Diversity and distribution of single-stranded DNA phages in the North Atlantic Ocean
Abstract Knowledge of marine phages is highly biased toward double-stranded DNA (dsDNA) phages; however, recent metagenomic surveys have also identified single-stranded DNA (ssDNA) phages in the oceans. Here, we describe two complete ssDNA phage genomes that were reconstructed from a viral metagenom...
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croxfordunivpr:10.1038/ismej.2010.188 2024-05-19T07:44:53+00:00 Diversity and distribution of single-stranded DNA phages in the North Atlantic Ocean Tucker, Kimberly P Parsons, Rachel Symonds, Erin M Breitbart, Mya 2010 http://dx.doi.org/10.1038/ismej.2010.188 http://www.nature.com/articles/ismej2010188.pdf http://www.nature.com/articles/ismej2010188 https://academic.oup.com/ismej/article-pdf/5/5/822/56547362/41396_2011_article_bfismej2010188.pdf en eng Oxford University Press (OUP) https://academic.oup.com/pages/standard-publication-reuse-rights The ISME Journal volume 5, issue 5, page 822-830 ISSN 1751-7362 1751-7370 journal-article 2010 croxfordunivpr https://doi.org/10.1038/ismej.2010.188 2024-05-02T09:30:22Z Abstract Knowledge of marine phages is highly biased toward double-stranded DNA (dsDNA) phages; however, recent metagenomic surveys have also identified single-stranded DNA (ssDNA) phages in the oceans. Here, we describe two complete ssDNA phage genomes that were reconstructed from a viral metagenome from 80 m depth at the Bermuda Atlantic Time-series Study (BATS) site in the northwestern Sargasso Sea and examine their spatial and temporal distributions. Both genomes (SARssφ1 and SARssφ2) exhibited similarity to known phages of the Microviridae family in terms of size, GC content, genome organization and protein sequence. PCR amplification of the replication initiation protein (Rep) gene revealed narrow and distinct depth distributions for the newly described ssDNA phages within the upper 200 m of the water column at the BATS site. Comparison of Rep gene sequences obtained from the BATS site over time revealed changes in the diversity of ssDNA phages over monthly time scales, although some nearly identical sequences were recovered from samples collected 4 years apart. Examination of ssDNA phage diversity along transects through the North Atlantic Ocean revealed a positive correlation between genetic distance and geographic distance between sampling sites. Together, the data suggest fundamental differences between the distribution of these ssDNA phages and the distribution of known marine dsDNA phages, possibly because of differences in host range, host distribution, virion stability, or viral evolution mechanisms and rates. Future work needs to elucidate the host ranges for oceanic ssDNA phages and determine their ecological roles in the marine ecosystem. Article in Journal/Newspaper North Atlantic Oxford University Press The ISME Journal 5 5 822 830 |
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Open Polar |
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Oxford University Press |
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croxfordunivpr |
language |
English |
description |
Abstract Knowledge of marine phages is highly biased toward double-stranded DNA (dsDNA) phages; however, recent metagenomic surveys have also identified single-stranded DNA (ssDNA) phages in the oceans. Here, we describe two complete ssDNA phage genomes that were reconstructed from a viral metagenome from 80 m depth at the Bermuda Atlantic Time-series Study (BATS) site in the northwestern Sargasso Sea and examine their spatial and temporal distributions. Both genomes (SARssφ1 and SARssφ2) exhibited similarity to known phages of the Microviridae family in terms of size, GC content, genome organization and protein sequence. PCR amplification of the replication initiation protein (Rep) gene revealed narrow and distinct depth distributions for the newly described ssDNA phages within the upper 200 m of the water column at the BATS site. Comparison of Rep gene sequences obtained from the BATS site over time revealed changes in the diversity of ssDNA phages over monthly time scales, although some nearly identical sequences were recovered from samples collected 4 years apart. Examination of ssDNA phage diversity along transects through the North Atlantic Ocean revealed a positive correlation between genetic distance and geographic distance between sampling sites. Together, the data suggest fundamental differences between the distribution of these ssDNA phages and the distribution of known marine dsDNA phages, possibly because of differences in host range, host distribution, virion stability, or viral evolution mechanisms and rates. Future work needs to elucidate the host ranges for oceanic ssDNA phages and determine their ecological roles in the marine ecosystem. |
format |
Article in Journal/Newspaper |
author |
Tucker, Kimberly P Parsons, Rachel Symonds, Erin M Breitbart, Mya |
spellingShingle |
Tucker, Kimberly P Parsons, Rachel Symonds, Erin M Breitbart, Mya Diversity and distribution of single-stranded DNA phages in the North Atlantic Ocean |
author_facet |
Tucker, Kimberly P Parsons, Rachel Symonds, Erin M Breitbart, Mya |
author_sort |
Tucker, Kimberly P |
title |
Diversity and distribution of single-stranded DNA phages in the North Atlantic Ocean |
title_short |
Diversity and distribution of single-stranded DNA phages in the North Atlantic Ocean |
title_full |
Diversity and distribution of single-stranded DNA phages in the North Atlantic Ocean |
title_fullStr |
Diversity and distribution of single-stranded DNA phages in the North Atlantic Ocean |
title_full_unstemmed |
Diversity and distribution of single-stranded DNA phages in the North Atlantic Ocean |
title_sort |
diversity and distribution of single-stranded dna phages in the north atlantic ocean |
publisher |
Oxford University Press (OUP) |
publishDate |
2010 |
url |
http://dx.doi.org/10.1038/ismej.2010.188 http://www.nature.com/articles/ismej2010188.pdf http://www.nature.com/articles/ismej2010188 https://academic.oup.com/ismej/article-pdf/5/5/822/56547362/41396_2011_article_bfismej2010188.pdf |
genre |
North Atlantic |
genre_facet |
North Atlantic |
op_source |
The ISME Journal volume 5, issue 5, page 822-830 ISSN 1751-7362 1751-7370 |
op_rights |
https://academic.oup.com/pages/standard-publication-reuse-rights |
op_doi |
https://doi.org/10.1038/ismej.2010.188 |
container_title |
The ISME Journal |
container_volume |
5 |
container_issue |
5 |
container_start_page |
822 |
op_container_end_page |
830 |
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1799484769892827136 |