Allelic dropout from a high-quality DNA source

CD Soulsbury, G Iossa, KJ Edwards, PJ Baker, S Harris

Research output: Contribution to journalArticle (Academic Journal)peer-review

41 Citations (Scopus)

Abstract

Allelic dropouts are an important source of genotyping error, particularly in studies using non-invasive sampling techniques. This has important implications for conservation biology, as an increasing number of studies are now using non-invasive techniques to study rare species or endangered populations. Previously, allelic dropout has typically been associated with PCR amplification of low quality/quantity template DNA. However, in this study we recorded high levels of allelic dropout (21-57%) at specific loci amplified from a high quality DNA (63.1 ± 7.8ng/μl) source in the red fox (Vulpes vulpes). We designed a series of experiments to identify the sources of error. Whilst we were able to show that the best method to identify allelic dropout was the dilution of template DNA prior to PCR amplification, our data also showed two specific patterns: (1) allelic dropouts occurred at specific loci; (2) allelic dropouts occurred at specific pairwise combinations of alleles. These patterns suggest that mechanisms other than low quantity template DNA are responsible for allelic dropout. Further research on the causes of these patterns in this and other studies would further our understanding of genotyping errors and would aid future studies where allelic dropout may be a serious issue.
Translated title of the contributionAllelic dropout from a high-quality DNA source
Original languageEnglish
Pages (from-to)733 - 738
Number of pages6
JournalConservation Genetics
Volume8 (3)
DOIs
Publication statusPublished - Jun 2007

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