https://ipt.data-terra.org/resource?r=plankton_metabarcoding_moose_ge_2017_2019 Metabarcoding_plankton_MOOSE-GE Nolan Lezzoche Institut méditerranéen d'océanologie (MIO) nolan.lezzoche@mio.osupytheas.fr Aurélien Schmitt OSU STAMAR aurelien.schmitt@sb-roscoff.fr 0009-0006-1844-2765 2026-03-03 eng MOOSE GE is a yearly ocean-monitoring cruise which is part of the MOOSE program https://www.moose-network.fr, within the Research Infrastructure ILICO, the aim of which is to monitor the North-Western Mediterranean (considered to act as a model system for larger ocean basins).This dataset contains the taxonomic occurrence from metabarcoding collected by triple net (64, 200 to 500µm mesh) and niskin bottle. Occurrence GBIF Dataset Type Vocabulary: http://rs.gbif.org/vocabulary/gbif/dataset_type_2015-07-10.xml Observation GBIF Dataset Subtype Vocabulary: http://rs.gbif.org/vocabulary/gbif/dataset_subtype.xml Mediterranean Sea marine biodiversity plankton http://www.eionet.europa.eu/gemet/ Metabarcoding http://edamontology.org/topic_4038 This work is licensed under a Creative Commons Attribution (CC-BY 4.0) License. Creative Commons Attribution 4.0 International https://spdx.org/licenses/CC-BY-4.0.html CC-BY-4.0 https://www.ebi.ac.uk/ena/browser/home https://ipt.data-terra.org/archive.do?r=plankton_metabarcoding_moose_ge_2017_2019 N/A 3.532333 9.632833 43.882833 39.9945 2017-09-01 2019-06-30 phylum Arthropoda kingdom Chromista phylum Nemertea phylum Haptophyta kingdom Fungi phylum Myzozoa phylum Ctenophora phylum Gastrotricha phylum Labyrinthulata phylum Heterokontophyta phylum Nibbleridia phylum Oomycota phylum Echinodermata phylum Mollusca phylum Radiozoa kingdom Animalia phylum Picozoa kingdom Protozoa phylum Ascomycota phylum Platyhelminthes phylum Sulcozoa kingdom Viridiplantae phylum Ciliophora phylum Bryozoa phylum Dinophyta phylum Annelida phylum Brachiopoda phylum Chordata phylum Rhodophyta phylum Amoebozoa phylum Xenacoelomorpha phylum Bigyra phylum Loukozoa phylum Hemichordata phylum Prasinodermatophyta phylum Chlorophyta phylum Cercozoa phylum Cryptophyta phylum Choanozoa kingdom Metazoa phylum Porifera kingdom Plantae phylum Streptophyta phylum Nematoda phylum Euglenozoa phylum Basidiomycota phylum Chaetognatha phylum Phoronida phylum Ochrophyta phylum Chytridiomycota phylum Cnidaria We acknowledge the MOOSE program (Mediterranean Ocean Observing System for the Environment) coordinated by CNRS-INSU and the Research Infrastructure ILICO (CNRS-IFREMER). We are thankful to the French Oceanographic Fleet national infrastructure (FOF) and the GENAVIR crew for their support and professionalism throughout the cruise.We thank the EMBRC platform PIQv for image analysis and the CCPv for access to samples. Computation for the environmental genomics dataset analysis was done on the OSU Pythéas cluster with the help of C. Blanpain, J. Lecubin, A.Toumi and SIP members. We acknowledge also the SIP members for maintenance of the Ocean Barcode Atlas webservice. Computation for the environmental genomics dataset analysis was done on the OSU Pythéas cluster with the help of C. Blanpain, J. Lecubin, A.Toumi and SIP members. We acknowledge also the SIP members for maintenance of the Ocean Barcode Atlas webservice. The authors thank Nicolas Henry for his advice in metabarcoding sequence analysis and EBI/ENA submission of the raw sequencing data set. Pierre Peterlongo is gratefully acknowledged for proofreading the manuscript. We thank Aurélien Schimitt from the FUTURE-OBS project to manage the repository of the DNA derived biological occurrence data in the GBIF warehouse. annually Magali LESCOT Institut méditerranéen d'océanologie (MIO) magali.lescot@mio.osupytheas.fr 0000-0001-8189-0823 MOOSE-GE metabarcoding pipeline (https://gitlab.osupytheas.fr/moose/moose-pipeline) Nextflow pipeline inspired by SAMBA pipeline allowing to process MOOSE-GE 18SV4 barcode data. Bioinformatic steps : - Data integrity - [OPTIONAL] Raw data integrity checking (SAMBA) - Importing raw data - Create QIIME2 objects (SAMBA) - Primers removal - Remove primers from raw reads (SAMBA) - QC and feature table - QC and feature table and counts table (SAMBA) - ASV clustering - [OPTIONAL] Distribution and phylogeny based clustering (SAMBA) - Taxonomic assignation - IDTAXA classifier assignation with PR2 v5.0 DECIPHER trained reference database - Phylogeny - ASV sequences alignement and tree (SAMBA) - Phyloseq - Create R-Phyloseq object northwestern Mediterranean Sea The MOOSE-GE network covers the north-western Mediterranean Sea, including the Lion Gulf and Ligurian Sea. Cruises in 2017, 2018 and 2019 were conducted respectively from 31 August to 23 September 2017, from 14 May to 06 June 2018 and from 08 June to 01 July 2019 with 16 biological stations in 2017 and 15 in 2018, and 18 in 2019. At each station, a rosette carrying 21 Niskin bottles (12 L) and equipped with a CTD (Seabird Electronics), measuring biophysical parameters at each depth (salinity, dissolved oxygen, fluorimetry, temperature) and a triple-net tow (64-200 and 500µm meshsizes) were deployed. Coppola Laurent 0000-0003-0473-1129 he annual campaigns MOOSE-GE, initiated in 2010, are part of the long-term observation network of the Mediterranean, MOOSE, network labeled SOERE Allenvi and SNO by the INSU in 2016 and 2019. This observation network aims to monitor the long-term evolution of the northwestern Mediterranean in the context of climate change and anthropogenic pressure, in order to be able to detect and identify the trend of environmental anomalies in this marine ecosystem. MOOSE aims to maintain an integrated and multidisciplinary observation network in the Mediterranean Sea in accordance with the marine infrastructures ILICO, EURO-ARGO and EMSO and the global networks OceanSites and OceanGliders in which MOOSE is involved. The objectives of these campaigns carried out in 2010, 2011 and 2013 on the Tethys II (INSU), in 2012, 2014, 2015 on the Suroît then in 2016, 2017 and 2018 on the Atalante, and in 2019 and 2021 on Thalassa are : annual maintenance of the 4 moorings LION, DYFAMED in leg 1 then Planier and Lacaze-Duthiers in leg 2 (automatic measurements, particle traps). mapping and monitoring the evolution of water mass properties, biogeochemical content and zooplankton communities. training for Master M2 Sorbonne University (OACOS, OEM) and ENSTA students. deployment and collection of Argo profiling floats 2026-03-02T15:28:17.467+00:00 dataset Lescot M, Lezzoche N (2026) Planktonic cummunities across the Northwestern Mediterranean Sea.OSU Institut Pythéas 18S V4 rDNA amplicon sequencing of marine water DNA samples collected in Norther-Western Mediterranean Sea from MOOSE-GE campain. UTF-8 xml https://www.ebi.ac.uk/ena/browser/api/xml/PRJEB76575?download=true A holistic perspective on planktonic communities across Northwestern Mediterranean Sea UTF-8 csv https://doi.org/10.6084/m9.figshare.c.4303061 https://ipt.data-terra.org/resource?id=plankton_metabarcoding_moose_ge_2017_2019/v1.1.xml