Milan, DT, Mendes, I, Damasceno, JS, Teixeria, DF, Guimaraes Sales, N 
ORCID: https://orcid.org/0000-0002-2922-3561 and Carvalho, DC
2020,
'New 12S metabarcoding primers for enhanced Neotropical freshwater fish biodiversity assessment'
, Scientific Reports, 10
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Abstract
The megadiverse Neotropical fish fauna lacks a comprehensive and reliable DNA reference database, which hampers precise species identification and DNA based biodiversity assessment in the region. Here, we developed a mitochondrial 12S ribosomal DNA reference database for 67 fish species, representing 54 genera, 25 families, and six major Neotropical orders. We aimed to develop mini-barcode markers (i.e. amplicons with less than 200 bp) suitable for DNA metabarcoding by evaluating the taxonomic resolution of full-length and mini-barcodes and to determine a threshold value for fish species delimitation using 12S. Evaluation of the target amplicons demonstrated that both full-length library (565 bp) and mini-barcodes (193 bp) contain enough taxonomic resolution to differentiate all 67 fish species. For species delimitation, interspecific genetic distance threshold values of 0.4% and 0.55% were defined using full-length and mini-barcodes, respectively. A custom reference database and specific mini-barcode markers are important assets for ecoregion scale DNA based biodiversity assessments (such as environmental DNA) that can help with the complex task of conserving the megadiverse Neotropical ichthyofauna.
| Item Type: | Article |
|---|---|
| Schools: | Schools > School of Environment and Life Sciences |
| Journal or Publication Title: | Scientific Reports |
| Publisher: | Nature Publishing Group |
| ISSN: | 2045-2322 |
| Funders: | CEMIG, FAPEMIG, CNPq |
| Depositing User: | N Guimaraes Sales |
| Date Deposited: | 31 Jan 2023 12:03 |
| Last Modified: | 31 Jan 2023 12:15 |
| URI: | https://usir.salford.ac.uk/id/eprint/66284 |
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