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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ftpensoft:10.3897/aca.4.e64756 2023-05-15T16:13:01+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 Ólafsson,Jón Johnson,Richard Schartau,Ann Friberg,Nikolai Leese,Florian Kristian,Meissner 2021 text/html https://doi.org/10.3897/aca.4.e64756 https://aca.pensoft.net/article/64756/ en eng Pensoft Publishers info:eu-repo/semantics/altIdentifier/eissn/2603-3925 info:eu-repo/semantics/openAccess ARPHA Conference Abstracts 4: e64756 DNA metabarcoding WFD water quality macroinvertebrates Conference Abstract 2021 ftpensoft https://doi.org/10.3897/aca.4.e64756 2022-03-01T12:46:24Z 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 Pensoft Publishers Norway ARPHA Conference Abstracts 4 |
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English |
topic |
DNA metabarcoding WFD water quality macroinvertebrates |
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DNA metabarcoding WFD water quality macroinvertebrates Elbrecht,Vasco Buchner,Dominik Majaneva,Markus Mordente,Adriana Aroviita,Jukka Ekrem,Torbjørn Baattrup-Pedersen,Annette Ólafsson,Jón Johnson,Richard Schartau,Ann Friberg,Nikolai Leese,Florian Kristian,Meissner Technical challenges when scaling up macroinvertebrate DNA metabarcoding |
topic_facet |
DNA metabarcoding WFD water quality macroinvertebrates |
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 Ólafsson,Jón Johnson,Richard Schartau,Ann Friberg,Nikolai Leese,Florian Kristian,Meissner |
author_facet |
Elbrecht,Vasco Buchner,Dominik Majaneva,Markus Mordente,Adriana Aroviita,Jukka Ekrem,Torbjørn Baattrup-Pedersen,Annette Ólafsson,Jón Johnson,Richard 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 |
publisher |
Pensoft Publishers |
publishDate |
2021 |
url |
https://doi.org/10.3897/aca.4.e64756 https://aca.pensoft.net/article/64756/ |
geographic |
Norway |
geographic_facet |
Norway |
genre |
Fennoscandian Iceland |
genre_facet |
Fennoscandian Iceland |
op_source |
ARPHA Conference Abstracts 4: e64756 |
op_relation |
info:eu-repo/semantics/altIdentifier/eissn/2603-3925 |
op_rights |
info:eu-repo/semantics/openAccess |
op_doi |
https://doi.org/10.3897/aca.4.e64756 |
container_title |
ARPHA Conference Abstracts |
container_volume |
4 |
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1765998627708207104 |