Comparative genomic analysis of 45 type strains of the genus Bifidobacterium: a snapshot of its genetic diversity and evolution.
Bifidobacteria are well known for their human health-promoting effects and are therefore widely applied in the food industry. Members of the Bifidobacterium genus were first identified from the human gastrointestinal tract and were then found to be widely distributed across various ecological niches...
| Main Authors: | , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Public Library of Science (PLoS)
2015-01-01
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| Series: | PLoS ONE |
| Online Access: | http://europepmc.org/articles/PMC4319941?pdf=render |
| _version_ | 1811263207471316992 |
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| author | Zhihong Sun Wenyi Zhang Chenyi Guo Xianwei Yang Wenjun Liu Yarong Wu Yuqin Song Lai Yu Kwok Yujun Cui Bilige Menghe Ruifu Yang Liangping Hu Heping Zhang |
| author_facet | Zhihong Sun Wenyi Zhang Chenyi Guo Xianwei Yang Wenjun Liu Yarong Wu Yuqin Song Lai Yu Kwok Yujun Cui Bilige Menghe Ruifu Yang Liangping Hu Heping Zhang |
| author_sort | Zhihong Sun |
| collection | DOAJ |
| description | Bifidobacteria are well known for their human health-promoting effects and are therefore widely applied in the food industry. Members of the Bifidobacterium genus were first identified from the human gastrointestinal tract and were then found to be widely distributed across various ecological niches. Although the genetic diversity of Bifidobacterium has been determined based on several marker genes or a few genomes, the global diversity and evolution scenario for the entire genus remain unresolved. The present study comparatively analyzed the genomes of 45 type strains. We built a robust genealogy for Bifidobacterium based on 402 core genes and defined its root according to the phylogeny of the tree of bacteria. Our results support that all human isolates are of younger lineages, and although species isolated from bees dominate the more ancient lineages, the bee was not necessarily the original host for bifidobacteria. Moreover, the species isolated from different hosts are enriched with specific gene sets, suggesting host-specific adaptation. Notably, bee-specific genes are strongly associated with respiratory metabolism and are potential in helping those bacteria adapt to the oxygen-rich gut environment in bees. This study provides a snapshot of the genetic diversity and evolution of Bifidobacterium, paving the way for future studies on the taxonomy and functional genomics of the genus. |
| first_indexed | 2024-04-12T19:40:34Z |
| format | Article |
| id | doaj.art-2ddbd0015f694a0688df28e2ddcbbc46 |
| institution | Directory Open Access Journal |
| issn | 1932-6203 |
| language | English |
| last_indexed | 2024-04-12T19:40:34Z |
| publishDate | 2015-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj.art-2ddbd0015f694a0688df28e2ddcbbc462022-12-22T03:19:05ZengPublic Library of Science (PLoS)PLoS ONE1932-62032015-01-01102e011791210.1371/journal.pone.0117912Comparative genomic analysis of 45 type strains of the genus Bifidobacterium: a snapshot of its genetic diversity and evolution.Zhihong SunWenyi ZhangChenyi GuoXianwei YangWenjun LiuYarong WuYuqin SongLai Yu KwokYujun CuiBilige MengheRuifu YangLiangping HuHeping ZhangBifidobacteria are well known for their human health-promoting effects and are therefore widely applied in the food industry. Members of the Bifidobacterium genus were first identified from the human gastrointestinal tract and were then found to be widely distributed across various ecological niches. Although the genetic diversity of Bifidobacterium has been determined based on several marker genes or a few genomes, the global diversity and evolution scenario for the entire genus remain unresolved. The present study comparatively analyzed the genomes of 45 type strains. We built a robust genealogy for Bifidobacterium based on 402 core genes and defined its root according to the phylogeny of the tree of bacteria. Our results support that all human isolates are of younger lineages, and although species isolated from bees dominate the more ancient lineages, the bee was not necessarily the original host for bifidobacteria. Moreover, the species isolated from different hosts are enriched with specific gene sets, suggesting host-specific adaptation. Notably, bee-specific genes are strongly associated with respiratory metabolism and are potential in helping those bacteria adapt to the oxygen-rich gut environment in bees. This study provides a snapshot of the genetic diversity and evolution of Bifidobacterium, paving the way for future studies on the taxonomy and functional genomics of the genus.http://europepmc.org/articles/PMC4319941?pdf=render |
| spellingShingle | Zhihong Sun Wenyi Zhang Chenyi Guo Xianwei Yang Wenjun Liu Yarong Wu Yuqin Song Lai Yu Kwok Yujun Cui Bilige Menghe Ruifu Yang Liangping Hu Heping Zhang Comparative genomic analysis of 45 type strains of the genus Bifidobacterium: a snapshot of its genetic diversity and evolution. PLoS ONE |
| title | Comparative genomic analysis of 45 type strains of the genus Bifidobacterium: a snapshot of its genetic diversity and evolution. |
| title_full | Comparative genomic analysis of 45 type strains of the genus Bifidobacterium: a snapshot of its genetic diversity and evolution. |
| title_fullStr | Comparative genomic analysis of 45 type strains of the genus Bifidobacterium: a snapshot of its genetic diversity and evolution. |
| title_full_unstemmed | Comparative genomic analysis of 45 type strains of the genus Bifidobacterium: a snapshot of its genetic diversity and evolution. |
| title_short | Comparative genomic analysis of 45 type strains of the genus Bifidobacterium: a snapshot of its genetic diversity and evolution. |
| title_sort | comparative genomic analysis of 45 type strains of the genus bifidobacterium a snapshot of its genetic diversity and evolution |
| url | http://europepmc.org/articles/PMC4319941?pdf=render |
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