Comparative Genomic Analysis of Archaeal Genotypic Variants in a Single Population and in Two Different Oceanic Provinces
Planktonic crenarchaeotes are present in high abundance in Antarctic winter surface waters, and they also make up a large proportion of total cell numbers throughout deep ocean waters. To better characterize these uncultivated marine crenarchaeotes, we analyzed large genome fragments from individual...
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ftpubmed:oai:pubmedcentral.nih.gov:126555 2023-05-15T13:35:47+02:00 Comparative Genomic Analysis of Archaeal Genotypic Variants in a Single Population and in Two Different Oceanic Provinces Béjà, Oded Koonin, Eugene V. Aravind, L. Taylor, Lance T. Seitz, Heidi Stein, Jefferey L. Bensen, Daniel C. Feldman, Robert A. Swanson, Ronald V. DeLong, Edward F. 2002-01 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC126555 http://www.ncbi.nlm.nih.gov/pubmed/11772643 https://doi.org/10.1128/AEM.68.1.335-345.2002 en eng American Society for Microbiology http://www.ncbi.nlm.nih.gov/pmc/articles/PMC126555 http://www.ncbi.nlm.nih.gov/pubmed/11772643 http://dx.doi.org/10.1128/AEM.68.1.335-345.2002 Copyright © 2002, American Society for Microbiology Microbial Ecology Text 2002 ftpubmed https://doi.org/10.1128/AEM.68.1.335-345.2002 2013-08-29T10:55:41Z Planktonic crenarchaeotes are present in high abundance in Antarctic winter surface waters, and they also make up a large proportion of total cell numbers throughout deep ocean waters. To better characterize these uncultivated marine crenarchaeotes, we analyzed large genome fragments from individuals recovered from a single Antarctic picoplankton population and compared them to those from a representative obtained from deeper waters of the temperate North Pacific. Sequencing and analysis of the entire DNA insert from one Antarctic marine archaeon (fosmid 74A4) revealed differences in genome structure and content between Antarctic surface water and temperate deepwater archaea. Analysis of the predicted gene products encoded by the 74A4 sequence and those derived from a temperate, deepwater planktonic crenarchaeote (fosmid 4B7) revealed many typical archaeal proteins but also several proteins that so far have not been detected in archaea. The unique fraction of marine archaeal genes included, among others, those for a predicted RNA-binding protein of the bacterial cold shock family and a eukaryote-type Zn finger protein. Comparison of closely related archaea originating from a single population revealed significant genomic divergence that was not evident from 16S rRNA sequence variation. The data suggest that considerable functional diversity may exist within single populations of coexisting microbial strains, even those with identical 16S rRNA sequences. Our results also demonstrate that genomic approaches can provide high-resolution information relevant to microbial population genetics, ecology, and evolution, even for microbes that have not yet been cultivated. Text Antarc* Antarctic PubMed Central (PMC) Antarctic Pacific Applied and Environmental Microbiology 68 1 335 345 |
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English |
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Microbial Ecology |
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Microbial Ecology Béjà, Oded Koonin, Eugene V. Aravind, L. Taylor, Lance T. Seitz, Heidi Stein, Jefferey L. Bensen, Daniel C. Feldman, Robert A. Swanson, Ronald V. DeLong, Edward F. Comparative Genomic Analysis of Archaeal Genotypic Variants in a Single Population and in Two Different Oceanic Provinces |
topic_facet |
Microbial Ecology |
description |
Planktonic crenarchaeotes are present in high abundance in Antarctic winter surface waters, and they also make up a large proportion of total cell numbers throughout deep ocean waters. To better characterize these uncultivated marine crenarchaeotes, we analyzed large genome fragments from individuals recovered from a single Antarctic picoplankton population and compared them to those from a representative obtained from deeper waters of the temperate North Pacific. Sequencing and analysis of the entire DNA insert from one Antarctic marine archaeon (fosmid 74A4) revealed differences in genome structure and content between Antarctic surface water and temperate deepwater archaea. Analysis of the predicted gene products encoded by the 74A4 sequence and those derived from a temperate, deepwater planktonic crenarchaeote (fosmid 4B7) revealed many typical archaeal proteins but also several proteins that so far have not been detected in archaea. The unique fraction of marine archaeal genes included, among others, those for a predicted RNA-binding protein of the bacterial cold shock family and a eukaryote-type Zn finger protein. Comparison of closely related archaea originating from a single population revealed significant genomic divergence that was not evident from 16S rRNA sequence variation. The data suggest that considerable functional diversity may exist within single populations of coexisting microbial strains, even those with identical 16S rRNA sequences. Our results also demonstrate that genomic approaches can provide high-resolution information relevant to microbial population genetics, ecology, and evolution, even for microbes that have not yet been cultivated. |
format |
Text |
author |
Béjà, Oded Koonin, Eugene V. Aravind, L. Taylor, Lance T. Seitz, Heidi Stein, Jefferey L. Bensen, Daniel C. Feldman, Robert A. Swanson, Ronald V. DeLong, Edward F. |
author_facet |
Béjà, Oded Koonin, Eugene V. Aravind, L. Taylor, Lance T. Seitz, Heidi Stein, Jefferey L. Bensen, Daniel C. Feldman, Robert A. Swanson, Ronald V. DeLong, Edward F. |
author_sort |
Béjà, Oded |
title |
Comparative Genomic Analysis of Archaeal Genotypic Variants in a Single Population and in Two Different Oceanic Provinces |
title_short |
Comparative Genomic Analysis of Archaeal Genotypic Variants in a Single Population and in Two Different Oceanic Provinces |
title_full |
Comparative Genomic Analysis of Archaeal Genotypic Variants in a Single Population and in Two Different Oceanic Provinces |
title_fullStr |
Comparative Genomic Analysis of Archaeal Genotypic Variants in a Single Population and in Two Different Oceanic Provinces |
title_full_unstemmed |
Comparative Genomic Analysis of Archaeal Genotypic Variants in a Single Population and in Two Different Oceanic Provinces |
title_sort |
comparative genomic analysis of archaeal genotypic variants in a single population and in two different oceanic provinces |
publisher |
American Society for Microbiology |
publishDate |
2002 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC126555 http://www.ncbi.nlm.nih.gov/pubmed/11772643 https://doi.org/10.1128/AEM.68.1.335-345.2002 |
geographic |
Antarctic Pacific |
geographic_facet |
Antarctic Pacific |
genre |
Antarc* Antarctic |
genre_facet |
Antarc* Antarctic |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC126555 http://www.ncbi.nlm.nih.gov/pubmed/11772643 http://dx.doi.org/10.1128/AEM.68.1.335-345.2002 |
op_rights |
Copyright © 2002, American Society for Microbiology |
op_doi |
https://doi.org/10.1128/AEM.68.1.335-345.2002 |
container_title |
Applied and Environmental Microbiology |
container_volume |
68 |
container_issue |
1 |
container_start_page |
335 |
op_container_end_page |
345 |
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1766070198108946432 |