Independent origins of subgroup B1 + B2 and subgroup B3 metallo-β-lactamases

Journal of Molecular Evolution

Volumn 59, Issue 1, 2004, Pages 133-141

  Hall, Barry G ^a   Salipante, Stephen J ^a   Barlow, Miriam ^a  

^a UNIVERSITY OF ROCHESTER   (United States)

Author keywords

Ambler classification; Metallo lactamases; Subgroup B1 + B2; Subgroup B3

Indexed keywords

AMPICILLIN; AZTREONAM; BETA LACTAMASE; CEFEPIME; CEFOTAXIME; CEFOXITIN; CEFTAZIDIME; CEFUROXIME; IMIPENEM; MEROPENEM; PIPERACILLIN;

ARTICLE; CONTROLLED STUDY; ENZYME ANALYSIS; GENE FUNCTION; GRAM NEGATIVE BACTERIUM; GRAM POSITIVE BACTERIUM; HYDROLYSIS; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; SEQUENCE HOMOLOGY;

ARCHAEA; BACTERIA; BAYES THEOREM; BETA-LACTAMASES; CLONING, MOLECULAR; COMPUTATIONAL BIOLOGY; DATABASES, NUCLEIC ACID; DNA PRIMERS; DRUG RESISTANCE, BACTERIAL; EVOLUTION, MOLECULAR; GENE EXPRESSION; MODELS, GENETIC; PHYLOGENY;

BACTERIA (MICROORGANISMS); NEGIBACTERIA; POSIBACTERIA;

EID: 3042808576     PISSN: 00222844     EISSN: None     Source Type: Journal    
DOI: None     Document Type: Article

References (29)

1. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ (1990) Basic local alignment search tool. J Mol Biol 215:403-410
2. Altschul SF, Madden TL, Schäffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ (1997) Gapped BLAST and PSI-BLAST: A new generation of protein database search programs. Nucleic Acids Res 25:3389-3402
3. Ambler RP (1980) The structure of β-lactamases. Phil Trans R Soc Lond B Biol Sci 289:321-331
4. Avison MB, Higgins CS, vonHeldreich CJ, Bennett PM, Walsh TR (2001) Plasmid location and molecular heterogeneity of the L1 and L2 β-lactamase genes of Stenotrophomonas maltophilia. Antimicrob Agents Chemother 45:413-419
5. Barlow M, Hall BG (2002a) Origin and evolution of the AmpC β-lactamases of Citrobacter freundii. Antimicrob Agents Chemother 46:1190-1198
6. Barlow M, Hall BG (2002b) Phylogenetic analysis shows that the OXA β-lactamase genes have been on plasmids for millions of years. J Mol Evol 55:314-321
7. Barlow M, Hall BG (2003) Experimental prediction of the evolution of cefepime resistance from the CMY-2 AmpC β-lactamase. Genetics 164:23-29
8. Brown JR, Douady CJ, Italia MJ, Marshall WE, Stanhope MJ (2001) Universal trees based on large combined protein sequence data sets. Nat Genet 28:281-285
9. Bush K (1998) Metallo-β-lactamases: A class apart. Clin Infect Dis 27(Suppl 1):S48-S53
10. Feng D-F, Cho G, Doolittle RF (1997) Determining the divergence times with a protein clock: Update and reevaluation. Proc Natl Acad Sci USA 94:13028-13033
11. Galleni M, Lamotte-Brasseur J, Rossolini GM, Spencer J, Dideberg O, Frere JM (2001) Standard numbering scheme for class B β-lactamases. Antimicrob Agents Chemother 45:660-663
12. Gupta RS (2001) The branching order and phylogenetic placement of species from completed bacterial genomes, based on conserved indels found in various proteins. Int Microbiol 4:187-202
13. Hall BG (2001) CodonAlign. Rochester, NY
14. Hall BG, Salipante S, Barlow M (2003) The metallo-β-lactamases fall into two distinct phylogenetic groups. J Mol Evol 57: 249-254
15. Huelsenbeck JP, Ronquist F (2001) MrBayes: Bayesian inference of phylogeny. Bioinformatics 17:754-755
16. Livermore DM (1996) Are all β-lactams created equal? Scand J Infect Dis Suppl 101:33-43
17. Mau B, Newton M (1997) Phylogenetic inference for binary data on dendrograms using Markov chain Monte Carlo. J Comp Graph Stat 6:122-131
18. Mau B, Newton M, Larget B (1999) Bayesian phylogenetic inference via Markov chain Monte Carlo methods. Biometrics 55:1-12
19. Medeiros AA (1997) Evolution and dissemination of β-lactamases accelerated by generations of β-lactam antibiotics. Clin Infect Dis 24:S19-S45
20. National Committee for Clinical Laboratory Standards (1999) Performance standards for antimicrobial susceptibility testing; ninth informational supplement. NCCLS Document M100-S9. National Committee for Clinical Laboratory Standards, Wayne, PA
21. Nikaido H, Normark S (1987) Sensitivity of Escherichla coli to various β-lactams is determined by the interplay of outer membrane permeability and degradation by periplasmic β-lactamases: a quantitative predictive treatment. Mol Microbiol 1:29-36
22. Rannala B, Yang ZH (1996) Probability distribution of molecular evolutionary trees: A new method of phylogenetic inference. J Mol Evol 43:304-311
23. Rasmussen BA, Bush K (1997) Carbapenem-hydrolyzing β-lactamases. Antimicrob Agents Chemother 41:223-232
24. Sabath LD, Abraham EP (1966) Zinc as a cofactor for cephalosporinase from Bacillus cereus 569. Biochem J 98:11C-3C
25. Swofford DL (2000) PAUP*. Phylogenetic analysis using parsimony (*and other methods). Sinauer Associates, Sunderland, MA
26. Tatusova TA, Madden TL (1999) BLAST 2 Sequences, a new tool for comparing protein and nucleotide sequences. FEMS Microbiol Lett 174:247-250
27. Tavaré L (1986) Some probabilistic and statistical problems on the analysis of DNA sequences. Lect Math Life Sci 17:57-86
28. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG (1997) The ClustalX windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25:4875-4882
29. Woese CR (1987) Bacterial evolution. Microbiol Rev 51:221-271