Metabarcoding in the Thau and Berre lagoons to detect Veneroidaee
In the framework of the PALDIAG project, environmental DNA from seawater was gathered in 2023 in Thau and Berre lagoons and studied with a 16S marker in order to detect the Veneroidae species.
Simple
- Title
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Metabarcoding in the Thau and Berre lagoons to detect Veneroidaee
- Date (Creation)
- 2023-11-08
- Date (Publication)
- 2024-01-29
- Citation identifier
- FR-330-715-368-00032-IFR_BIOINFO_paldiag_20231123_MARBEC_SL
Citation identifier
- Abstract
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In the framework of the PALDIAG project, environmental DNA from seawater was gathered in 2023 in Thau and Berre lagoons and studied with a 16S marker in order to detect the Veneroidae species.
- Credit
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IFREMER (MARBEC/LEGPM)
- Point of contact
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Organisation name Individual name Electronic mail address Role IFREMER
Publisher IFREMER
Lapegue Sylvie
Author
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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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Type de jeux de donnée ODATIS
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/Sequences
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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
- Begin date
- 2023-06-01
- End date
- 2023-07-31
- Reference system identifier
- EPSG / WGS 84 (EPSG:4326) / 8.6
Spatial representation info
- Distribution format
-
Name Version
- OnLine resource
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Protocol Linkage Name NETWORK:LINK
/home/ref-bioinfo/ifremer/marbec/paldiag
- Hierarchy level
- Dataset
- Statement
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Seawater was filtered in June-July 2023 in Thau and Berre lagoons. The filtering capsules (24) are Waterra systems using a customized pumping system commercialized by Argaly company. DNA was resuspended in the capsule vigorous agitation after the injection of Longmire buffer, and extracted at Argaly. Whole DNA was used to construct libraries of metabarcoding using 16S primers specific to Veneroidae. Sequencing was performed on a MiSeq sequencer (2X 150 bp). Besides an experiment was conducted in October 2022 in Ifremer Sète and 14 additionnal capsules were obtained from the filtering of water in aquariums filled with different ratio of two clam species.
Metadata
- File identifier
- 76488bcc-e2c7-4839-a28e-978a2e6eee81
- Metadata language
- English
- Character set
- UTF8
- Hierarchy level
- Dataset
- Date stamp
- 2024-01-29T13:20:26.215Z
- 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
Lapegue Sylvie
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