Marine water environmental DNA metabarcoding provides a comprehensive fish diversity assessment and reveals spatial patterns in a large oceanic area
Abstract Current methods for monitoring marine fish (including bony fishes and elasmobranchs) diversity mostly rely on trawling surveys, which are invasive, costly, and time‐consuming. Moreover, these methods are selective, targeting a subset of species at the time, and can be inaccessible to certai...
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ftdoajarticles:oai:doaj.org/article:ccfa497bd07948e892bd44a2f53fd9c3 2023-05-15T17:41:37+02:00 Marine water environmental DNA metabarcoding provides a comprehensive fish diversity assessment and reveals spatial patterns in a large oceanic area Natalia Fraija‐Fernández Marie‐Catherine Bouquieaux Anaïs Rey Iñaki Mendibil Unai Cotano Xabier Irigoien María Santos Naiara Rodríguez‐Ezpeleta 2020-07-01T00:00:00Z https://doi.org/10.1002/ece3.6482 https://doaj.org/article/ccfa497bd07948e892bd44a2f53fd9c3 EN eng Wiley https://doi.org/10.1002/ece3.6482 https://doaj.org/toc/2045-7758 2045-7758 doi:10.1002/ece3.6482 https://doaj.org/article/ccfa497bd07948e892bd44a2f53fd9c3 Ecology and Evolution, Vol 10, Iss 14, Pp 7560-7584 (2020) Actinopterygii Elasmobranchii environmental DNA marine fish surveys metabarcoding Ecology QH540-549.5 article 2020 ftdoajarticles https://doi.org/10.1002/ece3.6482 2022-12-31T09:42:02Z Abstract Current methods for monitoring marine fish (including bony fishes and elasmobranchs) diversity mostly rely on trawling surveys, which are invasive, costly, and time‐consuming. Moreover, these methods are selective, targeting a subset of species at the time, and can be inaccessible to certain areas. Here, we used environmental DNA (eDNA), the DNA present in the water column as part of shed cells, tissues, or mucus, to provide comprehensive information about fish diversity in a large marine area. Further, eDNA results were compared to the fish diversity obtained in pelagic trawls. A total of 44 5 L‐water samples were collected onboard a wide‐scale oceanographic survey covering about 120,000 square kilometers in Northeast Atlantic Ocean. A short region of the 12S rRNA gene was amplified and sequenced through metabarcoding generating almost 3.5 million quality‐filtered reads. Trawl and eDNA samples resulted in the same most abundant species (European anchovy, European pilchard, Atlantic mackerel, and blue whiting), but eDNA metabarcoding resulted in more detected bony fish and elasmobranch species (116) than trawling (16). Although an overall correlation between fishes biomass and number of reads was observed, some species deviated from the common trend, which could be explained by inherent biases of each of the methods. Species distribution patterns inferred from eDNA metabarcoding data coincided with current ecological knowledge of the species, suggesting that eDNA has the potential to draw sound ecological conclusions that can contribute to fish surveillance programs. Our results support eDNA metabarcoding for broad‐scale marine fish diversity monitoring in the context of Directives such as the Common Fisheries Policy or the Marine Strategy Framework Directive. Article in Journal/Newspaper Northeast Atlantic Directory of Open Access Journals: DOAJ Articles Ecology and Evolution 10 14 7560 7584 |
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Open Polar |
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Directory of Open Access Journals: DOAJ Articles |
op_collection_id |
ftdoajarticles |
language |
English |
topic |
Actinopterygii Elasmobranchii environmental DNA marine fish surveys metabarcoding Ecology QH540-549.5 |
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Actinopterygii Elasmobranchii environmental DNA marine fish surveys metabarcoding Ecology QH540-549.5 Natalia Fraija‐Fernández Marie‐Catherine Bouquieaux Anaïs Rey Iñaki Mendibil Unai Cotano Xabier Irigoien María Santos Naiara Rodríguez‐Ezpeleta Marine water environmental DNA metabarcoding provides a comprehensive fish diversity assessment and reveals spatial patterns in a large oceanic area |
topic_facet |
Actinopterygii Elasmobranchii environmental DNA marine fish surveys metabarcoding Ecology QH540-549.5 |
description |
Abstract Current methods for monitoring marine fish (including bony fishes and elasmobranchs) diversity mostly rely on trawling surveys, which are invasive, costly, and time‐consuming. Moreover, these methods are selective, targeting a subset of species at the time, and can be inaccessible to certain areas. Here, we used environmental DNA (eDNA), the DNA present in the water column as part of shed cells, tissues, or mucus, to provide comprehensive information about fish diversity in a large marine area. Further, eDNA results were compared to the fish diversity obtained in pelagic trawls. A total of 44 5 L‐water samples were collected onboard a wide‐scale oceanographic survey covering about 120,000 square kilometers in Northeast Atlantic Ocean. A short region of the 12S rRNA gene was amplified and sequenced through metabarcoding generating almost 3.5 million quality‐filtered reads. Trawl and eDNA samples resulted in the same most abundant species (European anchovy, European pilchard, Atlantic mackerel, and blue whiting), but eDNA metabarcoding resulted in more detected bony fish and elasmobranch species (116) than trawling (16). Although an overall correlation between fishes biomass and number of reads was observed, some species deviated from the common trend, which could be explained by inherent biases of each of the methods. Species distribution patterns inferred from eDNA metabarcoding data coincided with current ecological knowledge of the species, suggesting that eDNA has the potential to draw sound ecological conclusions that can contribute to fish surveillance programs. Our results support eDNA metabarcoding for broad‐scale marine fish diversity monitoring in the context of Directives such as the Common Fisheries Policy or the Marine Strategy Framework Directive. |
format |
Article in Journal/Newspaper |
author |
Natalia Fraija‐Fernández Marie‐Catherine Bouquieaux Anaïs Rey Iñaki Mendibil Unai Cotano Xabier Irigoien María Santos Naiara Rodríguez‐Ezpeleta |
author_facet |
Natalia Fraija‐Fernández Marie‐Catherine Bouquieaux Anaïs Rey Iñaki Mendibil Unai Cotano Xabier Irigoien María Santos Naiara Rodríguez‐Ezpeleta |
author_sort |
Natalia Fraija‐Fernández |
title |
Marine water environmental DNA metabarcoding provides a comprehensive fish diversity assessment and reveals spatial patterns in a large oceanic area |
title_short |
Marine water environmental DNA metabarcoding provides a comprehensive fish diversity assessment and reveals spatial patterns in a large oceanic area |
title_full |
Marine water environmental DNA metabarcoding provides a comprehensive fish diversity assessment and reveals spatial patterns in a large oceanic area |
title_fullStr |
Marine water environmental DNA metabarcoding provides a comprehensive fish diversity assessment and reveals spatial patterns in a large oceanic area |
title_full_unstemmed |
Marine water environmental DNA metabarcoding provides a comprehensive fish diversity assessment and reveals spatial patterns in a large oceanic area |
title_sort |
marine water environmental dna metabarcoding provides a comprehensive fish diversity assessment and reveals spatial patterns in a large oceanic area |
publisher |
Wiley |
publishDate |
2020 |
url |
https://doi.org/10.1002/ece3.6482 https://doaj.org/article/ccfa497bd07948e892bd44a2f53fd9c3 |
genre |
Northeast Atlantic |
genre_facet |
Northeast Atlantic |
op_source |
Ecology and Evolution, Vol 10, Iss 14, Pp 7560-7584 (2020) |
op_relation |
https://doi.org/10.1002/ece3.6482 https://doaj.org/toc/2045-7758 2045-7758 doi:10.1002/ece3.6482 https://doaj.org/article/ccfa497bd07948e892bd44a2f53fd9c3 |
op_doi |
https://doi.org/10.1002/ece3.6482 |
container_title |
Ecology and Evolution |
container_volume |
10 |
container_issue |
14 |
container_start_page |
7560 |
op_container_end_page |
7584 |
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1766143271094976512 |