Metabarcoding of marine zooplankton: prospects, progress and pitfalls

Bucklin, A; Lindeque, PK; Rodriguez-Ezpeleta, N; Albaina, A; Lehtiniemi, M. 2016 Metabarcoding of marine zooplankton: prospects, progress and pitfalls. Journal of Plankton Research, 38 (3). 393-400. https://doi.org/10.1093/plankt/fbw023

[img]
Preview
Text
Bucklin-etal_2016_JPR-Horizons-Metabarcoding.pdf - Submitted Version
Available under License Creative Commons Attribution Non-commercial.

Download (168kB) | Preview
Official URL: http://dx.doi.org/10.1093/plankt/fbw023

Abstract/Summary

Metabarcoding (large-scale taxonomic identification of complex samples via analysis of one or few orthologous DNA regions, called barcodes) is revolutionizing analysis of biodiversity of marine zooplankton assemblages. Metabarcoding relies on high-throughput DNA sequencing (HTS) technologies, which yield millions of DNA sequences in parallel and allow large-scale analysis of environmental samples. Metabarcoding studies of marine zooplankton have used various regions of nuclear small- (18S) and large-subunit (28S) rRNA, which allow accurate classification of novel sequences and reliable amplification with consensus primers, but- due to their relatively conserved nature- may underestimate species diversity in a community. To discriminate species, more variable genes are needed. A limited number of metabarcoding studies have used mitochondrial cytochrome oxidase I (COI), which ensures detection of species-level diversity, but may require group-specific primers and thus result in inconsistent amplification success rates. Reference databases with sequences for accurately-identified species are critically needed to allow taxonomic designation of molecular operational taxonomic units (MOTU) and comparison with previous studies of zooplankton diversity. Potential and promising applications of metabarcoding include rapid detection of impacts of climate change, monitoring and assessment of ecosystem health, calculation of biotic indices, characterization of food webs and detection of introduced, non-indigenous species.

Item Type: Publication - Article
Additional Information. Not used in RCUK Gateway to Research.: This is a pre-copyedited, author-produced version of an article accepted for publication in Journal of Plankton Research following peer review. The version of record Ann Bucklin, Penelope K. Lindeque, Naiara Rodriguez-Ezpeleta, Aitor Albaina, Maiju Lehtiniemi; Metabarcoding of marine zooplankton: prospects, progress and pitfalls, Journal of Plankton Research, Volume 38, Issue 3, 1 May 2016, Pages 393–400 is available online at: http://dx.doi.org/10.1093/plankt/fbw023.
Subjects: Biology
Ecology and Environment
Marine Sciences
Divisions: Plymouth Marine Laboratory > Science Areas > Marine Ecology and Biodiversity
Depositing User: Pennie Lindeque
Date made live: 13 Mar 2017 14:25
Last Modified: 25 Apr 2020 09:57
URI: http://plymsea.ac.uk/id/eprint/7106

Actions (login required)

View Item View Item