Data from: Cross-biome metagenomic analyses of soil microbial communities and their functional attributes
For centuries ecologists have studied how the diversity and functional traits of plant and animal communities vary across biomes. In contrast, we have only just begun exploring similar questions for soil microbial communities despite soil microbes being the dominant engines of biogeochemical cycles...
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ftdryad:oai:v1.datadryad.org:10255/dryad.49448 2023-05-15T18:40:34+02:00 Data from: Cross-biome metagenomic analyses of soil microbial communities and their functional attributes Fierer, Noah Leff, Jonathan W. Adams, Byron J. Nielsen, Uffe N. Bates, Scott Thomas Lauber, Christian L. Owens, Sarah Gilbert, Jack A. Wall, Diana H. Caporaso, J. Gregory 2013-05-07T14:48:55Z http://hdl.handle.net/10255/dryad.49448 https://doi.org/10.5061/dryad.q2n78 unknown 109;52;2012 doi:10.5061/dryad.q2n78/1 doi:10.5061/dryad.q2n78/2 doi:10.1073/pnas.1215210110 PMID:23236140 doi:10.5061/dryad.q2n78 Fierer N, Leff JW, Adams BJ, Nielsen UN, Bates ST, Lauber CL, Owens S, Gilbert JA, Wall DH, Caporaso JG (2012) Cross-biome metagenomic analyses of soil microbial communities and their functional attributes. Proceedings of the National Academy of Sciences of the United States of America 109(52): 21390–21395. http://hdl.handle.net/10255/dryad.49448 shotgun metagenomics soil microbial ecology 16S rRNA gene sequencing biogeography Article 2013 ftdryad https://doi.org/10.5061/dryad.q2n78 https://doi.org/10.5061/dryad.q2n78/1 https://doi.org/10.5061/dryad.q2n78/2 https://doi.org/10.1073/pnas.1215210110 2020-01-01T15:01:31Z For centuries ecologists have studied how the diversity and functional traits of plant and animal communities vary across biomes. In contrast, we have only just begun exploring similar questions for soil microbial communities despite soil microbes being the dominant engines of biogeochemical cycles and a major pool of living biomass in terrestrial ecosystems. We used metagenomic sequencing to compare the composition and functional attributes of 16 soil microbial communities collected from cold deserts, hot deserts, forests, grasslands, and tundra. Those communities found in plant-free cold desert soils typically had the lowest levels of functional diversity (diversity of protein-coding gene categories) and the lowest levels of phylogenetic and taxonomic diversity. Across all soils, functional beta diversity was strongly correlated with taxonomic and phylogenetic beta diversity; the desert microbial communities were clearly distinct from the nondesert communities regardless of the metric used. The desert communities had higher relative abundances of genes associated with osmoregulation and dormancy, but lower relative abundances of genes associated with nutrient cycling and the catabolism of plant-derived organic compounds. Antibiotic resistance genes were consistently threefold less abundant in the desert soils than in the nondesert soils, suggesting that abiotic conditions, not competitive interactions, are more important in shaping the desert microbial communities. As the most comprehensive survey of soil taxonomic, phylogenetic, and functional diversity to date, this study demonstrates that metagenomic approaches can be used to build a predictive understanding of how microbial diversity and function vary across terrestrial biomes. Article in Journal/Newspaper Tundra Dryad Digital Repository (Duke University) |
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Dryad Digital Repository (Duke University) |
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shotgun metagenomics soil microbial ecology 16S rRNA gene sequencing biogeography |
spellingShingle |
shotgun metagenomics soil microbial ecology 16S rRNA gene sequencing biogeography Fierer, Noah Leff, Jonathan W. Adams, Byron J. Nielsen, Uffe N. Bates, Scott Thomas Lauber, Christian L. Owens, Sarah Gilbert, Jack A. Wall, Diana H. Caporaso, J. Gregory Data from: Cross-biome metagenomic analyses of soil microbial communities and their functional attributes |
topic_facet |
shotgun metagenomics soil microbial ecology 16S rRNA gene sequencing biogeography |
description |
For centuries ecologists have studied how the diversity and functional traits of plant and animal communities vary across biomes. In contrast, we have only just begun exploring similar questions for soil microbial communities despite soil microbes being the dominant engines of biogeochemical cycles and a major pool of living biomass in terrestrial ecosystems. We used metagenomic sequencing to compare the composition and functional attributes of 16 soil microbial communities collected from cold deserts, hot deserts, forests, grasslands, and tundra. Those communities found in plant-free cold desert soils typically had the lowest levels of functional diversity (diversity of protein-coding gene categories) and the lowest levels of phylogenetic and taxonomic diversity. Across all soils, functional beta diversity was strongly correlated with taxonomic and phylogenetic beta diversity; the desert microbial communities were clearly distinct from the nondesert communities regardless of the metric used. The desert communities had higher relative abundances of genes associated with osmoregulation and dormancy, but lower relative abundances of genes associated with nutrient cycling and the catabolism of plant-derived organic compounds. Antibiotic resistance genes were consistently threefold less abundant in the desert soils than in the nondesert soils, suggesting that abiotic conditions, not competitive interactions, are more important in shaping the desert microbial communities. As the most comprehensive survey of soil taxonomic, phylogenetic, and functional diversity to date, this study demonstrates that metagenomic approaches can be used to build a predictive understanding of how microbial diversity and function vary across terrestrial biomes. |
format |
Article in Journal/Newspaper |
author |
Fierer, Noah Leff, Jonathan W. Adams, Byron J. Nielsen, Uffe N. Bates, Scott Thomas Lauber, Christian L. Owens, Sarah Gilbert, Jack A. Wall, Diana H. Caporaso, J. Gregory |
author_facet |
Fierer, Noah Leff, Jonathan W. Adams, Byron J. Nielsen, Uffe N. Bates, Scott Thomas Lauber, Christian L. Owens, Sarah Gilbert, Jack A. Wall, Diana H. Caporaso, J. Gregory |
author_sort |
Fierer, Noah |
title |
Data from: Cross-biome metagenomic analyses of soil microbial communities and their functional attributes |
title_short |
Data from: Cross-biome metagenomic analyses of soil microbial communities and their functional attributes |
title_full |
Data from: Cross-biome metagenomic analyses of soil microbial communities and their functional attributes |
title_fullStr |
Data from: Cross-biome metagenomic analyses of soil microbial communities and their functional attributes |
title_full_unstemmed |
Data from: Cross-biome metagenomic analyses of soil microbial communities and their functional attributes |
title_sort |
data from: cross-biome metagenomic analyses of soil microbial communities and their functional attributes |
publishDate |
2013 |
url |
http://hdl.handle.net/10255/dryad.49448 https://doi.org/10.5061/dryad.q2n78 |
genre |
Tundra |
genre_facet |
Tundra |
op_relation |
109;52;2012 doi:10.5061/dryad.q2n78/1 doi:10.5061/dryad.q2n78/2 doi:10.1073/pnas.1215210110 PMID:23236140 doi:10.5061/dryad.q2n78 Fierer N, Leff JW, Adams BJ, Nielsen UN, Bates ST, Lauber CL, Owens S, Gilbert JA, Wall DH, Caporaso JG (2012) Cross-biome metagenomic analyses of soil microbial communities and their functional attributes. Proceedings of the National Academy of Sciences of the United States of America 109(52): 21390–21395. http://hdl.handle.net/10255/dryad.49448 |
op_doi |
https://doi.org/10.5061/dryad.q2n78 https://doi.org/10.5061/dryad.q2n78/1 https://doi.org/10.5061/dryad.q2n78/2 https://doi.org/10.1073/pnas.1215210110 |
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1766229955587342336 |