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Quantitative assessment of fish larvae community composition in spawning areas using metabarcoding of bulk samples

Frances Ratcliffe, Tamsyn Uren Webster Orcid Logo, Deiene Rodriguez Barreto, Richard O'Rorke, Carlos Garcia De Leaniz Orcid Logo, Sofia Consuegra del Olmo Orcid Logo

Ecological Applications, Volume: 31, Issue: 3

Swansea University Authors: Frances Ratcliffe, Tamsyn Uren Webster Orcid Logo, Deiene Rodriguez Barreto, Richard O'Rorke, Carlos Garcia De Leaniz Orcid Logo, Sofia Consuegra del Olmo Orcid Logo

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DOI (Published version): 10.1002/eap.2284

Abstract

Accurate assessment of larval community composition in spawning areas is essential for fisheries management and conservation but is often hampered by the cryptic nature of many larvae, which renders them difficult to identify morphologically. Metabarcoding is a rapid and cost-effective method to mon...

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Published in: Ecological Applications
ISSN: 1051-0761 1939-5582
Published: Wiley 2021
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URI: https://cronfa.swan.ac.uk/Record/cronfa56117
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Metabarcoding is a rapid and cost-effective method to monitor early life stages for management and environmental impact assessment purposes but its quantitative capability is under discussion. We compared metabarcoding with traditional morphological identification to evaluate taxonomic precision and reliability of abundance estimates, using 332 fish larvae from multinet hauls (0&#x2013;50 m depth) collected at 14 offshore sampling sites in the Irish and Celtic seas. To improve quantification accuracy (relative abundance estimates), the amount of tissue for each specimen was standardized and mitochondrial primers (12S gene) with conserved binding sites were used. Relative family abundance estimated from metabarcoding reads and morphological assessment were positively correlated, as well as taxon richness (RS = 0.81, P = 0.007) and diversity (RS = 0.90, P = 0.002). Spatial patterns of community composition did not differ significantly between metabarcoding and morphological assessments. Our results show that DNA metabarcoding of bulk tissue samples can be used to monitor changes in fish larvae abundance and community composition. 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spelling 2022-11-14T11:44:52.5021073 v2 56117 2021-01-24 Quantitative assessment of fish larvae community composition in spawning areas using metabarcoding of bulk samples 613553b7a567deeb0e75d38a2702a5f0 Frances Ratcliffe Frances Ratcliffe true false 3ea91c154926c86f89ea6a761122ecf6 0000-0002-0072-9745 Tamsyn Uren Webster Tamsyn Uren Webster true false a19d5dff034b6dc4c330b3aa7674eb83 Deiene Rodriguez Barreto Deiene Rodriguez Barreto true false cbb43a40c53e5ba9681a9022dcf0c753 Richard O'Rorke Richard O'Rorke 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 2021-01-24 SBI Accurate assessment of larval community composition in spawning areas is essential for fisheries management and conservation but is often hampered by the cryptic nature of many larvae, which renders them difficult to identify morphologically. Metabarcoding is a rapid and cost-effective method to monitor early life stages for management and environmental impact assessment purposes but its quantitative capability is under discussion. We compared metabarcoding with traditional morphological identification to evaluate taxonomic precision and reliability of abundance estimates, using 332 fish larvae from multinet hauls (0–50 m depth) collected at 14 offshore sampling sites in the Irish and Celtic seas. To improve quantification accuracy (relative abundance estimates), the amount of tissue for each specimen was standardized and mitochondrial primers (12S gene) with conserved binding sites were used. Relative family abundance estimated from metabarcoding reads and morphological assessment were positively correlated, as well as taxon richness (RS = 0.81, P = 0.007) and diversity (RS = 0.90, P = 0.002). Spatial patterns of community composition did not differ significantly between metabarcoding and morphological assessments. Our results show that DNA metabarcoding of bulk tissue samples can be used to monitor changes in fish larvae abundance and community composition. This represents a feasible, efficient, and faster alternative to morphological methods that can be applied to terrestrial and aquatic habitats. Journal Article Ecological Applications 31 3 Wiley 1051-0761 1939-5582 12S; bulk samples; Celtic sea; fish larvae; Irish sea; metabarcoding; quantification 1 4 2021 2021-04-01 10.1002/eap.2284 COLLEGE NANME Biosciences COLLEGE CODE SBI Swansea University European Regional Development Fund 2022-11-14T11:44:52.5021073 2021-01-24T11:51:41.7941997 Faculty of Science and Engineering School of Biosciences, Geography and Physics - Biosciences Frances Ratcliffe 1 Tamsyn Uren Webster 0000-0002-0072-9745 2 Deiene Rodriguez Barreto 3 Richard O'Rorke 4 Carlos Garcia De Leaniz 0000-0003-1650-2729 5 Sofia Consuegra del Olmo 0000-0003-4403-2509 6 56117__19329__928de2f4c498424a8baa1b3a4b7de413.pdf 56117.pdf 2021-02-18T14:43:10.6438058 Output 769975 application/pdf Version of Record true © 2021 The Authors. This is an open access article under the terms of the Creative Commons Attribution-NonCommercial-NoDerivs License true eng http://creativecommons.org/licenses/by-nc-nd/4.0/
title Quantitative assessment of fish larvae community composition in spawning areas using metabarcoding of bulk samples
spellingShingle Quantitative assessment of fish larvae community composition in spawning areas using metabarcoding of bulk samples
Frances Ratcliffe
Tamsyn Uren Webster
Deiene Rodriguez Barreto
Richard O'Rorke
Carlos Garcia De Leaniz
Sofia Consuegra del Olmo
title_short Quantitative assessment of fish larvae community composition in spawning areas using metabarcoding of bulk samples
title_full Quantitative assessment of fish larvae community composition in spawning areas using metabarcoding of bulk samples
title_fullStr Quantitative assessment of fish larvae community composition in spawning areas using metabarcoding of bulk samples
title_full_unstemmed Quantitative assessment of fish larvae community composition in spawning areas using metabarcoding of bulk samples
title_sort Quantitative assessment of fish larvae community composition in spawning areas using metabarcoding of bulk samples
author_id_str_mv 613553b7a567deeb0e75d38a2702a5f0
3ea91c154926c86f89ea6a761122ecf6
a19d5dff034b6dc4c330b3aa7674eb83
cbb43a40c53e5ba9681a9022dcf0c753
1c70acd0fd64edb0856b7cf34393ab02
241f2810ab8f56be53ca8af23e384c6e
author_id_fullname_str_mv 613553b7a567deeb0e75d38a2702a5f0_***_Frances Ratcliffe
3ea91c154926c86f89ea6a761122ecf6_***_Tamsyn Uren Webster
a19d5dff034b6dc4c330b3aa7674eb83_***_Deiene Rodriguez Barreto
cbb43a40c53e5ba9681a9022dcf0c753_***_Richard O'Rorke
1c70acd0fd64edb0856b7cf34393ab02_***_Carlos Garcia De Leaniz
241f2810ab8f56be53ca8af23e384c6e_***_Sofia Consuegra del Olmo
author Frances Ratcliffe
Tamsyn Uren Webster
Deiene Rodriguez Barreto
Richard O'Rorke
Carlos Garcia De Leaniz
Sofia Consuegra del Olmo
author2 Frances Ratcliffe
Tamsyn Uren Webster
Deiene Rodriguez Barreto
Richard O'Rorke
Carlos Garcia De Leaniz
Sofia Consuegra del Olmo
format Journal article
container_title Ecological Applications
container_volume 31
container_issue 3
publishDate 2021
institution Swansea University
issn 1051-0761
1939-5582
doi_str_mv 10.1002/eap.2284
publisher Wiley
college_str Faculty of Science and Engineering
hierarchytype
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
document_store_str 1
active_str 0
description Accurate assessment of larval community composition in spawning areas is essential for fisheries management and conservation but is often hampered by the cryptic nature of many larvae, which renders them difficult to identify morphologically. Metabarcoding is a rapid and cost-effective method to monitor early life stages for management and environmental impact assessment purposes but its quantitative capability is under discussion. We compared metabarcoding with traditional morphological identification to evaluate taxonomic precision and reliability of abundance estimates, using 332 fish larvae from multinet hauls (0–50 m depth) collected at 14 offshore sampling sites in the Irish and Celtic seas. To improve quantification accuracy (relative abundance estimates), the amount of tissue for each specimen was standardized and mitochondrial primers (12S gene) with conserved binding sites were used. Relative family abundance estimated from metabarcoding reads and morphological assessment were positively correlated, as well as taxon richness (RS = 0.81, P = 0.007) and diversity (RS = 0.90, P = 0.002). Spatial patterns of community composition did not differ significantly between metabarcoding and morphological assessments. Our results show that DNA metabarcoding of bulk tissue samples can be used to monitor changes in fish larvae abundance and community composition. This represents a feasible, efficient, and faster alternative to morphological methods that can be applied to terrestrial and aquatic habitats.
published_date 2021-04-01T04:10:50Z
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score 11.013731

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