Paradis Sonia, Boissinot Maurice, Paquette Nancy, Bélanger Simon D, Martel Eric A, Boudreau Dominique K, Picard François J, Ouellette Marc, Roy Paul H, Bergeron Michel G
Infectio Diagnostic (I.D.I.) Inc., Sainte-Foy, Québec, Canada G1V 2K8.
Division de microbiologie, faculté de Médecine, Université Laval, Sainte-Foy, Québec, Canada G1K 7P4.
Int J Syst Evol Microbiol. 2005 Sep;55(Pt 5):2013-2025. doi: 10.1099/ijs.0.63539-0.
The phylogeny of enterobacterial species commonly found in clinical samples was analysed by comparing partial sequences of their elongation factor Tu gene (tuf) and of their F-ATPase beta-subunit gene (atpD). An 884 bp fragment for tuf and an 884 or 871 bp fragment for atpD were sequenced for 96 strains representing 78 species from 31 enterobacterial genera. The atpD sequence analysis exhibited an indel specific to Pantoea and Tatumella species, showing, for the first time, a tight phylogenetic affiliation between these two genera. Comprehensive tuf and atpD phylogenetic trees were constructed and are in agreement with each other. Monophyletic genera are Cedecea, Edwardsiella, Proteus, Providencia, Salmonella, Serratia, Raoultella and Yersinia. Analogous trees based on 16S rRNA gene sequences available from databases were also reconstructed. The tuf and atpD phylogenies are in agreement with the 16S rRNA gene sequence analysis, and distance comparisons revealed that the tuf and atpD genes provide better discrimination for pairs of species belonging to the family Enterobacteriaceae. In conclusion, phylogeny based on tuf and atpD conserved genes allows discrimination between species of the Enterobacteriaceae.
通过比较临床样本中常见肠杆菌科细菌的延伸因子Tu基因（tuf）和F-ATP酶β亚基基因（atpD）的部分序列，分析了这些细菌的系统发育。对代表31个肠杆菌属78个物种的96株菌株进行了测序，tuf基因测序片段为884 bp，atpD基因测序片段为884或871 bp。atpD序列分析显示了泛菌属和塔特姆菌属特有的插入缺失，首次表明这两个属之间存在紧密的系统发育关系。构建了完整的tuf和atpD系统发育树，二者相互吻合。单系属包括西地西菌属、爱德华菌属、变形杆菌属、普罗威登斯菌属、沙门菌属、沙雷菌属、拉乌尔菌属和耶尔森菌属。还根据数据库中可用的16S rRNA基因序列重建了类似的系统发育树。tuf和atpD系统发育与16S rRNA基因序列分析结果一致，距离比较表明，tuf和atpD基因对肠杆菌科细菌物种对的区分能力更强。总之，基于tuf和atpD保守基因的系统发育分析能够区分肠杆菌科细菌的不同物种。
