Does a Barcoding Gap Exist in Prokaryotes? Evidences from Species Delimitation in Cyanobacteria
AbstractThe amount of information that is available on 16S rRNA sequences for prokaryotes thanks to high-throughput sequencing could allow a better understanding of diversity. Nevertheless, the application of predetermined threshold in genetic distances to identify units of diversity (Operative Taxonomic Units, OTUs) may provide biased results. Here we tests for the existence of a barcoding gap in several groups of Cyanobacteria, defining units of diversity according to clear differences between within-species and among-species genetic distances in 16S rRNA. The application of a tool developed for animal DNA taxonomy, the Automatic Barcode Gap Detector (ABGD), revealed that a barcoding gap could actually be found in almost half of the datasets that we tested. The identification of units of diversity through this method provided results that were not compatible with those obtained with the identification of OTUs with threshold of similarity in genetic distances of 97% or 99%. The main message of our results is a call for caution in the estimate of diversity from 16S sequences only, given that different subjective choices in the method to delimit units could provide different results. View Full-Text
- Supplementary File 1:
Supplementary (PDF, 705 KB)
- Review Report 2:
Review Report (PDF, 652 KB)
Scifeed alert for new publicationsNever miss any articles matching your research from any publisher
- Get alerts for new papers matching your research
- Find out the new papers from selected authors
- Updated daily for 49'000+ journals and 6000+ publishers
- Define your Scifeed now
Eckert, E.M.; Fontaneto, D.; Coci, M.; Callieri, C. Does a Barcoding Gap Exist in Prokaryotes? Evidences from Species Delimitation in Cyanobacteria. Life 2015, 5, 50-64.
Eckert EM, Fontaneto D, Coci M, Callieri C. Does a Barcoding Gap Exist in Prokaryotes? Evidences from Species Delimitation in Cyanobacteria. Life. 2015; 5(1):50-64.Chicago/Turabian Style
Eckert, Ester M.; Fontaneto, Diego; Coci, Manuela; Callieri, Cristiana. 2015. "Does a Barcoding Gap Exist in Prokaryotes? Evidences from Species Delimitation in Cyanobacteria." Life 5, no. 1: 50-64.