Phylogenetic analysis reveals the taxonomically diverse distribution of the Pseudomonas putida group
| العنوان: | Phylogenetic analysis reveals the taxonomically diverse distribution of the Pseudomonas putida group |
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| المؤلفون: | Takayuki Ezaki, Shoko Ohji, Atsushi Yamazoe, Kenta Yonezuka, Daisuke Kasai, Jun Shimodaira, Masao Fukuda, Nobuyuki Fujita, Akira Hosoyama, Michiro Tabata |
| المصدر: | The Journal of General and Applied Microbiology. 63:1-10 |
| بيانات النشر: | Microbiology Research Foundation, 2017. |
| سنة النشر: | 2017 |
| مصطلحات موضوعية: | 0301 basic medicine, Genetics, Phylogenetic tree, Sequence analysis, 030106 microbiology, Biology, 16S ribosomal RNA, biology.organism_classification, rpoB, Applied Microbiology and Biotechnology, Microbiology, Pseudomonas putida, Housekeeping gene, 03 medical and health sciences, Phylogenetic diversity, Gene |
| الوصف: | Pseudomonas putida is well-known for degradation activities for a variety of compounds and its infections have been reported. Thus, P. putida includes both clinical and nonclinical isolates. To date, no reports have examined the phylogenetic relationship between clinical and nonclinical isolates of the P. putida group. In this study, fifty-nine strains of P. putida group containing twenty-six clinical, and thirty-three nonclinical, isolates, were subjected to phylogenetic and taxonomic analyses based on 16S rRNA gene sequences and nine housekeeping gene sequences, including argS, dnaN, dnaQ, era, gltA, gyrB, ppnK, rpoB, and rpoD, to obtain insights into the diversity of species in this group. More than 97.6% similarity was observed among the 16S rRNA gene sequences of all the strains examined, indicating that the resolution of 16S rRNA gene sequences is inadequate. Phylogenetic analysis based on the individual housekeeping genes listed above improved the resolution of the phylogenetic trees, which are different from each other. Multilocus sequence analysis (MLSA) based on the concatenated sequences of the nine genes significantly improved the resolution of the phylogenetic tree, and yielded approximately the same results as average nucleotide identity (ANI) analysis, suggesting its high reliability. ANI analysis classified the fifty-nine strains into twenty-six species containing seventeen singletons and nine strain clusters based on the 95% threshold. It also indicated the mixed distribution of clinical and nonclinical isolates in the six clusters, suggesting that the genomic difference between clinical and nonclinical isolates of the P. putida group is subtle. The P. putida type strain NBRC 14164T is a singleton that is independently located from the P. putida strains distributed among the six clusters, suggesting that the classification of these strains and the differentiation of species in the P. putida group should be re-examined. This study greatly expands insights into the phylogenetic diversity of the P. putida group. |
| تدمد: | 1349-8037 0022-1260 |
| URL الوصول: | https://explore.openaire.eu/search/publication?articleId=doi_________::aaddf0c4931f5fca0e2ff24ef8b43738 https://doi.org/10.2323/jgam.2016.06.003 |
| حقوق: | OPEN |
| رقم الأكسشن: | edsair.doi...........aaddf0c4931f5fca0e2ff24ef8b43738 |
| قاعدة البيانات: | OpenAIRE |
| تدمد: | 13498037 00221260 |
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