Reliable microsatellite genotyping of the Eurasian badger (Meles meles) using faecal DNA

Frantz, AC, Pope, LC, Carpenter, PJ, Roper, TJ, Wilson, GJ, Delahay, RJ and Burke, T (2003) Reliable microsatellite genotyping of the Eurasian badger (Meles meles) using faecal DNA. Molecular Ecology, 12 6: 1649-1661. doi:10.1046/j.1365-294X.2003.01848.x


Author Frantz, AC
Pope, LC
Carpenter, PJ
Roper, TJ
Wilson, GJ
Delahay, RJ
Burke, T
Title Reliable microsatellite genotyping of the Eurasian badger (Meles meles) using faecal DNA
Journal name Molecular Ecology   Check publisher's open access policy
ISSN 0962-1083
Publication date 2003-06-01
Year available 2003
Sub-type Article (original research)
DOI 10.1046/j.1365-294X.2003.01848.x
Open Access Status
Volume 12
Issue 6
Start page 1649
End page 1661
Total pages 13
Place of publication HOBOKEN
Publisher WILEY-BLACKWELL
Language eng
Abstract The potential link between badgers and bovine tuberculosis has made it vital to develop accurate techniques to census badgers. Here we investigate the potential of using genetic profiles obtained from faecal DNA as a basis for population size estimation. After trialling several methods we obtained a high amplification success rate (89%) by storing faeces in 70% ethanol and using the guanidine thiocyanate/silica method for extraction. Using 70% ethanol as a storage agent had the advantage of it being an antiseptic. In order to obtain reliable genotypes with fewer amplification reactions than the standard multiple-tubes approach, we devised a comparative approach in which genetic profiles were compared and replication directed at similar, but not identical, genotypes. This modified method achieved a reduction in polymerase chain reactions comparable with the maximum-likelihood model when just using reliability criteria, and was slightly better when using reliability criteria with the additional proviso that alleles must be observed twice to be considered reliable. Our comparative approach would be best suited for studies that include multiple faeces from each individual. We utilized our approach in a well-studied population of badgers from which individuals had been sampled and reliable genotypes obtained. In a study of 53 faeces sampled from three social groups over 10 days, we found that direct enumeration could not be used to estimate population size, but that the application of mark-recapture models has the potential to provide more accurate results.
Keyword bovine tuberculosis
mark-recapture models
maximum-likelihood model
molecular scatology
multiple-tubes approach
population size estimation
Estimating Population-Size
Bonobos Pan-Paniscus
Individual Identification
Preservation Methods
Mycobacterium-Bovis
Molecular Tracking
Genetic-Analysis
Samples
Pcr
Amplification
Q-Index Code C1
Q-Index Status Provisional Code
Institutional Status Unknown

Document type: Journal Article
Sub-type: Article (original research)
Collection: ResearcherID Downloads - Archived
 
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