Barcoding beetles: a regional survey of 1872 species reveals high identification success and unusually deep interspecific divergences

PLoS One. 2014 Sep 25;9(9):e108651. doi: 10.1371/journal.pone.0108651. eCollection 2014.

Abstract

With 400 K described species, beetles (Insecta: Coleoptera) represent the most diverse order in the animal kingdom. Although the study of their diversity currently represents a major challenge, DNA barcodes may provide a functional, standardized tool for their identification. To evaluate this possibility, we performed the first comprehensive test of the effectiveness of DNA barcodes as a tool for beetle identification by sequencing the COI barcode region from 1872 North European species. We examined intraspecific divergences, identification success and the effects of sample size on variation observed within and between species. A high proportion (98.3%) of these species possessed distinctive barcode sequence arrays. Moreover, the sequence divergences between nearest neighbor species were considerably higher than those reported for the only other insect order, Lepidoptera, which has seen intensive analysis (11.99% vs up to 5.80% mean NN divergence). Although maximum intraspecific divergence increased and average divergence between nearest neighbors decreased with increasing sampling effort, these trends rarely hampered identification by DNA barcodes due to deep sequence divergences between most species. The Barcode Index Number system in BOLD coincided strongly with known species boundaries with perfect matches between species and BINs in 92.1% of all cases. In addition, DNA barcode analysis revealed the likely occurrence of about 20 overlooked species. The current results indicate that DNA barcodes distinguish species of beetles remarkably well, establishing their potential to provide an effective identification tool for this order and to accelerate the discovery of new beetle species.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Animals
  • Base Composition
  • Biodiversity
  • Coleoptera / classification*
  • Coleoptera / genetics*
  • DNA Barcoding, Taxonomic*
  • DNA, Mitochondrial
  • Evolution, Molecular
  • Genetic Variation
  • Haplotypes

Substances

  • DNA, Mitochondrial

Grants and funding

Funding from the government of Canada through Genome Canada (http://www.genomecanada.ca) and the Ontario Genomics Institute (http://www.ontariogenomics.ca/) to the International Barcode of Life Project enabled the Canadian Centre for DNA Barcoding (University of Guelph) to carry out the sequence analysis on our specimens. The authors also thank the Ontario Ministry of Research and Innovation (https://www.ontario.ca/ministry-research-innovation) for funding the ongoing development of BOLD. This study was funded by personal grants to MP from the Ella and Georg Ehrnrooth Foundation (http://www.ellageorg.fi/) and from the Jenny and Antti Wihuri Foundation (http://www.wihurinrahasto.fi/). The FinBOL project is funded by the Kone Foundation (http://www.koneensaatio.fi/), the Finnish Cultural Foundation (https://www.skr.fi/) and the University of Oulu (http://www.oulu.fi/yliopisto/). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.