Phylogeny and prediction of genetic similarity of Cronobacter and related taxa by multilocus sequence analysis (MLSA)

International Journal of Food Microbiology

Volumn 136, Issue 2, 2009, Pages 152-158

  Kuhnert, Peter ^a   Korczak, Bozena M ^a   Stephan, Roger ^b   Joosten, Han ^c   Iversen, Carol ^b,d  

^a UNIVERSITY OF BERN   (Switzerland)

^b UNIVERSITY OF ZURICH   (Switzerland)

^c NESTLÉ RESEARCH CENTER   (Switzerland)

^d UNIVERSITY COLLEGE DUBLIN   (Ireland)

Author keywords

Enterobacteriaceae; Phylogeny; Taxonomy

Indexed keywords

BACTERIAL DNA; CYTOSINE; GUANINE; RECA PROTEIN; RECN PROTEIN;

ARTICLE; BACTERIAL GENETICS; CONTROLLED STUDY; DNA CONTENT; ENTEROBACTER SAKAZAKII; GENE SEQUENCE; GENETIC SIMILARITY; MOLECULAR PHYLOGENY; MULTILOCUS SEQUENCE TYPING; NONHUMAN; NUCLEOTIDE SEQUENCE; PREDICTION; SPECIES DIFFERENTIATION; SPECIES IDENTIFICATION; TAXONOMIC IDENTIFICATION; UNINDEXED SEQUENCE;

BACTERIAL TYPING TECHNIQUES; BASE COMPOSITION; CLUSTER ANALYSIS; COMPARATIVE GENOMIC HYBRIDIZATION; DNA, BACTERIAL; ENTEROBACTERIACEAE; GENES, BACTERIAL; GENETIC VARIATION; GENOME, BACTERIAL; PHYLOGENY; SEQUENCE ANALYSIS, DNA; SPECIES SPECIFICITY;

ENTEROBACTER; ENTEROBACTERIACEAE;

EID: 70449618774     PISSN: 01681605     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.ijfoodmicro.2009.02.022     Document Type: Article

References (22)

1. Achtman M., Morelli G., Zhu P., Wirth T., Diehl I., Kusecek B., Vogler A.J., Wagner D.M., Allender C.J., Easterday W.R., Chenal-Francisque V., Worsham P., Thomson N.R., Parkhill J., Lindler L.E., Carniel E., and Keim P. Microevolution and history of the plague bacillus, Yersinia pestis. Proceedings of the National Academy of Sciences of the United States of America 101 (2004) 17,837-17,842
2. Achtman M., Zurth K., Morelli G., Torrea G., Guiyoule A., and Carniel E. Yersinia pestis, the cause of plague, is a recently emerged clone of Yersinia pseudotuberculosis. Proceedings of the National Academy of Sciences of the United States of America 96 (1999) 14,043-14,048
3. Bascomb S., Lapage S.P., Willcox W.R., and Curtis M.A. Numerical classification of the tribe Klebsielleae. Journal of General Microbiology 66 (1971) 279-295
4. Bisgaard M., Christensen J.P., Bojesen A.M., and Christensen H. Avibacterium endocarditidis sp. nov., isolated from valvular endocarditis in chickens. International Journal of Systematic and Evolutionary Microbiology 57 (2007) 1729-1734
5. Brenner D.J., and Farmer III J.J. Family Enterobacteriaceae. In: Garrity R. (Ed). Bergey's Manual of Systematic Bacteriology (2005), Springer, New York
6. Christensen H., Kuhnert P., Busse H.J., Frederiksen W.C., and Bisgaard M. Proposed minimal standards for the description of genera, species and subspecies of the Pasteurellaceae. International Journal of Systematic and Evolutionary Microbiology 57 (2007) 166-178
7. Farmer III J.J., Asbury M.A., Hickman F.W., Brenner D.J., and The Enterobacteriaceae Study Group (USA). Enterobacter sakazakii: a new species of "Enterobacteriaceae" isolated from clinical specimens. International Journal of Systematic Bacteriology 30 (1980) 569-584
8. Gevers D., Cohan F.M., Lawrence J.G., Spratt B.G., Coenye T., Feil E.J., Stackebrandt E., Van de P.Y., Vandamme P., Thompson F.L., and Swings J. Opinion: re-evaluating prokaryotic species. Nature Reviews Microbiology 3 (2005) 733-739
9. Goris J., Konstantinidis K.T., Klappenbach J.A., Coenye T., Vandamme P., and Tiedje J.M. DNA-DNA hybridization values and their relationship to whole-genome sequence similarities. International Journal of Systematic and Evolutionary Microbiology 57 (2007) 81-91
10. Iversen C., Lehner A., Mullane N., Bidlas E., Cleenwerck I., Marugg J., Fanning S., Stephan R., and Joosten H. The taxonomy of Enterobacter sakazakii: proposal of a new genus Cronobacter gen. nov. and descriptions of Cronobacter sakazakii comb. nov. Cronobacter sakazakii subsp. sakazakii, comb. nov., Cronobacter sakazakii subsp. malonaticus subsp. nov., Cronobacter turicensis sp. nov., Cronobacter muytjensii sp. nov., Cronobacter dublinensis sp. nov. and Cronobacter genomospecies 1. BMC Evolutionary Biology 7 (2007) 64
11. Iversen C., Mullane N., McCardell B., Tall B.D., Lehner A., Fanning S., Stephan R., and Joosten H. Cronobacter gen. nov., a new genus to accommodate the biogroups of Enterobacter sakazakii, and proposal of Cronobacter sakazakii gen. nov. comb. nov., C. malonaticus sp. nov., C. turicensis sp. nov., C. muytjensii sp. nov., C. dublinensis sp. nov., Cronobacter genomospecies 1, and of three subspecies, C. dublinensis sp. nov. subsp. dublinensis subsp. nov., C. dublinensis sp. nov. subsp. lausannensis subsp. nov., and C. dublinensis sp. nov. subsp. lactaridi subsp. nov. International Journal of Systematic and Evolutionary Microbiology 58 (2008) 1442-1447
12. Konstantinidis K.T., Ramette A., and Tiedje J.M. The bacterial species definition in the genomic era. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences 361 (2006) 1929-1940
13. Konstantinidis K.T., and Tiedje J.M. Genomic insights that advance the species definition for prokaryotes. Proceedings of the National Academy of Sciences of the United States of America 102 (2005) 2567-2572
14. Kuhnert P., and Korczak B.M. Prediction of whole genome DNA-DNA similarity, determination of G+C content and phylogenetic analysis within the family Pasteurellaceae by multilocus sequence analysis (MLSA). Microbiology 152 (2006) 2537-2548
15. Kuhnert P., Korczak B.M., Christensen H., and Bisgaard M. Emended description of Actinobacillus capsulatus Arseculeratne 1962, 38AL. International Journal of Systematic and Evolutionary Microbiology 57 (2007) 625-632
16. Paradis S., Boissinot M., Paquette N., Belanger S.D., Martel E.A., Boudreau D.K., Picard F.J., Ouellette M., Roy P.H., and Bergeron M.G. Phylogeny of the Enterobacteriaceae based on genes encoding elongation factor Tu and F-ATPase beta-subunit. International Journal of Systematic and Evolutionary Microbiology 55 (2005) 2013-2025
17. Stackebrandt E., Frederiksen W., Garrity G.M., Grimont P.A., Kampfer P., Maiden M.C., Nesme X., Rossello-Mora R., Swings J., Truper H.G., Vauterin L., Ward A.C., and Whitman W.B. Report of the ad hoc committee for the re-evaluation of the species definition in bacteriology. International Journal of Systematic and Evolutionary Microbiology 52 (2002) 1043-1047
18. Stephan R., Van Trappen S., Cleenwerck I., Iversen C., Joosten H., De Vos P., and Lehner A. Enterobacter pulveris sp. nov., isolated from fruit powder, infant formula and an infant formula production environment. International Journal of Systematic and Evolutionary Microbiology 58 (2008) 237-241
19. Stephan R., Van Trappen S., Cleenwerck I., Vancanneyt M., De Vos P., and Lehner A. Enterobacter turicensis sp. nov. and Enterobacter helveticus sp. nov., isolated from fruit powder. International Journal of Systematic and Evolutionary Microbiology 57 (2007) 820-826
20. Thompson J.D., Gibson T.J., Plewniak F., Jeanmougin F., and Higgins D.G. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Research 25 (1997) 4876-4882
21. Vandamme P., Pot B., Gillis M., De Vos P., Kersters K., and Swings J. Polyphasic taxonomy, a consensus approach to bacterial systematics. Microbiological Reviews 60 (1996) 407-438
22. Zeigler D.R. Gene sequences useful for predicting relatedness of whole genomes in bacteria. International Journal of Systematic and Evolutionary Microbiology 53 (2003) 1893-1900