Description
The objective of this dataset is to compile the historic records of marine and brackish diatom current species and genera reported for French coastal areas since the last quarter of the 19th century. The main focus is marine benthic diatoms, as occurrence datasets for phytoplankton (REPHY dataset) and for freshwater benthic diatoms (SEEE-Diatomées dataset) already exist for French coastal and inland waters, respectively. The dataset aims to fill this gap in knowledge by compiling reports that have been more difficult to reach (e.g., books, PhD theses and other grey literature), but also published papers on microphytobenthos research. The current version of the dataset has 11511 taxonomic entries found in 49 different references, dating from 1888 to 2019. A total of 2846 different taxa were compiled, 97% to species level or below, 3% to genus level. The dataset also offers information on geographic locations at 4 different levels, namely: site, county (i.e., département), region and seaboard. It also provides data on ecology (e.g., sampled substrate, habitat, growth forms) for most taxa. Moreover, a linkage to DiatomBase and WoRMS is given via AphiaID, their unique numerical database identifier. This linkage added relevant information for each species, such as higher taxonomic ranks or its accepted valid synonym.
Enregistrements de données
Les données de cette ressource occurrence ont été publiées sous forme d'une Archive Darwin Core (Darwin Core Archive ou DwC-A), le format standard pour partager des données de biodiversité en tant qu'ensemble d'un ou plusieurs tableurs de données. Le tableur de données du cœur de standard (core) contient 11 511 enregistrements.
Cet IPT archive les données et sert donc de dépôt de données. Les données et métadonnées de la ressource sont disponibles pour téléchargement dans la section téléchargements. Le tableau des versions liste les autres versions de chaque ressource rendues disponibles de façon publique et permet de tracer les modifications apportées à la ressource au fil du temps.
Versions
Le tableau ci-dessous n'affiche que les versions publiées de la ressource accessibles publiquement.
Comment citer
Les chercheurs doivent citer cette ressource comme suit:
Ribeiro L, Figueira R, Oiry S, Buchet R, Sabbe K, Barillé L (2022): Benthic marine diatoms from French coastal and transitional waters. v1.3. No organisation. Dataset/Occurrence. http://ipt.gbif.pt/ipt/resource?r=benthic-marine-diatoms&v=1.3
Droits
Les chercheurs doivent respecter la déclaration de droits suivante:
L’éditeur et détenteur des droits de cette ressource est Université de Nantes. Ce travail est sous licence Creative Commons Attribution (CC-BY) 4.0.
Enregistrement GBIF
Cette ressource a été enregistrée sur le portail GBIF, et possède l'UUID GBIF suivante : 64a375e9-aa8a-4727-9ea2-a548d33d903b. Université de Nantes publie cette ressource, et est enregistré dans le GBIF comme éditeur de données avec l'approbation du GBIF France.
Mots-clé
Bacillariophyceae; Diatoms; Benthic; Marine and Coastal waters; France; Occurrence
Contacts
- Fournisseur Des Métadonnées ●
- Créateur ●
- Personne De Contact
http://orcid.org/0000-0002-6585-0140
- Créateur
- Créateur
- Créateur
- Créateur ●
- Personne De Contact
Couverture géographique
metropolitan France
| Enveloppe géographique | Sud Ouest [-90, -180], Nord Est [90, 180] |
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Couverture taxonomique
Diatoms (Bacillariophyceae) are listed to genus or species level. Nomenclature follows DiatomBase and higher classification is according to Cox (2015).
| Class | Bacillariophyceae (Diatoms) |
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Couverture temporelle
| Date de début / Date de fin | 1888-01-01 / 2019-10-31 |
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Données sur le projet
Pas de description disponible
| Titre | Étude de la pertinence des peuplements du microphytobenthos estuarien pour la mise en place d’un bio-indicateur de la qualité des eaux de transition |
|---|---|
| Financement | This research was funded by a grant by the L’Agence Française pour la Biodiversité, AFB grant number 180906 − Convention Microphytobenthos Phase II, and had the financial support of the Fundação para a Ciência e a Tecnologia (FCT) through UID/MAR/04292/2020. |
Les personnes impliquées dans le projet:
- Auteur
Méthodes d'échantillonnage
Data inventory and compilation: Data sources were identified based on literature research and web-based search engines (e.g., Google or Web of Science). Both English and French languages were used when entering key terms during the search process, which included terms such as “diatoms” or “microphytobenthos” and was limited geographically to metropolitan France. The applicable data sources were digitally available in pdf format or in paper. Relevant information was manually transferred to a standard format in MS Excel.
| Etendue de l'étude | Compilation of the historic records of marine and brackish diatom current species and genera reported for French coastal areas since the last quarter of the 19th century. |
|---|---|
| Contrôle qualité | Each taxonomic entry is unique, as it refers to a single taxonomic unit found in each one of the 49 references used in the dataset and reported for a specific location (at one to four geographical levels). A thorough cross-checking of species names and clean-up of duplicates was made. In order to standardize the taxonomic entries, the nomenclatural format of the taxa found in the original sources was adapted to the one used in DiatomBase and the World Register of Marine Species (WoRMS), thanks to the taxon match option available on the website of the latter (www.marinespecies.org). DiatomBase (Kociolek et al. 2022) is primarily a nomenclatural database that updated and extended the Catalogue of Diatom Names (Fourtanier and Kociolek 2011), but it is also an authoritative open-access reference system for diatom taxa, which is universally recognized, and it is edited by 23 taxonomic editors world-wide. It is managed by VLIZ and shares with WoRMS a unique identifier, known as the AphiaID, for every species name. This identifier enables to link the species name to an internationally accepted standardized name and associated taxonomic information, such as accepted names, synonyms and current classification. The linkage of the current dataset to DiatomBase/WoRMS was made through a “worms” R package (version 0.2.2, J. Holstein 2018) that allows to retrieve the taxonomic information available for each AphiaID. The dataset was adjusted to the Darwin Core specifications (Wieczorek et al. 2012) in order to be published in the GBIF network. |
Description des étapes de la méthode:
- NA
Citations bibliographiques
- Cox, E. (2015). "Diatoms, Diatomeae (Bacillariophyceae s.l., Bacillariophyta)," in Syllabus of Plant Families. Adolf Engler’s Syllabus of Plant Families, ed. W. Frey. 13 ed (Stuttgart: Borntraeger), 64–103.
- Fourtanier, E. & Kociolek, J.P. (2011). Catalogue of Diatom Names, California Academy of Sciences, On-line Version updated18 September 2011. Available online at http://researcharchive.calacademy.org/research/diatoms/names/index.asp
- Holstein J., (2018). worms: Retrieving Aphia Information from World Register of Marine Species. R package version 0.2.2. https://CRAN.R-project.org/package=worms
- Kociolek, J.P.; Blanco, S.; Coste, M.; Ector, L.; Liu, Y.; Karthick, B.; Kulikovskiy, M.; Lundholm, N.; Ludwig, T.; Potapova, M.; Rimet, F.; Sabbe, K.; Sala, S.; Sar, E.; Taylor, J.; Van de Vijver, B.; Wetzel, C.E.; Williams, D.M.; Witkowski, A. & Witkowski, J. (2022). DiatomBase. Accessed at http://www.diatombase.org on 2022-01-03. https://doi.org/10.14284/504
- Wieczorek, J.; Bloom, D.; Guralnick, R.; Blum, S.; Döring, M.; Giovanni, R.; Robertson, T. & Vieglais D. (2012) Darwin Core: An evolving community-developed biodiversity data standard. PLOS One 7: e29715. https://doi.org/10.1371/journal.pone.0029715 https://doi.org/10.1371/journal.pone.0029715
Métadonnées additionnelles
| Identifiants alternatifs | 64a375e9-aa8a-4727-9ea2-a548d33d903b |
|---|---|
| http://ipt.gbif.fr/resource?r=benthic-marine-diatoms |