Distinct Oceanic Microbiomes From Viruses to Protists Located Near the Antarctic Circumpolar Current
Microbes occupy diverse ecological niches and only through recent advances in next generation sequencing technologies have the true microbial diversity been revealed. Furthermore, lack of perceivable marine barriers to genetic dispersal (i.e., mountains or islands) has allowed the speculation that o...
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ftpubmed:oai:pubmedcentral.nih.gov:6056678 2023-05-15T14:07:12+02:00 Distinct Oceanic Microbiomes From Viruses to Protists Located Near the Antarctic Circumpolar Current Flaviani, Flavia Schroeder, Declan C. Lebret, Karen Balestreri, Cecilia Highfield, Andrea C. Schroeder, Joanna L. Thorpe, Sally E. Moore, Karen Pasckiewicz, Konrad Pfaff, Maya C. Rybicki, Edward P. 2018-07-17 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6056678/ http://www.ncbi.nlm.nih.gov/pubmed/30065704 https://doi.org/10.3389/fmicb.2018.01474 en eng Frontiers Media S.A. http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6056678/ http://www.ncbi.nlm.nih.gov/pubmed/30065704 http://dx.doi.org/10.3389/fmicb.2018.01474 Copyright © 2018 Flaviani, Schroeder, Lebret, Balestreri, Highfield, Schroeder, Thorpe, Moore, Pasckiewicz, Pfaff and Rybicki. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. CC-BY Microbiology Text 2018 ftpubmed https://doi.org/10.3389/fmicb.2018.01474 2018-08-05T00:28:53Z Microbes occupy diverse ecological niches and only through recent advances in next generation sequencing technologies have the true microbial diversity been revealed. Furthermore, lack of perceivable marine barriers to genetic dispersal (i.e., mountains or islands) has allowed the speculation that organisms that can be easily transported by currents and therefore proliferate everywhere. That said, ocean currents are now commonly being recognized as barriers for microbial dispersal. Here we analyzed samples collected from a total of six stations, four located in the Indian Ocean, and two in the Southern Ocean. Amplicon sequencing was used to characterize both prokaryotic and eukaryotic plankton communities, while shotgun sequencing was used for the combined environmental DNA (eDNA), microbial eDNA (meDNA), and viral fractions. We found that Cyanobacteria dominated the prokaryotic component in the South-West Indian Ocean, while γ-Proteobacteria dominated the South-East Indian Ocean. A combination of γ- and α-Proteobacteria dominated the Southern Ocean. Alveolates dominated almost exclusively the eukaryotic component, with variation in the ratio of Protoalveolata and Dinoflagellata depending on station. However, an increase in haptophyte relative abundance was observed in the Southern Ocean. Similarly, the viral fraction was dominated by members of the order Caudovirales across all stations; however, a higher presence of nucleocytoplasmic large DNA viruses (mainly chloroviruses and mimiviruses) was observed in the Southern Ocean. To our knowledge, this is the first that a statistical difference in the microbiome (from viruses to protists) between the subtropical Indian and Southern Oceans. We also show that not all phylotypes can be found everywhere, and that meDNA is not a suitable resource for monitoring aquatic microbial diversity. Text Antarc* Antarctic Southern Ocean PubMed Central (PMC) Antarctic Indian Southern Ocean The Antarctic Frontiers in Microbiology 9 |
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PubMed Central (PMC) |
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ftpubmed |
language |
English |
topic |
Microbiology |
spellingShingle |
Microbiology Flaviani, Flavia Schroeder, Declan C. Lebret, Karen Balestreri, Cecilia Highfield, Andrea C. Schroeder, Joanna L. Thorpe, Sally E. Moore, Karen Pasckiewicz, Konrad Pfaff, Maya C. Rybicki, Edward P. Distinct Oceanic Microbiomes From Viruses to Protists Located Near the Antarctic Circumpolar Current |
topic_facet |
Microbiology |
description |
Microbes occupy diverse ecological niches and only through recent advances in next generation sequencing technologies have the true microbial diversity been revealed. Furthermore, lack of perceivable marine barriers to genetic dispersal (i.e., mountains or islands) has allowed the speculation that organisms that can be easily transported by currents and therefore proliferate everywhere. That said, ocean currents are now commonly being recognized as barriers for microbial dispersal. Here we analyzed samples collected from a total of six stations, four located in the Indian Ocean, and two in the Southern Ocean. Amplicon sequencing was used to characterize both prokaryotic and eukaryotic plankton communities, while shotgun sequencing was used for the combined environmental DNA (eDNA), microbial eDNA (meDNA), and viral fractions. We found that Cyanobacteria dominated the prokaryotic component in the South-West Indian Ocean, while γ-Proteobacteria dominated the South-East Indian Ocean. A combination of γ- and α-Proteobacteria dominated the Southern Ocean. Alveolates dominated almost exclusively the eukaryotic component, with variation in the ratio of Protoalveolata and Dinoflagellata depending on station. However, an increase in haptophyte relative abundance was observed in the Southern Ocean. Similarly, the viral fraction was dominated by members of the order Caudovirales across all stations; however, a higher presence of nucleocytoplasmic large DNA viruses (mainly chloroviruses and mimiviruses) was observed in the Southern Ocean. To our knowledge, this is the first that a statistical difference in the microbiome (from viruses to protists) between the subtropical Indian and Southern Oceans. We also show that not all phylotypes can be found everywhere, and that meDNA is not a suitable resource for monitoring aquatic microbial diversity. |
format |
Text |
author |
Flaviani, Flavia Schroeder, Declan C. Lebret, Karen Balestreri, Cecilia Highfield, Andrea C. Schroeder, Joanna L. Thorpe, Sally E. Moore, Karen Pasckiewicz, Konrad Pfaff, Maya C. Rybicki, Edward P. |
author_facet |
Flaviani, Flavia Schroeder, Declan C. Lebret, Karen Balestreri, Cecilia Highfield, Andrea C. Schroeder, Joanna L. Thorpe, Sally E. Moore, Karen Pasckiewicz, Konrad Pfaff, Maya C. Rybicki, Edward P. |
author_sort |
Flaviani, Flavia |
title |
Distinct Oceanic Microbiomes From Viruses to Protists Located Near the Antarctic Circumpolar Current |
title_short |
Distinct Oceanic Microbiomes From Viruses to Protists Located Near the Antarctic Circumpolar Current |
title_full |
Distinct Oceanic Microbiomes From Viruses to Protists Located Near the Antarctic Circumpolar Current |
title_fullStr |
Distinct Oceanic Microbiomes From Viruses to Protists Located Near the Antarctic Circumpolar Current |
title_full_unstemmed |
Distinct Oceanic Microbiomes From Viruses to Protists Located Near the Antarctic Circumpolar Current |
title_sort |
distinct oceanic microbiomes from viruses to protists located near the antarctic circumpolar current |
publisher |
Frontiers Media S.A. |
publishDate |
2018 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6056678/ http://www.ncbi.nlm.nih.gov/pubmed/30065704 https://doi.org/10.3389/fmicb.2018.01474 |
geographic |
Antarctic Indian Southern Ocean The Antarctic |
geographic_facet |
Antarctic Indian Southern Ocean The Antarctic |
genre |
Antarc* Antarctic Southern Ocean |
genre_facet |
Antarc* Antarctic Southern Ocean |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6056678/ http://www.ncbi.nlm.nih.gov/pubmed/30065704 http://dx.doi.org/10.3389/fmicb.2018.01474 |
op_rights |
Copyright © 2018 Flaviani, Schroeder, Lebret, Balestreri, Highfield, Schroeder, Thorpe, Moore, Pasckiewicz, Pfaff and Rybicki. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. |
op_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.3389/fmicb.2018.01474 |
container_title |
Frontiers in Microbiology |
container_volume |
9 |
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1766279102293082112 |