A response to: Evaluating the reliability of DNA Barcoding for Central American Pacific shallow water echinoderms identification
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| Autores: | , , |
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| Formato: | artículo original |
| Estado: | Versión publicada |
| Fecha de Publicación: | 2024 |
| Descripción: | Introduction: Chacón-Monge et al. (2024) sought to test the accuracy of DNA barcoding for species identification in Pacific Central American shallow water echinoderms. They used cytochrome c oxidase I (COI) sequences derived from new material collected as part of the BioMar-ACG project in Costa Rica. Using their set of 348 echinoderm sequences, they compared species identification results from two online platforms: the National Center for Biotechnology Information (NCBI) GenBank using the nucleotide Basic Local Alignment Search Tool (BLASTn), and the Barcode of Life Data Systems (BOLD) Identification Engine. Objective: The present article is a response to their results and conclusions. Methods: We reinterpreted the results from the authors’ Appendix 2 to enable an objective comparison between the BOLD Identification Engine and BLASTn in GenBank. Results: While the authors found that both platforms were limited by the number of reference sequences available in their respective databases, they concluded that GenBank outperformed BOLD for identification; however, we identify several methodological flaws in their analysis. These include pseudoreplication amongst query sequences, contaminated sequences stemming from sampling errors, and a lack of standardization when interpreting results from the two platforms. Their assessment of the BOLD Identification Engine was also limited by improper selection of a reference database. Conclusion: Addressing these errors, we reinterpret their results and demonstrate that there is no difference in performance between the two platforms. |
| País: | Portal de Revistas UCR |
| Institución: | Universidad de Costa Rica |
| Repositorio: | Portal de Revistas UCR |
| Lenguaje: | Inglés |
| OAI Identifier: | oai:portal.ucr.ac.cr:article/59992 |
| Acceso en línea: | https://revistas.ucr.ac.cr/index.php/rbt/article/view/59992 |