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Publication Details
AFRICAN RESEARCH NEXUS
SHINING A SPOTLIGHT ON AFRICAN RESEARCH
biochemistry, genetics and molecular biology
Case Study: Using a nondestructive DNA extraction method to generate mtDNA sequences from historical chimpanzee specimens
Methods in Molecular Biology, Volume 840, Year 2012
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Description
A major challenge for ancient DNA (aDNA) studies using museum specimens is that sampling procedures usually involve at least the partial destruction of each specimen used, such as the removal of skin, pieces of bone, or a tooth. Recently, a nondestructive DNA extraction method was developed for the extraction of amplifiable DNA fragments from museum specimens without appreciable damage to the specimen. Here, we examine the utility of this method by attempting DNA extractions from historic (older than 70 years) chimpanzee specimens. Using this method, we PCR-amplified part of the mitochondrial HVR-I region from 65% (56/86) of the specimens from which we attempted DNA extraction. However, we found a high incidence of multiple sequences in individual samples, suggesting substantial cross-contamination among samples, most likely originating from storage and handling in the museums. Consequently, reproducible sequences could be reconstructed from only 79% (44/56) of the successfully extracted samples, even after multiple extractions and amplifications. This resulted in an overall success rate of just over half (44/86 of samples, or 51% success), from which 39 distinct HVR-I haplotypes were recovered. We found a high incidence of C to T changes, arguing for both low concentrations of and substantial damage to the endogenous DNA. This chapter highlights both the potential and the limitations of nondestructive DNA extraction from museum specimens. © 2012 Springer Science+Business Media, LLC.
Authors & Co-Authors
Mohandesan, Elmira
Unknown Affiliation
Prost, Stefan
United States, Berkeley
University of California, Berkeley
Hofreiter, Michael
United Kingdom, York
University of York
Statistics
Citations: 3
Authors: 3
Affiliations: 2
Identifiers
Doi:
10.1007/978-1-61779-516-9_14
ISSN:
10643745
Research Areas
Genetics And Genomics
Study Design
Cohort Study
Case Study
Study Approach
Qualitative