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https://hdl.handle.net/1822/50410
Título: | Priming of a DNA metabarcoding approach for species identification and inventory in marine macrobenthic communities |
Autor(es): | Hollatz, Claudia Leite, Bárbara Daniela Rocha Lobo, Jorge Froufe, Hugo Egas, Conceição Costa, Filipe O. |
Palavras-chave: | Animals Annelida Arthropods Biomass Chordata Cnidaria Computer Simulation DNA Barcoding, Taxonomic DNA Primers Echinodermata Ecosystem Electron Transport Complex IV Gene Library High-Throughput Nucleotide Sequencing Mollusca Phylogeny Polymerase Chain Reaction Sequence Analysis, DNA Biodiversity DNA barcoding high-throughput sequencing bioassessment marine macrobenthos |
Data: | Mar-2017 |
Editora: | Canadian Science Publishing |
Revista: | Genome |
Citação: | Hollatz C, Leite BR, Lobo J, Froufe H, Egas C, Costa FO (2017). Priming of a DNA metabarcoding approach for species identification and inventory in marine macrobenthic communities. Genome 60: 260-271 doi: 10.1139/gen-2015-0220. |
Resumo(s): | In marine and estuarine benthic communities, the inventory and estimation of species richness are often hampered by the need for broad taxonomic expertise across several phyla. The use of DNA metabarcoding has emerged as a powerful tool for the fast assessment of species composition in a diversity of ecological communities. Here, we tested the amplification success of five primer sets targeting different COI-5P regions by 454 pyrosequencing to maximize the recovery of two simulated macrobenthic communities containing 21 species (SimCom1 and SimCom 2). Species identification was first performed against a compiled reference library of macrobenthic species. Reads with similarity results to reference sequences between 70% and 97% were then submitted to GenBank and BOLD to attempt the identification of concealed species in the bulk sample. The combination of at least three primer sets was able to recover more species than any primer set alone, achieving 85% of represented species in SimCom1 and 76% in SimCom2. Our approach was successful to detect low-frequency specimens, as well as concealed species, in the bulk sample, indicating the potential for the application of this approach on marine bioassessment and inventory, including the detection of "hidden" biodiversity that would hardly be possible based on morphology only. |
Tipo: | Artigo |
URI: | https://hdl.handle.net/1822/50410 |
DOI: | 10.1139/gen-2015-0220 |
ISSN: | 0831-2796 |
Arbitragem científica: | yes |
Acesso: | Acesso aberto |
Aparece nas coleções: | DBio - Artigos/Papers |
Ficheiros deste registo:
Ficheiro | Descrição | Tamanho | Formato | |
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Hollatzetal_PrimingDNAbarcodelibrary_final.pdf | 569,69 kB | Adobe PDF | Ver/Abrir |