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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ftcdlib:oai:escholarship.org:ark:/13030/qt68z6h648 2023-12-17T10:20:48+01:00 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 Steinberg, Deborah Schofield, Oscar Bowman, Jeff 2023-01-01 application/pdf https://escholarship.org/uc/item/68z6h648 unknown eScholarship, University of California qt68z6h648 https://escholarship.org/uc/item/68z6h648 public Antarctic microbiome Palmer LTER metagenome-assembled genomes (MAGs) metagenomics microbial community function article 2023 ftcdlib 2023-11-20T19:04:57Z 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. Article in Journal/Newspaper Antarc* Antarctic Antarctic Peninsula University of California: eScholarship Antarctic Antarctic Peninsula The Antarctic |
institution |
Open Polar |
collection |
University of California: eScholarship |
op_collection_id |
ftcdlib |
language |
unknown |
topic |
Antarctic microbiome Palmer LTER metagenome-assembled genomes (MAGs) metagenomics microbial community function |
spellingShingle |
Antarctic microbiome Palmer LTER metagenome-assembled genomes (MAGs) metagenomics microbial community function Dutta, Avishek Connors, Elizabeth Trinh, Rebecca Erazo, Natalia Dasarathy, Srishti Ducklow, Hugh Steinberg, Deborah Schofield, Oscar Bowman, Jeff Depth drives the distribution of microbial ecological functions in the coastal western Antarctic Peninsula. |
topic_facet |
Antarctic microbiome Palmer LTER metagenome-assembled genomes (MAGs) metagenomics microbial community function |
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 |
Article in Journal/Newspaper |
author |
Dutta, Avishek Connors, Elizabeth Trinh, Rebecca Erazo, Natalia Dasarathy, Srishti Ducklow, Hugh Steinberg, Deborah Schofield, Oscar Bowman, Jeff |
author_facet |
Dutta, Avishek Connors, Elizabeth Trinh, Rebecca Erazo, Natalia Dasarathy, Srishti Ducklow, Hugh Steinberg, Deborah Schofield, Oscar Bowman, Jeff |
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 |
eScholarship, University of California |
publishDate |
2023 |
url |
https://escholarship.org/uc/item/68z6h648 |
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_relation |
qt68z6h648 https://escholarship.org/uc/item/68z6h648 |
op_rights |
public |
_version_ |
1785526179694903296 |