Geographic Impact on Genomic Divergence as Revealed by Comparison of Nine Citromicrobial Genomes
ABSTRACT Aerobic anoxygenic phototrophic bacteria (AAPB) are thought to be important players in oceanic carbon and energy cycling in the euphotic zone of the ocean. The genus Citromicrobium , widely found in oligotrophic oceans, is a member of marine alphaproteobacterial AAPB. Nine Citromicrobium st...
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Online Access: | http://dx.doi.org/10.1128/aem.02495-16 https://journals.asm.org/doi/pdf/10.1128/AEM.02495-16 |
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crasmicro:10.1128/aem.02495-16 2024-09-15T18:36:29+00:00 Geographic Impact on Genomic Divergence as Revealed by Comparison of Nine Citromicrobial Genomes Zheng, Qiang Liu, Yanting Jeanthon, Christian Zhang, Rui Lin, Wenxin Yao, Jicheng Jiao, Nianzhi Kivisaar, M. 2016 http://dx.doi.org/10.1128/aem.02495-16 https://journals.asm.org/doi/pdf/10.1128/AEM.02495-16 en eng American Society for Microbiology https://journals.asm.org/non-commercial-tdm-license Applied and Environmental Microbiology volume 82, issue 24, page 7205-7216 ISSN 0099-2240 1098-5336 journal-article 2016 crasmicro https://doi.org/10.1128/aem.02495-16 2024-08-19T04:06:04Z ABSTRACT Aerobic anoxygenic phototrophic bacteria (AAPB) are thought to be important players in oceanic carbon and energy cycling in the euphotic zone of the ocean. The genus Citromicrobium , widely found in oligotrophic oceans, is a member of marine alphaproteobacterial AAPB. Nine Citromicrobium strains isolated from the South China Sea, the Mediterranean Sea, or the tropical South Atlantic Ocean were found to harbor identical 16S rRNA sequences. The sequencing of their genomes revealed high synteny in major regions. Nine genetic islands (GIs) involved mainly in type IV secretion systems, flagellar biosynthesis, prophage, and integrative conjugative elements, were identified by a fine-scale comparative genomics analysis. These GIs played significant roles in genomic evolution and divergence. Interestingly, the coexistence of two different photosynthetic gene clusters (PGCs) was not only found in the analyzed genomes but also confirmed, for the first time, to our knowledge, in environmental samples. The prevalence of the coexistence of two different PGCs may suggest an adaptation mechanism for Citromicrobium members to survive in the oceans. Comparison of genomic characteristics (e.g., GIs, average nucleotide identity [ANI], single-nucleotide polymorphisms [SNPs], and phylogeny) revealed that strains within a marine region shared a similar evolutionary history that was distinct from that of strains isolated from other regions (South China Sea versus Mediterranean Sea). Geographic differences are partly responsible for driving the observed genomic divergences and allow microbes to evolve through local adaptation. Three Citromicrobium strains isolated from the Mediterranean Sea diverged millions of years ago from other strains and evolved into a novel group. IMPORTANCE Aerobic anoxygenic phototrophic bacteria are a widespread functional group in the upper ocean, and their abundance could be up to 15% of the total heterotrophic bacteria. To date, a great number of studies display AAPB biogeographic distribution ... Article in Journal/Newspaper South Atlantic Ocean ASM Journals (American Society for Microbiology) Applied and Environmental Microbiology 82 24 7205 7216 |
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Open Polar |
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ASM Journals (American Society for Microbiology) |
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crasmicro |
language |
English |
description |
ABSTRACT Aerobic anoxygenic phototrophic bacteria (AAPB) are thought to be important players in oceanic carbon and energy cycling in the euphotic zone of the ocean. The genus Citromicrobium , widely found in oligotrophic oceans, is a member of marine alphaproteobacterial AAPB. Nine Citromicrobium strains isolated from the South China Sea, the Mediterranean Sea, or the tropical South Atlantic Ocean were found to harbor identical 16S rRNA sequences. The sequencing of their genomes revealed high synteny in major regions. Nine genetic islands (GIs) involved mainly in type IV secretion systems, flagellar biosynthesis, prophage, and integrative conjugative elements, were identified by a fine-scale comparative genomics analysis. These GIs played significant roles in genomic evolution and divergence. Interestingly, the coexistence of two different photosynthetic gene clusters (PGCs) was not only found in the analyzed genomes but also confirmed, for the first time, to our knowledge, in environmental samples. The prevalence of the coexistence of two different PGCs may suggest an adaptation mechanism for Citromicrobium members to survive in the oceans. Comparison of genomic characteristics (e.g., GIs, average nucleotide identity [ANI], single-nucleotide polymorphisms [SNPs], and phylogeny) revealed that strains within a marine region shared a similar evolutionary history that was distinct from that of strains isolated from other regions (South China Sea versus Mediterranean Sea). Geographic differences are partly responsible for driving the observed genomic divergences and allow microbes to evolve through local adaptation. Three Citromicrobium strains isolated from the Mediterranean Sea diverged millions of years ago from other strains and evolved into a novel group. IMPORTANCE Aerobic anoxygenic phototrophic bacteria are a widespread functional group in the upper ocean, and their abundance could be up to 15% of the total heterotrophic bacteria. To date, a great number of studies display AAPB biogeographic distribution ... |
author2 |
Kivisaar, M. |
format |
Article in Journal/Newspaper |
author |
Zheng, Qiang Liu, Yanting Jeanthon, Christian Zhang, Rui Lin, Wenxin Yao, Jicheng Jiao, Nianzhi |
spellingShingle |
Zheng, Qiang Liu, Yanting Jeanthon, Christian Zhang, Rui Lin, Wenxin Yao, Jicheng Jiao, Nianzhi Geographic Impact on Genomic Divergence as Revealed by Comparison of Nine Citromicrobial Genomes |
author_facet |
Zheng, Qiang Liu, Yanting Jeanthon, Christian Zhang, Rui Lin, Wenxin Yao, Jicheng Jiao, Nianzhi |
author_sort |
Zheng, Qiang |
title |
Geographic Impact on Genomic Divergence as Revealed by Comparison of Nine Citromicrobial Genomes |
title_short |
Geographic Impact on Genomic Divergence as Revealed by Comparison of Nine Citromicrobial Genomes |
title_full |
Geographic Impact on Genomic Divergence as Revealed by Comparison of Nine Citromicrobial Genomes |
title_fullStr |
Geographic Impact on Genomic Divergence as Revealed by Comparison of Nine Citromicrobial Genomes |
title_full_unstemmed |
Geographic Impact on Genomic Divergence as Revealed by Comparison of Nine Citromicrobial Genomes |
title_sort |
geographic impact on genomic divergence as revealed by comparison of nine citromicrobial genomes |
publisher |
American Society for Microbiology |
publishDate |
2016 |
url |
http://dx.doi.org/10.1128/aem.02495-16 https://journals.asm.org/doi/pdf/10.1128/AEM.02495-16 |
genre |
South Atlantic Ocean |
genre_facet |
South Atlantic Ocean |
op_source |
Applied and Environmental Microbiology volume 82, issue 24, page 7205-7216 ISSN 0099-2240 1098-5336 |
op_rights |
https://journals.asm.org/non-commercial-tdm-license |
op_doi |
https://doi.org/10.1128/aem.02495-16 |
container_title |
Applied and Environmental Microbiology |
container_volume |
82 |
container_issue |
24 |
container_start_page |
7205 |
op_container_end_page |
7216 |
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1810480150187343872 |