Title

Pooled samples of mantle tissues from P. margaritifera - Project AMELIGEN color Fev. 2018

Date (Creation)

2018-02-01

Citation identifier

FR-330-715-368-00032-IFR_BIOINFO_PMARG_COLOR_WGS_2018

Abstract

Whole genome pooled sequencing of individuals from 4 populations and 3 different color phenotype in order to uncover the genetic variants linked to color expression in the pearl oyster P. margaritifera.

Credit

Ifremer - Unité Ressources Marines en Polynésie

Point of contact

Organisation name	Individual name	Electronic mail address	Role
IFREMER	Reisser Celine	Celine.Reisser@ifremer.fr	Author
IFREMER	SISMER	sismer@ifremer.fr	Publisher

GEMET - INSPIRE themes, version 1.0

• Habitats and biotopes

Thèmes Sextant

• /Biological Environment/Bioinformatics

ODATIS aggregation parameters and Essential Variable names

• Bioinformatics

Use limitation

Accès restreint

Access constraints

Restricted

Use constraints

Restricted

Language

English

Character set

UTF8

Topic category

• Environment

Reference system identifier

EPSG / WGS 84 (EPSG:4326) / 8.6

Distribution format

Name	Version

OnLine resource

Protocol	Linkage	Name
NETWORK:LINK	/home/ref-bioinfo/ifremer/rmpf/Pmarg_color_WGS_2018

Hierarchy level

Dataset

Statement

The present dataset was acquired through the convention AMELIGEN between Ifremer, DRMM and CRIOBE. Fresh mantle tissue was dissected from individuals of 4 different populations (Katiou, Rikitea, Takapoto, and hatchery from Gambier) and 3 different color phenotypes of P. margaritifera. DNA extraction performed with a Qiagen Blood and Tissue kit (Qiagen), following manufacturer's indications. Each sample represent a pool of about 20 individuals from a unique geographic location and for a unique phenotype. Sequences were obtained though a shotgun PCRfree 150PE sequencing on a HiSeq X Ten machine (with TruSeq LT adapters). Sample QC and libraries preparation and QC were performed by Genome Quebec, Quebec, Canada. The present dataset is composed of the raw output produced directly by Genome Quebec (fastq.gz format) for the 12 DNA pools sequenced (three phenotypes per population, four populations).

Metadata

File identifier

e0a8f7bc-423d-4043-b997-d839a083f01b

Metadata language

English

Character set

UTF8

Hierarchy level

Dataset

Date stamp

2019-03-04T11:16:46

Metadata standard name

ISO 19115:2003/19139 - SEXTANT

Metadata standard version

1.0

Metadata author

Organisation name	Individual name	Electronic mail address	Role
IFREMER	Reisser Celine	Celine.Reisser@ifremer.fr	Local service desk