IS1236, a newly discovered member of the IS3 family, exhibits varied patterns of insertion into the Acinetobacter calcoaceticus chromosome

Microbiology

Volumn 142, Issue 7, 1996, Pages 1825-1831

  Gerischer, Ulrike ^a,b   D'Argenio, David A ^a   Ornston, L Nicholas ^a  

^a YALE UNIVERSITY   (United States)

^b FREIE UNIVERSITÄT BERLIN   (Germany)

Author keywords

Acinetobacter calcoaceticus; Chromosome; Genetic targets; Insertion sequence; Mutation

Indexed keywords

HELIX LOOP HELIX PROTEIN;

ACINETOBACTER CALCOACETICUS; AMINO ACID SEQUENCE; ARTICLE; CHROMOSOME; GENE INSERTION SEQUENCE; GENETIC CONSERVATION; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; PROTEIN FAMILY; SPONTANEOUS MUTATION; STRUCTURAL GENE; TANDEM REPEAT;

EID: 0029885370     PISSN: 13500872     EISSN: None     Source Type: Journal    
DOI: 10.1099/13500872-142-7-1825     Document Type: Article

References (38)

1. Altschul, S. F., Gish, W., Miller, W., Myers, E. W. & Lipman, D. J. (1990). Basic local alignment search tool. J Mol Biol 215, 403-410.
2. Averhoff, B., Gregg-Jolly, L., Elsemore, D. & Ornston, L. N. (1992). Genetic analysis of supraoperonic clustering in Acinetobacter calcoaceticus. J Bacteriol 174, 200-204.
3. Bouvet, P. J. M. & Grimont, P. A. D. (1986). Taxonomy of the genus Acinetobacter with the recognition of Acinetobacter baumanii sp. nov., Acinetobacter hemolyticus sp. nov., Acinetobacter johnsonii sp. nov., and Acinetobacter junii sp. nov., and emended descriptions of Acinetobacter calcoaceticus and Acinetobacter lwoffii. Int J Syst Bacteriol 36, 228-240.
4. Bouvet, P. J. M., Jeanjean, S., Vieu, J.-F. & Dijkshoorn, L. (1990). Species, biotype, and bacteriophage type determinations compared with cell envelope protein profiles for typing Acinetobacter strains. J Clin Microbiol 28, 170-176.
5. Chandler, M. & Fayet, O. (1993). Translational frameshifting in the control of transposition in bacteria. Mol Microbiol 7, 497-503.
6. Chiou, C.-S. & Jones, A. L. (1993). Nucleotide sequence analysis of a transposon (Tn5393) carrying streptomycin resistance genes in Erwinia amylovora and other gram-negative bacteria. J Bacteriol 175, 732-740.
7. DiMarco, A. A. & Ornston, L. N. (1994). Regulation of p-hydroxybenzoate hydroxylase synthesis by pobR bound to an operator in Acinetobacter calcoaceticus. J Bacteriol 176, 4277-4284.
8. DiMarco, A. A., Averhoff, B., Kim, E. E. & Ornston, L. N. (1993a). Evolutionary divergence of pobA, the structural gene for p-hydroxybenzoate hydroxylase, in an Acinetobacter calacoaceticus strain well-suited for genetic analysis. Gene 125, 25-33.
9. DiMarco, A. A., Averhoff, B. & Ornston, L. N. (1993b). Identification of the transcriptional activator pobR, and characterization of its role in the expression of pobA, the structural gene for p-hydroxybenzoate hydroxylase in Acinetobacter calcoaceticus. J Bacteriol 175, 4499-4506.
10. Dodd, I. B. & Egan, J. B. (1990). Improved detection of helix-turn-helix DNA-binding motifs in protein sequences. Nucleic Acids Res 18, 5019-5026.
11. Elsemore, D. & Ornston, L. N. (1994). The pca-pob supraoperonic cluster of Acinetobacter calcoaceticus contains qui A, the structural gene for quinate/shikimate dehydrogenase. J Bacteriol 176, 7659-7666.
12. Elsemore, D. & Ornston, L. N. (1995). Unusual ancestry of dehydratases associated with quinate catabolism in Acinetobacter calcoaceticus. J Bacteriol 177, 5971-5978.
13. Fayet, O., Ramond, P., Polard, P., Prère, M. F. & Chandler, M. (1990). Functional similarities between retroviruses and the IS3 family of insertion sequences? Mol Microbiol 4, 1771-1777.
14. Galas, J. G. & Chandler, M. (1989). Bacterial insertion sequences. In Mobile DNA, pp. 109-162. Edited by D. E. Berg & M. M. Howe. Washington, DC: American Society for Microbiology.
15. Garcia, M. J., Guilhot, C., Lathigra, R., Menendez, M. C., Domenech, P., Moreno, C., Gicquel, B. & Martin, C. (1994). Insertion sequence IS1137, a new IS3 family element from Mycobacterium smegmatis. Microbiology 140, 2821-2828.
16. Gerischer, U. & Dürre, P. (1993). Sequencing using custom designed oligonucleotides. In Methods in Molecular Biology: DNA Sequencing Laboratory Protocols, pp. 75-81. Edited by H. G. Griffin & A. M. Griffin. Totowa, NJ: The Human Press.
17. Gerischer, U. & Ornston, L. N. (1995). Spontaneous mutations in pcaH,G, structural genes for protocatechuate 3,4-dioxygenase in Acinetobacter calcoaceticus. J Bacteriol 177, 1336-1347.
18. Hartnett, G. B., Averhoff, B. & Ornston, L. N. (1990). Selection of Acinetobacter calcoaceticus mutants deficient in pobA, a member of a supraoperonic cluster. J Bacteriol 172, 6160-6161.
19. Ino, T. & Nichimura, Y. (1989). Taxonomic studies of Acinetobacter species based on outer membrane protein patterns. J Gen Appl Microbiol 35, 213-224.
20. Juni, E. (1972). Interspecies transformation of Acinetobacter: genetic evidence for a ubiquitous genus. J Bacteriol 112, 917-931.
21. Juni, E. & Janik, A. (1969). Transformation of Acinetobacter calcoaceticus (Bacterium anitratum). J Bacteriol 98, 281-288.
22. Kloos, D.-U., DiMarco, A. A., Elsemore, D. A., Timmis, K. & Ornston, L. N. (1995). Distance between alleles as a determinant of linkage in Acinetobacter calcoaceticus. J Bacteriol 177, 6015-6017.
23. Kowalchuk, G. A., Hartnett, G. B., Benson, A., Houghton, J. E., Ngai, K. L. & Ornston, L. N. (1994). Contrasting patterns of evolutionary divergence within the Acinetobacter calcoaceticus pca operon. Gene 146, 23-30.
24. Lawrence, J. G., Ochman, H. & Hartl, D. L. (1992). The evolution of insertion sequences within enteric bacteria. Genetics 131, 9-20.
25. Machida, C. & Machida, Y. (1987). Base substitutions in transposable element IS1 cause DNA duplication of variable length at the target site for plasmid cointegration. EMBO J 6, 1799-1803.
26. Polard, P. & Chandler, M. (1995). Bacterial transposases and retroviral integrases. Mol Microbiol 15, 13-23.
27. Polard, P., Prère, M. F., Chandler, M. & Fayet, O. (1991). Programmed translational frameshifting and initiation at an AUU codon in gene expression of bacterial insertion sequence IS911. J Mol Biol 222, 465-477.
28. Prère, M. F., Chandler, M. & Fayet, O. (1990). Transposition in Shigella dysenteriae: isolation and analysis of IS911, a new member of the IS3 group of insertion sequences. J Bacteriol 172, 4090-4099.
29. Sambrook, J., Fritsch, E. F. & Maniatis, T. (1989). Molecular Cloning: a Laboratory Manual, 2nd edn. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory.
30. Sawyer, S. A., Dykhuizen, D. E., DuBose, R. F., Green, L., Nutangadura-Nhlanga, T., Wolczyk, D. F. & Hartl, D. L. (1987). Distribution and abundance of insertion sequences among natural isolates of Escherichi coli. Genetics 115, 51-63.
31. Sekine, Y., Eisaki, N. & Ohtsubo, E. (1994). Translational control in production of transposase and in tranposition of insertion sequence IS3. J Mol Biol 235, 1406-1420.
32. Shanley, M. S., Harrison, A., Parales, R. E., Kowalchuk, G., Mitchell, D. J. & Ornston, L. N. (1994). Unusual G + C content and codon usage in catIJF, a segment of the ben-cat supra-operonic cluster in the Acinetobacter calcoaceticus chromosome. Gene 138, 59-65.
33. Spielmann-Ryser, J., Moser, M., Kast, P. & Weber, H. (1991). Factors determining the frequency of plasmid cointegrate formation mediated by insertion sequence IS3 from Escherichia coli. Mol Gen Genet 226, 441-448.
34. Timmerman, K. P. & Tu, C.-P. D. (1985). Complete sequence of IS3. Nucleic Acids Res 13, 2127-2139.
35. Vogële, K., Schwartz, E., Welz, C., Schiltz, E. & Rak, B. (1991). High-level ribosomal frameshifting directs the synthesis of IS150 gene products. Nucleic Acids Res 19, 4377-4385.
36. White, P. J., Hunter, I. S. & Fewson, C. A. (1991). Codon usage in Acinetobacter structural genes. In The Biology of Acinetobacter, pp. 251-258. Edited by K. Towner, E. Bergogne-Bérézin & C. A. Fewson. New York & London: Plenum Press.
37. Wiedmann-Al-Ahmad, M., Tichy, H.-V. & Schön, G. (1994). Characterization of Acinetobacter type strains and isolates obtained from wastewater treatment plants by PCR fingerprinting. Appl Environ Microbiol 60, 4066-4071.
38. Zhitomirsky, D., Rosenheck, S., Rosenberg, E. & Kaplan, N. (1994). Isolation and characterization of a novel Acinetobacter insertion element. Acinetobacter '94: Third International Symposium on the Biology of Acinetobacter. Abstract 29.