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Metadata standards and practical guidelines for specimen and DNA curation when building barcode reference libraries for aquatic life

Authors :
Magali Schweizer
Frederik Leliaert
Jan Pawlowski
Rodolphe Rougerie
Frédéric Rimet
Torbjørn Ekrem
Alexis Canino
Teofana Chonova
David G. Mann
Agnès Bouchez
Régis Lionel Vivien
Christian Chauvin
Chloé Goulon
Valentin Vasselon
Romain Gastineau
Rosa Trobajo
Christophe Laplace-Treyture
Jonas Zimmermann
Eva Aylagas
Wolf-Henning Kusber
Andrzej Witkowski
Vona Méléder
Frédéric Marchand
Sinziana F. Rivera
Maria Kahlert
Muriel Gugger
Filipe O. Costa
Maria Holzmann
Benoît J.D. Ferrari
Serena Rasconi
Alexander M. Weigand
Regine Jahn
Fedor Čiampor
Florian Leese
Ángel Borja
Centre Alpin de Recherche sur les Réseaux Trophiques et Ecosystèmes Limniques (CARRTEL)
Université Savoie Mont Blanc (USMB [Université de Savoie] [Université de Chambéry])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)
King Abdullah University of Science and Technology (KAUST)
Basque Research and Technology Alliance (BRTA)
King Abdulaziz University
Ecosystèmes aquatiques et changements globaux (UR EABX)
Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)
Slovak Academy of Science [Bratislava] (SAS)
Universidade do Minho
Swiss Centre for Applied Ecotoxicology (Ecotox Center)
Ecole Polytechnique Fédérale de Lausanne (EPFL)
Technical university of Szczecin
Collection des Cyanobactéries
Institut Pasteur [Paris]
University of Geneva [Switzerland]
Freie Universität Berlin
Swedish University of Agricultural Sciences (SLU)
Universitat Duisberg-Essen
Botanic Garden Meise
Institute of Agrifood Research and Technology [Sant Carles de la Ràpita] (IRTA)
Institute of Agrifood Research and Technology (IRTA)
Royal Botanic Garden Edinburgh
Unité Expérimentale d'Ecologie et d'Ecotoxicologie Aquatique - U3E (Rennes, France) (U3E )
Université de Nantes (UN)
Polish Academy of Sciences (PAN)
ID-Gene ecodiagnostics [Geneva]
Institut de Systématique, Evolution, Biodiversité (ISYEB )
Muséum national d'Histoire naturelle (MNHN)-École pratique des hautes études (EPHE)
Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS)-Université des Antilles (UA)
Laboratoire de Planétologie et Géodynamique [UMR 6112] (LPG)
Université d'Angers (UA)-Université de Nantes - UFR des Sciences et des Techniques (UN UFR ST)
Université de Nantes (UN)-Université de Nantes (UN)-Institut national des sciences de l'Univers (INSU - CNRS)-Centre National de la Recherche Scientifique (CNRS)
SCIMABIO Interface SAS
Musée National d'Histoire Naturelle de Luxembourg (MNHN)
Norwegian University of Science and Technology [Trondheim] (NTNU)
Norwegian University of Science and Technology (NTNU)
This paper was written under COST Action DNAqua-Net. The European COST Action DNAqua-Net (CA 15219 collaborative network which gathers several hundreds of scientists and water managers, with the objective of developing new genetic tools for bioassessment and monitoring of aquatic ecosystems (Leese et al. 2016).
European Project
West Pomeranian University of Technology in Szczecin (ZUT)
Universidade do Minho = University of Minho [Braga]
Université de Genève = University of Geneva (UNIGE)
Institut Pasteur [Paris] (IP)
Meise Botanic Garden [Belgium] (Plantentuin)
Institut de Recerca i Tecnologia Agroalimentàries = Institute of Agrifood Research and Technology (IRTA)
Royal Botanic Garden [Edinburgh]
Muséum national d'Histoire naturelle (MNHN)-École Pratique des Hautes Études (EPHE)
Producció Animal
Aigües Marines i Continentals
Source :
Repositório Científico de Acesso Aberto de Portugal, Repositório Científico de Acesso Aberto de Portugal (RCAAP), instacron:RCAAP, Metabarcoding and Metagenomics, Metabarcoding and Metagenomics, Pensoft Publishers 2021, 5, pp.e58056. ⟨10.3897/mbmg.5.58056⟩, Metabarcoding and Metagenomics, Vol 5, Iss, Pp 17-33 (2021), Metabarcoding and Metagenomics, 2021, 5, pp.e58056. ⟨10.3897/mbmg.5.58056⟩, IRTA Pubpro. Open Digital Archive, Institut de Recerca i Tecnologia Agroalimentàries (IRTA)
Publication Year :
2021

Abstract

DNA barcoding and metabarcoding is increasingly used to effectively and precisely assess and monitor biodiversity in aquatic ecosystems. As these methods rely on data availability and quality of barcode reference libraries, it is important to develop and follow best practices to ensure optimal quality and traceability of the metadata associated with the reference barcodes used for identification. Sufficient metadata, as well as vouchers, corresponding to each reference barcode must be available to ensure reliable barcode library curation and, thereby, provide trustworthy baselines for downstream molecular species identification. This document (1) specifies the data and metadata required to ensure the relevance, the accessibility and traceability of DNA barcodes and (2) specifies the recommendations for DNA harvesting and for the storage of both voucher specimens/samples and barcode data<br />(undefined)

Details

Language :
English
ISSN :
25349708
Database :
OpenAIRE
Journal :
Repositório Científico de Acesso Aberto de Portugal, Repositório Científico de Acesso Aberto de Portugal (RCAAP), instacron:RCAAP, Metabarcoding and Metagenomics, Metabarcoding and Metagenomics, Pensoft Publishers 2021, 5, pp.e58056. ⟨10.3897/mbmg.5.58056⟩, Metabarcoding and Metagenomics, Vol 5, Iss, Pp 17-33 (2021), Metabarcoding and Metagenomics, 2021, 5, pp.e58056. ⟨10.3897/mbmg.5.58056⟩, IRTA Pubpro. Open Digital Archive, Institut de Recerca i Tecnologia Agroalimentàries (IRTA)
Accession number :
edsair.doi.dedup.....d80985ea7d9c8a47d59d405536b699cf