DNA metabarcoding of a mock community of 189 fungal strains associated to plants and soils. (doi:10.15454/8CVWRR)

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Document Description

Citation

Title:

DNA metabarcoding of a mock community of 189 fungal strains associated to plants and soils.

Identification Number:

doi:10.15454/8CVWRR

Distributor:

Portail Data INRAE

Date of Distribution:

2018-08-03

Version:

1

Bibliographic Citation:

Pauvert, Charlie; Buée, Marc; Laval, Valérie; Edel-Hermann, Véronique; Fauchery, Laure; Gautier, Angélique; Lesur Kupin, Isabelle; Vallance, Jessica; Vacher, Corinne, 2018, "DNA metabarcoding of a mock community of 189 fungal strains associated to plants and soils.", https://doi.org/10.15454/8CVWRR, Portail Data INRAE, V1

Study Description

Citation

Title:

DNA metabarcoding of a mock community of 189 fungal strains associated to plants and soils.

Identification Number:

doi:10.15454/8CVWRR

Authoring Entity:

Pauvert, Charlie (INRA - Institut National de la Recherche Agronomique)

Buée, Marc (INRA - Institut National de la Recherche Agronomique)

Laval, Valérie (INRA - Institut National de la Recherche Agronomique)

Edel-Hermann, Véronique (INRA - Institut National de la Recherche Agronomique)

Fauchery, Laure (INRA - Institut National de la Recherche Agronomique)

Gautier, Angélique (INRA - Institut National de la Recherche Agronomique)

Lesur Kupin, Isabelle (INRA - Institut National de la Recherche Agronomique)

Vallance, Jessica (INRA - Institut National de la Recherche Agronomique)

Vacher, Corinne (INRA - Institut National de la Recherche Agronomique)

Distributor:

Portail Data INRAE

Access Authority:

Pauvert, Charlie

Access Authority:

Buée, Marc

Access Authority:

Vacher, Corinne

Depositor:

Pauvert, Charlie

Date of Deposit:

2018-08-03

Study Scope

Keywords:

Earth and Environmental Sciences, Medicine, Health and Life Sciences

Topic Classification:

Soils and soil sciences, Plant Health and Pathology, Omics, Microorganisms, Biodiversity and Ecology

Abstract:

This sequence dataset (FASTQ format) was obtained by metabarcoding an artificial (mock) fungal community. The ribosomal internal transcribed spacer region 1 (ITS1) was amplified with the ITS1F / ITS2 primer pair and sequenced on an Illumina MiSeq platform (v3 chemistry, 2x250 bp). The mock community was composed of an equimolar mixture of the DNA of 189 pure fungal strains isolated from soils, sporocarps or plant tissues. All the strains belonged to the subkingdom Dikarya: 87 Ascomycota strains, 99 Basidiomycota strains and 3 Mucoromycota strains. The mock community was replicated three times (replicates DikA, DikB, DikC) and the three replicates were sequenced independently. The six files correspond to the forward (R1) and reverse (R2) sequences of each replicate. The sequencing was funded by the INRA MEM metaprogramme (Meta-Omics of Microbial Ecosystems, MetaBAR project). This sequence dataset was used to compare several bioinformatic approaches (Pauvert et al. Bioinformatics matters: the accuracy of plant and soil community data is highly dependent on the metabarcoding pipeline. Submitted).

Methodology and Processing

Sources Statement

Data Access

Notes:

<img src="https://www.etalab.gouv.fr/wp-content/uploads/2011/10/licence-ouverte-open-licence.gif" alt="Licence Ouverte" height="100"><a href="https://www.etalab.gouv.fr/licence-ouverte-open-licence">Licence Ouverte / Open Licence Version 2.0</a> compatible CC BY

Other Study Description Materials

Other Study-Related Materials

Label:

Forward_R1_ITSEnz.DikA.fastq

Notes:

application/octet-stream

Other Study-Related Materials

Label:

Forward_R1_ITSEnz.DikB.fastq

Notes:

application/octet-stream

Other Study-Related Materials

Label:

Forward_R1_ITSEnz.DikC.fastq

Notes:

application/octet-stream

Other Study-Related Materials

Label:

Reverse_R2_ITSEnz.DikA.fastq

Notes:

application/octet-stream

Other Study-Related Materials

Label:

Reverse_R2_ITSEnz.DikB.fastq

Notes:

application/octet-stream

Other Study-Related Materials

Label:

Reverse_R2_ITSEnz.DikC.fastq

Notes:

application/octet-stream