Technical challenges when scaling up macroinvertebrate DNA metabarcoding
Bulk macroinvertebrate DNA metabarcoding is proven a useful tool for routine assessment of freshwater ecosystems. Following a small scale study in 2017, using 18 samples from Finland Elbrecht et al. 2017, sampling and metabarcoding efforts were extended to a total of 297 official monitoring samples...
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ftuniaarhuspubl:oai:pure.atira.dk:publications/3bc86c0d-cd24-4165-be41-9d5a1d93786c 2023-05-15T16:12:59+02:00 Technical challenges when scaling up macroinvertebrate DNA metabarcoding Elbrecht, Vasco Buchner, Dominik Majaneva, Markus Mordente, Adriana Aroviita, Jukka Ekrem, Torbjørn Baattrup-Pedersen, Annette S. Ólafsson, Jón K. Johnson, Richard Kristin Schartau, Ann Friberg, Nikolai Leese, Florian Kristian, Meissner 2021 https://pure.au.dk/portal/da/publications/technical-challenges-when-scaling-up-macroinvertebrate-dna-metabarcoding(3bc86c0d-cd24-4165-be41-9d5a1d93786c).html https://doi.org/10.3897/aca.4.e64756 eng eng info:eu-repo/semantics/restrictedAccess Elbrecht , V , Buchner , D , Majaneva , M , Mordente , A , Aroviita , J , Ekrem , T , Baattrup-Pedersen , A , S. Ólafsson , J , K. Johnson , R , Kristin Schartau , A , Friberg , N , Leese , F & Kristian , M 2021 , ' Technical challenges when scaling up macroinvertebrate DNA metabarcoding ' , ARPHA Conference Abstracts , vol. 4 , e64756 . https://doi.org/10.3897/aca.4.e64756 conferenceObject 2021 ftuniaarhuspubl https://doi.org/10.3897/aca.4.e64756 2021-03-17T23:44:48Z Bulk macroinvertebrate DNA metabarcoding is proven a useful tool for routine assessment of freshwater ecosystems. Following a small scale study in 2017, using 18 samples from Finland Elbrecht et al. 2017, sampling and metabarcoding efforts were extended to a total of 297 official monitoring samples from Denmark, Sweden, Norway, Iceland, and Finland as part of the SCANDNAnet project. Macroinvertebrates from these samples were morphologically identified and subsequently DNA metabarcoding was performed. While the project was ultimately successful, documenting generally congruence between identification methods, we encountered a wide range of unexpected challenges when scaling sample throughput Meissner et al. 2020.In this technical talk we highlight major roadblocks and potential solutions to improve turnaround time and reliability of future large scale DNA based monitoring efforts. We identify a need for tighter quality control and quality assurance in laboratory procedures, and exemplify the benefits of laboratory automation when processing hundreds of samples within a single week. We further discuss the need for scalable computational infrastructure, reliable sequencing providers and well-curated, purpose driven, macroinvertebrate reference databases for the Fennoscandian region. The lessons learned from the SCANDNAnet project will be indispensable in building a reliable infrastructure for a future DNA based monitoring of macroinvertebrates across Fennioscandia and beyond. Conference Object Fennoscandian Iceland Aarhus University: Research Norway ARPHA Conference Abstracts 4 |
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Open Polar |
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Aarhus University: Research |
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ftuniaarhuspubl |
language |
English |
description |
Bulk macroinvertebrate DNA metabarcoding is proven a useful tool for routine assessment of freshwater ecosystems. Following a small scale study in 2017, using 18 samples from Finland Elbrecht et al. 2017, sampling and metabarcoding efforts were extended to a total of 297 official monitoring samples from Denmark, Sweden, Norway, Iceland, and Finland as part of the SCANDNAnet project. Macroinvertebrates from these samples were morphologically identified and subsequently DNA metabarcoding was performed. While the project was ultimately successful, documenting generally congruence between identification methods, we encountered a wide range of unexpected challenges when scaling sample throughput Meissner et al. 2020.In this technical talk we highlight major roadblocks and potential solutions to improve turnaround time and reliability of future large scale DNA based monitoring efforts. We identify a need for tighter quality control and quality assurance in laboratory procedures, and exemplify the benefits of laboratory automation when processing hundreds of samples within a single week. We further discuss the need for scalable computational infrastructure, reliable sequencing providers and well-curated, purpose driven, macroinvertebrate reference databases for the Fennoscandian region. The lessons learned from the SCANDNAnet project will be indispensable in building a reliable infrastructure for a future DNA based monitoring of macroinvertebrates across Fennioscandia and beyond. |
format |
Conference Object |
author |
Elbrecht, Vasco Buchner, Dominik Majaneva, Markus Mordente, Adriana Aroviita, Jukka Ekrem, Torbjørn Baattrup-Pedersen, Annette S. Ólafsson, Jón K. Johnson, Richard Kristin Schartau, Ann Friberg, Nikolai Leese, Florian Kristian, Meissner |
spellingShingle |
Elbrecht, Vasco Buchner, Dominik Majaneva, Markus Mordente, Adriana Aroviita, Jukka Ekrem, Torbjørn Baattrup-Pedersen, Annette S. Ólafsson, Jón K. Johnson, Richard Kristin Schartau, Ann Friberg, Nikolai Leese, Florian Kristian, Meissner Technical challenges when scaling up macroinvertebrate DNA metabarcoding |
author_facet |
Elbrecht, Vasco Buchner, Dominik Majaneva, Markus Mordente, Adriana Aroviita, Jukka Ekrem, Torbjørn Baattrup-Pedersen, Annette S. Ólafsson, Jón K. Johnson, Richard Kristin Schartau, Ann Friberg, Nikolai Leese, Florian Kristian, Meissner |
author_sort |
Elbrecht, Vasco |
title |
Technical challenges when scaling up macroinvertebrate DNA metabarcoding |
title_short |
Technical challenges when scaling up macroinvertebrate DNA metabarcoding |
title_full |
Technical challenges when scaling up macroinvertebrate DNA metabarcoding |
title_fullStr |
Technical challenges when scaling up macroinvertebrate DNA metabarcoding |
title_full_unstemmed |
Technical challenges when scaling up macroinvertebrate DNA metabarcoding |
title_sort |
technical challenges when scaling up macroinvertebrate dna metabarcoding |
publishDate |
2021 |
url |
https://pure.au.dk/portal/da/publications/technical-challenges-when-scaling-up-macroinvertebrate-dna-metabarcoding(3bc86c0d-cd24-4165-be41-9d5a1d93786c).html https://doi.org/10.3897/aca.4.e64756 |
geographic |
Norway |
geographic_facet |
Norway |
genre |
Fennoscandian Iceland |
genre_facet |
Fennoscandian Iceland |
op_source |
Elbrecht , V , Buchner , D , Majaneva , M , Mordente , A , Aroviita , J , Ekrem , T , Baattrup-Pedersen , A , S. Ólafsson , J , K. Johnson , R , Kristin Schartau , A , Friberg , N , Leese , F & Kristian , M 2021 , ' Technical challenges when scaling up macroinvertebrate DNA metabarcoding ' , ARPHA Conference Abstracts , vol. 4 , e64756 . https://doi.org/10.3897/aca.4.e64756 |
op_rights |
info:eu-repo/semantics/restrictedAccess |
op_doi |
https://doi.org/10.3897/aca.4.e64756 |
container_title |
ARPHA Conference Abstracts |
container_volume |
4 |
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1765998601415163904 |