Sphingidae Taxonomic Inventory

Creating a taxonomic e-science

The marker choice: unexpected resolving power of an unexplored CO1 region for layered DNA barcoding approaches

Publication Type:Journal Article
Year of Publication:2017
Authors:Rach, J, Bergmann, T, Paknia, O, DeSalle, R, Schierwater, B, Hadrys, H
Journal:PLoS ONE
Volume:12
Issue:4
Start Page:e0174842
Pagination:e0174842
Keywords:BARCODING, CAOS ANALYSIS, COI, DNA, NADH DEHYDROGENASE, ODONATA, SPECIES DELIMITATION
Abstract:

"The potential of DNA barcoding approaches to identify single species and characterize species compositions strongly depends on the marker choice. The prominent "Folmer region", a 648 basepair fragment at the 5' end of the mitochondrial CO1 gene, has been traditionally applied as a universal DNA barcoding region for metazoans. In order to find a suitable marker for biomonitoring odonates (dragonflies and damselflies), we here explore a new region of the CO1 gene (CO1B) for DNA barcoding in 51 populations of 23 dragonfly and damselfly species. We compare the "Folmer region", the mitochondrial ND1 gene (NADH dehydrogenase 1) and the new CO1 region with regard to (i) speed and reproducibility of sequence generation, (ii) levels of homoplasy and (iii) numbers of diagnostic characters for discriminating closely related sister taxa and populations. The performances of the gene regions regarding these criteria were quite different. Both, the amplification of CO1B and ND1 was highly reproducible and CO1B showed the highest potential for discriminating sister taxa at different taxonomic levels. In contrast, the amplification of the "Folmer region" using the universal primers was difficult and the third codon positions of this fragment have experienced nucleotide substitution saturation. Most important, exploring this new barcode region of the CO1 gene identified a higher discriminating power between closely related sister taxa. Together with the design of layered barcode approaches adapted to the specific taxonomic ªenvironmentº, this new marker will further enhance the discrimination power at the species level."

URL:https://doi.org/10.1371/journal.pone.0174842
DOI:10.1371/journal.pone.0174842
Scratchpads developed and conceived by (alphabetical): Ed Baker, Katherine Bouton Alice Heaton Dimitris Koureas, Laurence Livermore, Dave Roberts, Simon Rycroft, Ben Scott, Vince Smith