Comprehensive Metabolic and Taxonomic Reconstruction of an Ancient Microbial Mat From the McMurdo Ice Shelf (Antarctica) by Integrating Genetic, Metaproteomic and Lipid Biomarker Analyses
Paleobiological reconstructions based on molecular fossils may be limited by degradation processes causing differential preservation of biomolecules, the distinct taxonomic specificity of each biomolecule type, and analytical biases. Here, we combined the analysis of DNA, proteins and lipid biomarke...
Published in: | Frontiers in Microbiology |
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ftpubmed:oai:pubmedcentral.nih.gov:9345047 2023-05-15T13:51:20+02:00 Comprehensive Metabolic and Taxonomic Reconstruction of an Ancient Microbial Mat From the McMurdo Ice Shelf (Antarctica) by Integrating Genetic, Metaproteomic and Lipid Biomarker Analyses Lezcano, María Ángeles Sánchez-García, Laura Quesada, Antonio Carrizo, Daniel Fernández-Martínez, Miguel Ángel Cavalcante-Silva, Erika Parro, Víctor 2022-04-12 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9345047/ https://doi.org/10.3389/fmicb.2022.799360 en eng Frontiers Media S.A. http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9345047/ http://dx.doi.org/10.3389/fmicb.2022.799360 Copyright © 2022 Lezcano, Sánchez-García, Quesada, Carrizo, Fernández-Martínez, Cavalcante-Silva and Parro. 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. CC-BY Front Microbiol Microbiology Text 2022 ftpubmed https://doi.org/10.3389/fmicb.2022.799360 2022-08-07T01:02:49Z Paleobiological reconstructions based on molecular fossils may be limited by degradation processes causing differential preservation of biomolecules, the distinct taxonomic specificity of each biomolecule type, and analytical biases. Here, we combined the analysis of DNA, proteins and lipid biomarkers using 16S and 18S rRNA gene metabarcoding, metaproteomics and lipid analysis to reconstruct the taxonomic composition and metabolisms of a desiccated microbial mat from the McMurdo Ice Shelf (MIS) (Antarctica) dated ~1,000 years BP. The different lability, taxonomic resolution and analytical bias of each biomolecule type led to a distinct microbial community profile. DNA analysis showed selective preservation of DNA remnants from the most resistant taxa (e.g., spore-formers). In contrast, the proteins profile revealed microorganisms missed by DNA sequencing, such as Cyanobacteria, and showed a microbial composition similar to fresh microbial mats in the MIS. Lipid hydrocarbons also confirmed Cyanobacteria and suggested the presence of mosses or vascular plant remnants from a period in Antarctica when the climate was warmer (e.g., Mid-Miocene or Eocene). The combined analysis of the three biomolecule types also revealed diverse metabolisms that operated in the microbial mat before desiccation: oxygenic and anoxygenic photosynthesis, nitrogen fixation, nitrification, denitrification, sulfur reduction and oxidation, and methanogenesis. Therefore, the joint analysis of DNA, proteins and lipids resulted in a powerful approach that improved taxonomic and metabolic reconstructions overcoming information gaps derived from using individual biomolecules types. Text Antarc* Antarctica Ice Shelf McMurdo Ice Shelf PubMed Central (PMC) McMurdo Ice Shelf ENVELOPE(166.500,166.500,-78.000,-78.000) Frontiers in Microbiology 13 |
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PubMed Central (PMC) |
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English |
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Microbiology |
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Microbiology Lezcano, María Ángeles Sánchez-García, Laura Quesada, Antonio Carrizo, Daniel Fernández-Martínez, Miguel Ángel Cavalcante-Silva, Erika Parro, Víctor Comprehensive Metabolic and Taxonomic Reconstruction of an Ancient Microbial Mat From the McMurdo Ice Shelf (Antarctica) by Integrating Genetic, Metaproteomic and Lipid Biomarker Analyses |
topic_facet |
Microbiology |
description |
Paleobiological reconstructions based on molecular fossils may be limited by degradation processes causing differential preservation of biomolecules, the distinct taxonomic specificity of each biomolecule type, and analytical biases. Here, we combined the analysis of DNA, proteins and lipid biomarkers using 16S and 18S rRNA gene metabarcoding, metaproteomics and lipid analysis to reconstruct the taxonomic composition and metabolisms of a desiccated microbial mat from the McMurdo Ice Shelf (MIS) (Antarctica) dated ~1,000 years BP. The different lability, taxonomic resolution and analytical bias of each biomolecule type led to a distinct microbial community profile. DNA analysis showed selective preservation of DNA remnants from the most resistant taxa (e.g., spore-formers). In contrast, the proteins profile revealed microorganisms missed by DNA sequencing, such as Cyanobacteria, and showed a microbial composition similar to fresh microbial mats in the MIS. Lipid hydrocarbons also confirmed Cyanobacteria and suggested the presence of mosses or vascular plant remnants from a period in Antarctica when the climate was warmer (e.g., Mid-Miocene or Eocene). The combined analysis of the three biomolecule types also revealed diverse metabolisms that operated in the microbial mat before desiccation: oxygenic and anoxygenic photosynthesis, nitrogen fixation, nitrification, denitrification, sulfur reduction and oxidation, and methanogenesis. Therefore, the joint analysis of DNA, proteins and lipids resulted in a powerful approach that improved taxonomic and metabolic reconstructions overcoming information gaps derived from using individual biomolecules types. |
format |
Text |
author |
Lezcano, María Ángeles Sánchez-García, Laura Quesada, Antonio Carrizo, Daniel Fernández-Martínez, Miguel Ángel Cavalcante-Silva, Erika Parro, Víctor |
author_facet |
Lezcano, María Ángeles Sánchez-García, Laura Quesada, Antonio Carrizo, Daniel Fernández-Martínez, Miguel Ángel Cavalcante-Silva, Erika Parro, Víctor |
author_sort |
Lezcano, María Ángeles |
title |
Comprehensive Metabolic and Taxonomic Reconstruction of an Ancient Microbial Mat From the McMurdo Ice Shelf (Antarctica) by Integrating Genetic, Metaproteomic and Lipid Biomarker Analyses |
title_short |
Comprehensive Metabolic and Taxonomic Reconstruction of an Ancient Microbial Mat From the McMurdo Ice Shelf (Antarctica) by Integrating Genetic, Metaproteomic and Lipid Biomarker Analyses |
title_full |
Comprehensive Metabolic and Taxonomic Reconstruction of an Ancient Microbial Mat From the McMurdo Ice Shelf (Antarctica) by Integrating Genetic, Metaproteomic and Lipid Biomarker Analyses |
title_fullStr |
Comprehensive Metabolic and Taxonomic Reconstruction of an Ancient Microbial Mat From the McMurdo Ice Shelf (Antarctica) by Integrating Genetic, Metaproteomic and Lipid Biomarker Analyses |
title_full_unstemmed |
Comprehensive Metabolic and Taxonomic Reconstruction of an Ancient Microbial Mat From the McMurdo Ice Shelf (Antarctica) by Integrating Genetic, Metaproteomic and Lipid Biomarker Analyses |
title_sort |
comprehensive metabolic and taxonomic reconstruction of an ancient microbial mat from the mcmurdo ice shelf (antarctica) by integrating genetic, metaproteomic and lipid biomarker analyses |
publisher |
Frontiers Media S.A. |
publishDate |
2022 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9345047/ https://doi.org/10.3389/fmicb.2022.799360 |
long_lat |
ENVELOPE(166.500,166.500,-78.000,-78.000) |
geographic |
McMurdo Ice Shelf |
geographic_facet |
McMurdo Ice Shelf |
genre |
Antarc* Antarctica Ice Shelf McMurdo Ice Shelf |
genre_facet |
Antarc* Antarctica Ice Shelf McMurdo Ice Shelf |
op_source |
Front Microbiol |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC9345047/ http://dx.doi.org/10.3389/fmicb.2022.799360 |
op_rights |
Copyright © 2022 Lezcano, Sánchez-García, Quesada, Carrizo, Fernández-Martínez, Cavalcante-Silva and Parro. 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_rightsnorm |
CC-BY |
op_doi |
https://doi.org/10.3389/fmicb.2022.799360 |
container_title |
Frontiers in Microbiology |
container_volume |
13 |
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1766255154219188224 |