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Exhaustive reanalysis of barcode sequences from public repositories highlights ongoing misidentifications and impacts taxa diversity and distribution.
Fort, Antoine; McHale, Marcus; Cascella, Kevin; Potin, Philippe; Perrineau, Marie-Mathilde; Kerrison, Philip D; da Costa, Elisabete; Calado, Ricardo; Domingues, Maria do Rosário; Costa Azevedo, Isabel; Sousa-Pinto, Isabel; Gachon, Claire; van der Werf, Adrie; de Visser, Willem; Beniers, Johanna E; Jansen, Henrice; Guiry, Michael D; Sulpice, Ronan.
Affiliation
  • Fort A; National University of Ireland - Galway, Plant Systems Biology Laboratory, Ryan Institute & MaREI Centre for Marine, Climate and Energy, School of Natural Sciences, Galway, Ireland.
  • McHale M; National University of Ireland - Galway, Plant Systems Biology Laboratory, Ryan Institute & MaREI Centre for Marine, Climate and Energy, School of Natural Sciences, Galway, Ireland.
  • Cascella K; CNRS, Sorbonne Université Sciences, UMR 8227, Integrative Biology of Marine Models, Station Biologique de Roscoff, Roscoff, France.
  • Potin P; CNRS, Sorbonne Université Sciences, UMR 8227, Integrative Biology of Marine Models, Station Biologique de Roscoff, Roscoff, France.
  • Perrineau MM; Scottish Association for Marine Science (SAMS), Scottish Marine Institute, Oban, UK.
  • Kerrison PD; Scottish Association for Marine Science (SAMS), Scottish Marine Institute, Oban, UK.
  • da Costa E; CESAM & LAQV-REQUIMTE, Department of Chemistry, University of Aveiro, Campus Universitário de Santiago, Aveiro, Portugal.
  • Calado R; ECOMARE & CESAM, Departamento de Biologia & Universidade de Aveiro, Campus Universitário de Santiago, Aveiro, Portugal.
  • Domingues MDR; CESAM & LAQV-REQUIMTE, Department of Chemistry, University of Aveiro, Campus Universitário de Santiago, Aveiro, Portugal.
  • Costa Azevedo I; CIIMAR/CIMAR, Interdisciplinary Centre of Marine and Environmental Research, Novo Edifício do Terminal de Cruzeiros do Porto de Leixões, Matosinhos, Portugal.
  • Sousa-Pinto I; CIIMAR/CIMAR, Interdisciplinary Centre of Marine and Environmental Research, Novo Edifício do Terminal de Cruzeiros do Porto de Leixões, Matosinhos, Portugal.
  • Gachon C; Department of Biology, Faculty of Sciences, University of Porto, Matosinhos, Portugal.
  • van der Werf A; Scottish Association for Marine Science (SAMS), Scottish Marine Institute, Oban, UK.
  • de Visser W; UMR 7245 - Molécules de Communication et Adaptation des Micro-organismes, Muséum National d'Histoire Naturelle, CNRS, Paris, France.
  • Beniers JE; Wageningen University & Research, Wageningen, The Netherlands.
  • Jansen H; Wageningen University & Research, Wageningen, The Netherlands.
  • Guiry MD; Wageningen University & Research, Wageningen, The Netherlands.
  • Sulpice R; Wageningen University & Research, Wageningen, The Netherlands.
Mol Ecol Resour ; 22(1): 86-101, 2022 Jan.
Article in En | MEDLINE | ID: mdl-34153167
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.
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Full text: 1 Database: MEDLINE Main subject: Geography Type of study: Incidence_studies / Prognostic_studies Country/Region as subject: Europa Language: En Journal: Mol Ecol Resour Year: 2022 Type: Article Affiliation country: Ireland

Full text: 1 Database: MEDLINE Main subject: Geography Type of study: Incidence_studies / Prognostic_studies Country/Region as subject: Europa Language: En Journal: Mol Ecol Resour Year: 2022 Type: Article Affiliation country: Ireland