and random amplified polymorphic DNA for typing Clostridium difficile strains. FEMS Microbiology Letters, 122, 61-68.
11. Cooke EM (1974) Escherichia coli and Man. Churchill Livingston, London.
12. Dalrymple B, Caspers P, Arber W (1984) Nucleotide sequence of the prokaryotic mobile genetic element IS30. European Journal of Molecular Biology, 3, 2145-2149.
13. Doolittle RF, Feng DF, Anderson KL, Alberro MR (1990) A naturally occurring horizontal gene transfer from a eukaryote to a prokaryote. Journal of Molecular Evolution, 31, 383-388.
14. Engler JA, van Bree MP (1981) The nucleotide sequence and protein-coding capability of the transposable element IS5. Gene, 14, 155-163.
15. Evans JA (1988) Plasmid profile analysis for assessing bacteriological quality of natural waters. Technical Completion Report G1431-03. Mississippi Resources Research Institute, Mississippi State University, USA.
16. Freter R, Brickner H, Fekete J, Vickerman MM, Carey KE (1983) Survival and implantation of Escherichia coli in the intestinal tract. Infection and Immunity, 39, 686-703.
17. Genetics Computer Group (1994) Program Manual for the Wisconson Package, Version 8. Genetics Computer Group, Madison, Washington, USA.
18. Ghosal D, Somer H, Saedler H (1979) Nucleotide sequence of the transposable DNA-element IS2. Nucleic Acids Research, 6, 1111-1121.
19. Glasby GP (1991) A review of the concept of sustainable management as applied to New Zealand. Journal of the Royal Society of New Zealand, 21, 61-81.
20. Green DH, Lewis GD, Rodtong S, Loutit MW (1991) Detection of faecal pollution in water by an Escherichia coli uidA gene probe. Journal of Microbiological Methods, 13, 207-214.
21. Green L, Miller RD, Dykhuizen DE, Hartl DL (1984) Distribution of DNA insertion element IS5 in natural isolates of Escherichia coli. Proceedings of the National Academy of Sciences of the USA, 81, 4500-4504.
22. Halling SM, Simons RW, Way JC, Walsh RB, Kleckner N (1982) DNA sequence organisation of IS10-right of Tn10 and comparison with IS10-left. Proceedings of the National Academy of Sciences of the USA, 79, 2608-2612.
23. Hartl DN, Dykhuizen DE (1984) The population genetics of Escherichia coli. Annual Review of Genetics, 18, 31-68.
24. Klaer R, Kühn S, Tillmann E, Fritz H-J, Starlinger P (1981) The sequence of IS4. Molecular and General Genetics, 181, 169-175.
25. Marklund BI, Tennent JM, Garcia E et al. (1992) Horizontal gene transfer of the Escherichia coli pap and prs pili operons as a mechanism for the development of tissue-specific adhesive properties. Molecular Microbiology, 6, 2225-2242.
26. Maynard-Smith J (1991) The population genetics of bacteria. Proceedings of the Royal Society of London, 245, 37-41.
27. van Mazurier S, de Giessen A, Heuvelman K, Wernars K (1992) RAPD analysis of Campylobacter isolates: DNA fingerprinting without the need to purify DNA. Letters in Applied Microbiology, 14, 260-262.
28. Mazurier S, Wernars K (1992) Typing of Listeria strains by random amplification of polymorphic DNA. Research in Microbiology, 143, 499-505.
29. McMillin DE, Muldrow LL (1992) Typing of toxic strains of Clostridium difficile using DNA fingerprints generated with arbitrary polymerase chain reaction primers. FEMS Microbiology Letters, 92, 5-10.
30. Médigue C, Rouxel T, Vigier P, Hénaut A, Dnachin A (1991) Evidence for horizontal gene transfer in Escherichia coli speciation. Journal of Molecular Biology, 222, 851-856.
31. Milkman R, McKane-Bridges M (1990) Molecular evolution of the Escherichia coli chromosome. III. Clonal frames. Genetics, 126, 505-517.
32. Milkman R, McKane-Bridges M (1993) Molecular evolution of the Escherichia coli chromosome. IV. Sequence comparisons. Genetics, 133, 455-468.
33. Milkman R, Stoltzfus A (1988) Molecular evolution of the Escherichia coli chromosome. II. Clonal segments. Genetics, 120, 359-366.
34. Miller RD, Hartl DL (1986) Biotyping confirms a nearly clonal population structure in Escherichia coli. Evolution, 40, 1-12.
35. Mollet B, Shigeru I, Shepherd J, Arber W (1983) Nucleotide sequence of IS26, a new prokaryotic mobile genetic element. Nucleic Acids Research, 11, 6319-6329.
36. Nakahigashi K, Miyamoto K, Nishimura K, Inokichi H (1992) Isolation and characterization of a light-sensitive mutant of Escherichia coli K-12 with a mutation in a gene that is required for biosynthesis of ubiquinone. Journal of Bacteriology 174, 7352-7359.
37. Ochman H, Whittam TS, Caugant DA, Selander RK (1983) Enzyme polymorphism and genetic population structure in Escherichia coli and Shigella. Journal of General Microbiology, 129, 2715-2726.
38. Ohtsubo H, Ohtsubo E (1978) Nucleotide sequence of an insertion element, IS1. Proceedings of the National Academy of Sciences of the USA, 75, 615-619.
39. Okamura-Ikeda K, Ohmura Y, Fujiwara K, Motokawa Y (1993) Cloning and nucleotide sequence of the gcv operon encoding the Escherichia coli glycine-cleavage system. European Journal of Biochemistry, 216, 539-548.
40. Orskov F, Orskov I (1984) Serotyping of Escherichia coli. In Methods in Microbiology (ed. Bergman T), pp. 43-112. Academic Press, London.
41. Reeves PR (1992) Variation in O-antigens, niche-specific selection and bacterial populations. FEMS Microbiology Letters, 100, 509-516.
42. Riley M, Sanderson KE (1990) Comparative genetics of Escherichia coli and Salmonella typhimurium. In The Bacterial Chromosome (ed. Drlica KE, Riley M), pp. 85-95. American Society for Microbiology, Washton DC.
43. Sambrook J, Fritsch EF, Maniatis T (1989) Molecular Cloning: a Laboratory Manual, 2nd edn. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, N. Y.
44. Sears HI, Brownlee I, Uchiyama JK (1950) Persistence of individual strains of E. coli in the intestinal tract of man. Journal of Bacteriology, 59, 293.
45. Selander RK, Caugant DA, Whittam TS (1987) Genetic structure and variation in natural populations of Escherichia coli. In: Escherichia coli and Salmonella typhimurium cellular and molecular biology (ed. Neidhardt FC, Ingraham JL, Magasanik B et al), 1st edn pp. 1625-1648. American Society for Microbiology, Washington DC.
46. Sharples GJ, Lloyd RG (1990) A novel repeated DNA sequence located in the intergenic regions of bacterial chromosomes. Nucleic Acids Research, 18, 6503-6508.
47. Stauffer LT, Fogarty SJ, Stauffer GV (1994) Characterisation of the Escherichia coli gcv operon. Gene, 142, 17-22.
48. Stern MJ, Ferro-Luzzi Ames G, Smith NH, Robinson EC, Higgins CF (1984) Repetitive extragenic palindromic sequences: a major component of the bacterial genome. Cell, 37, 1015-1026.
49. Timmerman KP, Tu CD (1985) Complete sequence of IS3. Nucleic Acids Research, 13, 2127-2139.
50. Wahl R, Rice P, Rice CM, Kroger M (1994) ECD - a totally integrated database of Escherichia coli K12. Nucleic Acids Research, 22, 3450-3455.
51. Wang G, Whittam TS, Berg CM, Berg DE (1993) RAPD (arbitrary primer) PCR is more sensitive than multilocus enzyme electrophoresis for distinguishing related bacterial strains. Nucleic Acids Research, 21, 5930-5933.
52. Welsh J, McClelland M (1990) Fingerprinting genomes using PCR with amplified primers. Nucleic Acids Research, 18, 7213-7218.
53. Whittam TS, Ochman H, Selander RK (1983) Multilocus genetic structure in natural populations of Escherichia coli. Proceedings of the National Academy of Sciences of the USA, 80, 1751-1755.
54. Williams JGK, Kubelik AR, Livak KJ, Rafalski JA, Tingey SV (1990) DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucleic Acids Research, 18, 6531-6535.
55. York MK, Stodolsky M (1981) Characterisation of PlargF derivatives from E. coli K-12 transduction. I. IS1 elements flank the argF segment. Molecular and General Genetics, 181, 230-240.