Towards an in-depth characterization of Symbiodiniaceae in tropical giant clams via metabarcoding of pooled multi-gene amplicons

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dc.contributor.author Pochon, Xavier en
dc.contributor.author Wecker, P en
dc.contributor.author Stat, M en
dc.contributor.author Berteaux-Lecellier, V en
dc.contributor.author Lecellier, G en
dc.date.accessioned 2019-10-08T08:18:30Z en
dc.date.accessioned 2019-11-22T01:09:47Z en
dc.date.issued 2019-05-13 en
dc.identifier.citation PeerJ 2019(5):17 pages Article number e6898 13 May 2019 en
dc.identifier.issn 2167-8359 en
dc.identifier.uri http://hdl.handle.net/2292/49052 en
dc.description.abstract High-throughput sequencing is revolutionizing our ability to comprehensively characterize free-living and symbiotic Symbiodiniaceae, a diverse dinoflagellate group that plays a critical role in coral reef ecosystems. Most studies however, focus on a single marker for metabarcoding Symbiodiniaceae, potentially missing important ecological traits that a combination of markers may capture. In this proof-of-concept study, we used a small set of symbiotic giant clam (Tridacna maxima) samples obtained from nine French Polynesian locations and tested a dual-index sequence library preparation method that pools and simultaneously sequences multiple Symbiodiniaceae gene amplicons per sample for in-depth biodiversity assessments. The rationale for this approach was to allow the metabarcoding of multiple genes without extra costs associated with additional single amplicon dual indexing and library preparations. Our results showed that the technique effectively recovered very similar proportions of sequence reads and dominant Symbiodiniaceae clades among the three pooled gene amplicons investigated per sample, and captured varying levels of phylogenetic resolution enabling a more comprehensive assessment of the diversity present. The pooled Symbiodiniaceae multi-gene metabarcoding approach described here is readily scalable, offering considerable analytical cost savings while providing sufficient phylogenetic information and sequence coverage. en
dc.publisher PeerJ Inc. en
dc.relation.ispartofseries PeerJ en
dc.relation.replaces http://hdl.handle.net/2292/48441 en
dc.relation.replaces 2292/48441 en
dc.rights Items in ResearchSpace are protected by copyright, with all rights reserved, unless otherwise indicated. Previously published items are made available in accordance with the copyright policy of the publisher. en
dc.rights.uri https://researchspace.auckland.ac.nz/docs/uoa-docs/rights.htm en
dc.rights.uri https://creativecommons.org/licenses/by/4.0/ en
dc.title Towards an in-depth characterization of Symbiodiniaceae in tropical giant clams via metabarcoding of pooled multi-gene amplicons en
dc.type Journal Article en
dc.identifier.doi 10.7717/peerj.6898 en
pubs.issue 5 en
pubs.volume 2019 en
dc.rights.holder Copyright: The authors en
pubs.author-url https://peerj.com/articles/6898/ en
dc.rights.accessrights http://purl.org/eprint/accessRights/OpenAccess en
pubs.subtype Article en
pubs.elements-id 778781 en
pubs.org-id Science en
pubs.org-id Marine Science en
pubs.number e6898 en
pubs.record-created-at-source-date 2019-08-10 en
pubs.online-publication-date 2019-05-13 en


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