Metabarcoding of marine zooplankton : prospects, progress and pitfalls
| Autor: | Penelope K. Lindeque, Ann Bucklin, Maiju Lehtiniemi, Aitor Albaina, Naiara Rodríguez-Ezpeleta |
|---|---|
| Jazyk: | angličtina |
| Rok vydání: | 2016 |
| Předmět: |
zooplankton
0106 biological sciences Biodiversity high-throughput DNA sequencing Aquatic Science Biology 010603 evolutionary biology 01 natural sciences Zooplankton DNA barcoding DNA sequencing Abundance (ecology) Environmental DNA Ecology Evolution Behavior and Systematics biodiversity Ecosystem health Ecology 010604 marine biology & hydrobiology ta1184 ta1183 Species diversity Evolutionary biology metabarcoding ta1181 |
| Zdroj: | Journal of Plankton Research. 38(3):393-400 |
| ISSN: | 0142-7873 |
| Popis: | 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. |
| Databáze: | OpenAIRE |
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