Towards an Inerian DNA barcode reference library of freshwater macroinvertebrates and fishes

Freshwater macroinvertebrates and fishes are focal groups in major ecosystem biomonitoring programs in the Iberian Peninsula. Yet, their use as bioindicators is sometimes constrained by the time and cost needed for sorting macroinvertebrates specimens and their challenging taxonomic identification,...

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Autores: Múrria i Farnós, Cesc, Väisänen, Leif O. S, Somma, Simona, Wangensteen Fuentes, Owen S. (Simon), Arnedo Lombarte, Miquel Àngel, Prat i Fornells, Narcís
Tipo de recurso: artículo
Estado:Versión publicada
Fecha de publicación:2020
País:España
Institución:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
Repositorio:Recercat. Dipósit de la Recerca de Catalunya
OAI Identifier:oai:recercat.cat:2445/157643
Acceso en línea:https://hdl.handle.net/2445/157643
Access Level:acceso abierto
Palabra clave:ADN
Peixos
Invertebrats aquàtics
DNA
Fishes
Aquatic invertebrates
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spelling Towards an Inerian DNA barcode reference library of freshwater macroinvertebrates and fishesMúrria i Farnós, CescVäisänen, Leif O. SSomma, SimonaWangensteen Fuentes, Owen S. (Simon)Arnedo Lombarte, Miquel ÀngelPrat i Fornells, NarcísADNPeixosInvertebrats aquàticsDNAFishesAquatic invertebratesFreshwater macroinvertebrates and fishes are focal groups in major ecosystem biomonitoring programs in the Iberian Peninsula. Yet, their use as bioindicators is sometimes constrained by the time and cost needed for sorting macroinvertebrates specimens and their challenging taxonomic identification, and the huge sampling procedures for capturing rare or incipient fish species, respec- tively. Given the increasing cost-effectiveness of metazoan identification based on metabarcoding [i.e., high-throughput sequenc- ing (HTS) of DNA barcodes] and reliability of species-level identification and the high number of samples that can be processed, its use in biomonitoring of freshwater communities can provide an alternative to morphology-based approaches. However, the accuracy of species assignment in metabarcoding approaches relies on the availability of a comprehensive DNA barcode reference library. Because of the high level of endemicity in the Iberian Peninsula, current public repositories for DNA barcodes may not be informative enough to identify the Iberian fauna to species level. Here, we compiled the Iberian freshwater macroinvertebrates and fishes taxonomic list (including indigenous and non-indigenous species) and the available molecular data for the cytochrome oxidase I DNA barcode (cox1, COI-5P) in public repositories to assess the extent of DNA barcode coverage. The DNA barcode coverage was reported for DNA fragments within the Folmer region (658 bp). Given that HTS platforms provide DNA sequence in the range of 50-400 bp in length, we also reported the second half of the DNA barcode (313 bp, Leray region) and the first part of the Leray region (285 bp, Leray-285), which are short DNA barcodes useful to assign metabarcoding cox1 data. For macroin- vertebrates, the final taxonomic checklist comprises 3348 species including Mollusca (65 species), Crustacea (101 species) and Insecta (3182 species). We present an initial DNA barcode reference library, with an overall coverage of ~ 35 % of the Iberian taxa. Exploring this data, we find a strong taxonomic bias. Based on Leray-285, Odonata (43 of 79 species barcoded, 54.43 %) and Hemiptera (44 of 81 species barcoded, 54.32 %) were the best represented lineages. In contrast, Diptera (393 of 1693 species barcoded, 23.21 %), and Plecoptera (42 of 135 species barcoded, 31.11 %) were underrepresented. For fishes, the available DNA barcode data covered 98.11 % of the indigenous (76) and non-indigenous (30) species. By revealing and quantifying current gaps on the available data (~ 65 %), we aim to improve efficiency in designing the next steps towards the ambitious yet necessary goal of compiling a complete DNA barcode reference library for Iberian macroinvertebrates and fishes.Asociación Ibérica de Limnología2020202020202020info:eu-repo/semantics/articleinfo:eu-repo/semantics/publishedVersion20 p.application/pdfhttps://hdl.handle.net/2445/157643Articles publicats en revistes (Biologia Evolutiva, Ecologia i Ciències Ambientals)reponame:Recercat. Dipósit de la Recerca de Catalunyainstname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)InglésReproducció del document publicat a: https://doi.org/10.23818/limn.39.06Limnetica, 2020, vol. 39, num. 1, p. 73-92https://doi.org/10.23818/limn.39.06(c) Múrria i Farnós, Cesc et al., 2020info:eu-repo/semantics/openAccessoai:recercat.cat:2445/1576432026-05-29T05:05:01Z
dc.title.none.fl_str_mv Towards an Inerian DNA barcode reference library of freshwater macroinvertebrates and fishes
title Towards an Inerian DNA barcode reference library of freshwater macroinvertebrates and fishes
spellingShingle Towards an Inerian DNA barcode reference library of freshwater macroinvertebrates and fishes
Múrria i Farnós, Cesc
ADN
Peixos
Invertebrats aquàtics
DNA
Fishes
Aquatic invertebrates
title_short Towards an Inerian DNA barcode reference library of freshwater macroinvertebrates and fishes
title_full Towards an Inerian DNA barcode reference library of freshwater macroinvertebrates and fishes
title_fullStr Towards an Inerian DNA barcode reference library of freshwater macroinvertebrates and fishes
title_full_unstemmed Towards an Inerian DNA barcode reference library of freshwater macroinvertebrates and fishes
title_sort Towards an Inerian DNA barcode reference library of freshwater macroinvertebrates and fishes
dc.creator.none.fl_str_mv Múrria i Farnós, Cesc
Väisänen, Leif O. S
Somma, Simona
Wangensteen Fuentes, Owen S. (Simon)
Arnedo Lombarte, Miquel Àngel
Prat i Fornells, Narcís
author Múrria i Farnós, Cesc
author_facet Múrria i Farnós, Cesc
Väisänen, Leif O. S
Somma, Simona
Wangensteen Fuentes, Owen S. (Simon)
Arnedo Lombarte, Miquel Àngel
Prat i Fornells, Narcís
author_role author
author2 Väisänen, Leif O. S
Somma, Simona
Wangensteen Fuentes, Owen S. (Simon)
Arnedo Lombarte, Miquel Àngel
Prat i Fornells, Narcís
author2_role author
author
author
author
author
dc.subject.none.fl_str_mv ADN
Peixos
Invertebrats aquàtics
DNA
Fishes
Aquatic invertebrates
topic ADN
Peixos
Invertebrats aquàtics
DNA
Fishes
Aquatic invertebrates
description Freshwater macroinvertebrates and fishes are focal groups in major ecosystem biomonitoring programs in the Iberian Peninsula. Yet, their use as bioindicators is sometimes constrained by the time and cost needed for sorting macroinvertebrates specimens and their challenging taxonomic identification, and the huge sampling procedures for capturing rare or incipient fish species, respec- tively. Given the increasing cost-effectiveness of metazoan identification based on metabarcoding [i.e., high-throughput sequenc- ing (HTS) of DNA barcodes] and reliability of species-level identification and the high number of samples that can be processed, its use in biomonitoring of freshwater communities can provide an alternative to morphology-based approaches. However, the accuracy of species assignment in metabarcoding approaches relies on the availability of a comprehensive DNA barcode reference library. Because of the high level of endemicity in the Iberian Peninsula, current public repositories for DNA barcodes may not be informative enough to identify the Iberian fauna to species level. Here, we compiled the Iberian freshwater macroinvertebrates and fishes taxonomic list (including indigenous and non-indigenous species) and the available molecular data for the cytochrome oxidase I DNA barcode (cox1, COI-5P) in public repositories to assess the extent of DNA barcode coverage. The DNA barcode coverage was reported for DNA fragments within the Folmer region (658 bp). Given that HTS platforms provide DNA sequence in the range of 50-400 bp in length, we also reported the second half of the DNA barcode (313 bp, Leray region) and the first part of the Leray region (285 bp, Leray-285), which are short DNA barcodes useful to assign metabarcoding cox1 data. For macroin- vertebrates, the final taxonomic checklist comprises 3348 species including Mollusca (65 species), Crustacea (101 species) and Insecta (3182 species). We present an initial DNA barcode reference library, with an overall coverage of ~ 35 % of the Iberian taxa. Exploring this data, we find a strong taxonomic bias. Based on Leray-285, Odonata (43 of 79 species barcoded, 54.43 %) and Hemiptera (44 of 81 species barcoded, 54.32 %) were the best represented lineages. In contrast, Diptera (393 of 1693 species barcoded, 23.21 %), and Plecoptera (42 of 135 species barcoded, 31.11 %) were underrepresented. For fishes, the available DNA barcode data covered 98.11 % of the indigenous (76) and non-indigenous (30) species. By revealing and quantifying current gaps on the available data (~ 65 %), we aim to improve efficiency in designing the next steps towards the ambitious yet necessary goal of compiling a complete DNA barcode reference library for Iberian macroinvertebrates and fishes.
publishDate 2020
dc.date.none.fl_str_mv 2020
2020
2020
2020
dc.type.none.fl_str_mv info:eu-repo/semantics/article
info:eu-repo/semantics/publishedVersion
format article
status_str publishedVersion
dc.identifier.none.fl_str_mv https://hdl.handle.net/2445/157643
url https://hdl.handle.net/2445/157643
dc.language.none.fl_str_mv Inglés
language_invalid_str_mv Inglés
dc.relation.none.fl_str_mv Reproducció del document publicat a: https://doi.org/10.23818/limn.39.06
Limnetica, 2020, vol. 39, num. 1, p. 73-92
https://doi.org/10.23818/limn.39.06
dc.rights.none.fl_str_mv (c) Múrria i Farnós, Cesc et al., 2020
info:eu-repo/semantics/openAccess
rights_invalid_str_mv (c) Múrria i Farnós, Cesc et al., 2020
eu_rights_str_mv openAccess
dc.format.none.fl_str_mv 20 p.
application/pdf
dc.publisher.none.fl_str_mv Asociación Ibérica de Limnología
publisher.none.fl_str_mv Asociación Ibérica de Limnología
dc.source.none.fl_str_mv Articles publicats en revistes (Biologia Evolutiva, Ecologia i Ciències Ambientals)
reponame:Recercat. Dipósit de la Recerca de Catalunya
instname:Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
instname_str Varias* (Consorci de Biblioteques Universitáries de Catalunya, Centre de Serveis Científics i Acadèmics de Catalunya)
reponame_str Recercat. Dipósit de la Recerca de Catalunya
collection Recercat. Dipósit de la Recerca de Catalunya
repository.name.fl_str_mv
repository.mail.fl_str_mv
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