Tara Pacific metabarcoding sequencing (16S, 18S, ITS2) reference & replication tables version 1 - Archive ouverte HAL Accéder directement au contenu
Autre Publication Scientifique Année : 2020

Tara Pacific metabarcoding sequencing (16S, 18S, ITS2) reference & replication tables version 1

Benjamin C.C. Hume
Stéphane Pesant
Guillaume Bourdin
Sylvain Agostini
Bernard Banaigs
Emmanuel Boss
Stéphanie Reynaud
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Matthew Sullivan
Olivier Thomas
Romain Troublé
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Rebecca Vega Thurber
Didier Zoccola
Serge Planes
Denis Allemand
Shinichi Sunagawa
Patrick Wincker
Christian Voolstra

Résumé

The tables in this dataset associate metabarcoding sequencing files generated by Genoscope (i.e. fastq.gz files with informative filename structures; with sequencing file pairs associated to unique 'readset' identifiers; housed on their FTP server at www.genoscope.cns.fr/sadc/tarapacific/METABARCODING; with the 'METAB' sequence strategy identifier as part of the sequencing file name) with their associated 'sample-id_source' identifier; as detailed in the 'TARA-PACIFIC_samples-provenance' file part of the 'Tara Pacific samples provenance and environmental context' Zenodo publication (DOI: 10.5281/zenodo.4068292) part of the 'tarapacific' Zenodo community). The main purpose of these tables is to act as a reference to identify samples (i.e., with a single 'sample-id_source') for which sequencing replication exists, per primer set (i.e., more than one set of fastq.gz sequencing files were generated, pre primer set). In the case of replication, these tables classify the replication into three classes color coded as green (same DNA extraction, same PCR, same sequencing run, different sequencing lane), yellow (same DNA extraction, same PCR, different sequencing run) and red (different DNA extraction and/or different PCR). It should be noted that in the vast majority of cases a 'sample-id_source' associates to only one readset per primer set. For a full description of the dataset, please see the included README.

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Dates et versions

hal-04384100 , version 1 (10-01-2024)

Identifiants

Citer

Benjamin C.C. Hume, Julie Poulain, Stéphane Pesant, Caroline Belser, Hans-Joachim Ruscheweyh, et al.. Tara Pacific metabarcoding sequencing (16S, 18S, ITS2) reference & replication tables version 1. 2020, ⟨10.5281/ZENODO.4073035⟩. ⟨hal-04384100⟩
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