TY - CHAP

T1 - Whole-Genome Capture of Ancient DNA Using Homemade Baits

AU - Fortes, Gloria

AU - Paijmans, Johanna L. A.

PY - 2019

Y1 - 2019

N2 - For many archaeological and paleontological samples, the relative content of endogenous compared to contaminant DNA is low. In such cases, enriching sequencing libraries for endogenous DNA, prior to sequencing can make the final research project more cost-effective. Here, we present an in-solution enrichment protocol based on homemade baits that can be applied to recover complete nuclear genomes from ancient remains. The approach is based on the preparation of DNA baits by biotinylated adapter ligation. The procedure has been developed for use with human remains but can be adapted to other species or target regions by choosing the appropriate template DNA from which to build the capture baits. By using homemade rather than commercially acquired baits, this protocol may offer increased flexibility and cost efficiency.

AB - For many archaeological and paleontological samples, the relative content of endogenous compared to contaminant DNA is low. In such cases, enriching sequencing libraries for endogenous DNA, prior to sequencing can make the final research project more cost-effective. Here, we present an in-solution enrichment protocol based on homemade baits that can be applied to recover complete nuclear genomes from ancient remains. The approach is based on the preparation of DNA baits by biotinylated adapter ligation. The procedure has been developed for use with human remains but can be adapted to other species or target regions by choosing the appropriate template DNA from which to build the capture baits. By using homemade rather than commercially acquired baits, this protocol may offer increased flexibility and cost efficiency.

KW - Ancient DNA

KW - Homemade capture baits

KW - Hybridization capture

KW - Whole-genome target enrichment

M3 - Chapter

SN - 1940-6029

VL - 1963

SP - 93

EP - 105

BT - Methods in Molecular Biology (Clifton, N.J.)

ER -