Literature DB >> 34153167

Exhaustive reanalysis of barcode sequences from public repositories highlights ongoing misidentifications and impacts taxa diversity and distribution.

Antoine Fort1, Marcus McHale1, Kevin Cascella2, Philippe Potin2, Marie-Mathilde Perrineau3, Philip D Kerrison3, Elisabete da Costa4, Ricardo Calado5, Maria do Rosário Domingues4, Isabel Costa Azevedo6, Isabel Sousa-Pinto6,7, Claire Gachon3,8, Adrie van der Werf9, Willem de Visser9, Johanna E Beniers9, Henrice Jansen9, Michael D Guiry10, Ronan Sulpice1.   

Abstract

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.
© 2021 The Authors. Molecular Ecology Resources published by John Wiley & Sons Ltd.

Entities:  

Keywords:  zzm321990Ulvazzm321990; DNA barcoding; Sea lettuce; aquaculture; phylogeny

Mesh:

Year:  2021        PMID: 34153167     DOI: 10.1111/1755-0998.13453

Source DB:  PubMed          Journal:  Mol Ecol Resour        ISSN: 1755-098X            Impact factor:   7.090


  3 in total

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Journal:  PeerJ       Date:  2021-12-24       Impact factor: 2.984

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Authors:  Yoonhee Cho; Ji Seon Kim; Yu-Cheng Dai; Yusufjon Gafforov; Young Woon Lim
Journal:  PeerJ       Date:  2021-12-10       Impact factor: 2.984

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  3 in total

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