The PAMPA dataset: a metagenomic survey of microbial communities in Argentinean Pampean soils

N. RASCOVAN; B. CARBONETTO; S. REVALE; M. REINERT; . R. ALVAREZ; A. GODEAS; R. COLOMBO; M. AGUILAR; M. NOVAS; L. IANNONE; A. ZELADA; A. PARDO; G. SCHRAUF; A. MENTABERRY; M. VAZQUEZ

Microbiome

Springer-Verlag

Año: 2013 vol. 2013

2049-2618

bstractBackground:Soil is among the most diverse and complex environments in the world. Soil microorganisms play anessential role in biogeochemical cycles and affect plant growth and crop production. However, our knowledge ofthe relationship between species-assemblies and soil ecosystem processes is still very limited. The aim of this studywas to generate a comprehensive metagenomic survey to evaluate the effect of high-input agricultural practices onsoil microbial communities.Results:We collected soil samples from three different areas in the Argentinean Pampean region under threedifferent types of land uses and two soil sources (bulk and rhizospheric). We extracted total DNA from all samplesand also synthetized cDNA from rhizospheric samples. Using 454-FLX technology, we generated 112 16S ribosomalDNA and 14 16S ribosomal RNA amplicon libraries totaling 1.3 M reads and 36 shotgun metagenome librariestotaling 17.8 million reads (7.7 GB). Our preliminary results suggested that water availability could be the primarydriver that defined microbial assemblages over land use and soil source. However, when water was not a limitingresource (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 thefew large soil datasets publicly available. The detailed analysis of these data will provide a step forward in ourunderstanding of how soil microbiomes respond to high-input agricultural systems, and they will serve as a usefulcomparison with other soil metagenomic studies worldwide.Keywords:Soil microbial communities, Shotgun metagenome sequencing, Amplicon sequencing, Argentina,Pampas, Land use