Journal
ANNALS OF ANATOMY-ANATOMISCHER ANZEIGER
Volume 194, Issue 1, Pages 74-81Publisher
ELSEVIER GMBH
DOI: 10.1016/j.aanat.2011.10.007
Keywords
Ancient DNA; Coat color; KASPar; Horse; Paleogenetics; Pyrosequencing; Single nucleotide polymorphisms; SNP
Categories
Funding
- DFG [LU 852/6-2, AL 287/6-2, LU 852/7-3]
- German Archaeological Institute
Ask authors/readers for more resources
The amplification length of the DNA fragments is one major limitation of most paleogenetic analyses. Routinely, only fragments below 200 bp can be amplified, significantly reducing the content of genetic information. Although overlapping PCR strategies and next generation sequencing techniques have strongly improved data mining recently, these methods are still expensive and time consuming. In contrast, SNP analyses are easy to handle, fast and cheap. In this study, we compare two methods of SNP detection as to efficiency, cost and reliability for their use in ancient DNA applications: pyrosequencing and competitive allele specific PCR (KASPar). Our sample set consisted of 16 horse bones from two Scythian graves (600-800 BC). In conclusion, both approaches produced reliable results for most allelic patterns. But an indel of 11 bp (ASIP) could not be detected in the KASPar approach and produced problems in the pyrosequencing method (70% success rate). In such cases, we recommend checking allelic distribution using a gel approach or capillary sequencing. Overall, in comparison with the traditional mode of ancient DNA investigations (PCR, cloning, capillary sequencing), both approaches are superior for SNP analyses especially of large sample sets. (C) 2011 Elsevier GmbH. All rights reserved.
Authors
I am an author on this paper
Click your name to claim this paper and add it to your profile.
Reviews
Recommended
No Data Available