Combining multi-marker metabarcoding and digital holography to describe eukaryotic plankton across the Newfoundland Shelf
Abstract The planktonic diversity throughout the oceans is vital to ecosystem functioning and linked to environmental change. Plankton monitoring tools have advanced considerably with high-throughput in-situ digital cameras and genomic sequencing, opening new challenges for high-frequency observatio...
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2022
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ftdoajarticles:oai:doaj.org/article:eeec5c1f405e423d82a3172a537ee1d7 2023-05-15T17:20:16+02:00 Combining multi-marker metabarcoding and digital holography to describe eukaryotic plankton across the Newfoundland Shelf Liam MacNeil Dhwani K. Desai Maycira Costa Julie LaRoche 2022-07-01T00:00:00Z https://doi.org/10.1038/s41598-022-17313-w https://doaj.org/article/eeec5c1f405e423d82a3172a537ee1d7 EN eng Nature Portfolio https://doi.org/10.1038/s41598-022-17313-w https://doaj.org/toc/2045-2322 doi:10.1038/s41598-022-17313-w 2045-2322 https://doaj.org/article/eeec5c1f405e423d82a3172a537ee1d7 Scientific Reports, Vol 12, Iss 1, Pp 1-11 (2022) Medicine R Science Q article 2022 ftdoajarticles https://doi.org/10.1038/s41598-022-17313-w 2022-12-31T00:57:47Z Abstract The planktonic diversity throughout the oceans is vital to ecosystem functioning and linked to environmental change. Plankton monitoring tools have advanced considerably with high-throughput in-situ digital cameras and genomic sequencing, opening new challenges for high-frequency observations of community composition, structure, and species discovery. Here, we combine multi-marker metabarcoding based on nuclear 18S (V4) and plastidial 16S (V4–V5) rRNA gene amplicons with a digital in-line holographic microscope to provide a synoptic diversity survey of eukaryotic plankton along the Newfoundland Shelf (Canada) during the winter transition phase of the North Atlantic bloom phenomenon. Metabarcoding revealed a rich eukaryotic diversity unidentifiable in the imaging samples, confirming the presence of ecologically important saprophytic protists which were unclassifiable in matching images, and detecting important groups unobserved or taxonomically unresolved during similar sequencing campaigns in the Northwest Atlantic Ocean. In turn, imaging analysis provided quantitative observations of widely prevalent plankton from every trophic level. Despite contrasting plankton compositions portrayed by each sampling method, both capture broad spatial differences between the northern and southern sectors of the Newfoundland Shelf and suggest complementary estimations of important features in eukaryotic assemblages. Future tasks will involve standardizing digital imaging and metabarcoding for wider use and consistent, comparable ocean observations. Article in Journal/Newspaper Newfoundland North Atlantic Northwest Atlantic Directory of Open Access Journals: DOAJ Articles Canada Scientific Reports 12 1 |
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Directory of Open Access Journals: DOAJ Articles |
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ftdoajarticles |
language |
English |
topic |
Medicine R Science Q |
spellingShingle |
Medicine R Science Q Liam MacNeil Dhwani K. Desai Maycira Costa Julie LaRoche Combining multi-marker metabarcoding and digital holography to describe eukaryotic plankton across the Newfoundland Shelf |
topic_facet |
Medicine R Science Q |
description |
Abstract The planktonic diversity throughout the oceans is vital to ecosystem functioning and linked to environmental change. Plankton monitoring tools have advanced considerably with high-throughput in-situ digital cameras and genomic sequencing, opening new challenges for high-frequency observations of community composition, structure, and species discovery. Here, we combine multi-marker metabarcoding based on nuclear 18S (V4) and plastidial 16S (V4–V5) rRNA gene amplicons with a digital in-line holographic microscope to provide a synoptic diversity survey of eukaryotic plankton along the Newfoundland Shelf (Canada) during the winter transition phase of the North Atlantic bloom phenomenon. Metabarcoding revealed a rich eukaryotic diversity unidentifiable in the imaging samples, confirming the presence of ecologically important saprophytic protists which were unclassifiable in matching images, and detecting important groups unobserved or taxonomically unresolved during similar sequencing campaigns in the Northwest Atlantic Ocean. In turn, imaging analysis provided quantitative observations of widely prevalent plankton from every trophic level. Despite contrasting plankton compositions portrayed by each sampling method, both capture broad spatial differences between the northern and southern sectors of the Newfoundland Shelf and suggest complementary estimations of important features in eukaryotic assemblages. Future tasks will involve standardizing digital imaging and metabarcoding for wider use and consistent, comparable ocean observations. |
format |
Article in Journal/Newspaper |
author |
Liam MacNeil Dhwani K. Desai Maycira Costa Julie LaRoche |
author_facet |
Liam MacNeil Dhwani K. Desai Maycira Costa Julie LaRoche |
author_sort |
Liam MacNeil |
title |
Combining multi-marker metabarcoding and digital holography to describe eukaryotic plankton across the Newfoundland Shelf |
title_short |
Combining multi-marker metabarcoding and digital holography to describe eukaryotic plankton across the Newfoundland Shelf |
title_full |
Combining multi-marker metabarcoding and digital holography to describe eukaryotic plankton across the Newfoundland Shelf |
title_fullStr |
Combining multi-marker metabarcoding and digital holography to describe eukaryotic plankton across the Newfoundland Shelf |
title_full_unstemmed |
Combining multi-marker metabarcoding and digital holography to describe eukaryotic plankton across the Newfoundland Shelf |
title_sort |
combining multi-marker metabarcoding and digital holography to describe eukaryotic plankton across the newfoundland shelf |
publisher |
Nature Portfolio |
publishDate |
2022 |
url |
https://doi.org/10.1038/s41598-022-17313-w https://doaj.org/article/eeec5c1f405e423d82a3172a537ee1d7 |
geographic |
Canada |
geographic_facet |
Canada |
genre |
Newfoundland North Atlantic Northwest Atlantic |
genre_facet |
Newfoundland North Atlantic Northwest Atlantic |
op_source |
Scientific Reports, Vol 12, Iss 1, Pp 1-11 (2022) |
op_relation |
https://doi.org/10.1038/s41598-022-17313-w https://doaj.org/toc/2045-2322 doi:10.1038/s41598-022-17313-w 2045-2322 https://doaj.org/article/eeec5c1f405e423d82a3172a537ee1d7 |
op_doi |
https://doi.org/10.1038/s41598-022-17313-w |
container_title |
Scientific Reports |
container_volume |
12 |
container_issue |
1 |
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1766098611557367808 |