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Genomic insights into the taxonomic status of the Bacillus cereus group
The identification and phylogenetic relationships of bacteria within the Bacillus cereus group are controversial. This study aimed at determining the taxonomic affiliations of these strains using the whole-genome sequence-based Genome BLAST Distance Phylogeny (GBDP) approach. The GBDP analysis clear...
Autores principales: | , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group
2015
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4571650/ https://www.ncbi.nlm.nih.gov/pubmed/26373441 http://dx.doi.org/10.1038/srep14082 |
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author | Liu, Yang Lai, Qiliang Göker, Markus Meier-Kolthoff, Jan P. Wang, Meng Sun, Yamin Wang, Lei Shao, Zongze |
author_facet | Liu, Yang Lai, Qiliang Göker, Markus Meier-Kolthoff, Jan P. Wang, Meng Sun, Yamin Wang, Lei Shao, Zongze |
author_sort | Liu, Yang |
collection | PubMed |
description | The identification and phylogenetic relationships of bacteria within the Bacillus cereus group are controversial. This study aimed at determining the taxonomic affiliations of these strains using the whole-genome sequence-based Genome BLAST Distance Phylogeny (GBDP) approach. The GBDP analysis clearly separated 224 strains into 30 clusters, representing eleven known, partially merged species and accordingly 19–20 putative novel species. Additionally, 16S rRNA gene analysis, a novel variant of multi-locus sequence analysis (nMLSA) and screening of virulence genes were performed. The 16S rRNA gene sequence was not sufficient to differentiate the bacteria within this group due to its high conservation. The nMLSA results were consistent with GBDP. Moreover, a fast typing method was proposed using the pycA gene, and where necessary, the ccpA gene. The pXO plasmids and cry genes were widely distributed, suggesting little correlation with the phylogenetic positions of the host bacteria. This might explain why classifications based on virulence characteristics proved unsatisfactory in the past. In summary, this is the first large-scale and systematic study of the taxonomic status of the bacteria within the B. cereus group using whole-genome sequences, and is likely to contribute to further insights into their pathogenicity, phylogeny and adaptation to diverse environments. |
format | Online Article Text |
id | pubmed-4571650 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2015 |
publisher | Nature Publishing Group |
record_format | MEDLINE/PubMed |
spelling | pubmed-45716502015-09-28 Genomic insights into the taxonomic status of the Bacillus cereus group Liu, Yang Lai, Qiliang Göker, Markus Meier-Kolthoff, Jan P. Wang, Meng Sun, Yamin Wang, Lei Shao, Zongze Sci Rep Article The identification and phylogenetic relationships of bacteria within the Bacillus cereus group are controversial. This study aimed at determining the taxonomic affiliations of these strains using the whole-genome sequence-based Genome BLAST Distance Phylogeny (GBDP) approach. The GBDP analysis clearly separated 224 strains into 30 clusters, representing eleven known, partially merged species and accordingly 19–20 putative novel species. Additionally, 16S rRNA gene analysis, a novel variant of multi-locus sequence analysis (nMLSA) and screening of virulence genes were performed. The 16S rRNA gene sequence was not sufficient to differentiate the bacteria within this group due to its high conservation. The nMLSA results were consistent with GBDP. Moreover, a fast typing method was proposed using the pycA gene, and where necessary, the ccpA gene. The pXO plasmids and cry genes were widely distributed, suggesting little correlation with the phylogenetic positions of the host bacteria. This might explain why classifications based on virulence characteristics proved unsatisfactory in the past. In summary, this is the first large-scale and systematic study of the taxonomic status of the bacteria within the B. cereus group using whole-genome sequences, and is likely to contribute to further insights into their pathogenicity, phylogeny and adaptation to diverse environments. Nature Publishing Group 2015-09-16 /pmc/articles/PMC4571650/ /pubmed/26373441 http://dx.doi.org/10.1038/srep14082 Text en Copyright © 2015, Macmillan Publishers Limited http://creativecommons.org/licenses/by/4.0/ This work is licensed under a Creative Commons Attribution 4.0 International License. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in the credit line; if the material is not included under the Creative Commons license, users will need to obtain permission from the license holder to reproduce the material. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/ |
spellingShingle | Article Liu, Yang Lai, Qiliang Göker, Markus Meier-Kolthoff, Jan P. Wang, Meng Sun, Yamin Wang, Lei Shao, Zongze Genomic insights into the taxonomic status of the Bacillus cereus group |
title | Genomic insights into the taxonomic status of the Bacillus cereus group |
title_full | Genomic insights into the taxonomic status of the Bacillus cereus group |
title_fullStr | Genomic insights into the taxonomic status of the Bacillus cereus group |
title_full_unstemmed | Genomic insights into the taxonomic status of the Bacillus cereus group |
title_short | Genomic insights into the taxonomic status of the Bacillus cereus group |
title_sort | genomic insights into the taxonomic status of the bacillus cereus group |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4571650/ https://www.ncbi.nlm.nih.gov/pubmed/26373441 http://dx.doi.org/10.1038/srep14082 |
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