Exhaustive reanalysis of barcode sequences from public repositories highlights ongoing misidentifications and impacts taxa diversity and distribution.
Journal
Molecular ecology resources
ISSN: 1755-0998
Titre abrégé: Mol Ecol Resour
Pays: England
ID NLM: 101465604
Informations de publication
Date de publication:
Jan 2022
Jan 2022
Historique:
revised:
10
06
2021
received:
10
11
2020
accepted:
17
06
2021
pubmed:
22
6
2021
medline:
22
12
2021
entrez:
21
6
2021
Statut:
ppublish
Résumé
Accurate species identification often relies on public repositories to compare the barcode sequences of the investigated individual(s) with taxonomically assigned sequences. However, the accuracy of identifications in public repositories is often questionable, and the names originally given are rarely updated. For instance, species of the Sea Lettuce (Ulva spp.; Ulvophyceae, Ulvales, Ulvaceae) are frequently misidentified in public repositories, including herbaria and gene banks, making species identification based on traditional barcoding unreliable. We DNA barcoded 295 individual distromatic foliose strains of Ulva from the North-East Atlantic for three loci (rbcL, tufA, ITS1). Seven distinct species were found, and we compared our results with all worldwide Ulva spp. sequences present in the NCBI database for the three barcodes rbcL, tufA and the ITS1. Our results demonstrate a large degree of species misidentification, where we estimate that 24%-32% of the entries pertaining to foliose species are misannotated and provide an exhaustive list of NCBI sequences reannotations. An analysis of the global distribution of registered samples from foliose species also indicates possible geographical isolation for some species, and the absence of U. lactuca from Northern Europe. We extended our analytical framework to three other genera, Fucus, Porphyra and Pyropia and also identified erroneously labelled accessions and possibly new synonymies, albeit less than for Ulva spp. Altogether, exhaustive taxonomic clarification by aggregation of a library of barcode sequences highlights misannotations and delivers an improved representation of species diversity and distribution.
Identifiants
pubmed: 34153167
doi: 10.1111/1755-0998.13453
doi:
Banques de données
GENBANK
['MT078962', 'MT894708', 'MT160564', 'MT160674', 'MW544060', 'MW543061', 'MT160697', 'MT894534', 'MT160573', 'MT160683', 'AB116031', 'AB116037', 'MT894753', 'MW544059', 'MW543060', 'MT160722', 'MT894480', 'MT160606', 'MT160716', 'AY260561', 'MK456395', 'MF172082', 'MT894725', 'MK456393', 'MT160728', 'AB097650', 'AB097621', 'MK992126', 'MH730161', 'MH730975', 'MH731007', 'KT881224', 'KT932996', 'KT932977']
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
86-101Subventions
Organisme : European Commission
ID : SW-GROW project number 366
Organisme : Horizon 2020 Framework Programme
ID : 727892
Organisme : WOA Institution: National University of Ireland Galway
Organisme : Blended DEAL: IReL
Organisme : Science Foundation Ireland
ID : 19/FFP/6841
Pays : Ireland
Informations de copyright
© 2021 The Authors. Molecular Ecology Resources published by John Wiley & Sons Ltd.
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