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 |