RRC ID 46894
著者 Tamura T, Matsuzawa T, Oji S, Ichikawa N, Hosoyama A, Katsumata H, Yamazoe A, Hamada M, Suzuki K, Gonoi T, Fujita N.
タイトル A genome sequence-based approach to taxonomy of the genus Nocardia.
ジャーナル Antonie Van Leeuwenhoek
Abstract The genus Nocardia includes both pathogens and producers of useful secondary metabolites. Although 16S rRNA analysis is required to accurately discriminate among phylogenetic relationships of the Nocardia species, most branches of 16S rRNA-based phylogenetic trees are not reliable. In this study, we performed in silico analyses of the genome sequences of Nocardia species in order to understand their diversity and classification for their identification and applications. Draft genome sequences of 26 Nocardia strains were determined. Phylogenetic trees were prepared on the basis of multilocus sequence analysis of the concatenated sequences of 12 genes (atpD-dnaJ-groL1-groL2-gyrB-recA-rpoA-secA-secY-sodA-trpB-ychF) and a bidirectional best hit. To elucidate the evolutionary relationships of these genes, the genome-to-genome distance was investigated on the basis of the average nucleotide identity, DNA maximal unique matches index, and genome-to-genome distance calculator. The topologies of all phylogenetic trees were found to be essentially similar to each other. Furthermore, whole genome-derived and multiple gene-derived relationships were found to be suitable for extensive intra-genus assessment of the genus Nocardia.
巻・号 102(3)
ページ 481-91
公開日 2012-10-1
DOI 10.1007/s10482-012-9780-5
PMID 22836677
MeSH Classification / methods* Computational Biology / methods Genetic Variation Genome, Bacterial* Humans Multilocus Sequence Typing Nocardia / classification* Nocardia / genetics* Phylogeny
IF 2.674
引用数 20
WOS 分野 MICROBIOLOGY
リソース情報
病原微生物 IFM 0236 IFM 0237 IFM 0239 IFM 0245 IFM 0283 IFM 0319 IFM 0330 IFM 0333 IFM 0354 IFM 0372 IFM 0575 IFM 0706 IFM 0784 IFM 0803 IFM 0937 IFM 10001 IFM 10029 IFM 10084 IFM 10086 IFM 10145 IFM 10152 IFM 10175 IFM 10235 IFM 10366 IFM 10554 IFM 10572 IFM 10633