Genomic basis of environmental adaptation in the widespread poly-extremophilic Exiguobacterium group.

Shen, Liang; Liu, Yongqin; Chen, Liangzhong; Lei, Tingting; Ren, Ping; Ji, Mukan; Song, Weizhi; Lin, Hao; Su, Wei; Wang, Sheng; Rooman, Marianne; Pucci, Fabrizio

Shen, Liang; Liu, Yongqin; Chen, Liangzhong; Lei, Tingting; Ren, Ping; Ji, Mukan; Song, Weizhi; Lin, Hao; Su, Wei; Wang, Sheng; Rooman, Marianne; Pucci, Fabrizio.

Afiliación

Shen L; College of Life Sciences, Anhui Normal University, Wuhu 241000, China.
Liu Y; Anhui Provincial Key Laboratory of Molecular Enzymology and Mechanism of Major Diseases, and Anhui Provincial Engineering Research Centre for Molecular Detection and Diagnostics, Anhui Normal University, Wuhu 241000, China.
Chen L; Center for the Pan-Third Pole Environment, Lanzhou University, Lanzhou 730000, China.
Lei T; College of Life Sciences, Anhui Normal University, Wuhu 241000, China.
Ren P; College of Life Sciences, Anhui Normal University, Wuhu 241000, China.
Ji M; College of Life Sciences, Anhui Normal University, Wuhu 241000, China.
Song W; Center for the Pan-Third Pole Environment, Lanzhou University, Lanzhou 730000, China.
Lin H; Centre for Marine Bio-Innovation, University of New South Wales, Sydney, NSW 2052, Australia.
Su W; School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu 611731, China.
Wang S; School of Life Science and Technology, University of Electronic Science and Technology of China, Chengdu 611731, China.
Rooman M; Shanghai Zelixir Biotech Company Ltd., Shanghai 200030, China.
Pucci F; Computational Biology and Bioinformatics, Université Libre de Bruxelles, Brussels 1050, Belgium.

ISME J ; 18(1)2024 Jan 08.

Article en En | MEDLINE | ID: mdl-38365240

ABSTRACT

ABSTRACT

Delineating cohesive ecological units and determining the genetic basis for their environmental adaptation are among the most important objectives in microbiology. In the last decade, many studies have been devoted to characterizing the genetic diversity in microbial populations to address these issues. However, the impact of extreme environmental conditions, such as temperature and salinity, on microbial ecology and evolution remains unclear so far. In order to better understand the mechanisms of adaptation, we studied the (pan)genome of Exiguobacterium, a poly-extremophile bacterium able to grow in a wide range of environments, from permafrost to hot springs. To have the genome for all known Exiguobacterium type strains, we first sequenced those that were not yet available. Using a reverse-ecology approach, we showed how the integration of phylogenomic information, genomic features, gene and pathway enrichment data, regulatory element analyses, protein amino acid composition, and protein structure analyses of the entire Exiguobacterium pangenome allows to sharply delineate ecological units consisting of mesophilic, psychrophilic, halophilic-mesophilic, and halophilic-thermophilic ecotypes. This in-depth study clarified the genetic basis of the defined ecotypes and identified some key mechanisms driving the environmental adaptation to extreme environments. Our study points the way to organizing the vast microbial diversity into meaningful ecologically units, which, in turn, provides insight into how microbial communities adapt and respond to different environmental conditions in a changing world.

Asunto(s)

Exiguobacterium; Extremófilos; Genómica; Filogenia; Proteínas

Palabras clave

Exiguobacterium; ecological units; genomics; poly-extremophile; protein structure

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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Extremófilos / Exiguobacterium Idioma: En Revista: ISME J Asunto de la revista: MICROBIOLOGIA / SAUDE AMBIENTAL Año: 2024 Tipo del documento: Article País de afiliación: China Pais de publicación: Reino Unido

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