The PAMPA datasets: A metagenomic survey of microbial communities in Argentinean pampean soils

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Background: Soil is among the most diverse and complex environments in the world. Soil microorganisms play an essential role in biogeochemical cycles and affect plant growth and crop production. However, our knowledge of the relationship between species-assemblies and soil ecosystem processes is sti...

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Autores principales: Rascovan, Nicolás, Carbonetto, Belén, Revale, Santiago, Reinert, Marina D., Álvarez, Roberto, Godeas, Alicia M., Colombo, Roxana, Aguilar, Orlando Mario, Novas, María Victoria, Iannone, Leopoldo, Zelada, Alicia M., Pardo, Alejandro, Schrauf, Gustavo, Mentaberry, Alejandro, Vázquez, Martín P.
Formato: Articulo
Lenguaje:Inglés
Publicado: 2013
Materias:
Ciencias Exactas
Amplicon sequencing
Argentina
Land use
Pampas
Shotgun metagenome sequencing
Soil microbial communities
Acceso en línea:http://sedici.unlp.edu.ar/handle/10915/85351
Aporte de:
SEDICI (UNLP) de Universidad Nacional de La Plata
id I19-R120-10915-85351
record_format dspace
institution Universidad Nacional de La Plata
institution_str I-19
repository_str R-120
collection SEDICI (UNLP)
language Inglés
topic Ciencias Exactas
Amplicon sequencing
Argentina
Land use
Pampas
Shotgun metagenome sequencing
Soil microbial communities
spellingShingle Ciencias Exactas
Amplicon sequencing
Argentina
Land use
Pampas
Shotgun metagenome sequencing
Soil microbial communities
Rascovan, Nicolás
Carbonetto, Belén
Revale, Santiago
Reinert, Marina D.
Álvarez, Roberto
Godeas, Alicia M.
Colombo, Roxana
Aguilar, Orlando Mario
Novas, María Victoria
Iannone, Leopoldo
Zelada, Alicia M.
Pardo, Alejandro
Schrauf, Gustavo
Mentaberry, Alejandro
Vázquez, Martín P.
The PAMPA datasets: A metagenomic survey of microbial communities in Argentinean pampean soils
topic_facet Ciencias Exactas
Amplicon sequencing
Argentina
Land use
Pampas
Shotgun metagenome sequencing
Soil microbial communities
description Background: Soil is among the most diverse and complex environments in the world. Soil microorganisms play an essential role in biogeochemical cycles and affect plant growth and crop production. However, our knowledge of the relationship between species-assemblies and soil ecosystem processes is still very limited. The aim of this study was to generate a comprehensive metagenomic survey to evaluate the effect of high-input agricultural practices on soil microbial communities. Results: We collected soil samples from three different areas in the Argentinean Pampean region under three different types of land uses and two soil sources (bulk and rhizospheric). We extracted total DNA from all samples and also synthetized cDNA from rhizospheric samples. Using 454-FLX technology, we generated 112 16S ribosomal DNA and 14 16S ribosomal RNA amplicon libraries totaling 1.3 M reads and 36 shotgun metagenome libraries totaling 17.8 million reads (7.7 GB). Our preliminary results suggested that water availability could be the primary driver that defined microbial assemblages over land use and soil source. However, when water was not a limiting resource (annual precipitation >800 mm) land use was a primary driver. Conclusion: This was the first metagenomic study of soil conducted in Argentina and our datasets are among the few large soil datasets publicly available. The detailed analysis of these data will provide a step forward in our understanding of how soil microbiomes respond to high-input agricultural systems, and they will serve as a useful comparison with other soil metagenomic studies worldwide.
format Articulo
Articulo
author Rascovan, Nicolás
Carbonetto, Belén
Revale, Santiago
Reinert, Marina D.
Álvarez, Roberto
Godeas, Alicia M.
Colombo, Roxana
Aguilar, Orlando Mario
Novas, María Victoria
Iannone, Leopoldo
Zelada, Alicia M.
Pardo, Alejandro
Schrauf, Gustavo
Mentaberry, Alejandro
Vázquez, Martín P.
author_facet Rascovan, Nicolás
Carbonetto, Belén
Revale, Santiago
Reinert, Marina D.
Álvarez, Roberto
Godeas, Alicia M.
Colombo, Roxana
Aguilar, Orlando Mario
Novas, María Victoria
Iannone, Leopoldo
Zelada, Alicia M.
Pardo, Alejandro
Schrauf, Gustavo
Mentaberry, Alejandro
Vázquez, Martín P.
author_sort Rascovan, Nicolás
title The PAMPA datasets: A metagenomic survey of microbial communities in Argentinean pampean soils
title_short The PAMPA datasets: A metagenomic survey of microbial communities in Argentinean pampean soils
title_full The PAMPA datasets: A metagenomic survey of microbial communities in Argentinean pampean soils
title_fullStr The PAMPA datasets: A metagenomic survey of microbial communities in Argentinean pampean soils
title_full_unstemmed The PAMPA datasets: A metagenomic survey of microbial communities in Argentinean pampean soils
title_sort pampa datasets: a metagenomic survey of microbial communities in argentinean pampean soils
publishDate 2013
url http://sedici.unlp.edu.ar/handle/10915/85351
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bdutipo_str Repositorios
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