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Exploring microbial diversity in Greenland Ice Sheet supraglacial habitats through culturing-dependent and -independent approaches

The microbiome of Greenland Ice Sheet supraglacial habitats is still underinvestigated, and as a result there is a lack of representative genomes from these environments. In this study, we investigated the supraglacial microbiome through a combination of culturing-dependent and -independent approach...

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Autores principales: Jaarsma, Ate H, Sipes, Katie, Zervas, Athanasios, Jiménez, Francisco Campuzano, Ellegaard-Jensen, Lea, Thøgersen, Mariane S, Stougaard, Peter, Benning, Liane G, Tranter, Martyn, Anesio, Alexandre M
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10580271/
https://www.ncbi.nlm.nih.gov/pubmed/37791411
http://dx.doi.org/10.1093/femsec/fiad119
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author Jaarsma, Ate H
Sipes, Katie
Zervas, Athanasios
Jiménez, Francisco Campuzano
Ellegaard-Jensen, Lea
Thøgersen, Mariane S
Stougaard, Peter
Benning, Liane G
Tranter, Martyn
Anesio, Alexandre M
author_facet Jaarsma, Ate H
Sipes, Katie
Zervas, Athanasios
Jiménez, Francisco Campuzano
Ellegaard-Jensen, Lea
Thøgersen, Mariane S
Stougaard, Peter
Benning, Liane G
Tranter, Martyn
Anesio, Alexandre M
author_sort Jaarsma, Ate H
collection PubMed
description The microbiome of Greenland Ice Sheet supraglacial habitats is still underinvestigated, and as a result there is a lack of representative genomes from these environments. In this study, we investigated the supraglacial microbiome through a combination of culturing-dependent and -independent approaches. We explored ice, cryoconite, biofilm, and snow biodiversity to answer: (1) how microbial diversity differs between supraglacial habitats, (2) if obtained bacterial genomes reflect dominant community members, and (3) how culturing versus high throughput sequencing changes our observations of microbial diversity in supraglacial habitats. Genomes acquired through metagenomic sequencing (133 high-quality MAGs) and whole genome sequencing (73 bacterial isolates) were compared to the metagenome assemblies to investigate abundance within the total environmental DNA. Isolates obtained in this study were not dominant taxa in the habitat they were sampled from, in contrast to the obtained MAGs. We demonstrate here the advantages of using metagenome SSU rRNA genes to reflect whole-community diversity. Additionally, we demonstrate a proof-of-concept of the application of in situ culturing in a supraglacial setting.
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spelling pubmed-105802712023-10-18 Exploring microbial diversity in Greenland Ice Sheet supraglacial habitats through culturing-dependent and -independent approaches Jaarsma, Ate H Sipes, Katie Zervas, Athanasios Jiménez, Francisco Campuzano Ellegaard-Jensen, Lea Thøgersen, Mariane S Stougaard, Peter Benning, Liane G Tranter, Martyn Anesio, Alexandre M FEMS Microbiol Ecol Research Article The microbiome of Greenland Ice Sheet supraglacial habitats is still underinvestigated, and as a result there is a lack of representative genomes from these environments. In this study, we investigated the supraglacial microbiome through a combination of culturing-dependent and -independent approaches. We explored ice, cryoconite, biofilm, and snow biodiversity to answer: (1) how microbial diversity differs between supraglacial habitats, (2) if obtained bacterial genomes reflect dominant community members, and (3) how culturing versus high throughput sequencing changes our observations of microbial diversity in supraglacial habitats. Genomes acquired through metagenomic sequencing (133 high-quality MAGs) and whole genome sequencing (73 bacterial isolates) were compared to the metagenome assemblies to investigate abundance within the total environmental DNA. Isolates obtained in this study were not dominant taxa in the habitat they were sampled from, in contrast to the obtained MAGs. We demonstrate here the advantages of using metagenome SSU rRNA genes to reflect whole-community diversity. Additionally, we demonstrate a proof-of-concept of the application of in situ culturing in a supraglacial setting. Oxford University Press 2023-10-03 /pmc/articles/PMC10580271/ /pubmed/37791411 http://dx.doi.org/10.1093/femsec/fiad119 Text en © The Author(s) 2023. Published by Oxford University Press on behalf of FEMS. https://creativecommons.org/licenses/by/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Research Article
Jaarsma, Ate H
Sipes, Katie
Zervas, Athanasios
Jiménez, Francisco Campuzano
Ellegaard-Jensen, Lea
Thøgersen, Mariane S
Stougaard, Peter
Benning, Liane G
Tranter, Martyn
Anesio, Alexandre M
Exploring microbial diversity in Greenland Ice Sheet supraglacial habitats through culturing-dependent and -independent approaches
title Exploring microbial diversity in Greenland Ice Sheet supraglacial habitats through culturing-dependent and -independent approaches
title_full Exploring microbial diversity in Greenland Ice Sheet supraglacial habitats through culturing-dependent and -independent approaches
title_fullStr Exploring microbial diversity in Greenland Ice Sheet supraglacial habitats through culturing-dependent and -independent approaches
title_full_unstemmed Exploring microbial diversity in Greenland Ice Sheet supraglacial habitats through culturing-dependent and -independent approaches
title_short Exploring microbial diversity in Greenland Ice Sheet supraglacial habitats through culturing-dependent and -independent approaches
title_sort exploring microbial diversity in greenland ice sheet supraglacial habitats through culturing-dependent and -independent approaches
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10580271/
https://www.ncbi.nlm.nih.gov/pubmed/37791411
http://dx.doi.org/10.1093/femsec/fiad119
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