Genomic and Metabolic Diversity of Marine Group I Thaumarchaeota in the Mesopelagic of Two Subtropical Gyres
Marine Group I (MGI) Thaumarchaeota are one of the most abundant and cosmopolitan chemoautotrophs within the global dark ocean. To date, no representatives of this archaeal group retrieved from the dark ocean have been successfully cultured. We used single cell genomics to investigate the genomic an...
Published in: | PLoS ONE |
---|---|
Main Authors: | , , , , , , , , , , , , |
Language: | unknown |
Published: |
2023
|
Subjects: | |
Online Access: | http://www.osti.gov/servlets/purl/1627694 https://www.osti.gov/biblio/1627694 https://doi.org/10.1371/journal.pone.0095380 |
id |
ftosti:oai:osti.gov:1627694 |
---|---|
record_format |
openpolar |
spelling |
ftosti:oai:osti.gov:1627694 2023-07-30T04:06:50+02:00 Genomic and Metabolic Diversity of Marine Group I Thaumarchaeota in the Mesopelagic of Two Subtropical Gyres Swan, Brandon K. Chaffin, Mark D. Martinez-Garcia, Manuel Morrison, Hilary G. Field, Erin K. Poulton, Nicole J. Masland, E. Dashiell P. Harris, Christopher C. Sczyrba, Alexander Chain, Patrick S. G. Koren, Sergey Woyke, Tanja Stepanauskas, Ramunas 2023-07-03 application/pdf http://www.osti.gov/servlets/purl/1627694 https://www.osti.gov/biblio/1627694 https://doi.org/10.1371/journal.pone.0095380 unknown http://www.osti.gov/servlets/purl/1627694 https://www.osti.gov/biblio/1627694 https://doi.org/10.1371/journal.pone.0095380 doi:10.1371/journal.pone.0095380 59 BASIC BIOLOGICAL SCIENCES 2023 ftosti https://doi.org/10.1371/journal.pone.0095380 2023-07-11T09:42:43Z Marine Group I (MGI) Thaumarchaeota are one of the most abundant and cosmopolitan chemoautotrophs within the global dark ocean. To date, no representatives of this archaeal group retrieved from the dark ocean have been successfully cultured. We used single cell genomics to investigate the genomic and metabolic diversity of thaumarchaea within the mesopelagic of the subtropical North Pacific and South Atlantic Ocean. Phylogenetic and metagenomic recruitment analysis revealed that MGI single amplified genomes (SAGs) are genetically and biogeographically distinct from existing thaumarchaea cultures obtained from surface waters. Confirming prior studies, we found genes encoding proteins for aerobic ammonia oxidation and the hydrolysis of urea, which may be used for energy production, as well as genes involved in 3-hydroxypropionate/4-hydroxybutyrate and oxidative tricarboxylic acid pathways. A large proportion of protein sequences identified in MGI SAGs were absent in the marine cultures Cenarchaeum symbiosum and Nitrosopumilus maritimus, thus expanding the predicted protein space for this archaeal group. Identifiable genes located on genomic islands with low metagenome recruitment capacity were enriched in cellular defense functions, likely in response to viral infections or grazing. We show that MGI Thaumarchaeota in the dark ocean may have more flexibility in potential energy sources and adaptations to biotic interactions than the existing, surface-ocean cultures. Other/Unknown Material South Atlantic Ocean SciTec Connect (Office of Scientific and Technical Information - OSTI, U.S. Department of Energy) Pacific PLoS ONE 9 4 e95380 |
institution |
Open Polar |
collection |
SciTec Connect (Office of Scientific and Technical Information - OSTI, U.S. Department of Energy) |
op_collection_id |
ftosti |
language |
unknown |
topic |
59 BASIC BIOLOGICAL SCIENCES |
spellingShingle |
59 BASIC BIOLOGICAL SCIENCES Swan, Brandon K. Chaffin, Mark D. Martinez-Garcia, Manuel Morrison, Hilary G. Field, Erin K. Poulton, Nicole J. Masland, E. Dashiell P. Harris, Christopher C. Sczyrba, Alexander Chain, Patrick S. G. Koren, Sergey Woyke, Tanja Stepanauskas, Ramunas Genomic and Metabolic Diversity of Marine Group I Thaumarchaeota in the Mesopelagic of Two Subtropical Gyres |
topic_facet |
59 BASIC BIOLOGICAL SCIENCES |
description |
Marine Group I (MGI) Thaumarchaeota are one of the most abundant and cosmopolitan chemoautotrophs within the global dark ocean. To date, no representatives of this archaeal group retrieved from the dark ocean have been successfully cultured. We used single cell genomics to investigate the genomic and metabolic diversity of thaumarchaea within the mesopelagic of the subtropical North Pacific and South Atlantic Ocean. Phylogenetic and metagenomic recruitment analysis revealed that MGI single amplified genomes (SAGs) are genetically and biogeographically distinct from existing thaumarchaea cultures obtained from surface waters. Confirming prior studies, we found genes encoding proteins for aerobic ammonia oxidation and the hydrolysis of urea, which may be used for energy production, as well as genes involved in 3-hydroxypropionate/4-hydroxybutyrate and oxidative tricarboxylic acid pathways. A large proportion of protein sequences identified in MGI SAGs were absent in the marine cultures Cenarchaeum symbiosum and Nitrosopumilus maritimus, thus expanding the predicted protein space for this archaeal group. Identifiable genes located on genomic islands with low metagenome recruitment capacity were enriched in cellular defense functions, likely in response to viral infections or grazing. We show that MGI Thaumarchaeota in the dark ocean may have more flexibility in potential energy sources and adaptations to biotic interactions than the existing, surface-ocean cultures. |
author |
Swan, Brandon K. Chaffin, Mark D. Martinez-Garcia, Manuel Morrison, Hilary G. Field, Erin K. Poulton, Nicole J. Masland, E. Dashiell P. Harris, Christopher C. Sczyrba, Alexander Chain, Patrick S. G. Koren, Sergey Woyke, Tanja Stepanauskas, Ramunas |
author_facet |
Swan, Brandon K. Chaffin, Mark D. Martinez-Garcia, Manuel Morrison, Hilary G. Field, Erin K. Poulton, Nicole J. Masland, E. Dashiell P. Harris, Christopher C. Sczyrba, Alexander Chain, Patrick S. G. Koren, Sergey Woyke, Tanja Stepanauskas, Ramunas |
author_sort |
Swan, Brandon K. |
title |
Genomic and Metabolic Diversity of Marine Group I Thaumarchaeota in the Mesopelagic of Two Subtropical Gyres |
title_short |
Genomic and Metabolic Diversity of Marine Group I Thaumarchaeota in the Mesopelagic of Two Subtropical Gyres |
title_full |
Genomic and Metabolic Diversity of Marine Group I Thaumarchaeota in the Mesopelagic of Two Subtropical Gyres |
title_fullStr |
Genomic and Metabolic Diversity of Marine Group I Thaumarchaeota in the Mesopelagic of Two Subtropical Gyres |
title_full_unstemmed |
Genomic and Metabolic Diversity of Marine Group I Thaumarchaeota in the Mesopelagic of Two Subtropical Gyres |
title_sort |
genomic and metabolic diversity of marine group i thaumarchaeota in the mesopelagic of two subtropical gyres |
publishDate |
2023 |
url |
http://www.osti.gov/servlets/purl/1627694 https://www.osti.gov/biblio/1627694 https://doi.org/10.1371/journal.pone.0095380 |
geographic |
Pacific |
geographic_facet |
Pacific |
genre |
South Atlantic Ocean |
genre_facet |
South Atlantic Ocean |
op_relation |
http://www.osti.gov/servlets/purl/1627694 https://www.osti.gov/biblio/1627694 https://doi.org/10.1371/journal.pone.0095380 doi:10.1371/journal.pone.0095380 |
op_doi |
https://doi.org/10.1371/journal.pone.0095380 |
container_title |
PLoS ONE |
container_volume |
9 |
container_issue |
4 |
container_start_page |
e95380 |
_version_ |
1772819772999729152 |