2025-06-11
ENA first public
ERC000024
ENA-CHECKLIST
Ifremer
INSDC center name
public
INSDC status
Production of targeted PCR from 10 ng of DNA material. The aim is to generate amplified targeted regions indexed with secondary identifiers or BID = Barcoded Identifiers. In the protocol, the region of interest is amplified using PCR Forward and Reverse primers flanked by sequences of 8 bases, called "BID" (the name has been developed at Genoscope to differentiate from other MIDs = Molecular Identifiers already in use at the time). To date, 18 different BID sequences have been tested, 12 of which have been selected. The amplicons generated will be then normalized and pooled by up to 12 (amplicons carrying different BID sequences). Illumina libraries will be prepared by Genoscope on each pool of BIDed amplicons and then Illumina sequenced
LIBRARY_CONSTRUCTION_PROTOCOL
ERS24836874
SRA accession
sam_BIOCEAN5D-zooplankton_23EL-MO657-20
Submitter Id
neritic epipelagic zone biome
broad-scale environmental context
SeBiMER
broker name
PDG-ODE-LITTORAL-LERPC
collected_by
IFREMER
collecting institution
2023-03-15
collection date
PDG-ODE-LITTORAL-LERPC
collector name
seawater metagenome
common name
-1
m
depth
seawater
environmental medium
water
environmental package
Yes
environmental_sample
sampling site,time,distance from the coast
experimental factor
France
geographic location (country and/or sea)
not provided
m
geographic location (elevation)
45.8014
DD
geographic location (latitude)
-1.2071
DD
geographic location (longitude)
Marennes Oleron
geographic location (region and locality)
metagenome
investigation type
offshore sea water
isolation_source
bay
local environmental context
TGACATCA
multiplex identifiers
seawater metagenome
organism
F: GGWACWGGWTGAACWGTWTAYCCYCC  /  R: TAIACYTCIGGRTGICCRAARAAYCA
pcr primers
ROME
project name
Sample 657 of offshore sea water from Marennes Oleron, collected in 2023, filtered on 20 micrometers filter. Sequenced for zooplankton analysis purpose.
sample_description
23EL-MO657-20
sample_name
seawater metagenome
scientific_name
COX1
target gene
not applicable
target subfragment
23EL-MO657-20
title