Environmental Barcoding Reveals Massive Dinoflagellate Diversity in Marine Environments
Background: Dinoflagellates are an ecologically important group of protists with important functions as primary producers, coral symbionts and in toxic red tides. Although widely studied, the natural diversity of dinoflagellates is not well known. DNA barcoding has been utilized successfully for man...
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Online Access: | https://pure.uhi.ac.uk/en/publications/7172b59c-84c0-4400-8e83-d54b28d7d80b https://doi.org/10.1371/journal.pone.0013991 |
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ftuhipublicatio:oai:pure.atira.dk:publications/7172b59c-84c0-4400-8e83-d54b28d7d80b 2023-05-15T17:45:46+02:00 Environmental Barcoding Reveals Massive Dinoflagellate Diversity in Marine Environments Stern, R F Horak, A Andrew, R L Coffroth, M A Andersen, R Küpper, Frithjof Jameson, I Hoppenrath, M Veron, B Kasai, F Brand, Jery James, E R Keeling, Patrick 2010 https://pure.uhi.ac.uk/en/publications/7172b59c-84c0-4400-8e83-d54b28d7d80b https://doi.org/10.1371/journal.pone.0013991 eng eng info:eu-repo/semantics/restrictedAccess Stern , R F , Horak , A , Andrew , R L , Coffroth , M A , Andersen , R , Küpper , F , Jameson , I , Hoppenrath , M , Veron , B , Kasai , F , Brand , J , James , E R & Keeling , P 2010 , ' Environmental Barcoding Reveals Massive Dinoflagellate Diversity in Marine Environments ' , PLoS ONE , vol. 5 , no. 11 , pp. -(14) . https://doi.org/10.1371/journal.pone.0013991 TOXIC DINOFLAGELLATE FRESH-WATER FREE-LIVING STRAIN SYMBIODINIUM NATURAL-ENVIRONMENT RDNA SEQUENCES MOLECULAR PHYLOGENY RIBOSOMAL-RNA GENE SP-NOV DINOPHYCEAE Multidisciplinary Sciences COASTAL WATERS Biology article 2010 ftuhipublicatio https://doi.org/10.1371/journal.pone.0013991 2022-06-02T22:18:52Z Background: Dinoflagellates are an ecologically important group of protists with important functions as primary producers, coral symbionts and in toxic red tides. Although widely studied, the natural diversity of dinoflagellates is not well known. DNA barcoding has been utilized successfully for many protist groups. We used this approach to systematically sample known "species", as a reference to measure the natural diversity in three marine environments. Methodology/Principal Findings: In this study, we assembled a large cytochrome c oxidase 1 (COI) barcode database from 8 public algal culture collections plus 3 private collections worldwide resulting in 336 individual barcodes linked to specific cultures. We demonstrate that COI can identify to the species level in 15 dinoflagellate genera, generally in agreement with existing species names. Exceptions were found in species belonging to genera that were generally already known to be taxonomically challenging, such as Alexandrium or Symbiodinium. Using this barcode database as a baseline for cultured dinoflagellate diversity, we investigated the natural diversity in three diverse marine environments (Northeast Pacific, Northwest Atlantic, and Caribbean), including an evaluation of single-cell barcoding to identify uncultivated groups. From all three environments, the great majority of barcodes were not represented by any known cultured dinoflagellate, and we also observed an explosion in the diversity of genera that previously contained a modest number of known species, belonging to Kareniaceae. In total, 91.5% of non-identical environmental barcodes represent distinct species, but only 51 out of 603 unique environmental barcodes could be linked to cultured species using a conservative cut-off based on distances between cultured species. Conclusions/Significance: COI barcoding was successful in identifying species from 70% of cultured genera. When applied to environmental samples, it revealed a massive amount of natural diversity in dinoflagellates. This ... Article in Journal/Newspaper Northwest Atlantic University of the Highlands and Islands: Research Database of UHI Pacific PLoS ONE 5 11 e13991 |
institution |
Open Polar |
collection |
University of the Highlands and Islands: Research Database of UHI |
op_collection_id |
ftuhipublicatio |
language |
English |
topic |
TOXIC DINOFLAGELLATE FRESH-WATER FREE-LIVING STRAIN SYMBIODINIUM NATURAL-ENVIRONMENT RDNA SEQUENCES MOLECULAR PHYLOGENY RIBOSOMAL-RNA GENE SP-NOV DINOPHYCEAE Multidisciplinary Sciences COASTAL WATERS Biology |
spellingShingle |
TOXIC DINOFLAGELLATE FRESH-WATER FREE-LIVING STRAIN SYMBIODINIUM NATURAL-ENVIRONMENT RDNA SEQUENCES MOLECULAR PHYLOGENY RIBOSOMAL-RNA GENE SP-NOV DINOPHYCEAE Multidisciplinary Sciences COASTAL WATERS Biology Stern, R F Horak, A Andrew, R L Coffroth, M A Andersen, R Küpper, Frithjof Jameson, I Hoppenrath, M Veron, B Kasai, F Brand, Jery James, E R Keeling, Patrick Environmental Barcoding Reveals Massive Dinoflagellate Diversity in Marine Environments |
topic_facet |
TOXIC DINOFLAGELLATE FRESH-WATER FREE-LIVING STRAIN SYMBIODINIUM NATURAL-ENVIRONMENT RDNA SEQUENCES MOLECULAR PHYLOGENY RIBOSOMAL-RNA GENE SP-NOV DINOPHYCEAE Multidisciplinary Sciences COASTAL WATERS Biology |
description |
Background: Dinoflagellates are an ecologically important group of protists with important functions as primary producers, coral symbionts and in toxic red tides. Although widely studied, the natural diversity of dinoflagellates is not well known. DNA barcoding has been utilized successfully for many protist groups. We used this approach to systematically sample known "species", as a reference to measure the natural diversity in three marine environments. Methodology/Principal Findings: In this study, we assembled a large cytochrome c oxidase 1 (COI) barcode database from 8 public algal culture collections plus 3 private collections worldwide resulting in 336 individual barcodes linked to specific cultures. We demonstrate that COI can identify to the species level in 15 dinoflagellate genera, generally in agreement with existing species names. Exceptions were found in species belonging to genera that were generally already known to be taxonomically challenging, such as Alexandrium or Symbiodinium. Using this barcode database as a baseline for cultured dinoflagellate diversity, we investigated the natural diversity in three diverse marine environments (Northeast Pacific, Northwest Atlantic, and Caribbean), including an evaluation of single-cell barcoding to identify uncultivated groups. From all three environments, the great majority of barcodes were not represented by any known cultured dinoflagellate, and we also observed an explosion in the diversity of genera that previously contained a modest number of known species, belonging to Kareniaceae. In total, 91.5% of non-identical environmental barcodes represent distinct species, but only 51 out of 603 unique environmental barcodes could be linked to cultured species using a conservative cut-off based on distances between cultured species. Conclusions/Significance: COI barcoding was successful in identifying species from 70% of cultured genera. When applied to environmental samples, it revealed a massive amount of natural diversity in dinoflagellates. This ... |
format |
Article in Journal/Newspaper |
author |
Stern, R F Horak, A Andrew, R L Coffroth, M A Andersen, R Küpper, Frithjof Jameson, I Hoppenrath, M Veron, B Kasai, F Brand, Jery James, E R Keeling, Patrick |
author_facet |
Stern, R F Horak, A Andrew, R L Coffroth, M A Andersen, R Küpper, Frithjof Jameson, I Hoppenrath, M Veron, B Kasai, F Brand, Jery James, E R Keeling, Patrick |
author_sort |
Stern, R F |
title |
Environmental Barcoding Reveals Massive Dinoflagellate Diversity in Marine Environments |
title_short |
Environmental Barcoding Reveals Massive Dinoflagellate Diversity in Marine Environments |
title_full |
Environmental Barcoding Reveals Massive Dinoflagellate Diversity in Marine Environments |
title_fullStr |
Environmental Barcoding Reveals Massive Dinoflagellate Diversity in Marine Environments |
title_full_unstemmed |
Environmental Barcoding Reveals Massive Dinoflagellate Diversity in Marine Environments |
title_sort |
environmental barcoding reveals massive dinoflagellate diversity in marine environments |
publishDate |
2010 |
url |
https://pure.uhi.ac.uk/en/publications/7172b59c-84c0-4400-8e83-d54b28d7d80b https://doi.org/10.1371/journal.pone.0013991 |
geographic |
Pacific |
geographic_facet |
Pacific |
genre |
Northwest Atlantic |
genre_facet |
Northwest Atlantic |
op_source |
Stern , R F , Horak , A , Andrew , R L , Coffroth , M A , Andersen , R , Küpper , F , Jameson , I , Hoppenrath , M , Veron , B , Kasai , F , Brand , J , James , E R & Keeling , P 2010 , ' Environmental Barcoding Reveals Massive Dinoflagellate Diversity in Marine Environments ' , PLoS ONE , vol. 5 , no. 11 , pp. -(14) . https://doi.org/10.1371/journal.pone.0013991 |
op_rights |
info:eu-repo/semantics/restrictedAccess |
op_doi |
https://doi.org/10.1371/journal.pone.0013991 |
container_title |
PLoS ONE |
container_volume |
5 |
container_issue |
11 |
container_start_page |
e13991 |
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