Active microbiome data of Penaeus stylirostris hemolymph and its rearing water under contrasting conditions
Metabarcoding data from water and shrimp's hemolymph in order to assess the microbial structure, variability with rearing conditions and identify possible biomarkers of healthy shrimps.
Simple
- Title
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Active microbiome data of Penaeus stylirostris hemolymph and its rearing water under contrasting conditions
- Date (Creation)
- 2020-03-02
- Date (Publication)
- 2024-01-24
- Citation identifier
- FR-330-715-368-00032-IFR_BIOINFO_METABA_SHRIMP_HEMOLYMPH
- Abstract
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Metabarcoding data from water and shrimp's hemolymph in order to assess the microbial structure, variability with rearing conditions and identify possible biomarkers of healthy shrimps.
- Credit
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Projet COMISTYL
- Point of contact
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Organisation name Individual name Electronic mail address Role IFREMER
Callac Nolwenn
Author IFREMER
Boulo Viviane
Author IFREMER
Ansquer Dominique
Author IFREMER
Belliard Corine
Author IFREMER
Plougoulen Gwen
Author IFREMER
Wabete Nelly
Author IFREMER
Pham Dominique
Author IFREMER
Saulnier Denis
Author IFREMER
Le Luyer Jeremy
Author IFREMER
Loyat Alain
Author DRM
Lafille Marc André
Author IFREMER
Basset Caline
Author IFREMER
Lam Jean-Sebastien
Author IFREMER
Mailliez Jean-René
Author DRM
Lau Christophe
Author CAPF
Elissondo Carine
Author CAPF
Delecheneau Jean-Michel
Author IFREMER
Brun Pierre
Author IFREMER
Matehau Ariora
Author CAPF
Taupua
Author IFREMER
Ballan Valentine
Author IFREMER
Le Rhollec Julien
Author IFREMER
Publisher
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GEMET - INSPIRE themes, version 1.0
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Habitats and biotopes
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Thèmes Sextant
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/Biological Environment/Bioinformatics
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ODATIS aggregation parameters and Essential Variable names
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Bioinformatics
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- Use limitation
- CC-BY (Creative Commons - Attribution)
- Access constraints
- License
- Use constraints
- License
- Spatial representation type
- Grid
- Language
- English
- Character set
- UTF8
- Topic category
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- Oceans
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- Begin date
- 2019-03-07
- End date
- 2019-10-17
- Reference system identifier
- EPSG / WGS 84 (EPSG:4326) / 8.6
- Distribution format
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Name Version
- OnLine resource
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Protocol Linkage Name NETWORK:LINK
/home/ref-bioinfo/ifremer/leadnc/comistyl
- Hierarchy level
- Dataset
- Statement
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Sequencing data for this project were acquired from extraction of total RNA from the hemolymph of Penaeus stylirostris shrimp and from the water of their environment. The shrimp were reared under contrasting conditions: two rearing waters (earthen pond and clear water tanks), at two sampling times (beginning of the experiment, 9 months old shrimp reared in earthen ponds then partially transferred to clear water tanks and reared in both waters in parallel for one month, end of the experiment), during two seasons (warm and cold) and on two sites (New Caledonia and French Polynesia). RNA extractions in hemolymph samples were performed with the Direct-Zol Mini-Prep kit (Zymo Research) according to the manufacturer's protocol. RNA extractions in water samples were performed according to the manufacturer's protocol with the RNeasy PowerWater kit (Qiagen). The extracted RNAs were reverse transcribed into cDNA by M-MLV reverse transcriptase (PROMEGA) in a thermocycler (Verity TM, Biosystems). Finally, all cDNAs were sequenced by MrDNA (Shallowater, TX, Uited Sates) with primers 515F/806Rs on Illumina HiSeq, 2 x 300 bases and an average sequencing depth of 20,000 reads.
Metadata
- File identifier
- edd1b589-b654-46e6-ba6a-493eb2b9ec82
- Metadata language
- English
- Character set
- UTF8
- Hierarchy level
- Dataset
- Date stamp
- 2024-01-29T16:17:59.67Z
- Metadata standard name
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ISO 19115:2003/19139 - SEXTANT
- Metadata standard version
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1.0
- Metadata author
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Organisation name Individual name Electronic mail address Role IFREMER
Callac Nolwenn
Local service desk
accessData
Overviews
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