Diversity and evolution of the class A chromosomal beta-lactamase gene in Klebsiella pneumoniae

Antimicrobial Agents and Chemotherapy

Volumn 48, Issue 7, 2004, Pages 2400-2408

  Haeggman S ^a   Lofdahl S ^a   Paauw, A ^b   Verhoef, J ^b   Brisse, S ^b,c  

^a SWEDISH INSTITUTE FOR INFECTIOUS DISEASE CONTROL   (Sweden)

^b UNIVERSITY MEDICAL CENTER UTRECHT   (Netherlands)

^c INSTITUT PASTEUR   (France)

Author keywords

[No Author keywords available]

Indexed keywords

AMPICILLIN; AZTREONAM; BETA LACTAMASE; CEFOTAXIME; CEFTAZIDIME; CEFUROXIME; CLAVULANIC ACID; DNA TOPOISOMERASE (ATP HYDROLYSING) A; MALATE DEHYDROGENASE;

ANTIBIOTIC SENSITIVITY; ARTICLE; BACTERIAL GENE; BACTERIAL GENOME; BACTERIAL STRAIN; GENE SEQUENCE; GENETIC VARIABILITY; GYRA GENE; HOUSEKEEPING GENE; KLEBSIELLA PNEUMONIAE; LEN GENE; MOLECULAR EVOLUTION; MULTIGENE FAMILY; NONHUMAN; NUCLEOTIDE SEQUENCE; OKP GENE; PHYLOGENY; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; SHV GENE;

AMINO ACID SEQUENCE; ANTI-BACTERIAL AGENTS; BASE SEQUENCE; BETA-LACTAMASES; CHROMOSOMES, BACTERIAL; DNA GYRASE; DNA, BACTERIAL; EVOLUTION; ISOELECTRIC FOCUSING; KLEBSIELLA PNEUMONIAE; MALATE DEHYDROGENASE; MICROBIAL SENSITIVITY TESTS; MOLECULAR SEQUENCE DATA; PHYLOGENY; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION;

EID: 3042678054     PISSN: 00664804     EISSN: None     Source Type: Journal    
DOI: 10.1128/AAC.48.7.2400-2408.2004     Document Type: Article

References (54)

1. Ambler, R. P. 1980. The structure of beta-lactamases. Phil. Trans. R. Soc. Lond. B 289:321-331.
2. Ambler, R. P., A. F. Coulson, J. M. Frere, J. M. Ghuysen, B. Joris, M. Forsman, R. C. Levesque, G. Tiraby, and S. G. Waley. 1991. A standard numbering scheme for the class A beta-lactamases. Biochem. J. 276:269-270.
3. Arakawa, Y., M. Ohta, N. Kido, Y. Fujii, T. Komatsu, and N. Kato. 1986. Close evolutionary relationship between the chromosomally encoded beta-lactamase gene of Klebsiella pneumoniae and the TEM beta-lactamase gene mediated by R plasmids. FEBS Lett. 207:69-74.
4. Barlow, M., and B. G. Hall. 2002. Origin and evolution of the AmpC beta-lactamases of Citrobacter freundii. Antimicrob. Agents Chemother. 46:1190-1198.
5. Barlow, M., and B. G. Hall. 2002. Phylogenetic analysis shows that the OXA beta-lactamase genes have been on plasmids for millions of years. J. Mol. Evol. 55:314-321.
6. Barlow, M., and B. G. Hall. 2002. Predicting evolutionary potential: in vitro evolution accurately reproduces natural evolution of the TEM beta-lactamase. Genetics 160:823-832.
7. Ben Yaghlane-Bouslama, H., A. Petit, L. Sofer, J. Sirot, A. Boujnah, H. Kallel, and R. Labia. 1992. Identification of a new penicillinase in a Klebsiella pneumoniae strain of which a mutant also produces an esterase hydrolyzing cephalothin and cefotaxime. Pathol. Biol. (Paris) 40:31-35.
8. Bisercic, M., J. Y. Feutrier, and P. R. Reeves. 1991. Nucleotide sequences of the gnd genes from nine natural isolates of Escherichia coli: evidence of intragenic recombination as a contributing factor in the evolution of the polymorphic gnd locus. J. Bacteriol. 173:3894-3900.
9. Boyd, E. F., K. Nelson, F. S. Wang, T. S. Whittam, and R. K. Selander. 1994. Molecular genetic basis of allelic polymorphism in malate dehydrogenase (mdh) in natural populations of Escherichia coli and Salmonella enterica. Proc. Natl. Acad. Sci. USA 91:1280-1284.
10. Bradford, P. A. 2001. Extended-spectrum beta-lactamases in the 21st century: characterization, epidemiology, and detection of this important resistance threat. Clin. Microbiol. Rev. 14:933-951.
11. Brisse, S., and J. Verhoef. 2001. Phylogenetic diversity of Klebsiella pneumoniae and Klebsiella oxytoca clinical isolates revealed by randomly amplified polymorphic DNA, gyrA and parC gene sequencing and automated ribotyping. Int. J. Syst. Evol. Microbiol. 51:915-924.
12. Bush, K. 2001. New beta-lactamases in gram-negative bacteria: diversity and impact on the selection of antimicrobial therapy. Clin. Infect. Dis. 32:1085-1089.
13. Bush, K., G. A. Jacoby, and A. A. Medeiros. 1995. A functional classification scheme for beta-lactamases and its correlation with molecular structure. Antimicrob. Agents Chemother. 39:1211-1233.
14. Bush, K., and S. Mobashery. 1998. How beta-lactamases have driven pharmaceutical drug discovery. From mechanistic knowledge to clinical circumvention. Adv. Exp. Med. Biol. 456:71-98.
15. Chaves, J., M. G. Ladona, C. Segura, A. Coira, R. Reig, and C. Ampurdanes. 2001. SHV-1 beta-lactamase is mainly a chromosomally encoded species-specific enzyme in Klebsiella pneumoniae. Antimicrob. Agents Chemother. 45:2856-2861.
16. Dong, Y., M. K. Chelius, S. Brisse, N. Kozyrovska, G. Kovtunovych, R. Podschun, and E. W. Triplett. 2003. Comparisons between two Klebsiella: the plant endophyte K. pneumoniae 342 and a clinical isolate, K. pneumoniae MGH78578. Symbiosis 35:247-259.
17. OXY-3. Antimicrob. Agents Chemother. 47:2922-2928.
18. Granier, S. A., L. Plaisance, V. Leflon-Guibout, E. Lagier, S. Morand, F. W. Goldstein, and M. H. Nicolas-Chanoine. 2003. Recognition of two genetic groups in the Klebsiella oxytoca taxon on the basis of chromosomal beta-lactamase and housekeeping gene sequences as well as ERIC-1 R PCR typing. Int. J. Syst. Evol. Microbiol. 53:661-668.
19. Grimont, F., P. A. D. Grimont, and C. Richard. 1992. The genus Klebsiella, p. 2775-2796. In A. Balows, H. G. Trüper, M. Dworkin, W. Harder, and K.-H. Schleifer (ed.), The prokaryotes, vol. 3. Springer-Verlag, New York, N.Y.
20. Hæggman, S., S. Löfdahl, and L. G. Burman. 1997. An allelic variant of the chromosomal gene for class A beta-lactamase K2, specific for Klebsiella pneumoniae, is the ancestor of SHV-1. Antimicrob. Agents Chemother. 41:2705-2709.
21. Hasegawa, M., H. Kishino, and T. Yano. 1985. Dating of the human-ape splitting by a molecular clock of mitochondrial DNA. J. Mol. Evol. 22:160-174.
22. Henderson, T. A., K. D. Young, S. A. Denome, and P. K. Elf. 1997. AmpC and AmpH, proteins related to the class C beta-lactamases, bind penicillin and contribute to the normal morphology of Escherichia coli. J. Bacteriol. 179:6112-6121.
23. Heritage, J., F. H. M'Zali, D. Gascoyne-Binzi, and P. M. Hawkey. 1999. Evolution and spread of SHV extended-spectrum beta-lactamases in gram-negative bacteria. J. Antimicrob. Chemother. 44:309-318.
24. Hori, H., and S. Osawa. 1978. Evolution of ribosomal proteins in Enterobacteriaceae. J. Bacteriol. 133:1089-1095.
25. Hujer, A. M., K. M. Hujer, and R. A. Bonomo. 2001. Mutagenesis of amino acid residues in the SHV-1 beta-lactamase: the premier role of Gly238Ser in penicillin and cephalosporin resistance. Biochim. Biophys. Acta 1547:37-50.
26. Huletsky, A., J. R. Knox, and R. C. Levesque. 1993. Role of Ser-238 and Lys-240 in the hydrolysis of third-generation cephalosporins by SHV-type beta-lactamases probed by site-directed mutagenesis and three-dimensional modeling. J. Biol. Chem. 268:3690-3697.
27. Humeniuk, C., G. Arlet, V. Gautier, P. Grimont, R. Labia, and A. Philippon. 2002. Beta-lactamases of Kluyvera ascorbata, probable progenitors of some plasmid-encoded CTX-M types. Antimicrob. Agents Chemother. 46:3045-3049.
28. Jukes, T. H., and C. R. Cantor. 1969. Evolution of protein molecules, p. 21-132. In H. N. Munro (ed.), Mammalian protein metabolism. Academic Press, New York, N.Y.
29. Kelly, J. A., O. Dideberg, P. Charlier, J. P. Wery, M. Libert, P. C. Moews, J. R. Knox, C. Duez, C. Fraipont, B. Joris, et al. 1986. On the origin of bacterial resistance to penicillin: comparison of a beta-lactamase and a penicillin target. Science 231:1429-1431.
30. Kidgell, C., U. Reichard, J. Wain, B. Linz, M. Torpdahl, G. Dougan, and M. Achtman. 2002. Salmonella typhi, the causative agent of typhoid fever, is approximately 50,000 years old. Infect. Genet. Evol. 2:39-45.
31. Kimura, M. 1980. A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J. Mol Evol. 16:111-120.
32. Kuzin, A. P., M. Nukaga, Y. Nukaga, A. M. Hujer, R. A. Bonomo, and J. R. Knox. 1999. Structure of the SHV-1 beta-lactamase. Biochemistry 38:5720-5727.
33. Labia, R., C. Fabre, J. M. Masson, M. Barthelemy, M. Heitz, and J. S. Pitton. 1979. Klebsiella pneumoniae strains moderately resistant to ampicillin and carbenicillin: characterization of a new beta-lactamase. J. Antimicrob. Chemother. 5:375-382.
34. Livermore, D. M. 1995. Beta-lactamases in laboratory and clinical resistance. Clin. Microbiol. Rev. 8:557-584.
35. Massova, I., and S. Mobashery. 1998. Kinship and diversification of bacterial penicillin-binding proteins and beta-lactamases. Antimicrob. Agents Chemother. 42:1-17.
36. Matthew, M., and A. M. Harris. 1976. Identification of beta-lactamases by analytical isoelectric focusing: correlation with bacterial taxonomy. J. Gen. Microbiol. 94:55-67.
37. McDonald, J. H., and M. Kreitman. 1991. Adaptive protein evolution at the Adh locus in Drosophila. Nature 351:652-654.
38. Mercier, J., and R. C. Levesque. 1990. Cloning of SHV-2, OHIO-1, and OXA-6 beta-lactamases and cloning and sequencing of SHV-1 beta-lactamase. Antimicrob. Agents Chemother. 34:1577-1583.
39. Nei, M., and T. Gojobori. 1986. Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. Mol. Biol. Evol. 3:418-426.
40. Nelson, K., T. S. Whittam, and R. K. Selander. 1991. Nucleotide polymorphism and evolution in the glyceraldehyde-3-phosphate dehydrogenase gene (gapA) in natural populations of Salmonella and Escherichia coli. Proc. Natl. Acad. Sci. USA 88:6667-6671.
41. Nuesch-Inderbinen, M. T., F. H. Kayser, and H. Hachler. 1997. Survey and molecular genetics of SHV beta-lactamases in Enterobacteriaceae in Switzerland: two novel enzymes, SHV-11 and SHV-12. Antimicrob. Agents Chemother. 41:943-949.
42. Ochman, H., S. Elwyn, and N. A. Moran. 1999. Calibrating bacterial evolution. Proc. Natl. Acad. Sci. USA 96:12638-12643.
43. Ochman, H., and A. C. Wilson. 1987. Evolution in bacteria: evidence for a universal substitution rate in cellular genomes. J. Mol. Evol. 26:74-86.
44. Page, R. D. M. 1996. TreeView: an application to display phylogenetic trees on personal computers. Comput. Appl. Biosci. 12:357-358.
45. Pesole, G., M. P. Bozzetti, C. Lanave, G. Preparata, and C. Saccone. 1991. Glutamine synthetase gene evolution: a good molecular clock. Proc. Natl. Acad. Sci. USA 88:522-526.
46. Podschun, R., and U. Ullmann. 1998. Klebsiella spp. as nosocomial pathogens: epidemiology, taxonomy, typing methods, and pathogenicity factors. Clin. Microbiol. Rev. 11:589-603.
47. Poirel, L., C. Heritier, and P. Nordmann. 2004. Chromosome-encoded ambler class D beta-lactamase of Shewanella oneidensis as a progenitor of carbapenem-hydrolyzing oxacillinase. Antimicrob. Agents Chemother. 48:348-351.
48. Pollock, M. R. 1967. Origin and function of penicillinase: a problem in biochemical evolution. Br. Med. J. 4:71-77.
49. Posada, D., and K. A. Crandall. 1998. MODELTEST: testing the model of DNA substitution. Bioinformatics 14:817-818.
50. a. Rozas, J., J. C. Sanchez-DelBarrio, X. Messeguer, and R. Rozas. 2003. DnaSP, DNA polymorphism analyses by the coalescent and other methods. Bioinformatics 19:2496-2497.
51. Smith, N. H., P. Beltran, and R. K. Selander. 1990. Recombination of Salmonella phase 1 flagellin genes generates new serovars. J. Bacteriol. 172:2209-2216.
52. Swofford, D. L. 1998. PAUP*: phylogenetic analysis using parsimony (and other methods), 4.0b10 ed. Sinauer, Sunderland, Mass.
53. Tzouvelekis, L. S., and R. A. Bonomo. 1999. SHV-type beta-lactamases. Curr. Pharm. Des. 5:847-864.
54. Vogel, R. F., K. D. Entian, and D. Mecke. 1987. Cloning and sequence of the mdh structural gene of Escherichia coli coding for malate dehydrogenase. Arch. Microbiol. 149:36-42.