| Title | Guidelines for DNA taxonomy, with a focus on the meiofauna |
| Abstract | Describing biological diversity is a challenging endeavour, especially for the small, cryptic animals that make up the meiofauna. The field of DNA taxonomy, i.e., the use of DNA to delineate species boundaries, is rapidly growing and changing; herein we review the recent advances in the acquisition of DNA sequence data and the analytical tools for DNA-based species delimitation, with a focus on applications to the meiofauna. After providing general guidelines on the data collection and analysis steps (sampling design, sequencing, phasing of nuclear markers, and sequence alignment), we explain the rationale and usage of several widely used or promising methods developed for delineating species from single-locus data sets (distance-based DNA barcoding, automated barcode gap discovery, K/?, generalized mixed Yule-coalescent models, Poisson tree process model, and haplowebs). As it is increasingly recognised that several loci are required to delineate species accurately, we then briefly outline multilocus species delimitation approaches (Structure, Structurama, Bayesian phylogenetics & phylogeography, SpedeSTEM, O'Meara's heuristic search, and several newly published Bayesian approaches based on the multispecies coalescent). |
| Source | Marine biodiversity (Print) 45 (3), pp. 433–451 |
| Keywords | ABGDBiodiversityBP&PCOICryptic speciesGMYCIdentificationPTP |
| Journal | Marine biodiversity (Print) |
| Editor | Springer, Heidelberg ;, Germania |
| Year | 2015 |
| Type | Articolo in rivista |
| DOI | 10.1007/s12526-015-0319-7 |
| Authors | Fontaneto, Diego; Flot, Jean François; Tang, Cuong Q. |
| Text | 329446 2015 10.1007/s12526 015 0319 7 Scopus 2 s2.0 84923800574 ABGD Biodiversity BP P COI Cryptic species GMYC Identification PTP Guidelines for DNA taxonomy, with a focus on the meiofauna Fontaneto, Diego; Flot, Jean François; Tang, Cuong Q. Consiglio Nazionale delle Ricerche; UCL; Imperial College London; The Natural History Museum, London Describing biological diversity is a challenging endeavour, especially for the small, cryptic animals that make up the meiofauna. The field of DNA taxonomy, i.e., the use of DNA to delineate species boundaries, is rapidly growing and changing; herein we review the recent advances in the acquisition of DNA sequence data and the analytical tools for DNA based species delimitation, with a focus on applications to the meiofauna. After providing general guidelines on the data collection and analysis steps sampling design, sequencing, phasing of nuclear markers, and sequence alignment , we explain the rationale and usage of several widely used or promising methods developed for delineating species from single locus data sets distance based DNA barcoding, automated barcode gap discovery, K/ , generalized mixed Yule coalescent models, Poisson tree process model, and haplowebs . As it is increasingly recognised that several loci are required to delineate species accurately, we then briefly outline multilocus species delimitation approaches Structure, Structurama, Bayesian phylogenetics phylogeography, SpedeSTEM, O Meara s heuristic search, and several newly published Bayesian approaches based on the multispecies coalescent . 45 Published version http //link.springer.com/article/10.1007/s12526 015 0319 7 Fontaneto et al 2015 MarBiod 2015_MarBiod_Fontaneto_et_al.pdf Articolo in rivista Springer 1867 1616 Marine biodiversity Print Marine biodiversity Print Mar. biodivers. Print Marine biodiversity. Print diego.fontaneto FONTANETO DIEGO |
