Surface ocean metabarcoding confirms limited diversity in planktonic foraminifera but reveals unknown hyper-abundant lineages
Since the advent of DNA metabarcoding surveys, the planktonic realm is considered a treasure trove of diversity, inhabited by a small number of abundant taxa, and a hugely diverse and taxonomically uncharacterized consortium of rare species. Here we assess if the apparent underestimation of plankton...
Published in: | Scientific Reports |
---|---|
Main Authors: | , , , , , , |
Format: | Article in Journal/Newspaper |
Language: | English |
Published: |
2018
|
Subjects: | |
Online Access: | http://agritrop.cirad.fr/590739/ http://agritrop.cirad.fr/590739/1/Morard%202018%20Surface%20ocean%20metabarcoding%20confirms%20limited%20diversity%20in%20planktonic%20foraminifera%20but%20reveals%20unknow%20hyper-abundant%20lineages.pdf https://doi.org/10.1038/s41598-018-20833-z |
id |
ftcirad:oai:agritrop.cirad.fr:590739 |
---|---|
record_format |
openpolar |
spelling |
ftcirad:oai:agritrop.cirad.fr:590739 2023-05-15T18:00:29+02:00 Surface ocean metabarcoding confirms limited diversity in planktonic foraminifera but reveals unknown hyper-abundant lineages Morard, Raphaël Garet-Delmas, Marie-José Mahé, Frédéric Romac, Sarah Poulain, Julie Kucera, Michal de Vargas, Colomban océan Indien Océan atlantique Atlantique Sud 2018 text http://agritrop.cirad.fr/590739/ http://agritrop.cirad.fr/590739/1/Morard%202018%20Surface%20ocean%20metabarcoding%20confirms%20limited%20diversity%20in%20planktonic%20foraminifera%20but%20reveals%20unknow%20hyper-abundant%20lineages.pdf https://doi.org/10.1038/s41598-018-20833-z eng eng http://agritrop.cirad.fr/590739/ Surface ocean metabarcoding confirms limited diversity in planktonic foraminifera but reveals unknown hyper-abundant lineages. Morard Raphaël, Garet-Delmas Marie-José, Mahé Frédéric, Romac Sarah, Poulain Julie, Kucera Michal, de Vargas Colomban. 2018. Scientific Reports, 8:2539, 10 p.https://doi.org/10.1038/s41598-018-20833-z <https://doi.org/10.1038/s41598-018-20833-z> http://agritrop.cirad.fr/590739/1/Morard%202018%20Surface%20ocean%20metabarcoding%20confirms%20limited%20diversity%20in%20planktonic%20foraminifera%20but%20reveals%20unknow%20hyper-abundant%20lineages.pdf cc_by_sa info:eu-repo/semantics/openAccess https://creativecommons.org/licenses/by-sa/4.0/ CC-BY-SA Scientific Reports L60 - Taxonomie et géographie animales 000 - Autres thèmes Courant d'eau Plancton Taxonomie Biodiversité Biomasse ADN ribosomal http://aims.fao.org/aos/agrovoc/c_8316 http://aims.fao.org/aos/agrovoc/c_5950 http://aims.fao.org/aos/agrovoc/c_7631 http://aims.fao.org/aos/agrovoc/c_33949 http://aims.fao.org/aos/agrovoc/c_926 http://aims.fao.org/aos/agrovoc/c_1354098656894 http://aims.fao.org/aos/agrovoc/c_3828 http://aims.fao.org/aos/agrovoc/c_689 http://aims.fao.org/aos/agrovoc/c_29121 article info:eu-repo/semantics/article Journal Article info:eu-repo/semantics/publishedVersion 2018 ftcirad https://doi.org/10.1038/s41598-018-20833-z 2022-07-05T22:44:52Z Since the advent of DNA metabarcoding surveys, the planktonic realm is considered a treasure trove of diversity, inhabited by a small number of abundant taxa, and a hugely diverse and taxonomically uncharacterized consortium of rare species. Here we assess if the apparent underestimation of plankton diversity applies universally. We target planktonic foraminifera, a group of protists whose known morphological diversity is limited, taxonomically resolved and linked to ribosomal DNA barcodes. We generated a pyrosequencing dataset of ~100,000 partial 18S rRNA foraminiferal sequences from 32 size fractioned photic-zone plankton samples collected at 8 stations in the Indian and Atlantic Oceans during the Tara Oceans expedition (2009–2012). We identified 69 genetic types belonging to 41 morphotaxa in our metabarcoding dataset. The diversity saturated at local and regional scale as well as in the three size fractions and the two depths sampled indicating that the diversity of foraminifera is modest and finite. The large majority of the newly discovered lineages occur in the small size fraction, neglected by classical taxonomy. These unknown lineages dominate the bulk [>0.8 µm] size fraction, implying that a considerable part of the planktonic foraminifera community biomass has its origin in unknown lineages. Article in Journal/Newspaper Planktonic foraminifera CIRAD: Agritrop (Centre de coopération internationale en recherche agronomique pour le développement) Indian Scientific Reports 8 1 |
institution |
Open Polar |
collection |
CIRAD: Agritrop (Centre de coopération internationale en recherche agronomique pour le développement) |
op_collection_id |
ftcirad |
language |
English |
topic |
L60 - Taxonomie et géographie animales 000 - Autres thèmes Courant d'eau Plancton Taxonomie Biodiversité Biomasse ADN ribosomal http://aims.fao.org/aos/agrovoc/c_8316 http://aims.fao.org/aos/agrovoc/c_5950 http://aims.fao.org/aos/agrovoc/c_7631 http://aims.fao.org/aos/agrovoc/c_33949 http://aims.fao.org/aos/agrovoc/c_926 http://aims.fao.org/aos/agrovoc/c_1354098656894 http://aims.fao.org/aos/agrovoc/c_3828 http://aims.fao.org/aos/agrovoc/c_689 http://aims.fao.org/aos/agrovoc/c_29121 |
spellingShingle |
L60 - Taxonomie et géographie animales 000 - Autres thèmes Courant d'eau Plancton Taxonomie Biodiversité Biomasse ADN ribosomal http://aims.fao.org/aos/agrovoc/c_8316 http://aims.fao.org/aos/agrovoc/c_5950 http://aims.fao.org/aos/agrovoc/c_7631 http://aims.fao.org/aos/agrovoc/c_33949 http://aims.fao.org/aos/agrovoc/c_926 http://aims.fao.org/aos/agrovoc/c_1354098656894 http://aims.fao.org/aos/agrovoc/c_3828 http://aims.fao.org/aos/agrovoc/c_689 http://aims.fao.org/aos/agrovoc/c_29121 Morard, Raphaël Garet-Delmas, Marie-José Mahé, Frédéric Romac, Sarah Poulain, Julie Kucera, Michal de Vargas, Colomban Surface ocean metabarcoding confirms limited diversity in planktonic foraminifera but reveals unknown hyper-abundant lineages |
topic_facet |
L60 - Taxonomie et géographie animales 000 - Autres thèmes Courant d'eau Plancton Taxonomie Biodiversité Biomasse ADN ribosomal http://aims.fao.org/aos/agrovoc/c_8316 http://aims.fao.org/aos/agrovoc/c_5950 http://aims.fao.org/aos/agrovoc/c_7631 http://aims.fao.org/aos/agrovoc/c_33949 http://aims.fao.org/aos/agrovoc/c_926 http://aims.fao.org/aos/agrovoc/c_1354098656894 http://aims.fao.org/aos/agrovoc/c_3828 http://aims.fao.org/aos/agrovoc/c_689 http://aims.fao.org/aos/agrovoc/c_29121 |
description |
Since the advent of DNA metabarcoding surveys, the planktonic realm is considered a treasure trove of diversity, inhabited by a small number of abundant taxa, and a hugely diverse and taxonomically uncharacterized consortium of rare species. Here we assess if the apparent underestimation of plankton diversity applies universally. We target planktonic foraminifera, a group of protists whose known morphological diversity is limited, taxonomically resolved and linked to ribosomal DNA barcodes. We generated a pyrosequencing dataset of ~100,000 partial 18S rRNA foraminiferal sequences from 32 size fractioned photic-zone plankton samples collected at 8 stations in the Indian and Atlantic Oceans during the Tara Oceans expedition (2009–2012). We identified 69 genetic types belonging to 41 morphotaxa in our metabarcoding dataset. The diversity saturated at local and regional scale as well as in the three size fractions and the two depths sampled indicating that the diversity of foraminifera is modest and finite. The large majority of the newly discovered lineages occur in the small size fraction, neglected by classical taxonomy. These unknown lineages dominate the bulk [>0.8 µm] size fraction, implying that a considerable part of the planktonic foraminifera community biomass has its origin in unknown lineages. |
format |
Article in Journal/Newspaper |
author |
Morard, Raphaël Garet-Delmas, Marie-José Mahé, Frédéric Romac, Sarah Poulain, Julie Kucera, Michal de Vargas, Colomban |
author_facet |
Morard, Raphaël Garet-Delmas, Marie-José Mahé, Frédéric Romac, Sarah Poulain, Julie Kucera, Michal de Vargas, Colomban |
author_sort |
Morard, Raphaël |
title |
Surface ocean metabarcoding confirms limited diversity in planktonic foraminifera but reveals unknown hyper-abundant lineages |
title_short |
Surface ocean metabarcoding confirms limited diversity in planktonic foraminifera but reveals unknown hyper-abundant lineages |
title_full |
Surface ocean metabarcoding confirms limited diversity in planktonic foraminifera but reveals unknown hyper-abundant lineages |
title_fullStr |
Surface ocean metabarcoding confirms limited diversity in planktonic foraminifera but reveals unknown hyper-abundant lineages |
title_full_unstemmed |
Surface ocean metabarcoding confirms limited diversity in planktonic foraminifera but reveals unknown hyper-abundant lineages |
title_sort |
surface ocean metabarcoding confirms limited diversity in planktonic foraminifera but reveals unknown hyper-abundant lineages |
publishDate |
2018 |
url |
http://agritrop.cirad.fr/590739/ http://agritrop.cirad.fr/590739/1/Morard%202018%20Surface%20ocean%20metabarcoding%20confirms%20limited%20diversity%20in%20planktonic%20foraminifera%20but%20reveals%20unknow%20hyper-abundant%20lineages.pdf https://doi.org/10.1038/s41598-018-20833-z |
op_coverage |
océan Indien Océan atlantique Atlantique Sud |
geographic |
Indian |
geographic_facet |
Indian |
genre |
Planktonic foraminifera |
genre_facet |
Planktonic foraminifera |
op_source |
Scientific Reports |
op_relation |
http://agritrop.cirad.fr/590739/ Surface ocean metabarcoding confirms limited diversity in planktonic foraminifera but reveals unknown hyper-abundant lineages. Morard Raphaël, Garet-Delmas Marie-José, Mahé Frédéric, Romac Sarah, Poulain Julie, Kucera Michal, de Vargas Colomban. 2018. Scientific Reports, 8:2539, 10 p.https://doi.org/10.1038/s41598-018-20833-z <https://doi.org/10.1038/s41598-018-20833-z> http://agritrop.cirad.fr/590739/1/Morard%202018%20Surface%20ocean%20metabarcoding%20confirms%20limited%20diversity%20in%20planktonic%20foraminifera%20but%20reveals%20unknow%20hyper-abundant%20lineages.pdf |
op_rights |
cc_by_sa info:eu-repo/semantics/openAccess https://creativecommons.org/licenses/by-sa/4.0/ |
op_rightsnorm |
CC-BY-SA |
op_doi |
https://doi.org/10.1038/s41598-018-20833-z |
container_title |
Scientific Reports |
container_volume |
8 |
container_issue |
1 |
_version_ |
1766169600729284608 |