Drivers of archaeal ammonia-oxidizing communities in soil
Soil ammonia-oxidizing archaea (AOA) are highly abundant and play an important role in the nitrogen cycle. In addition, AOA have a significant impact on soil quality. Nitrite produced by AOA and further oxidized to nitrate can cause nitrogen loss from soils, surface and groundwater contamination, an...
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ftpubmed:oai:pubmedcentral.nih.gov:3375578 2023-05-15T13:37:06+02:00 Drivers of archaeal ammonia-oxidizing communities in soil Zhalnina, Kateryna de Quadros, Patrícia Dörr Camargo, Flavio A. O. Triplett, Eric W. 2012-06-15 http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3375578 http://www.ncbi.nlm.nih.gov/pubmed/22715335 https://doi.org/10.3389/fmicb.2012.00210 en eng Frontiers Research Foundation http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3375578 http://www.ncbi.nlm.nih.gov/pubmed/22715335 http://dx.doi.org/10.3389/fmicb.2012.00210 Copyright © Zhalnina, Dörr de Quadros, Camargo and Triplett. http://www.frontiersin.org/licenseagreement This is an open-access article distributed under the terms of the Creative Commons Attribution Non Commercial License (http://creativecommons.org/licenses/by-nc/3.0/) , which permits non-commercial use, distribution, and reproduction in other forums, provided the original authors and source are credited. CC-BY-NC Microbiology Text 2012 ftpubmed https://doi.org/10.3389/fmicb.2012.00210 2013-09-04T08:45:08Z Soil ammonia-oxidizing archaea (AOA) are highly abundant and play an important role in the nitrogen cycle. In addition, AOA have a significant impact on soil quality. Nitrite produced by AOA and further oxidized to nitrate can cause nitrogen loss from soils, surface and groundwater contamination, and water eutrophication. The AOA discovered to date are classified in the phylum Thaumarchaeota. Only a few archaeal genomes are available in databases. As a result, AOA genes are not well annotated, and it is difficult to mine and identify archaeal genes within metagenomic libraries. Nevertheless, 16S rRNA and comparative analysis of ammonia monooxygenase sequences show that soils can vary greatly in the relative abundance of AOA. In some soils, AOA can comprise more than 10% of the total prokaryotic community. In other soils, AOA comprise less than 0.5% of the community. Many approaches have been used to measure the abundance and diversity of this group including DGGE, T-RFLP, q-PCR, and DNA sequencing. AOA have been studied across different soil types and various ecosystems from the Antarctic dry valleys to the tropical forests of South America to the soils near Mount Everest. Different studies have identified multiple soil factors that trigger the abundance of AOA. These factors include pH, concentration of available ammonia, organic matter content, moisture content, nitrogen content, clay content, as well as other triggers. Land use management appears to have a major effect on the abundance of AOA in soil, which may be the result of nitrogen fertilizer used in agricultural soils. This review summarizes the published results on this topic and suggests future work that will increase our understanding of how soil management and edaphoclimatic factors influence AOA. Text Antarc* Antarctic PubMed Central (PMC) Antarctic The Antarctic Frontiers in Microbiology 3 |
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Microbiology Zhalnina, Kateryna de Quadros, Patrícia Dörr Camargo, Flavio A. O. Triplett, Eric W. Drivers of archaeal ammonia-oxidizing communities in soil |
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Microbiology |
description |
Soil ammonia-oxidizing archaea (AOA) are highly abundant and play an important role in the nitrogen cycle. In addition, AOA have a significant impact on soil quality. Nitrite produced by AOA and further oxidized to nitrate can cause nitrogen loss from soils, surface and groundwater contamination, and water eutrophication. The AOA discovered to date are classified in the phylum Thaumarchaeota. Only a few archaeal genomes are available in databases. As a result, AOA genes are not well annotated, and it is difficult to mine and identify archaeal genes within metagenomic libraries. Nevertheless, 16S rRNA and comparative analysis of ammonia monooxygenase sequences show that soils can vary greatly in the relative abundance of AOA. In some soils, AOA can comprise more than 10% of the total prokaryotic community. In other soils, AOA comprise less than 0.5% of the community. Many approaches have been used to measure the abundance and diversity of this group including DGGE, T-RFLP, q-PCR, and DNA sequencing. AOA have been studied across different soil types and various ecosystems from the Antarctic dry valleys to the tropical forests of South America to the soils near Mount Everest. Different studies have identified multiple soil factors that trigger the abundance of AOA. These factors include pH, concentration of available ammonia, organic matter content, moisture content, nitrogen content, clay content, as well as other triggers. Land use management appears to have a major effect on the abundance of AOA in soil, which may be the result of nitrogen fertilizer used in agricultural soils. This review summarizes the published results on this topic and suggests future work that will increase our understanding of how soil management and edaphoclimatic factors influence AOA. |
format |
Text |
author |
Zhalnina, Kateryna de Quadros, Patrícia Dörr Camargo, Flavio A. O. Triplett, Eric W. |
author_facet |
Zhalnina, Kateryna de Quadros, Patrícia Dörr Camargo, Flavio A. O. Triplett, Eric W. |
author_sort |
Zhalnina, Kateryna |
title |
Drivers of archaeal ammonia-oxidizing communities in soil |
title_short |
Drivers of archaeal ammonia-oxidizing communities in soil |
title_full |
Drivers of archaeal ammonia-oxidizing communities in soil |
title_fullStr |
Drivers of archaeal ammonia-oxidizing communities in soil |
title_full_unstemmed |
Drivers of archaeal ammonia-oxidizing communities in soil |
title_sort |
drivers of archaeal ammonia-oxidizing communities in soil |
publisher |
Frontiers Research Foundation |
publishDate |
2012 |
url |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3375578 http://www.ncbi.nlm.nih.gov/pubmed/22715335 https://doi.org/10.3389/fmicb.2012.00210 |
geographic |
Antarctic The Antarctic |
geographic_facet |
Antarctic The Antarctic |
genre |
Antarc* Antarctic |
genre_facet |
Antarc* Antarctic |
op_relation |
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3375578 http://www.ncbi.nlm.nih.gov/pubmed/22715335 http://dx.doi.org/10.3389/fmicb.2012.00210 |
op_rights |
Copyright © Zhalnina, Dörr de Quadros, Camargo and Triplett. http://www.frontiersin.org/licenseagreement This is an open-access article distributed under the terms of the Creative Commons Attribution Non Commercial License (http://creativecommons.org/licenses/by-nc/3.0/) , which permits non-commercial use, distribution, and reproduction in other forums, provided the original authors and source are credited. |
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CC-BY-NC |
op_doi |
https://doi.org/10.3389/fmicb.2012.00210 |
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Frontiers in Microbiology |
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3 |
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