Depth drives the distribution of microbial ecological functions in the coastal western Antarctic Peninsula
The Antarctic marine environment is a dynamic ecosystem where microorganisms play an important role in key biogeochemical cycles. Despite the role that microbes play in this ecosystem, little is known about the genetic and metabolic diversity of Antarctic marine microbes. In this study we leveraged...
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ftpubmed:oai:pubmedcentral.nih.gov:10232865 2023-06-18T03:36:50+02:00 Depth drives the distribution of microbial ecological functions in the coastal western Antarctic Peninsula Dutta, Avishek Connors, Elizabeth Trinh, Rebecca Erazo, Natalia Dasarathy, Srishti Ducklow, Hugh W. Steinberg, Deborah K. Schofield, Oscar M. Bowman, Jeff S. 2023-05-18 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC10232865/ https://doi.org/10.3389/fmicb.2023.1168507 en eng Frontiers Media S.A. http://www.ncbi.nlm.nih.gov/pmc/articles/PMC10232865/ http://dx.doi.org/10.3389/fmicb.2023.1168507 Copyright © 2023 Dutta, Connors, Trinh, Erazo, Dasarathy, Ducklow, Steinberg, Schofield and Bowman. https://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. Front Microbiol Microbiology Text 2023 ftpubmed https://doi.org/10.3389/fmicb.2023.1168507 2023-06-04T01:34:07Z The Antarctic marine environment is a dynamic ecosystem where microorganisms play an important role in key biogeochemical cycles. Despite the role that microbes play in this ecosystem, little is known about the genetic and metabolic diversity of Antarctic marine microbes. In this study we leveraged DNA samples collected by the Palmer Long Term Ecological Research (LTER) project to sequence shotgun metagenomes of 48 key samples collected across the marine ecosystem of the western Antarctic Peninsula (wAP). We developed an in silico metagenomics pipeline (iMAGine) for processing metagenomic data and constructing metagenome-assembled genomes (MAGs), identifying a diverse genomic repertoire related to the carbon, sulfur, and nitrogen cycles. A novel analytical approach based on gene coverage was used to understand the differences in microbial community functions across depth and region. Our results showed that microbial community functions were partitioned based on depth. Bacterial members harbored diverse genes for carbohydrate transformation, indicating the availability of processes to convert complex carbons into simpler bioavailable forms. We generated 137 dereplicated MAGs giving us a new perspective on the role of prokaryotes in the coastal wAP. In particular, the presence of mixotrophic prokaryotes capable of autotrophic and heterotrophic lifestyles indicated a metabolically flexible community, which we hypothesize enables survival under rapidly changing conditions. Overall, the study identified key microbial community functions and created a valuable sequence library collection for future Antarctic genomics research. Text Antarc* Antarctic Antarctic Peninsula PubMed Central (PMC) Antarctic Antarctic Peninsula The Antarctic Frontiers in Microbiology 14 |
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Microbiology |
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Microbiology Dutta, Avishek Connors, Elizabeth Trinh, Rebecca Erazo, Natalia Dasarathy, Srishti Ducklow, Hugh W. Steinberg, Deborah K. Schofield, Oscar M. Bowman, Jeff S. Depth drives the distribution of microbial ecological functions in the coastal western Antarctic Peninsula |
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Microbiology |
description |
The Antarctic marine environment is a dynamic ecosystem where microorganisms play an important role in key biogeochemical cycles. Despite the role that microbes play in this ecosystem, little is known about the genetic and metabolic diversity of Antarctic marine microbes. In this study we leveraged DNA samples collected by the Palmer Long Term Ecological Research (LTER) project to sequence shotgun metagenomes of 48 key samples collected across the marine ecosystem of the western Antarctic Peninsula (wAP). We developed an in silico metagenomics pipeline (iMAGine) for processing metagenomic data and constructing metagenome-assembled genomes (MAGs), identifying a diverse genomic repertoire related to the carbon, sulfur, and nitrogen cycles. A novel analytical approach based on gene coverage was used to understand the differences in microbial community functions across depth and region. Our results showed that microbial community functions were partitioned based on depth. Bacterial members harbored diverse genes for carbohydrate transformation, indicating the availability of processes to convert complex carbons into simpler bioavailable forms. We generated 137 dereplicated MAGs giving us a new perspective on the role of prokaryotes in the coastal wAP. In particular, the presence of mixotrophic prokaryotes capable of autotrophic and heterotrophic lifestyles indicated a metabolically flexible community, which we hypothesize enables survival under rapidly changing conditions. Overall, the study identified key microbial community functions and created a valuable sequence library collection for future Antarctic genomics research. |
format |
Text |
author |
Dutta, Avishek Connors, Elizabeth Trinh, Rebecca Erazo, Natalia Dasarathy, Srishti Ducklow, Hugh W. Steinberg, Deborah K. Schofield, Oscar M. Bowman, Jeff S. |
author_facet |
Dutta, Avishek Connors, Elizabeth Trinh, Rebecca Erazo, Natalia Dasarathy, Srishti Ducklow, Hugh W. Steinberg, Deborah K. Schofield, Oscar M. Bowman, Jeff S. |
author_sort |
Dutta, Avishek |
title |
Depth drives the distribution of microbial ecological functions in the coastal western Antarctic Peninsula |
title_short |
Depth drives the distribution of microbial ecological functions in the coastal western Antarctic Peninsula |
title_full |
Depth drives the distribution of microbial ecological functions in the coastal western Antarctic Peninsula |
title_fullStr |
Depth drives the distribution of microbial ecological functions in the coastal western Antarctic Peninsula |
title_full_unstemmed |
Depth drives the distribution of microbial ecological functions in the coastal western Antarctic Peninsula |
title_sort |
depth drives the distribution of microbial ecological functions in the coastal western antarctic peninsula |
publisher |
Frontiers Media S.A. |
publishDate |
2023 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC10232865/ https://doi.org/10.3389/fmicb.2023.1168507 |
geographic |
Antarctic Antarctic Peninsula The Antarctic |
geographic_facet |
Antarctic Antarctic Peninsula The Antarctic |
genre |
Antarc* Antarctic Antarctic Peninsula |
genre_facet |
Antarc* Antarctic Antarctic Peninsula |
op_source |
Front Microbiol |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC10232865/ http://dx.doi.org/10.3389/fmicb.2023.1168507 |
op_rights |
Copyright © 2023 Dutta, Connors, Trinh, Erazo, Dasarathy, Ducklow, Steinberg, Schofield and Bowman. https://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_doi |
https://doi.org/10.3389/fmicb.2023.1168507 |
container_title |
Frontiers in Microbiology |
container_volume |
14 |
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1769008466113855488 |