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. 1992 Mar;174(5):1662–1672. doi: 10.1128/jb.174.5.1662-1672.1992

A physical map of the Salmonella typhimurium LT2 genome made by using XbaI analysis.

S L Liu 1, K E Sanderson 1
PMCID: PMC206564  PMID: 1311300

Abstract

XbaI digestion and pulsed-field gel electrophoresis of the genome of Salmonella typhimurium LT2 yields 24 fragments: 23 fragments (total size, 4,807 kb) are from the chromosome, and one fragment (90 kb) is from the virulence plasmid pSLT. Some of the 23 fragments from the chromosome were located on the linkage map by the use of cloned genes as probes and by analysis of strains which gain an XbaI site from the insertion of Tn10. Twenty-one of the fragments were arranged as a circular physical map by the use of linking probes from a set of 41 lysogens in which Mud-P22 was stably inserted at different sites of the chromosome; fragment W (6.6 kb) and fragment X (6.4 kb) were not located on the physical map. XbaI digestion of strains with Tn10 insertions allowed the physical locations of specific genes along the chromosome to be determined on the basis of analysis of new-fragment sizes. There is good agreement between the order of genes on the linkage map, which is based primarily on P22 joint transduction and F-mediated conjugation, and the physical map, but there are frequently differences in the length of the interval from the two methods. These analyses allowed the measurement of the amount of DNA packaged in phage P22 heads by Mud-P22 lysogens following induction; this varies from ca. 100 kb (2 min) to 240 kb (5 min) in different parts of the chromosome.

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Selected References

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

  1. Aliabadi Z., Park Y. K., Slonczewski J. L., Foster J. W. Novel regulatory loci controlling oxygen- and pH-regulated gene expression in Salmonella typhimurium. J Bacteriol. 1988 Feb;170(2):842–851. doi: 10.1128/jb.170.2.842-851.1988. [DOI] [PMC free article] [PubMed] [Google Scholar]
  2. Bachmann B. J. Linkage map of Escherichia coli K-12, edition 8. Microbiol Rev. 1990 Jun;54(2):130–197. doi: 10.1128/mr.54.2.130-197.1990. [DOI] [PMC free article] [PubMed] [Google Scholar]
  3. Bautsch W. Rapid physical mapping of the Mycoplasma mobile genome by two-dimensional field inversion gel electrophoresis techniques. Nucleic Acids Res. 1988 Dec 23;16(24):11461–11467. doi: 10.1093/nar/16.24.11461. [DOI] [PMC free article] [PubMed] [Google Scholar]
  4. Beltran P., Musser J. M., Helmuth R., Farmer J. J., 3rd, Frerichs W. M., Wachsmuth I. K., Ferris K., McWhorter A. C., Wells J. G., Cravioto A. Toward a population genetic analysis of Salmonella: genetic diversity and relationships among strains of serotypes S. choleraesuis, S. derby, S. dublin, S. enteritidis, S. heidelberg, S. infantis, S. newport, and S. typhimurium. Proc Natl Acad Sci U S A. 1988 Oct;85(20):7753–7757. doi: 10.1073/pnas.85.20.7753. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. Bender J., Kleckner N. Genetic evidence that Tn10 transposes by a nonreplicative mechanism. Cell. 1986 Jun 20;45(6):801–815. doi: 10.1016/0092-8674(86)90555-6. [DOI] [PubMed] [Google Scholar]
  6. Benson N. R., Goldman B. S. Rapid mapping in Salmonella typhimurium with Mud-P22 prophages. J Bacteriol. 1992 Mar;174(5):1673–1681. doi: 10.1128/jb.174.5.1673-1681.1992. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Casjens S., Huang W. M., Hayden M., Parr R. Initiation of bacteriophage P22 DNA packaging series. Analysis of a mutant that alters the DNA target specificity of the packaging apparatus. J Mol Biol. 1987 Apr 5;194(3):411–422. doi: 10.1016/0022-2836(87)90671-1. [DOI] [PubMed] [Google Scholar]
  8. Chen H. W., Kuspa A., Keseler I. M., Shimkets L. J. Physical map of the Myxococcus xanthus chromosome. J Bacteriol. 1991 Mar;173(6):2109–2115. doi: 10.1128/jb.173.6.2109-2115.1991. [DOI] [PMC free article] [PubMed] [Google Scholar]
  9. Dowman J. E., Meynell G. G. Pleiotropic effects of de-repressed bacterial sex factors on colicinogeny and cell wall structure. Mol Gen Genet. 1970;109(1):57–68. doi: 10.1007/BF00334046. [DOI] [PubMed] [Google Scholar]
  10. Gillis M., De Ley J., De Cleene M. The determination of molecular weight of bacterial genome DNA from renaturation rates. Eur J Biochem. 1970 Jan;12(1):143–153. doi: 10.1111/j.1432-1033.1970.tb00831.x. [DOI] [PubMed] [Google Scholar]
  11. Hanish J., McClelland M. Enzymatic cleavage of a bacterial chromosome at a transposon-inserted rare site. Nucleic Acids Res. 1991 Feb 25;19(4):829–832. doi: 10.1093/nar/19.4.829. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. Kohara Y., Akiyama K., Isono K. The physical map of the whole E. coli chromosome: application of a new strategy for rapid analysis and sorting of a large genomic library. Cell. 1987 Jul 31;50(3):495–508. doi: 10.1016/0092-8674(87)90503-4. [DOI] [PubMed] [Google Scholar]
  13. Krawiec S., Riley M. Organization of the bacterial chromosome. Microbiol Rev. 1990 Dec;54(4):502–539. doi: 10.1128/mr.54.4.502-539.1990. [DOI] [PMC free article] [PubMed] [Google Scholar]
  14. Kukral A. M., Strauch K. L., Maurer R. A., Miller C. G. Genetic analysis in Salmonella typhimurium with a small collection of randomly spaced insertions of transposon Tn10 delta 16 delta 17. J Bacteriol. 1987 May;169(5):1787–1793. doi: 10.1128/jb.169.5.1787-1793.1987. [DOI] [PMC free article] [PubMed] [Google Scholar]
  15. Lee J. J., Smith H. O., Redfield R. J. Organization of the Haemophilus influenzae Rd genome. J Bacteriol. 1989 Jun;171(6):3016–3024. doi: 10.1128/jb.171.6.3016-3024.1989. [DOI] [PMC free article] [PubMed] [Google Scholar]
  16. McClelland M., Jones R., Patel Y., Nelson M. Restriction endonucleases for pulsed field mapping of bacterial genomes. Nucleic Acids Res. 1987 Aug 11;15(15):5985–6005. doi: 10.1093/nar/15.15.5985. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. Michiels T., Popoff M. Y., Durviaux S., Coynault C., Cornelis G. A new method for the physical and genetic mapping of large plasmids: application to the localisation of the virulence determinants on the 90 kb plasmid of Salmonella typhimurium. Microb Pathog. 1987 Aug;3(2):109–116. doi: 10.1016/0882-4010(87)90069-6. [DOI] [PubMed] [Google Scholar]
  18. Patel Y., Van Cott E., Wilson G. G., McClelland M. Cleavage at the twelve-base-pair sequence 5'-TCTAGATCTAGA-3' using M.Xbal (TCTAGm6A) methylation and DpnI (Gm6A/TC) cleavage. Nucleic Acids Res. 1990 Mar 25;18(6):1603–1607. doi: 10.1093/nar/18.6.1603. [DOI] [PMC free article] [PubMed] [Google Scholar]
  19. Roof D. M., Roth J. R. Ethanolamine utilization in Salmonella typhimurium. J Bacteriol. 1988 Sep;170(9):3855–3863. doi: 10.1128/jb.170.9.3855-3863.1988. [DOI] [PMC free article] [PubMed] [Google Scholar]
  20. Römling U., Tümmler B. The impact of two-dimensional pulsed-field gel electrophoresis techniques for the consistent and complete mapping of bacterial genomes: refined physical map of Pseudomonas aeruginosa PAO. Nucleic Acids Res. 1991 Jun 25;19(12):3199–3206. doi: 10.1093/nar/19.12.3199. [DOI] [PMC free article] [PubMed] [Google Scholar]
  21. SANDERSON K. E., DEMEREC M. THE LINKAGE MAP OF SALMONELLA TYPHIMURIUM. Genetics. 1965 Jun;51:897–913. doi: 10.1093/genetics/51.6.897. [DOI] [PMC free article] [PubMed] [Google Scholar]
  22. Sanderson K. E. Genetic relatedness in the family Enterobacteriaceae. Annu Rev Microbiol. 1976;30:327–349. doi: 10.1146/annurev.mi.30.100176.001551. [DOI] [PubMed] [Google Scholar]
  23. Sanderson K. E., Kadam S. K., MacLachlan P. R. Derepression of F factor function in Salmonella typhimurium. Can J Microbiol. 1983 Sep;29(9):1205–1212. doi: 10.1139/m83-184. [DOI] [PubMed] [Google Scholar]
  24. Sanderson K. E., Roth J. R. Linkage map of Salmonella typhimurium, edition VII. Microbiol Rev. 1988 Dec;52(4):485–532. doi: 10.1128/mr.52.4.485-532.1988. [DOI] [PMC free article] [PubMed] [Google Scholar]
  25. Schmieger H., Buch U. Appearance of transducing particles and the fate of host DNA after infection of Salmonella typhimurium with P22-mutants with increased transducing ability (HT-mutants). Mol Gen Genet. 1975 Sep 29;140(2):111–122. doi: 10.1007/BF00329779. [DOI] [PubMed] [Google Scholar]
  26. Smith C. L., Econome J. G., Schutt A., Klco S., Cantor C. R. A physical map of the Escherichia coli K12 genome. Science. 1987 Jun 12;236(4807):1448–1453. doi: 10.1126/science.3296194. [DOI] [PubMed] [Google Scholar]
  27. Smith C. L., Kolodner R. D. Mapping of Escherichia coli chromosomal Tn5 and F insertions by pulsed field gel electrophoresis. Genetics. 1988 Jun;119(2):227–236. doi: 10.1093/genetics/119.2.227. [DOI] [PMC free article] [PubMed] [Google Scholar]
  28. Smith H. R., Humphreys G. O., Grindley N. D., Grindley J. N., Anderson E. S. Molecular studies of an fi+ plasmid from strains of Salmonella typhimurium. Mol Gen Genet. 1973 Nov 2;126(2):143–151. doi: 10.1007/BF00330989. [DOI] [PubMed] [Google Scholar]
  29. Sukupolvi S., O'Connor D., Edwards M. F. The traT protein is able to normalize the phenotype of a plasmid-carried permeability mutation of Salmonella typhimurium. J Gen Microbiol. 1986 Aug;132(8):2079–2085. doi: 10.1099/00221287-132-8-2079. [DOI] [PubMed] [Google Scholar]
  30. Sukupolvi S., Vaara M., Helander I. M., Viljanen P., Mäkelä P. H. New Salmonella typhimurium mutants with altered outer membrane permeability. J Bacteriol. 1984 Aug;159(2):704–712. doi: 10.1128/jb.159.2.704-712.1984. [DOI] [PMC free article] [PubMed] [Google Scholar]
  31. Susskind M. M., Botstein D. Molecular genetics of bacteriophage P22. Microbiol Rev. 1978 Jun;42(2):385–413. doi: 10.1128/mr.42.2.385-413.1978. [DOI] [PMC free article] [PubMed] [Google Scholar]
  32. Tinge S. A., Curtiss R., 3rd Isolation of the replication and partitioning regions of the Salmonella typhimurium virulence plasmid and stabilization of heterologous replicons. J Bacteriol. 1990 Sep;172(9):5266–5277. doi: 10.1128/jb.172.9.5266-5277.1990. [DOI] [PMC free article] [PubMed] [Google Scholar]
  33. Way J. C., Davis M. A., Morisato D., Roberts D. E., Kleckner N. New Tn10 derivatives for transposon mutagenesis and for construction of lacZ operon fusions by transposition. Gene. 1984 Dec;32(3):369–379. doi: 10.1016/0378-1119(84)90012-x. [DOI] [PubMed] [Google Scholar]
  34. Weaver S., Levine M. Replication in situ and DNA encapsulation following induction of an excision-defective lysogen of Salmonella bacteriophage P22. J Mol Biol. 1978 Jan 25;118(3):389–411. doi: 10.1016/0022-2836(78)90235-8. [DOI] [PubMed] [Google Scholar]
  35. Wong K. K., McClelland M. A BlnI restriction map of the Salmonella typhimurium LT2 genome. J Bacteriol. 1992 Mar;174(5):1656–1661. doi: 10.1128/jb.174.5.1656-1661.1992. [DOI] [PMC free article] [PubMed] [Google Scholar]
  36. Wu T. T. A model for three-point analysis of random general transduction. Genetics. 1966 Aug;54(2):405–410. doi: 10.1093/genetics/54.2.405. [DOI] [PMC free article] [PubMed] [Google Scholar]
  37. Youderian P., Sugiono P., Brewer K. L., Higgins N. P., Elliott T. Packaging specific segments of the Salmonella chromosome with locked-in Mud-P22 prophages. Genetics. 1988 Apr;118(4):581–592. doi: 10.1093/genetics/118.4.581. [DOI] [PMC free article] [PubMed] [Google Scholar]
  38. ZINDER N. D., LEDERBERG J. Genetic exchange in Salmonella. J Bacteriol. 1952 Nov;64(5):679–699. doi: 10.1128/jb.64.5.679-699.1952. [DOI] [PMC free article] [PubMed] [Google Scholar]

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