| RRC ID |
55151
|
| 著者 |
Hesse C, Schulz F, Bull CT, Shaffer BT, Yan Q, Shapiro N, Hassan KA, Varghese N, Elbourne LDH, Paulsen IT, Kyrpides N, Woyke T, Loper JE.
|
| タイトル |
Genome-based evolutionary history of Pseudomonas spp.
|
| ジャーナル |
Environ Microbiol
|
| Abstract |
Pseudomonas is a large and diverse genus of Gammaproteobacteria. To provide a framework for discovery of evolutionary and taxonomic relationships of these bacteria, we compared the genomes of type strains of 163 species and 3 additional subspecies of Pseudomonas, including 118 genomes sequenced herein. A maximum likelihood phylogeny of the 166 type strains based on protein sequences of 100 single-copy orthologous genes revealed thirteen groups of Pseudomonas, composed of two to sixty three species each. Pairwise average nucleotide identities and alignment fractions were calculated for the data set of the 166 type strains and 1224 genomes of Pseudomonas available in public databases. Results revealed that 394 of the 1224 genomes were distinct from any type strain, suggesting that the type strains represent only a fraction of the genomic diversity of the genus. The core genome of Pseudomonas was determined to contain 794 genes conferring primarily housekeeping functions. The results of this study provide a phylogenetic framework for future studies aiming to resolve the classification and phylogenetic relationships, identify new gene functions and phenotypes, and explore the ecological and metabolic potential of the Pseudomonas spp.
|
| 巻・号 |
20(6)
|
| ページ |
2142-2159
|
| 公開日 |
2018-6-1
|
| DOI |
10.1111/1462-2920.14130
|
| PMID |
29633519
|
| MeSH |
Bacterial Proteins
Gene Expression Regulation, Bacterial
Genome, Bacterial*
Genomics*
Phylogeny*
Pseudomonas / classification*
Pseudomonas / genetics*
|
| IF |
5.147
|
| 引用数 |
20
|
| リソース情報 |
| 一般微生物 |
JCM 10630
JCM 18415
JCM 18416
JCM 19513
JCM 21544
JCM 21621
JCM 3352
JCM 14761
JCM 12285
JCM 14963
JCM 18195
JCM 2783
JCM 15604 |
