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A drop in the ocean: Monitoring fish communities in spawning areas using environmental DNA

Frances Ratcliffe, Tamsyn Uren Webster Orcid Logo, Carlos Garcia De Leaniz Orcid Logo, Sofia Consuegra del Olmo Orcid Logo

Environmental DNA, Volume: 3, Issue: 1, Pages: 43 - 54

Swansea University Authors: Frances Ratcliffe, Tamsyn Uren Webster Orcid Logo, Carlos Garcia De Leaniz Orcid Logo, Sofia Consuegra del Olmo Orcid Logo

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DOI (Published version): 10.1002/edn3.87

Abstract

Early life stages of aquatic organisms are particularly vulnerable to climatic stressors; however, they are difficult to monitor due to challenges in sampling and morphological identification. Environmental DNA (eDNA) from water samples represents an opportunity for rapid, nondestructive monitoring...

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Published in: Environmental DNA
ISSN: 2637-4943 2637-4943
Published: Wiley 2021
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URI: https://cronfa.swan.ac.uk/Record/cronfa54339
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Environmental DNA (eDNA) from water samples represents an opportunity for rapid, nondestructive monitoring of aquatic community composition as well as single species monitoring. eDNA can also detect spawning events, although has not been yet tested in offshore spawning grounds. Here, we used metabarcoding of water samples to detect the presence of key fish taxa in spawning areas that are difficult to monitor using traditional means. We analyzed DNA from water samples and fish larvae samples at 14 offshore sites, using 12S mitochondrial metabarcoding and compared taxa detections, diversity, and community structure estimated by both sample types. Species richness and diversity did not differ between water and larvae samples. Both sample types detected a core of 12 taxa across the survey, with an average agreement in detections of 75% at sampling site level. Water samples detected two of the three most abundant taxa, the sandeel, Ammodytes marinus, and clupeids, Clupea harengus/Sprattus sprattus, at 31% and 38% more sites than larvae samples respectively, while Callionymus sp. was more prevalent in larvae samples. Mackerel (Scomber scombrus) and blue whiting (Micromestius poutassou) were only detected in water samples despite sampling taking place at peak spawning times for these species. Our results demonstrate that eDNA metabarcoding provides a rapid and feasible monitoring method for the management of key taxa, such as sandeel, that cannot be easily monitored using traditional capture surveys.</abstract><type>Journal Article</type><journal>Environmental DNA</journal><volume>3</volume><journalNumber>1</journalNumber><paginationStart>43</paginationStart><paginationEnd>54</paginationEnd><publisher>Wiley</publisher><placeOfPublication/><isbnPrint/><isbnElectronic/><issnPrint>2637-4943</issnPrint><issnElectronic>2637-4943</issnElectronic><keywords>12S, larvae monitoring, metabarcoding, sandeel</keywords><publishedDay>19</publishedDay><publishedMonth>1</publishedMonth><publishedYear>2021</publishedYear><publishedDate>2021-01-19</publishedDate><doi>10.1002/edn3.87</doi><url/><notes/><college>COLLEGE NANME</college><department>Biosciences</department><CollegeCode>COLLEGE CODE</CollegeCode><DepartmentCode>SBI</DepartmentCode><institution>Swansea University</institution><apcterm/><funders>European Regional Development Fund. 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spelling 2022-10-10T10:21:54.9157030 v2 54339 2020-03-30 A drop in the ocean: Monitoring fish communities in spawning areas using environmental DNA 613553b7a567deeb0e75d38a2702a5f0 Frances Ratcliffe Frances Ratcliffe true false 3ea91c154926c86f89ea6a761122ecf6 0000-0002-0072-9745 Tamsyn Uren Webster Tamsyn Uren Webster true false 1c70acd0fd64edb0856b7cf34393ab02 0000-0003-1650-2729 Carlos Garcia De Leaniz Carlos Garcia De Leaniz true false 241f2810ab8f56be53ca8af23e384c6e 0000-0003-4403-2509 Sofia Consuegra del Olmo Sofia Consuegra del Olmo true false 2020-03-30 SBI Early life stages of aquatic organisms are particularly vulnerable to climatic stressors; however, they are difficult to monitor due to challenges in sampling and morphological identification. Environmental DNA (eDNA) from water samples represents an opportunity for rapid, nondestructive monitoring of aquatic community composition as well as single species monitoring. eDNA can also detect spawning events, although has not been yet tested in offshore spawning grounds. Here, we used metabarcoding of water samples to detect the presence of key fish taxa in spawning areas that are difficult to monitor using traditional means. We analyzed DNA from water samples and fish larvae samples at 14 offshore sites, using 12S mitochondrial metabarcoding and compared taxa detections, diversity, and community structure estimated by both sample types. Species richness and diversity did not differ between water and larvae samples. Both sample types detected a core of 12 taxa across the survey, with an average agreement in detections of 75% at sampling site level. Water samples detected two of the three most abundant taxa, the sandeel, Ammodytes marinus, and clupeids, Clupea harengus/Sprattus sprattus, at 31% and 38% more sites than larvae samples respectively, while Callionymus sp. was more prevalent in larvae samples. Mackerel (Scomber scombrus) and blue whiting (Micromestius poutassou) were only detected in water samples despite sampling taking place at peak spawning times for these species. Our results demonstrate that eDNA metabarcoding provides a rapid and feasible monitoring method for the management of key taxa, such as sandeel, that cannot be easily monitored using traditional capture surveys. Journal Article Environmental DNA 3 1 43 54 Wiley 2637-4943 2637-4943 12S, larvae monitoring, metabarcoding, sandeel 19 1 2021 2021-01-19 10.1002/edn3.87 COLLEGE NANME Biosciences COLLEGE CODE SBI Swansea University European Regional Development Fund. Grant Number: BLUEFISH 2022-10-10T10:21:54.9157030 2020-03-30T00:00:00.0000000 Faculty of Science and Engineering School of Biosciences, Geography and Physics - Biosciences Frances Ratcliffe 1 Tamsyn Uren Webster 0000-0002-0072-9745 2 Carlos Garcia De Leaniz 0000-0003-1650-2729 3 Sofia Consuegra del Olmo 0000-0003-4403-2509 4 54339__17537__7a109f7c1d284e57b57ebf07291813aa.pdf 54339VOR.pdf 2020-06-18T15:39:28.0202513 Output 985419 application/pdf Version of Record true Released under the terms of a Creative Commons Attribution License (CC-BY). true eng http://creativecommons.org/licenses/by/4.0/
title A drop in the ocean: Monitoring fish communities in spawning areas using environmental DNA
spellingShingle A drop in the ocean: Monitoring fish communities in spawning areas using environmental DNA
Frances Ratcliffe
Tamsyn Uren Webster
Carlos Garcia De Leaniz
Sofia Consuegra del Olmo
title_short A drop in the ocean: Monitoring fish communities in spawning areas using environmental DNA
title_full A drop in the ocean: Monitoring fish communities in spawning areas using environmental DNA
title_fullStr A drop in the ocean: Monitoring fish communities in spawning areas using environmental DNA
title_full_unstemmed A drop in the ocean: Monitoring fish communities in spawning areas using environmental DNA
title_sort A drop in the ocean: Monitoring fish communities in spawning areas using environmental DNA
author_id_str_mv 613553b7a567deeb0e75d38a2702a5f0
3ea91c154926c86f89ea6a761122ecf6
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241f2810ab8f56be53ca8af23e384c6e
author_id_fullname_str_mv 613553b7a567deeb0e75d38a2702a5f0_***_Frances Ratcliffe
3ea91c154926c86f89ea6a761122ecf6_***_Tamsyn Uren Webster
1c70acd0fd64edb0856b7cf34393ab02_***_Carlos Garcia De Leaniz
241f2810ab8f56be53ca8af23e384c6e_***_Sofia Consuegra del Olmo
author Frances Ratcliffe
Tamsyn Uren Webster
Carlos Garcia De Leaniz
Sofia Consuegra del Olmo
author2 Frances Ratcliffe
Tamsyn Uren Webster
Carlos Garcia De Leaniz
Sofia Consuegra del Olmo
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container_title Environmental DNA
container_volume 3
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container_start_page 43
publishDate 2021
institution Swansea University
issn 2637-4943
2637-4943
doi_str_mv 10.1002/edn3.87
publisher Wiley
college_str Faculty of Science and Engineering
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hierarchy_top_id facultyofscienceandengineering
hierarchy_top_title Faculty of Science and Engineering
hierarchy_parent_id facultyofscienceandengineering
hierarchy_parent_title Faculty of Science and Engineering
department_str School of Biosciences, Geography and Physics - Biosciences{{{_:::_}}}Faculty of Science and Engineering{{{_:::_}}}School of Biosciences, Geography and Physics - Biosciences
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description Early life stages of aquatic organisms are particularly vulnerable to climatic stressors; however, they are difficult to monitor due to challenges in sampling and morphological identification. Environmental DNA (eDNA) from water samples represents an opportunity for rapid, nondestructive monitoring of aquatic community composition as well as single species monitoring. eDNA can also detect spawning events, although has not been yet tested in offshore spawning grounds. Here, we used metabarcoding of water samples to detect the presence of key fish taxa in spawning areas that are difficult to monitor using traditional means. We analyzed DNA from water samples and fish larvae samples at 14 offshore sites, using 12S mitochondrial metabarcoding and compared taxa detections, diversity, and community structure estimated by both sample types. Species richness and diversity did not differ between water and larvae samples. Both sample types detected a core of 12 taxa across the survey, with an average agreement in detections of 75% at sampling site level. Water samples detected two of the three most abundant taxa, the sandeel, Ammodytes marinus, and clupeids, Clupea harengus/Sprattus sprattus, at 31% and 38% more sites than larvae samples respectively, while Callionymus sp. was more prevalent in larvae samples. Mackerel (Scomber scombrus) and blue whiting (Micromestius poutassou) were only detected in water samples despite sampling taking place at peak spawning times for these species. Our results demonstrate that eDNA metabarcoding provides a rapid and feasible monitoring method for the management of key taxa, such as sandeel, that cannot be easily monitored using traditional capture surveys.
published_date 2021-01-19T04:07:49Z
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