Skip to main content
PMC home page
Journal of Bacteriology logoLink to Journal of Bacteriology
. 1987 Aug;169(8):3573–3580. doi: 10.1128/jb.169.8.3573-3580.1987

Complete nucleotide sequence of insertion element IS4351 from Bacteroides fragilis.

J L Rasmussen, D A Odelson, F L Macrina
PMCID: PMC212434  PMID: 3038844

Abstract

The nucleotide sequence and genetic analyses of one of the directly repeated sequences flanking the macrolide-lincosamide-streptogramin B drug resistance determinant, ermF, from the Bacteroides fragilis R plasmid, pBF4, suggested that this region is an insertion sequence (IS) element. This 1,155-base-pair element contained partially matched (20 of 25 base pairs) terminal-inverted repeats, overlapping, anti-parallel open reading frames, and nine promoterlike sequences, including three that were oriented outward. Analysis of this sequence revealed no significant nucleotide homology to 13 other known IS elements. Inasmuch as Southern blot hybridization analysis detected homologous sequences in chromosomal DNA and its G+C content (42 mol%) was similar to that of B. fragilis, the data suggested that this element is of Bacteroides origin. Transposition promoted by this element was demonstrated in recA E. coli. Recombinants were recovered by selecting for the activation of a promoterless chloramphenicol resistance gene on the plasmid pDH5110 and were characterized by restriction endonuclease mapping and Southern blot hybridization. We propose that this IS element be designated IS4351.

Full text

PDF
3573

Images in this article

3578Image
on p.3578

Selected References

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

  1. Barany F., Boeke J. D., Tomasz A. Staphylococcal plasmids that replicate and express erythromycin resistance in both Streptococcus pneumoniae and Escherichia coli. Proc Natl Acad Sci U S A. 1982 May;79(9):2991–2995. doi: 10.1073/pnas.79.9.2991. [DOI] [PMC free article] [PubMed] [Google Scholar]
  2. Benton W. D., Davis R. W. Screening lambdagt recombinant clones by hybridization to single plaques in situ. Science. 1977 Apr 8;196(4286):180–182. doi: 10.1126/science.322279. [DOI] [PubMed] [Google Scholar]
  3. Calos M. P., Miller J. H. Transposable elements. Cell. 1980 Jul;20(3):579–595. doi: 10.1016/0092-8674(80)90305-0. [DOI] [PubMed] [Google Scholar]
  4. Ciampi M. S., Schmid M. B., Roth J. R. Transposon Tn10 provides a promoter for transcription of adjacent sequences. Proc Natl Acad Sci U S A. 1982 Aug;79(16):5016–5020. doi: 10.1073/pnas.79.16.5016. [DOI] [PMC free article] [PubMed] [Google Scholar]
  5. Conrad B., Mount D. W. Microcomputer programs for DNA sequence analysis. Nucleic Acids Res. 1982 Jan 11;10(1):31–38. doi: 10.1093/nar/10.1.31. [DOI] [PMC free article] [PubMed] [Google Scholar]
  6. Dalrymple B., Caspers P., Arber W. Nucleotide sequence of the prokaryotic mobile genetic element IS30. EMBO J. 1984 Sep;3(9):2145–2149. doi: 10.1002/j.1460-2075.1984.tb02104.x. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Grindley N. D., Reed R. R. Transpositional recombination in prokaryotes. Annu Rev Biochem. 1985;54:863–896. doi: 10.1146/annurev.bi.54.070185.004243. [DOI] [PubMed] [Google Scholar]
  8. Guerry P., LeBlanc D. J., Falkow S. General method for the isolation of plasmid deoxyribonucleic acid. J Bacteriol. 1973 Nov;116(2):1064–1066. doi: 10.1128/jb.116.2.1064-1066.1973. [DOI] [PMC free article] [PubMed] [Google Scholar]
  9. Guiney D. G., Jr, Hasegawa P., Davis C. E. Expression in Escherichia coli of cryptic tetracycline resistance genes from bacteroides R plasmids. Plasmid. 1984 May;11(3):248–252. doi: 10.1016/0147-619x(84)90031-3. [DOI] [PubMed] [Google Scholar]
  10. Guiney D. G., Jr, Hasegawa P., Davis C. E. Homology between clindamycin resistance plasmids in Bacteroides. Plasmid. 1984 May;11(3):268–271. doi: 10.1016/0147-619x(84)90035-0. [DOI] [PubMed] [Google Scholar]
  11. Hawley D. K., McClure W. R. Compilation and analysis of Escherichia coli promoter DNA sequences. Nucleic Acids Res. 1983 Apr 25;11(8):2237–2255. doi: 10.1093/nar/11.8.2237. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. Jordan E., Saedler H., Starlinger P. O0 and strong-polar mutations in the gal operon are insertions. Mol Gen Genet. 1968;102(4):353–363. doi: 10.1007/BF00433726. [DOI] [PubMed] [Google Scholar]
  13. Jund R., Loison G. Activation of transcription of a yeast gene in E. coli by an IS5 element. Nature. 1982 Apr 15;296(5858):680–681. doi: 10.1038/296680a0. [DOI] [PubMed] [Google Scholar]
  14. Kleckner N. Translocatable elements in procaryotes. Cell. 1977 May;11(1):11–23. doi: 10.1016/0092-8674(77)90313-0. [DOI] [PubMed] [Google Scholar]
  15. Kleckner N. Transposable elements in prokaryotes. Annu Rev Genet. 1981;15:341–404. doi: 10.1146/annurev.ge.15.120181.002013. [DOI] [PubMed] [Google Scholar]
  16. Macrina F. L., Evans R. P., Tobian J. A., Hartley D. L., Clewell D. B., Jones K. R. Novel shuttle plasmid vehicles for Escherichia-Streptococcus transgeneric cloning. Gene. 1983 Nov;25(1):145–150. doi: 10.1016/0378-1119(83)90176-2. [DOI] [PubMed] [Google Scholar]
  17. Malamy M. H. Frameshift mutations in the lactose operon of E. coli. Cold Spring Harb Symp Quant Biol. 1966;31:189–201. doi: 10.1101/sqb.1966.031.01.027. [DOI] [PubMed] [Google Scholar]
  18. Mays T. D., Smith C. J., Welch R. A., Delfini C., Macrina F. L. Novel antibiotic resistance transfer in Bacteroides. Antimicrob Agents Chemother. 1982 Jan;21(1):110–118. doi: 10.1128/aac.21.1.110. [DOI] [PMC free article] [PubMed] [Google Scholar]
  19. Mollet B., Iida S., Shepherd J., Arber W. Nucleotide sequence of IS26, a new prokaryotic mobile genetic element. Nucleic Acids Res. 1983 Sep 24;11(18):6319–6330. doi: 10.1093/nar/11.18.6319. [DOI] [PMC free article] [PubMed] [Google Scholar]
  20. Poncz M., Solowiejczyk D., Ballantine M., Schwartz E., Surrey S. "Nonrandom" DNA sequence analysis in bacteriophage M13 by the dideoxy chain-termination method. Proc Natl Acad Sci U S A. 1982 Jul;79(14):4298–4302. doi: 10.1073/pnas.79.14.4298. [DOI] [PMC free article] [PubMed] [Google Scholar]
  21. Queen C., Korn L. J. A comprehensive sequence analysis program for the IBM personal computer. Nucleic Acids Res. 1984 Jan 11;12(1 Pt 2):581–599. doi: 10.1093/nar/12.1part2.581. [DOI] [PMC free article] [PubMed] [Google Scholar]
  22. Rasmussen J. L., Odelson D. A., Macrina F. L. Complete nucleotide sequence and transcription of ermF, a macrolide-lincosamide-streptogramin B resistance determinant from Bacteroides fragilis. J Bacteriol. 1986 Nov;168(2):523–533. doi: 10.1128/jb.168.2.523-533.1986. [DOI] [PMC free article] [PubMed] [Google Scholar]
  23. Robillard N. J., Tally F. P., Malamy M. H. Tn4400, a compound transposon isolated from Bacteroides fragilis, functions in Escherichia coli. J Bacteriol. 1985 Dec;164(3):1248–1255. doi: 10.1128/jb.164.3.1248-1255.1985. [DOI] [PMC free article] [PubMed] [Google Scholar]
  24. Saedler H., Reif H. J., Hu S., Davidson N. IS2, a genetic element for turn-off and turn-on of gene activity in E. coli. Mol Gen Genet. 1974;132(4):265–289. doi: 10.1007/BF00268569. [DOI] [PubMed] [Google Scholar]
  25. Sanger F., Nicklen S., Coulson A. R. DNA sequencing with chain-terminating inhibitors. Proc Natl Acad Sci U S A. 1977 Dec;74(12):5463–5467. doi: 10.1073/pnas.74.12.5463. [DOI] [PMC free article] [PubMed] [Google Scholar]
  26. Shimell M. J., Smith C. J., Tally F. P., Macrina F. L., Malamy M. H. Hybridization studies reveal homologies between pBF4 and pBFTM10, Two clindamycin-erythromycin resistance transfer plasmids of Bacteroides fragilis. J Bacteriol. 1982 Nov;152(2):950–953. doi: 10.1128/jb.152.2.950-953.1982. [DOI] [PMC free article] [PubMed] [Google Scholar]
  27. Shine J., Dalgarno L. The 3'-terminal sequence of Escherichia coli 16S ribosomal RNA: complementarity to nonsense triplets and ribosome binding sites. Proc Natl Acad Sci U S A. 1974 Apr;71(4):1342–1346. doi: 10.1073/pnas.71.4.1342. [DOI] [PMC free article] [PubMed] [Google Scholar]
  28. Shoemaker N. B., Getty C., Gardner J. F., Salyers A. A. Tn4351 transposes in Bacteroides spp. and mediates the integration of plasmid R751 into the Bacteroides chromosome. J Bacteriol. 1986 Mar;165(3):929–936. doi: 10.1128/jb.165.3.929-936.1986. [DOI] [PMC free article] [PubMed] [Google Scholar]
  29. Shoemaker N. B., Guthrie E. P., Salyers A. A., Gardner J. F. Evidence that the clindamycin-erythromycin resistance gene of Bacteroides plasmid pBF4 is on a transposable element. J Bacteriol. 1985 May;162(2):626–632. doi: 10.1128/jb.162.2.626-632.1985. [DOI] [PMC free article] [PubMed] [Google Scholar]
  30. Smith C. J., Gonda M. A. Comparison of the transposon-like structures encoding clindamycin resistance in Bacteroides R-plasmids. Plasmid. 1985 May;13(3):182–192. doi: 10.1016/0147-619x(85)90041-1. [DOI] [PubMed] [Google Scholar]
  31. Smith C. J., Macrina F. L. Large transmissible clindamycin resistance plasmid in Bacteroides ovatus. J Bacteriol. 1984 May;158(2):739–741. doi: 10.1128/jb.158.2.739-741.1984. [DOI] [PMC free article] [PubMed] [Google Scholar]
  32. Sommer H., Cullum J., Saedler H. Integration of IS3 into IS2 generates a short sequence duplication. Mol Gen Genet. 1979;177(1):85–89. doi: 10.1007/BF00267256. [DOI] [PubMed] [Google Scholar]
  33. Southern E. M. Detection of specific sequences among DNA fragments separated by gel electrophoresis. J Mol Biol. 1975 Nov 5;98(3):503–517. doi: 10.1016/s0022-2836(75)80083-0. [DOI] [PubMed] [Google Scholar]
  34. Sutcliffe J. G. Complete nucleotide sequence of the Escherichia coli plasmid pBR322. Cold Spring Harb Symp Quant Biol. 1979;43(Pt 1):77–90. doi: 10.1101/sqb.1979.043.01.013. [DOI] [PubMed] [Google Scholar]
  35. Syvanen M. The evolutionary implications of mobile genetic elements. Annu Rev Genet. 1984;18:271–293. doi: 10.1146/annurev.ge.18.120184.001415. [DOI] [PubMed] [Google Scholar]
  36. Tally F. P., Snydman D. R., Shimell M. J., Malamy M. H. Characterization of pBFTM10, a clindamycin-erythromycin resistance transfer factor from Bacteroides fragilis. J Bacteriol. 1982 Aug;151(2):686–691. doi: 10.1128/jb.151.2.686-691.1982. [DOI] [PMC free article] [PubMed] [Google Scholar]
  37. Timmerman K. P., Tu C. P. Complete sequence of IS3. Nucleic Acids Res. 1985 Mar 25;13(6):2127–2139. doi: 10.1093/nar/13.6.2127. [DOI] [PMC free article] [PubMed] [Google Scholar]
  38. Weisburg W. G., Oyaizu Y., Oyaizu H., Woese C. R. Natural relationship between bacteroides and flavobacteria. J Bacteriol. 1985 Oct;164(1):230–236. doi: 10.1128/jb.164.1.230-236.1985. [DOI] [PMC free article] [PubMed] [Google Scholar]
  39. Welch R. A., Macrina F. L. Physical characterization of Bacteroides fragilis R plasmid pBF4. J Bacteriol. 1981 Feb;145(2):867–872. doi: 10.1128/jb.145.2.867-872.1981. [DOI] [PMC free article] [PubMed] [Google Scholar]

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

RESOURCES