Genomics-based identification of a cold adapted clade in Deinococcus.

Autor: Shen L; College of Life Sciences, Anhui Normal University, Wuhu, 241000, China. shenliang@ahnu.edu.cn.; Anhui Provincial Key Laboratory of Molecular Enzymology and Mechanism of Major Diseases, and Auhui Provincial Engineering Research Centre for Molecular Detection and Diagnostics, Anhui Normal University, Wuhu, 241000, China. shenliang@ahnu.edu.cn., Hu J; College of Life Sciences, Anhui Normal University, Wuhu, 241000, China., Zhang L; College of Life Sciences, Anhui Normal University, Wuhu, 241000, China., Wu Z; College of Life Sciences, Anhui Normal University, Wuhu, 241000, China., Chen L; College of Life Sciences, Anhui Normal University, Wuhu, 241000, China., Adhikari NP; State Key Laboratory of Tibetan Plateau Earth System, Environment and Resources (TPESER), Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing, 100101, China.; Center for the Pan-Third Pole Environment, Lanzhou University, Lanzhou, 730000, China., Ji M; Center for the Pan-Third Pole Environment, Lanzhou University, Lanzhou, 730000, China., Chen S; College of Life Sciences, Anhui Normal University, Wuhu, 241000, China., Peng F; China Center for Type Culture Collection (CCTCC), College of Life Sciences, Wuhan University, Wuhan, 430072, People's Republic of China. pf-cctcc@whu.edu.cn., Liu Y; State Key Laboratory of Tibetan Plateau Earth System, Environment and Resources (TPESER), Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing, 100101, China.; Center for the Pan-Third Pole Environment, Lanzhou University, Lanzhou, 730000, China.
Jazyk: angličtina
Zdroj: BMC biology [BMC Biol] 2024 Jul 02; Vol. 22 (1), pp. 145. Date of Electronic Publication: 2024 Jul 02.
DOI: 10.1186/s12915-024-01944-8
Abstrakt: Background: Microbes in the cold polar and alpine environments play a critical role in feedbacks that amplify the effects of climate change. Defining the cold adapted ecotype is one of the prerequisites for understanding the response of polar and alpine microbes to climate change.
Results: Here, we analysed 85 high-quality, de-duplicated genomes of Deinococcus, which can survive in a variety of harsh environments. By leveraging genomic and phenotypic traits with reverse ecology, we defined a cold adapted clade from eight Deinococcus strains isolated from Arctic, Antarctic and high alpine environments. Genome-wide optimization in amino acid composition and regulation and signalling enable the cold adapted clade to produce CO 2 from organic matter and boost the bioavailability of mineral nitrogen.
Conclusions: Based primarily on in silico genomic analysis, we defined a potential cold adapted clade in Deinococcus and provided an updated view of the genomic traits and metabolic potential of Deinococcus. Our study would facilitate the understanding of microbial processes in the cold polar and alpine environments.
(© 2024. The Author(s).)
Databáze: MEDLINE
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