Geographic Impact on Genomic Divergence as Revealed by Comparison of Nine Citromicrobial Genomes
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 isol...
Published in: | Applied and Environmental Microbiology |
---|---|
Main Authors: | , , , , , , |
Format: | Text |
Language: | English |
Published: |
American Society for Microbiology
2016
|
Subjects: | |
Online Access: | http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5118931/ http://www.ncbi.nlm.nih.gov/pubmed/27736788 https://doi.org/10.1128/AEM.02495-16 |
id |
ftpubmed:oai:pubmedcentral.nih.gov:5118931 |
---|---|
record_format |
openpolar |
spelling |
ftpubmed:oai:pubmedcentral.nih.gov:5118931 2023-05-15T18:21:12+02:00 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 2016-11-21 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5118931/ http://www.ncbi.nlm.nih.gov/pubmed/27736788 https://doi.org/10.1128/AEM.02495-16 en eng American Society for Microbiology http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5118931/ http://www.ncbi.nlm.nih.gov/pubmed/27736788 http://dx.doi.org/10.1128/AEM.02495-16 Copyright © 2016, American Society for Microbiology. All Rights Reserved. Evolutionary and Genomic Microbiology Text 2016 ftpubmed https://doi.org/10.1128/AEM.02495-16 2017-05-28T00:00:33Z 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. Text South Atlantic Ocean PubMed Central (PMC) Applied and Environmental Microbiology 82 24 7205 7216 |
institution |
Open Polar |
collection |
PubMed Central (PMC) |
op_collection_id |
ftpubmed |
language |
English |
topic |
Evolutionary and Genomic Microbiology |
spellingShingle |
Evolutionary and Genomic Microbiology 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 |
topic_facet |
Evolutionary and Genomic Microbiology |
description |
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. |
format |
Text |
author |
Zheng, Qiang Liu, Yanting Jeanthon, Christian Zhang, Rui Lin, Wenxin Yao, Jicheng Jiao, Nianzhi |
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://www.ncbi.nlm.nih.gov/pmc/articles/PMC5118931/ http://www.ncbi.nlm.nih.gov/pubmed/27736788 https://doi.org/10.1128/AEM.02495-16 |
genre |
South Atlantic Ocean |
genre_facet |
South Atlantic Ocean |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5118931/ http://www.ncbi.nlm.nih.gov/pubmed/27736788 http://dx.doi.org/10.1128/AEM.02495-16 |
op_rights |
Copyright © 2016, American Society for Microbiology. All Rights Reserved. |
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 |
_version_ |
1766200360082341888 |