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Agricultural land use determines functional genetic diversity of soil microbial communities

Manoharan, Lokeshwaran LU ; Kushwaha, Sandeep K. LU ; Ahrén, Dag LU and Hedlund, Katarina LU (2017) In Soil Biology and Biochemistry 115. p.423-432
Abstract

Microbial communities play a major role in the degradation of soil organic matter (SOM) in soils. Despite its significance, the functional diversity of the highly diverse microbial communities is poorly understood. To address this, we applied a recently developed technique, captured metagenomics, to determine the effects of land-use on the functional genetic diversity of genes involved in the carbon degradation of SOM in five pairs of agricultural soils with either winter wheat or grass as management. In addition, 16S rRNA based amplicon sequencing was used to study the taxonomic composition in the same soils. The functional genes resulting from the captured metagenomes had a higher abundance and diversity of sequences coding for... (More)

Microbial communities play a major role in the degradation of soil organic matter (SOM) in soils. Despite its significance, the functional diversity of the highly diverse microbial communities is poorly understood. To address this, we applied a recently developed technique, captured metagenomics, to determine the effects of land-use on the functional genetic diversity of genes involved in the carbon degradation of SOM in five pairs of agricultural soils with either winter wheat or grass as management. In addition, 16S rRNA based amplicon sequencing was used to study the taxonomic composition in the same soils. The functional genes resulting from the captured metagenomes had a higher abundance and diversity of sequences coding for enzymes degrading SOM in the grasslands compared to the wheat soils. Though the taxonomic diversity did not correlate with the land use. Amounts of C and N (organic matter content) in the soils affected both functional and taxonomic diversity of the microbial communities, where N was highly correlated to their functions and C was highly correlated to their taxonomy. Captured metagenomic analyses of the functional genes may provide a measure of the potential SOM degradation capacity by soil microbial communities at a high resolution. This can be used for assessments of how agricultural management affects the functioning of soil communities.

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author
organization
publishing date
type
Contribution to journal
publication status
published
subject
keywords
Captured metagenomics, Functional genes, Land-use management, Microbial ecology, MiSeq paired-end sequencing
in
Soil Biology and Biochemistry
volume
115
pages
10 pages
publisher
Elsevier
external identifiers
  • scopus:85029542087
  • wos:000414880000045
ISSN
0038-0717
DOI
10.1016/j.soilbio.2017.09.011
language
English
LU publication?
yes
id
1f16799d-c5c1-48c7-855c-77d8376cf718
date added to LUP
2017-09-29 06:54:07
date last changed
2018-01-16 13:19:49
@article{1f16799d-c5c1-48c7-855c-77d8376cf718,
  abstract     = {<p>Microbial communities play a major role in the degradation of soil organic matter (SOM) in soils. Despite its significance, the functional diversity of the highly diverse microbial communities is poorly understood. To address this, we applied a recently developed technique, captured metagenomics, to determine the effects of land-use on the functional genetic diversity of genes involved in the carbon degradation of SOM in five pairs of agricultural soils with either winter wheat or grass as management. In addition, 16S rRNA based amplicon sequencing was used to study the taxonomic composition in the same soils. The functional genes resulting from the captured metagenomes had a higher abundance and diversity of sequences coding for enzymes degrading SOM in the grasslands compared to the wheat soils. Though the taxonomic diversity did not correlate with the land use. Amounts of C and N (organic matter content) in the soils affected both functional and taxonomic diversity of the microbial communities, where N was highly correlated to their functions and C was highly correlated to their taxonomy. Captured metagenomic analyses of the functional genes may provide a measure of the potential SOM degradation capacity by soil microbial communities at a high resolution. This can be used for assessments of how agricultural management affects the functioning of soil communities.</p>},
  author       = {Manoharan, Lokeshwaran and Kushwaha, Sandeep K. and Ahrén, Dag and Hedlund, Katarina},
  issn         = {0038-0717},
  keyword      = {Captured metagenomics,Functional genes,Land-use management,Microbial ecology,MiSeq paired-end sequencing},
  language     = {eng},
  month        = {12},
  pages        = {423--432},
  publisher    = {Elsevier},
  series       = {Soil Biology and Biochemistry},
  title        = {Agricultural land use determines functional genetic diversity of soil microbial communities},
  url          = {http://dx.doi.org/10.1016/j.soilbio.2017.09.011},
  volume       = {115},
  year         = {2017},
}