Microbial diversity dynamic of tropical soil during 6 years of repeated organic and inorganic fertilization
Repeated application of organic mixed with inorganic materials in agriculture improves soil microbial quality and by extension crop productivity. While soil microbial quality at the end point following several years of a repeated fertilization diets have received considerable attention, the dynamic of this community throughout years had never been assessed. Here, we use a high-throughput sequencing approach targeting 16S ribosomal RNA gene to investigate throughout 6 years of repeated fertilizers (organic and inorganic) application the prokaryotic community evolution. Soils were sampled from a field experiment: La Mare (Reunion Island, France), where different mixed organic-inorganic fertilization diets characterized by more or less stable organic matter were applied regularly since 6 years. Each year, approximately more than 6 months after the last fertilization, soil samples were carried out. Our results highlighted that soil microbial community was lastingly modified after 6 years of repeated fertilization diets. These changes depended both on the nature of organic input and fertilization practices (frequencies and quantity applied).
ENA-FIRST-PUBLIC
2022-06-29
ENA-LAST-UPDATE
2022-06-29
External Id
SAMEA14353353
INSDC center alias
INRA-CMSE
INSDC center name
UMR Agroecology, INRA - Burgundy University, Dijon, France
INSDC first public
2022-06-29T12:16:59Z
INSDC last update
2022-06-29T12:16:59Z
INSDC status
public
Submitter Id
ReunPro2013_T1
collection_date
2013
current land use
crops
environment (biome)
agricultural soil
environment (feature)
microbial feature
environment (material)
soil
geographic location (country and/or sea)
France
geographic location (depth)
0.2
geographic location (elevation)
70
geographic location (latitude)
-20.9033889
geographic location (longitude)
55.52961111111111
geographic location (region and locality)
Réunion
investigation type
bacteria_archaea
multiplex identifiers
CACGTAGATC(forward) CGCGACATCT (reverse)
nucleic acid extraction
Microbial DNA was extracted from 1 g (dry weight) of soil using a single procedure standardized by the GenoSol platform (INRAE, Dijon, France, https://www2.dijon.inrae.fr/plateforme_genosol/) . Since a highly positive linear relationship has been shown between soil DNA recovery and C-biomass measurement , DNA concentrations of crude extracts were determined by electrophoresis in 1% agarose gel stained with ethidium bromide using a calf thymus DNA standard curve, and used as estimates of microbial biomass . After quantification, 100 µl of crude DNA extract were separated from the residual impurities, particularly humic substances, by using only the purification steps of Nucleospin Soil kit (Macherey-Nagel GmbH & Co. KG, Düren, Germany). Purified DNA concentrations were finally measured using the Quantifluor (Promega, Lyon, France) staining kit, according to the manufacturer's instructions.
pcr primers
5-CAGCMGCYGCNGTAANAC-3 (forward) 5-CCGYCAATTCMTTTRAGT-3 (reverse)
project name
ReunPro
sample name
ReunPro2013_T1
sample volume or weight for dna extraction
1
sequencing method
Illumina
soil environmental package
soil
target gene
16S