Temporal shifts of nitrite reducing communities in a rice field soil in Ibague (Colombia)

Denitrification and nitrification are microbial processes that regulate the cycle of nitrogen and nitrous oxide, which is considered an important greenhouse gas. Rice field soils have been known to have strong denitrifying activities; however, the microorganism structure that is responsible for deni...

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Published in:Agronomía Colombiana
Main Authors: Castro-González, Maribeb, Lima, Amanda
Format: Article in Journal/Newspaper
Language:Spanish
Published: Universidad Nacional de Colombia - Sede Bogotá - Facultad de Ciencias Agrarias 2016
Subjects:
denitrification
nitrogen cycle
soil microorganisms
nirS gene
diversity
S590-599.9
Sciences
Agricultural
desnitrificación
ciclo del nitrógeno
microorganismos del suelo
gen nirS
diversidad
Fuerte
Arctic
Online Access:https://revistas.unal.edu.co/index.php/agrocol/article/view/52993
id ftuncolombiarev:oai:www.revistas.unal.edu.co:article/52993
record_format openpolar
institution Open Polar
collection Universidad Nacional de Colombia: Portal de Revistas UN
op_collection_id ftuncolombiarev
language Spanish
topic denitrification
nitrogen cycle
soil microorganisms
nirS gene
diversity
S590-599.9
Sciences
Agricultural
desnitrificación
ciclo del nitrógeno
microorganismos del suelo
gen nirS
diversidad
spellingShingle denitrification
nitrogen cycle
soil microorganisms
nirS gene
diversity
S590-599.9
Sciences
Agricultural
desnitrificación
ciclo del nitrógeno
microorganismos del suelo
gen nirS
diversidad
Castro-González, Maribeb
Lima, Amanda
Temporal shifts of nitrite reducing communities in a rice field soil in Ibague (Colombia)
topic_facet denitrification
nitrogen cycle
soil microorganisms
nirS gene
diversity
S590-599.9
Sciences
Agricultural
desnitrificación
ciclo del nitrógeno
microorganismos del suelo
gen nirS
diversidad
description Denitrification and nitrification are microbial processes that regulate the cycle of nitrogen and nitrous oxide, which is considered an important greenhouse gas. Rice field soils have been known to have strong denitrifying activities; however, the microorganism structure that is responsible for denitrification and the temporal variation of these communities in the agricultural soils of Ibague (Colombia) is not well known. In this study, the denitrifying community composition was compared between a rice field soil and an uncultivated soil at three different times during the year using a terminal restriction fragment length polymorphism analysis of the nirS functional gene, which codes the enzyme that reduces nitrite, one of the key steps in the denitrification process. The results showed changes in the richness, relative abundance and diversity of the operational taxonomic units between the soils and sampling times. The canonical correspondence analysis indicated that the moisture and the pH were the environmental factors that explained the observed changes in the nirS-type denitrifiers' community composition in the studied soils. La desnitrificación y la nitrificación son procesos microbianos que regulan el ciclo del nitrógeno y del óxido nitroso, el cual es considerado como un importante gas invernadero. Los suelos cultivados con arroz presentan una fuerte actividad desnitrificante, sin embargo, la estructura de los microorganismos responsables de la desnitrificación y la variación temporal de estas comunidades en suelos agrícolas de Ibagué (Colombia) no es muy conocida. En este estudio se comparó la composición de la comunidad desnitrificante entre un suelo cultivado con arroz y uno no cultivado, en tres épocas del año, usando el análisis del polimorfismo de los fragmentos de restricción terminal del gen funcional nirS que codifica la enzima que reduce el nitrito, uno de los pasos claves del proceso de desnitrificación. Los resultados mostraron cambios en la riqueza, abundancia relativa y diversidad de ...
format Article in Journal/Newspaper
author Castro-González, Maribeb
Lima, Amanda
author_facet Castro-González, Maribeb
Lima, Amanda
author_sort Castro-González, Maribeb
title Temporal shifts of nitrite reducing communities in a rice field soil in Ibague (Colombia)
title_short Temporal shifts of nitrite reducing communities in a rice field soil in Ibague (Colombia)
title_full Temporal shifts of nitrite reducing communities in a rice field soil in Ibague (Colombia)
title_fullStr Temporal shifts of nitrite reducing communities in a rice field soil in Ibague (Colombia)
title_full_unstemmed Temporal shifts of nitrite reducing communities in a rice field soil in Ibague (Colombia)
title_sort temporal shifts of nitrite reducing communities in a rice field soil in ibague (colombia)
publisher Universidad Nacional de Colombia - Sede Bogotá - Facultad de Ciencias Agrarias
publishDate 2016
url https://revistas.unal.edu.co/index.php/agrocol/article/view/52993
long_lat ENVELOPE(-54.083,-54.083,-61.200,-61.200)
geographic Fuerte
geographic_facet Fuerte
genre Arctic
genre_facet Arctic
op_source Agronomía Colombiana; Vol. 34 Núm. 1 (2016); 82-91
Agronomía Colombiana; Vol. 34 No. 1 (2016); 82-91
Agronomía Colombiana; v. 34 n. 1 (2016); 82-91
2357-3732
0120-9965
op_relation https://revistas.unal.edu.co/index.php/agrocol/article/view/52993/56056
https://revistas.unal.edu.co/index.php/agrocol/article/view/52993/60642
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op_rights Derechos de autor 2016 Agronomía Colombiana
https://creativecommons.org/licenses/by-nc-sa/4.0
op_rightsnorm CC-BY-NC-SA
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spelling ftuncolombiarev:oai:www.revistas.unal.edu.co:article/52993 2023-05-15T14:28:31+02:00 Temporal shifts of nitrite reducing communities in a rice field soil in Ibague (Colombia) Cambios temporales de las comunidades reductoras de nitrito en un campo de suelo arrocero en Ibagué (Colombia) Castro-González, Maribeb Lima, Amanda 2016-01-01 application/pdf text/html https://revistas.unal.edu.co/index.php/agrocol/article/view/52993 spa spa Universidad Nacional de Colombia - Sede Bogotá - Facultad de Ciencias Agrarias https://revistas.unal.edu.co/index.php/agrocol/article/view/52993/56056 https://revistas.unal.edu.co/index.php/agrocol/article/view/52993/60642 Arbeli, Z. and C. Fuentes. 2010. Prevalence of the gene trzN and biogeographic patterns among atrazine-degrading bacterium isolated from 13 Colombian agricultural soils. FEMS Microbiol. Ecol. 73, 611-623. Doi:10.1111/j.1574-6941.2010.00905.x Avellaneda-Torres, L.M. 2014. Caracterización de comunidades microbianas asociadas a prácticas agrícolas y usos del suelo de la verada El Bosque-Parque Nacional Natural de los Nevados. PhD thesis. Doctorate in Agroecology, Faculty of Agronomy, Universidad Nacional de Colombia, Bogota. Avrahami, S., R. Conrad, and G. Braker. 2002. Effects of soil ammonium concentration on N2O release and on the community structure of ammonia oxidizers and denitrifiers. Appl. Environ. Microbiol. 68, 5685-5692. Doi:10.1128/AEM.68.11.5685-5692.2002 Bannert, A., K. Kleineidam, L. Wissing, C. Mueller-Niggemann, V. Vogelsang, G. Welzl, Z. Cao, and M. Schloter. 2011. Changes in diversity and functional gene abundances of microbial communities involved in nitrogen fixation, nitrification, and denitrification in a tidal wetland versus paddy soils cultivated for different time periods. Appl. Environ. Microbiol. 77, 6109-6116. Doi:10.1128/AEM.01751-10 Bateman, E.J. and E.M. Baggs. 2005. Contributions of nitrification and denitrification to N2O emissions from soils at different water-filled pore space. Biol. Fert. Soils 41, 379-388. Doi:10.1007/s00374-005-0858-3 Berthrong, S.T., C.W. Schadt, G. Piñeiro, and R.B. Jackson. 2009. Afforestation alters the composition of functional genes in soil and biogeochemical processes in South American grasslands. Appl. Environ. Microbiol. 75, 6240-6248. Doi:10.1128/AEM.01126-09 Braker, G. and R. Conrad. 2011. Diversity, structure and size of N2O-producing microbial communities in soils-What matters for their functioning? Adv. Appl. Microb. 75, 33-70. Doi:10.1016/B978-0-12-387046-9.00002-5 Bremer, C., G. Braker, D. Matthies, A. Reuter, C. Engels, and R. Conrad. 2007. Impact of plant functional group, plant species, and sampling time on the composition of nirk-type denitrifier communities in soils. Appl. Environ. Microbiol. 73, 6876-6884. Doi:10.1128/AEM.01536-07 Cañon-Cortázar, R.G., L.M. Avellaneda-Torres, and E. Torres-Rojas. 2012. Microorganismos asociados al ciclo del nitrógeno en suelos bajo tres sistemas de uso: cultivo de papa, ganadería y páramo en el Parque los Nevados, Colombia. Acta Agron. 61, 371-379. Carney, K.M. and P.A. Matson. 2006. The influence of tropical plant diversity and composition on soil microbial communities. Microb. Ecol. 52, 226-238. Doi:10.1007/s00248-006-9115-z Castro, H.F., A.T. Classen, E.E. Austin, R.J. Norby, and C.W. Schadt. 2010. Soil microbial community responses to multiple experimental climate change drivers. Appl. Environ. Microbiol. 76, 999-1007. Doi:10.1128/AEM.02874-09 Castro-González, M. 2014. Evaluación de la comunidad desnitrificante tipo nosZ en la columna de agua de Isla del Sol, embalse de Prado, Tolima. Rev. Acad. Colomb. Cienc. Ex. Fis. Nat. 38, 385-392. Doi:10.18257/raccefyn.134 Chen, Z., X. Luo, R. Hu, M. Wu, J. Wu, and W. Wei. 2010. Impact of long-term fertilization on the composition of denitrifier communities based on nitrite reductase analyses in a paddy soil. Microb. Ecol. 60, 850-861. Doi:10.1007/s00248-010-9700-z Chen, Z., J. Liu, M. Wu, X. Xie, J. Wu, and W. Wei. 2012. Differentiated response of denitrifying communities to fertilization regime in paddy soil. Microbiol. Ecol. 63, 446-459. Doi:10.1007/s00248-011-9909-5 Cuhel, J., M. Simek, R.J. Laughlin, D. Bru, D. Cheneby, C.J. Watson, and I. Philippot. 2010. Insights into the effect of soil pH on N2O and N2 emissions and denitrifier community size and activity. Appl. Environ. Microbiol. 76, 1870-1878. Doi:10.1128/AEM.02484-09 Dandie, C.E., S. Wertz, C.L. Leclair, C. Goyer, D.L. Burton, C.L. Patten, B.J. Zebarth, and J.T. Trevors. 2011. Abundance, diversity and functional gene expression of denitrifier communities in adjacent riparian and agricultural zones. FEMS Microbiol. Ecol. 77, 69-82. Doi:10.1111/j.1574-6941.2011.01084.x Dell, E.A., D. Bowman, T. 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Doi:10.1016/j.agee.2012.01.022 Derechos de autor 2016 Agronomía Colombiana https://creativecommons.org/licenses/by-nc-sa/4.0 CC-BY-NC-SA Agronomía Colombiana; Vol. 34 Núm. 1 (2016); 82-91 Agronomía Colombiana; Vol. 34 No. 1 (2016); 82-91 Agronomía Colombiana; v. 34 n. 1 (2016); 82-91 2357-3732 0120-9965 denitrification nitrogen cycle soil microorganisms nirS gene diversity S590-599.9 Sciences Agricultural desnitrificación ciclo del nitrógeno microorganismos del suelo gen nirS diversidad info:eu-repo/semantics/article info:eu-repo/semantics/publishedVersion experimental 2016 ftuncolombiarev https://doi.org/10.1111/j.1574-6941.2010.00905.x https://doi.org/10.1128/AEM.68.11.5685-5692.2002 https://doi.org/10.1128/AEM.01751-10 https://doi.org/10.1007/s00374-005-0858-3 https://doi.org/10.1128/AEM.01126-09 https://doi.org/10.1128/AEM.015 2022-12-14T08:58:55Z Denitrification and nitrification are microbial processes that regulate the cycle of nitrogen and nitrous oxide, which is considered an important greenhouse gas. Rice field soils have been known to have strong denitrifying activities; however, the microorganism structure that is responsible for denitrification and the temporal variation of these communities in the agricultural soils of Ibague (Colombia) is not well known. In this study, the denitrifying community composition was compared between a rice field soil and an uncultivated soil at three different times during the year using a terminal restriction fragment length polymorphism analysis of the nirS functional gene, which codes the enzyme that reduces nitrite, one of the key steps in the denitrification process. The results showed changes in the richness, relative abundance and diversity of the operational taxonomic units between the soils and sampling times. The canonical correspondence analysis indicated that the moisture and the pH were the environmental factors that explained the observed changes in the nirS-type denitrifiers' community composition in the studied soils. La desnitrificación y la nitrificación son procesos microbianos que regulan el ciclo del nitrógeno y del óxido nitroso, el cual es considerado como un importante gas invernadero. Los suelos cultivados con arroz presentan una fuerte actividad desnitrificante, sin embargo, la estructura de los microorganismos responsables de la desnitrificación y la variación temporal de estas comunidades en suelos agrícolas de Ibagué (Colombia) no es muy conocida. En este estudio se comparó la composición de la comunidad desnitrificante entre un suelo cultivado con arroz y uno no cultivado, en tres épocas del año, usando el análisis del polimorfismo de los fragmentos de restricción terminal del gen funcional nirS que codifica la enzima que reduce el nitrito, uno de los pasos claves del proceso de desnitrificación. Los resultados mostraron cambios en la riqueza, abundancia relativa y diversidad de ... Article in Journal/Newspaper Arctic Universidad Nacional de Colombia: Portal de Revistas UN Fuerte ENVELOPE(-54.083,-54.083,-61.200,-61.200) Agronomía Colombiana 34 1 82 91

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