Metabarcoding on planktonic larval stages: an efficient approach for detecting and investigating life cycle dynamics of benthic aliens
International audience High-throughput sequencing (HTS) technologies offer new promise to support surveillance programs targeting marine non-indigenous species (NIS). Metabarcoding might surpass traditional monitoring methods, for example through its ability to detect rare species, a key feature in...
Published in: | Management of Biological Invasions |
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Main Authors: | , , , , |
Other Authors: | , |
Format: | Article in Journal/Newspaper |
Language: | English |
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HAL CCSD
2019
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Subjects: | |
Online Access: | https://hal.sorbonne-universite.fr/hal-02431784 https://hal.sorbonne-universite.fr/hal-02431784/document https://hal.sorbonne-universite.fr/hal-02431784/file/Couton%20et%20al.%20-%202019%20-%20Metabarcoding%20on%20planktonic%20larval%20stages%20an%20effi.pdf https://doi.org/10.3391/mbi.2019.10.4.06 |
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ftccsdartic:oai:HAL:hal-02431784v1 |
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Open Polar |
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Archive ouverte HAL (Hyper Article en Ligne, CCSD - Centre pour la Communication Scientifique Directe) |
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language |
English |
topic |
high-throughput sequencing surveillance monitoring zooplankton time-series non-indigenous species estuary [SDE.BE]Environmental Sciences/Biodiversity and Ecology [SDE.IE]Environmental Sciences/Environmental Engineering [SDU.STU.OC]Sciences of the Universe [physics]/Earth Sciences/Oceanography |
spellingShingle |
high-throughput sequencing surveillance monitoring zooplankton time-series non-indigenous species estuary [SDE.BE]Environmental Sciences/Biodiversity and Ecology [SDE.IE]Environmental Sciences/Environmental Engineering [SDU.STU.OC]Sciences of the Universe [physics]/Earth Sciences/Oceanography Couton, Marjorie Comtet, Thierry Le Cam, Sabrina Corre, Erwan Viard, Frédérique Metabarcoding on planktonic larval stages: an efficient approach for detecting and investigating life cycle dynamics of benthic aliens |
topic_facet |
high-throughput sequencing surveillance monitoring zooplankton time-series non-indigenous species estuary [SDE.BE]Environmental Sciences/Biodiversity and Ecology [SDE.IE]Environmental Sciences/Environmental Engineering [SDU.STU.OC]Sciences of the Universe [physics]/Earth Sciences/Oceanography |
description |
International audience High-throughput sequencing (HTS) technologies offer new promise to support surveillance programs targeting marine non-indigenous species (NIS). Metabarcoding might surpass traditional monitoring methods, for example through its ability to detect rare species, a key feature in early detection of NIS. Another interest of this approach is the identification of organisms difficult to identify based on morphology only (e.g., early developmental stages), making it relevant in the context of management programs. Because many marine benthic NIS have a biphasic bentho-pelagic life cycle, targeting their pelagic larval stages in zooplankton may allow early detection and assessment of their establishment and potential spread. We illustrate this approach with an analysis of bulk-DNA retrieved from a time-series of zooplankton samples collected over 22 months in one bay in Brittany (France). Using HTS of amplicons obtained with two markers (COI and 18S) and a metabarcoding approach, 12 NIS were identified and their temporal larval dynamics were monitored. Importantly, we chose to focus on a closed list of species, from four metazoan classes encompassing 52 NIS reported within the study area or nearby seas, with molecular references available or obtained locally for 42 of them. The use of a custom-designed database allowed the detection of three NIS otherwise not detected when using public databases. Interestingly, NIS known to have a short-lived larval stage were detected (e.g., the bryozoan Bugula neritina or the tunicate Corella eumyota). For two molluscs Ruditapes philippinarum and Crepidula fornicata, metabarcoding results were compared to those obtained using traditional methods (i.e., barcoding of individual larvae and morphology, respectively) to show the reliability of the approach in detecting and assessing the extent of their reproductive periods. Our results also revealed that the Pacific oyster Crassostrea gigas, a notorious invasive species, failed to reproduce in the study bay, showing ... |
author2 |
Station biologique de Roscoff (SBR) Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS) |
format |
Article in Journal/Newspaper |
author |
Couton, Marjorie Comtet, Thierry Le Cam, Sabrina Corre, Erwan Viard, Frédérique |
author_facet |
Couton, Marjorie Comtet, Thierry Le Cam, Sabrina Corre, Erwan Viard, Frédérique |
author_sort |
Couton, Marjorie |
title |
Metabarcoding on planktonic larval stages: an efficient approach for detecting and investigating life cycle dynamics of benthic aliens |
title_short |
Metabarcoding on planktonic larval stages: an efficient approach for detecting and investigating life cycle dynamics of benthic aliens |
title_full |
Metabarcoding on planktonic larval stages: an efficient approach for detecting and investigating life cycle dynamics of benthic aliens |
title_fullStr |
Metabarcoding on planktonic larval stages: an efficient approach for detecting and investigating life cycle dynamics of benthic aliens |
title_full_unstemmed |
Metabarcoding on planktonic larval stages: an efficient approach for detecting and investigating life cycle dynamics of benthic aliens |
title_sort |
metabarcoding on planktonic larval stages: an efficient approach for detecting and investigating life cycle dynamics of benthic aliens |
publisher |
HAL CCSD |
publishDate |
2019 |
url |
https://hal.sorbonne-universite.fr/hal-02431784 https://hal.sorbonne-universite.fr/hal-02431784/document https://hal.sorbonne-universite.fr/hal-02431784/file/Couton%20et%20al.%20-%202019%20-%20Metabarcoding%20on%20planktonic%20larval%20stages%20an%20effi.pdf https://doi.org/10.3391/mbi.2019.10.4.06 |
geographic |
Pacific |
geographic_facet |
Pacific |
genre |
Crassostrea gigas Pacific oyster |
genre_facet |
Crassostrea gigas Pacific oyster |
op_source |
EISSN: 1989-8649 Management of Biological Invasions https://hal.sorbonne-universite.fr/hal-02431784 Management of Biological Invasions, Regional Euro-Asian Biological Invasions Centre - REABIC, PL 3, 00981 Helsinki, FINLAND, 2019, 10 (4), pp.657-689. ⟨10.3391/mbi.2019.10.4.06⟩ |
op_relation |
info:eu-repo/semantics/altIdentifier/doi/10.3391/mbi.2019.10.4.06 hal-02431784 https://hal.sorbonne-universite.fr/hal-02431784 https://hal.sorbonne-universite.fr/hal-02431784/document https://hal.sorbonne-universite.fr/hal-02431784/file/Couton%20et%20al.%20-%202019%20-%20Metabarcoding%20on%20planktonic%20larval%20stages%20an%20effi.pdf doi:10.3391/mbi.2019.10.4.06 |
op_rights |
info:eu-repo/semantics/OpenAccess |
op_doi |
https://doi.org/10.3391/mbi.2019.10.4.06 |
container_title |
Management of Biological Invasions |
container_volume |
10 |
container_issue |
4 |
container_start_page |
657 |
op_container_end_page |
689 |
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1766394942184226816 |
spelling |
ftccsdartic:oai:HAL:hal-02431784v1 2023-05-15T15:59:09+02:00 Metabarcoding on planktonic larval stages: an efficient approach for detecting and investigating life cycle dynamics of benthic aliens Couton, Marjorie Comtet, Thierry Le Cam, Sabrina Corre, Erwan Viard, Frédérique Station biologique de Roscoff (SBR) Sorbonne Université (SU)-Centre National de la Recherche Scientifique (CNRS) 2019 https://hal.sorbonne-universite.fr/hal-02431784 https://hal.sorbonne-universite.fr/hal-02431784/document https://hal.sorbonne-universite.fr/hal-02431784/file/Couton%20et%20al.%20-%202019%20-%20Metabarcoding%20on%20planktonic%20larval%20stages%20an%20effi.pdf https://doi.org/10.3391/mbi.2019.10.4.06 en eng HAL CCSD Regional Euro-Asian Biological Invasions Centre - REABIC, PL 3, 00981 Helsinki, FINLAND info:eu-repo/semantics/altIdentifier/doi/10.3391/mbi.2019.10.4.06 hal-02431784 https://hal.sorbonne-universite.fr/hal-02431784 https://hal.sorbonne-universite.fr/hal-02431784/document https://hal.sorbonne-universite.fr/hal-02431784/file/Couton%20et%20al.%20-%202019%20-%20Metabarcoding%20on%20planktonic%20larval%20stages%20an%20effi.pdf doi:10.3391/mbi.2019.10.4.06 info:eu-repo/semantics/OpenAccess EISSN: 1989-8649 Management of Biological Invasions https://hal.sorbonne-universite.fr/hal-02431784 Management of Biological Invasions, Regional Euro-Asian Biological Invasions Centre - REABIC, PL 3, 00981 Helsinki, FINLAND, 2019, 10 (4), pp.657-689. ⟨10.3391/mbi.2019.10.4.06⟩ high-throughput sequencing surveillance monitoring zooplankton time-series non-indigenous species estuary [SDE.BE]Environmental Sciences/Biodiversity and Ecology [SDE.IE]Environmental Sciences/Environmental Engineering [SDU.STU.OC]Sciences of the Universe [physics]/Earth Sciences/Oceanography info:eu-repo/semantics/article Journal articles 2019 ftccsdartic https://doi.org/10.3391/mbi.2019.10.4.06 2021-12-05T01:38:38Z International audience High-throughput sequencing (HTS) technologies offer new promise to support surveillance programs targeting marine non-indigenous species (NIS). Metabarcoding might surpass traditional monitoring methods, for example through its ability to detect rare species, a key feature in early detection of NIS. Another interest of this approach is the identification of organisms difficult to identify based on morphology only (e.g., early developmental stages), making it relevant in the context of management programs. Because many marine benthic NIS have a biphasic bentho-pelagic life cycle, targeting their pelagic larval stages in zooplankton may allow early detection and assessment of their establishment and potential spread. We illustrate this approach with an analysis of bulk-DNA retrieved from a time-series of zooplankton samples collected over 22 months in one bay in Brittany (France). Using HTS of amplicons obtained with two markers (COI and 18S) and a metabarcoding approach, 12 NIS were identified and their temporal larval dynamics were monitored. Importantly, we chose to focus on a closed list of species, from four metazoan classes encompassing 52 NIS reported within the study area or nearby seas, with molecular references available or obtained locally for 42 of them. The use of a custom-designed database allowed the detection of three NIS otherwise not detected when using public databases. Interestingly, NIS known to have a short-lived larval stage were detected (e.g., the bryozoan Bugula neritina or the tunicate Corella eumyota). For two molluscs Ruditapes philippinarum and Crepidula fornicata, metabarcoding results were compared to those obtained using traditional methods (i.e., barcoding of individual larvae and morphology, respectively) to show the reliability of the approach in detecting and assessing the extent of their reproductive periods. Our results also revealed that the Pacific oyster Crassostrea gigas, a notorious invasive species, failed to reproduce in the study bay, showing ... Article in Journal/Newspaper Crassostrea gigas Pacific oyster Archive ouverte HAL (Hyper Article en Ligne, CCSD - Centre pour la Communication Scientifique Directe) Pacific Management of Biological Invasions 10 4 657 689 |