Table_2_Genomic Insights of Cryobacterium Isolated From Ice Core Reveal Genome Dynamics for Adaptation in Glacier.xlsx
Glacier is the dominant cold habitat in terrestrial environments, providing a model ecosystem to explore extremophilic strategies and study early lives on Earth. The dominant form of life in glaciers is bacteria. However, little is known about past evolutionary processes that bacteria underwent duri...
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ftfrontimediafig:oai:figshare.com:article/12650861 2023-05-15T16:39:25+02:00 Table_2_Genomic Insights of Cryobacterium Isolated From Ice Core Reveal Genome Dynamics for Adaptation in Glacier.xlsx Yongqin Liu Liang Shen Yonghui Zeng Tingting Xing Baiqing Xu Ninglian Wang 2020-07-14T04:47:51Z https://doi.org/10.3389/fmicb.2020.01530.s003 https://figshare.com/articles/dataset/Table_2_Genomic_Insights_of_Cryobacterium_Isolated_From_Ice_Core_Reveal_Genome_Dynamics_for_Adaptation_in_Glacier_xlsx/12650861 unknown doi:10.3389/fmicb.2020.01530.s003 https://figshare.com/articles/dataset/Table_2_Genomic_Insights_of_Cryobacterium_Isolated_From_Ice_Core_Reveal_Genome_Dynamics_for_Adaptation_in_Glacier_xlsx/12650861 CC BY 4.0 CC-BY Microbiology Microbial Genetics Microbial Ecology Mycology glacier Cryobacterium genomic evolutionary processes cold adaptation Dataset 2020 ftfrontimediafig https://doi.org/10.3389/fmicb.2020.01530.s003 2020-07-15T22:54:26Z Glacier is the dominant cold habitat in terrestrial environments, providing a model ecosystem to explore extremophilic strategies and study early lives on Earth. The dominant form of life in glaciers is bacteria. However, little is known about past evolutionary processes that bacteria underwent during adaptation to the cryosphere and the connection of their genomic traits to environmental stressors. Aiming to test the hypothesis that bacterial genomic content and dynamics are driven by glacial environmental stressors, we compared genomes of 21 psychrophilic Cryobacterium strains, including 14 that we isolated from three Tibetan ice cores, to their mesophilic counterparts from the same family Microbacteriaceae of Actinobacteria. The results show that psychrophilic Cryobacterium underwent more dynamic changes in genome content, and their genomes have a significantly higher number of genes involved in stress response, motility, and chemotaxis than their mesophilic counterparts (P < 0.05). The phylogenetic birth-and-death model imposed on the phylogenomic tree indicates a vast surge in recent common ancestor of psychrophilic Cryobacterium (gained the greatest number of genes by 1,168) after the division of the mesophilic strain Cryobacterium mesophilum. The expansion in genome content brought in key genes primarily of the categories “cofactors, vitamins, prosthetic groups, pigments,” “monosaccharides metabolism,” and “membrane transport.” The amino acid substitution rates of psychrophilic Cryobacterium strains are two orders of magnitude lower than those in mesophilic strains. However, no significantly higher number of cold shock genes was found in psychrophilic Cryobacterium strains, indicating that multi-copy is not a key factor for cold adaptation in the family Microbacteriaceae, although cold shock genes are indispensable for psychrophiles. Extensive gene acquisition and low amino acid substitution rate might be the strategies of psychrophilic Cryobacterium to resist low temperature, oligotrophy, and high UV ... Dataset ice core Frontiers: Figshare |
institution |
Open Polar |
collection |
Frontiers: Figshare |
op_collection_id |
ftfrontimediafig |
language |
unknown |
topic |
Microbiology Microbial Genetics Microbial Ecology Mycology glacier Cryobacterium genomic evolutionary processes cold adaptation |
spellingShingle |
Microbiology Microbial Genetics Microbial Ecology Mycology glacier Cryobacterium genomic evolutionary processes cold adaptation Yongqin Liu Liang Shen Yonghui Zeng Tingting Xing Baiqing Xu Ninglian Wang Table_2_Genomic Insights of Cryobacterium Isolated From Ice Core Reveal Genome Dynamics for Adaptation in Glacier.xlsx |
topic_facet |
Microbiology Microbial Genetics Microbial Ecology Mycology glacier Cryobacterium genomic evolutionary processes cold adaptation |
description |
Glacier is the dominant cold habitat in terrestrial environments, providing a model ecosystem to explore extremophilic strategies and study early lives on Earth. The dominant form of life in glaciers is bacteria. However, little is known about past evolutionary processes that bacteria underwent during adaptation to the cryosphere and the connection of their genomic traits to environmental stressors. Aiming to test the hypothesis that bacterial genomic content and dynamics are driven by glacial environmental stressors, we compared genomes of 21 psychrophilic Cryobacterium strains, including 14 that we isolated from three Tibetan ice cores, to their mesophilic counterparts from the same family Microbacteriaceae of Actinobacteria. The results show that psychrophilic Cryobacterium underwent more dynamic changes in genome content, and their genomes have a significantly higher number of genes involved in stress response, motility, and chemotaxis than their mesophilic counterparts (P < 0.05). The phylogenetic birth-and-death model imposed on the phylogenomic tree indicates a vast surge in recent common ancestor of psychrophilic Cryobacterium (gained the greatest number of genes by 1,168) after the division of the mesophilic strain Cryobacterium mesophilum. The expansion in genome content brought in key genes primarily of the categories “cofactors, vitamins, prosthetic groups, pigments,” “monosaccharides metabolism,” and “membrane transport.” The amino acid substitution rates of psychrophilic Cryobacterium strains are two orders of magnitude lower than those in mesophilic strains. However, no significantly higher number of cold shock genes was found in psychrophilic Cryobacterium strains, indicating that multi-copy is not a key factor for cold adaptation in the family Microbacteriaceae, although cold shock genes are indispensable for psychrophiles. Extensive gene acquisition and low amino acid substitution rate might be the strategies of psychrophilic Cryobacterium to resist low temperature, oligotrophy, and high UV ... |
format |
Dataset |
author |
Yongqin Liu Liang Shen Yonghui Zeng Tingting Xing Baiqing Xu Ninglian Wang |
author_facet |
Yongqin Liu Liang Shen Yonghui Zeng Tingting Xing Baiqing Xu Ninglian Wang |
author_sort |
Yongqin Liu |
title |
Table_2_Genomic Insights of Cryobacterium Isolated From Ice Core Reveal Genome Dynamics for Adaptation in Glacier.xlsx |
title_short |
Table_2_Genomic Insights of Cryobacterium Isolated From Ice Core Reveal Genome Dynamics for Adaptation in Glacier.xlsx |
title_full |
Table_2_Genomic Insights of Cryobacterium Isolated From Ice Core Reveal Genome Dynamics for Adaptation in Glacier.xlsx |
title_fullStr |
Table_2_Genomic Insights of Cryobacterium Isolated From Ice Core Reveal Genome Dynamics for Adaptation in Glacier.xlsx |
title_full_unstemmed |
Table_2_Genomic Insights of Cryobacterium Isolated From Ice Core Reveal Genome Dynamics for Adaptation in Glacier.xlsx |
title_sort |
table_2_genomic insights of cryobacterium isolated from ice core reveal genome dynamics for adaptation in glacier.xlsx |
publishDate |
2020 |
url |
https://doi.org/10.3389/fmicb.2020.01530.s003 https://figshare.com/articles/dataset/Table_2_Genomic_Insights_of_Cryobacterium_Isolated_From_Ice_Core_Reveal_Genome_Dynamics_for_Adaptation_in_Glacier_xlsx/12650861 |
genre |
ice core |
genre_facet |
ice core |
op_relation |
doi:10.3389/fmicb.2020.01530.s003 https://figshare.com/articles/dataset/Table_2_Genomic_Insights_of_Cryobacterium_Isolated_From_Ice_Core_Reveal_Genome_Dynamics_for_Adaptation_in_Glacier_xlsx/12650861 |
op_rights |
CC BY 4.0 |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.3389/fmicb.2020.01530.s003 |
_version_ |
1766029766494781440 |