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

Frantz, A.C., Pope, L.C., Carpenter, P.J., Roper, T.J., Wilson, G.J., Delahay, R.J. and Burke, T. (2003) Reliable microsatellite genotyping of the Eurasian badger (Meles meles) using faecal DNA. Molecular Ecology, 12 (6). pp. 1649-1661. ISSN 0962-1083

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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 maximumlikelihood 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.

Item Type: Article
Copyright, Publisher and Additional Information: Copyright © 2003 Blackwell Science Ltd. This is an electronic version of an article published in Molecular Ecology: complete citation information for the final version of the paper, as published in the print edition of Molecular Ecology, is available on the Blackwell Synergy online delivery service, accessible via the journal's website at http://www.blackwellpublishing.com/journal.asp?ref=0962-1083 or http://www.blackwell-synergy.com/
Keywords: bovine tuberculosis, mark–recapture models, maximum-likelihood model, molecular scatology, multiple-tubes approach, population size estimation
Academic Units: The University of Sheffield > Faculty of Science (Sheffield) > School of Biological Sciences (Sheffield) > Department of Animal and Plant Sciences (Sheffield)
Depositing User: Sherpa Assistant
Date Deposited: 21 Mar 2005
Last Modified: 08 Feb 2013 16:47
Published Version: http://www.blackwell-synergy.com/
Status: Published
Refereed: Yes
Identification Number: 10.1046/j.1365-294X.2003.01848.x
URI: http://eprints.whiterose.ac.uk/id/eprint/351

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