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Comparison and optimization of protocols and whole-genome capture conditions for ancient DNA samples.
- Source :
-
BioTechniques [Biotechniques] 2024 May; Vol. 76 (5), pp. 216-223. Date of Electronic Publication: 2024 Mar 26. - Publication Year :
- 2024
-
Abstract
- Ancient DNA (aDNA) obtained from human remains is typically fragmented and present in relatively low amounts. Here we investigate a set of optimal methods for producing aDNA data by comparing silica-based DNA extraction and aDNA library preparation protocols. We also test the efficiency of whole-genome enrichment (WGC) on ancient human samples by modifying a number of parameter combinations. We find that the Dabney extraction protocol performs significantly better than alternatives. We further observed a positive trend with the BEST library protocol indicating lower clonality. Notably, our results suggest that WGC is effective at retrieving endogenous DNA, particularly from poorly-preserved human samples, by increasing human endogenous proportions by 5x. Thus, aDNA studies will be most likely to benefit from our results.
Details
- Language :
- English
- ISSN :
- 1940-9818
- Volume :
- 76
- Issue :
- 5
- Database :
- MEDLINE
- Journal :
- BioTechniques
- Publication Type :
- Academic Journal
- Accession number :
- 38530148
- Full Text :
- https://doi.org/10.2144/btn-2023-0107