Table_1_The undiscovered biosynthetic potential of the Greenland Ice Sheet microbiome.XLSX
The Greenland Ice Sheet is a biome which is mainly microbially driven. Several different niches can be found within the glacial biome for those microbes able to withstand the harsh conditions, e.g., low temperatures, low nutrient conditions, high UV radiation in summer, and contrasting long and dark...
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Online Access: | https://doi.org/10.3389/fmicb.2023.1285791.s004 https://figshare.com/articles/dataset/Table_1_The_undiscovered_biosynthetic_potential_of_the_Greenland_Ice_Sheet_microbiome_XLSX/24791748 |
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ftfrontimediafig:oai:figshare.com:article/24791748 2024-01-07T09:43:35+01:00 Table_1_The undiscovered biosynthetic potential of the Greenland Ice Sheet microbiome.XLSX Ate H. Jaarsma Athanasios Zervas Katie Sipes Francisco Campuzano Jiménez Andrea Claire Smith Liessel Victoria Svendsen Mariane S. Thøgersen Peter Stougaard Liane G. Benning Martyn Tranter Alexandre M. Anesio 2023-12-12T04:06:20Z https://doi.org/10.3389/fmicb.2023.1285791.s004 https://figshare.com/articles/dataset/Table_1_The_undiscovered_biosynthetic_potential_of_the_Greenland_Ice_Sheet_microbiome_XLSX/24791748 unknown doi:10.3389/fmicb.2023.1285791.s004 https://figshare.com/articles/dataset/Table_1_The_undiscovered_biosynthetic_potential_of_the_Greenland_Ice_Sheet_microbiome_XLSX/24791748 CC BY 4.0 Microbiology Microbial Genetics Microbial Ecology Mycology supraglacial habitats extremophiles metagenomic sequencing biosynthetic gene clusters genome mining bioprospecting Dataset 2023 ftfrontimediafig https://doi.org/10.3389/fmicb.2023.1285791.s004 2023-12-14T00:13:46Z The Greenland Ice Sheet is a biome which is mainly microbially driven. Several different niches can be found within the glacial biome for those microbes able to withstand the harsh conditions, e.g., low temperatures, low nutrient conditions, high UV radiation in summer, and contrasting long and dark winters. Eukaryotic algae can form blooms during the summer on the ice surface, interacting with communities of bacteria, fungi, and viruses. Cryoconite holes and snow are also habitats with their own microbial community. Nevertheless, the microbiome of supraglacial habitats remains poorly studied, leading to a lack of representative genomes from these environments. Under-investigated extremophiles, like those living on the Greenland Ice Sheet, may provide an untapped reservoir of chemical diversity that is yet to be discovered. In this study, an inventory of the biosynthetic potential of these organisms is made, through cataloging the presence of biosynthetic gene clusters in their genomes. There were 133 high-quality metagenome-assembled genomes (MAGs) and 28 whole genomes of bacteria obtained from samples of the ice sheet surface, cryoconite, biofilm, and snow using culturing-dependent and -independent approaches. AntiSMASH and BiG-SCAPE were used to mine these genomes and subsequently analyze the resulting predicted gene clusters. Extensive sets of predicted Biosynthetic Gene Clusters (BGCs) were collected from the genome collection, with limited overlap between isolates and MAGs. Additionally, little overlap was found in the biosynthetic potential among different environments, suggesting specialization of organisms in specific habitats. The median number of BGCs per genome was significantly higher for the isolates compared to the MAGs. The most talented producers were found among Proteobacteria. We found evidence for the capacity of these microbes to produce antimicrobials, carotenoid pigments, siderophores, and osmoprotectants, indicating potential survival mechanisms to cope with extreme conditions. The ... Dataset Greenland Ice Sheet Frontiers: Figshare Greenland |
institution |
Open Polar |
collection |
Frontiers: Figshare |
op_collection_id |
ftfrontimediafig |
language |
unknown |
topic |
Microbiology Microbial Genetics Microbial Ecology Mycology supraglacial habitats extremophiles metagenomic sequencing biosynthetic gene clusters genome mining bioprospecting |
spellingShingle |
Microbiology Microbial Genetics Microbial Ecology Mycology supraglacial habitats extremophiles metagenomic sequencing biosynthetic gene clusters genome mining bioprospecting Ate H. Jaarsma Athanasios Zervas Katie Sipes Francisco Campuzano Jiménez Andrea Claire Smith Liessel Victoria Svendsen Mariane S. Thøgersen Peter Stougaard Liane G. Benning Martyn Tranter Alexandre M. Anesio Table_1_The undiscovered biosynthetic potential of the Greenland Ice Sheet microbiome.XLSX |
topic_facet |
Microbiology Microbial Genetics Microbial Ecology Mycology supraglacial habitats extremophiles metagenomic sequencing biosynthetic gene clusters genome mining bioprospecting |
description |
The Greenland Ice Sheet is a biome which is mainly microbially driven. Several different niches can be found within the glacial biome for those microbes able to withstand the harsh conditions, e.g., low temperatures, low nutrient conditions, high UV radiation in summer, and contrasting long and dark winters. Eukaryotic algae can form blooms during the summer on the ice surface, interacting with communities of bacteria, fungi, and viruses. Cryoconite holes and snow are also habitats with their own microbial community. Nevertheless, the microbiome of supraglacial habitats remains poorly studied, leading to a lack of representative genomes from these environments. Under-investigated extremophiles, like those living on the Greenland Ice Sheet, may provide an untapped reservoir of chemical diversity that is yet to be discovered. In this study, an inventory of the biosynthetic potential of these organisms is made, through cataloging the presence of biosynthetic gene clusters in their genomes. There were 133 high-quality metagenome-assembled genomes (MAGs) and 28 whole genomes of bacteria obtained from samples of the ice sheet surface, cryoconite, biofilm, and snow using culturing-dependent and -independent approaches. AntiSMASH and BiG-SCAPE were used to mine these genomes and subsequently analyze the resulting predicted gene clusters. Extensive sets of predicted Biosynthetic Gene Clusters (BGCs) were collected from the genome collection, with limited overlap between isolates and MAGs. Additionally, little overlap was found in the biosynthetic potential among different environments, suggesting specialization of organisms in specific habitats. The median number of BGCs per genome was significantly higher for the isolates compared to the MAGs. The most talented producers were found among Proteobacteria. We found evidence for the capacity of these microbes to produce antimicrobials, carotenoid pigments, siderophores, and osmoprotectants, indicating potential survival mechanisms to cope with extreme conditions. The ... |
format |
Dataset |
author |
Ate H. Jaarsma Athanasios Zervas Katie Sipes Francisco Campuzano Jiménez Andrea Claire Smith Liessel Victoria Svendsen Mariane S. Thøgersen Peter Stougaard Liane G. Benning Martyn Tranter Alexandre M. Anesio |
author_facet |
Ate H. Jaarsma Athanasios Zervas Katie Sipes Francisco Campuzano Jiménez Andrea Claire Smith Liessel Victoria Svendsen Mariane S. Thøgersen Peter Stougaard Liane G. Benning Martyn Tranter Alexandre M. Anesio |
author_sort |
Ate H. Jaarsma |
title |
Table_1_The undiscovered biosynthetic potential of the Greenland Ice Sheet microbiome.XLSX |
title_short |
Table_1_The undiscovered biosynthetic potential of the Greenland Ice Sheet microbiome.XLSX |
title_full |
Table_1_The undiscovered biosynthetic potential of the Greenland Ice Sheet microbiome.XLSX |
title_fullStr |
Table_1_The undiscovered biosynthetic potential of the Greenland Ice Sheet microbiome.XLSX |
title_full_unstemmed |
Table_1_The undiscovered biosynthetic potential of the Greenland Ice Sheet microbiome.XLSX |
title_sort |
table_1_the undiscovered biosynthetic potential of the greenland ice sheet microbiome.xlsx |
publishDate |
2023 |
url |
https://doi.org/10.3389/fmicb.2023.1285791.s004 https://figshare.com/articles/dataset/Table_1_The_undiscovered_biosynthetic_potential_of_the_Greenland_Ice_Sheet_microbiome_XLSX/24791748 |
geographic |
Greenland |
geographic_facet |
Greenland |
genre |
Greenland Ice Sheet |
genre_facet |
Greenland Ice Sheet |
op_relation |
doi:10.3389/fmicb.2023.1285791.s004 https://figshare.com/articles/dataset/Table_1_The_undiscovered_biosynthetic_potential_of_the_Greenland_Ice_Sheet_microbiome_XLSX/24791748 |
op_rights |
CC BY 4.0 |
op_doi |
https://doi.org/10.3389/fmicb.2023.1285791.s004 |
_version_ |
1787424851738230784 |