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Quantitative assessment of fish larvae community composition in spawning areas using metabarcoding of bulk samples
Ecological Applications, Volume: 31, Issue: 3
Swansea University Authors:
Frances Ratcliffe, Tamsyn Uren Webster , Deiene Rodriguez Barreto, Richard O'Rorke, Carlos Garcia De Leaniz
, Sofia Consuegra del Olmo
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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...
Published in: | Ecological Applications |
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ISSN: | 1051-0761 1939-5582 |
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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 (0–50 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.</abstract><type>Journal Article</type><journal>Ecological Applications</journal><volume>31</volume><journalNumber>3</journalNumber><paginationStart/><paginationEnd/><publisher>Wiley</publisher><placeOfPublication/><isbnPrint/><isbnElectronic/><issnPrint>1051-0761</issnPrint><issnElectronic>1939-5582</issnElectronic><keywords>12S; bulk samples; Celtic sea; fish larvae; Irish sea; metabarcoding; quantification</keywords><publishedDay>1</publishedDay><publishedMonth>4</publishedMonth><publishedYear>2021</publishedYear><publishedDate>2021-04-01</publishedDate><doi>10.1002/eap.2284</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</funders><projectreference/><lastEdited>2022-11-14T11:44:52.5021073</lastEdited><Created>2021-01-24T11:51:41.7941997</Created><path><level id="1">Faculty of Science and Engineering</level><level id="2">School of Biosciences, Geography and Physics - Biosciences</level></path><authors><author><firstname>Frances</firstname><surname>Ratcliffe</surname><order>1</order></author><author><firstname>Tamsyn</firstname><surname>Uren Webster</surname><orcid>0000-0002-0072-9745</orcid><order>2</order></author><author><firstname>Deiene</firstname><surname>Rodriguez Barreto</surname><order>3</order></author><author><firstname>Richard</firstname><surname>O'Rorke</surname><order>4</order></author><author><firstname>Carlos</firstname><surname>Garcia De Leaniz</surname><orcid>0000-0003-1650-2729</orcid><order>5</order></author><author><firstname>Sofia</firstname><surname>Consuegra del Olmo</surname><orcid>0000-0003-4403-2509</orcid><order>6</order></author></authors><documents><document><filename>56117__19329__928de2f4c498424a8baa1b3a4b7de413.pdf</filename><originalFilename>56117.pdf</originalFilename><uploaded>2021-02-18T14:43:10.6438058</uploaded><type>Output</type><contentLength>769975</contentLength><contentType>application/pdf</contentType><version>Version of Record</version><cronfaStatus>true</cronfaStatus><documentNotes>© 2021 The Authors. 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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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1763753748109197312 |
score |
11.021648 |