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Comparative Genomics of Reveals What Makes a Cosmopolitan Bacterium.

作者信息

Zhang Dechao, Zhu Zhaolu, Li Yangjie, Li Xudong, Guan Ziyu, Zheng Jinshui

机构信息

Institute of Oceanology, Chinese Academy of Sciences, Qingdao, China.

University of Chinese Academy of Sciences, Beijing, China.

出版信息

mSystems. 2021 Aug 31;6(4):e0038321. doi: 10.1128/mSystems.00383-21. Epub 2021 Jul 20.


DOI:10.1128/mSystems.00383-21
PMID:34282940
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC8407118/
Abstract

Although the strategies used by bacteria to adapt to specific environmental conditions are widely reported, fewer studies have addressed how microbes with a cosmopolitan distribution can survive in diverse ecosystems. is a versatile genus whose members are commonly found in various habitats. To better understand the mechanisms underlying the universality of , we collected 105 strains from diverse environments and performed large-scale metabolic and adaptive ability tests. We found that most members have the capacity to survive under wide ranges of temperature, salinity, and pH. According to phylogenetic and average nucleotide identity analyses, we identified 27 putative species and classified two genetic groups: groups I and II. Comparative genomic analysis revealed that the members utilize a variety of complex polysaccharides and proteins to support survival in diverse environments and also employ a number of chaperonins and transporters for this purpose. We observed that the group I species can be found in more diverse terrestrial environments and have a larger genome size than the group II species. Our analyses revealed that the expansion of transporter families drove genomic expansion in group I strains, and we identified 25 transporter families, many of which are involved in the transport of important substrates and resistance to environmental stresses and are enriched in group I strains. This study provides important insights into both the overall general genetic basis for the cosmopolitan distribution of a bacterial genus and the evolutionary and adaptive strategies of . The wide distribution characteristics of make it a valuable model for studying the adaptive strategies of bacteria that can survive in multiple habitats. In this study, we reveal that members of the genus have a cosmopolitan distribution and share an extensive adaptability that enables them to survive in various environments. The capacities shared by members, such as their diverse means of polysaccharide utilization and environmental-stress resistance, provide an important basis for their cosmopolitan distribution. Furthermore, the selective expansion of transporter families has been a main driving force for genomic evolution in . Our findings improve our understanding of the adaptive and evolutionary mechanisms of cosmopolitan bacteria and the vital genomic traits that can facilitate niche adaptation.

摘要
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8a19/8407118/2582dc6d1163/msystems.00383-21-f006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8a19/8407118/14765d069d2d/msystems.00383-21-f001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8a19/8407118/765a61bed11d/msystems.00383-21-f002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8a19/8407118/44c15a469a4b/msystems.00383-21-f003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8a19/8407118/3a97dc88fb28/msystems.00383-21-f004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8a19/8407118/44384951cf2a/msystems.00383-21-f005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8a19/8407118/2582dc6d1163/msystems.00383-21-f006.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8a19/8407118/14765d069d2d/msystems.00383-21-f001.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8a19/8407118/765a61bed11d/msystems.00383-21-f002.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8a19/8407118/44c15a469a4b/msystems.00383-21-f003.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8a19/8407118/3a97dc88fb28/msystems.00383-21-f004.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8a19/8407118/44384951cf2a/msystems.00383-21-f005.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/8a19/8407118/2582dc6d1163/msystems.00383-21-f006.jpg

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[7]
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本文引用的文献

[1]
Challenges in microbiological identification of aerobic bacteria isolated from the skin of reptiles.

PLoS One. 2020-10-19

[2]
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Front Microbiol. 2020-7-15

[3]
Genomic characterization of closely related species in the Rumoiensis clade infers ecogenomic signatures to non-marine environments.

Environ Microbiol. 2020-8

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Environ Microbiol. 2020-6

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mBio. 2020-3-17

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Marine-freshwater prokaryotic transitions require extensive changes in the predicted proteome.

Microbiome. 2019-8-22

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Interactive Tree Of Life (iTOL) v4: recent updates and new developments.

Nucleic Acids Res. 2019-7-2

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Fish Shellfish Immunol. 2019-3-28

[9]
Distributions of Extracellular Peptidases Across Prokaryotic Genomes Reflect Phylogeny and Habitat.

Front Microbiol. 2019-3-5

[10]
Functional Characterization of a Magnesium Transporter of Root Endophytic Fungus .

Front Microbiol. 2019-1-9

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