| Инд. авторы: | Ermakov O.A., Simonov E., Surin V.L., Titov S.V., Brandler O.V., Ivanova N.V., Borisenko A.V. |
| Заглавие: | Implications of Hybridization, NUMTs, and Overlooked Diversity for DNA Barcoding of Eurasian Ground Squirrels |
| Библ. ссылка: | Ermakov O.A., Simonov E., Surin V.L., Titov S.V., Brandler O.V., Ivanova N.V., Borisenko A.V. Implications of Hybridization, NUMTs, and Overlooked Diversity for DNA Barcoding of Eurasian Ground Squirrels // PloS ONE. - 2015. - Vol.10. - Iss. 1. - Art.e0117201. - ISSN 1932-6203. |
| Внешние системы: | PubMed: 25617768; DOI: 10.1371/journal.pone.0117201; WoS: 000350336000040; SCOPUS: 2-s2.0-84922051637; |
| Реферат: | eng: The utility of DNA Barcoding for species identification and discovery has catalyzed a concerted effort to build the global reference library; however, many animal groups of economical or conservational importance remain poorly represented. This study aims to contribute DNA barcode records for all ground squirrel species (Xerinae, Sciuridae, Rodentia) inhabiting Eurasia and to test efficiency of this approach for species discrimination. Cytochrome c oxidase subunit 1 (COI) gene sequences were obtained for 97 individuals representing 16 ground squirrel species of which 12 were correctly identified. Taxonomic allocation of some specimens within four species was complicated by geographically restricted mtDNA introgression. Exclusion of individuals with introgressed mtDNA allowed reaching a 91.6%identification success rate. Significant COI divergence (3.5-4.4%) was observed within the most widespread ground squirrel species (Spermophilus erythrogenys, S. pygmaeus, S. suslicus, Urocitellus undulatus), suggesting the presence of cryptic species. A single putative NUMT (nuclear mitochondrial pseudogene) sequence was recovered during molecular analysis; mitochondrial COI from this sample was amplified following re-extraction of DNA. Our data show high discrimination ability of 100 bp COI fragments for Eurasian ground squirrels (84.3%) with no incorrect assessments, underscoring the potential utility of the existing reference librariy for the development of diagnostic 'mini-barcodes'. © 2015 Ermakov et al.
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| Ключевые слова: | genetic variability; gene sequence; gene amplification; DNA hybridization; DNA barcoding; controlled study; COI gene; Article; mitochondrial DNA; mitochondrial DNA; genetic variation; classification; cell nucleus; animal; Urocitellus undulatus; Urocitellus parryii; Spermophilus xanthoprymnus; Spermophilus taurensis; Spermophilus suslicus; Sciuridae; Pseudogenes; Mitochondria; Hybridization, Genetic; Genetic Variation; DNA, Mitochondrial; DNA Barcoding, Taxonomic; Cell Nucleus; Animals; Xerinae; Spermophilus erythrogenys; Spermophilus; Sciuridae; Rodentia; Animalia; Sciuridae; pseudogene; mitochondrion; hybridization; genetics; Spermophilus relictus; Spermophilus ralli; Spermophilus pygmaeus; Spermophilus pallidicauda; Spermophilus major; Spermophilus fulvus; Spermophilus erythrogenys; Spermophilus dauricus; Spermophilus brevicauda; Spermophilus alashanicus; species identification; Sciuridae; pseudogene; nucleotide sequence; nuclear mitochondrial pseudogene; introgression; nonhuman; |
| Издано: | 2015 |