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Application of Solid-State Capture for the Retrieval of Small-to-Medium Sized Target Loci from Ancient DNA

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Application of Solid-State Capture for the Retrieval of Small-to-Medium Sized Target Loci from Ancient DNA. / Paijmans, Johanna L. A.; González Fortes, Gloria; Förster, Daniel W.
Ancient DNA. ed. / Beth Shapiro; Axel Barlow; Peter D. Heintzman; Michael Hofreiter; Johanna L. A. Paijmans; André E. R. Soares. Vol. 1963 New York, NY: Springer New York, 2019. p. 129-139.

Research output: Chapter in Book/Report/Conference proceeding › Chapter

HarvardHarvard

Paijmans, JLA, González Fortes, G & Förster, DW 2019, Application of Solid-State Capture for the Retrieval of Small-to-Medium Sized Target Loci from Ancient DNA. in B Shapiro, A Barlow, PD Heintzman, M Hofreiter, JLA Paijmans & AER Soares (eds), Ancient DNA. vol. 1963, Springer New York, New York, NY, pp. 129-139. https://doi.org/10.1007/978-1-4939-9176-1_14

APA

Paijmans, J. L. A., González Fortes, G., & Förster, D. W. (2019). Application of Solid-State Capture for the Retrieval of Small-to-Medium Sized Target Loci from Ancient DNA. In B. Shapiro, A. Barlow, P. D. Heintzman, M. Hofreiter, J. L. A. Paijmans, & A. E. R. Soares (Eds.), Ancient DNA (Vol. 1963, pp. 129-139). Springer New York. https://doi.org/10.1007/978-1-4939-9176-1_14

CBE

Paijmans JLA, González Fortes G, Förster DW. 2019. Application of Solid-State Capture for the Retrieval of Small-to-Medium Sized Target Loci from Ancient DNA. Shapiro B, Barlow A, Heintzman PD, Hofreiter M, Paijmans JLA, Soares AER, editors. In Ancient DNA. New York, NY: Springer New York. pp. 129-139. https://doi.org/10.1007/978-1-4939-9176-1_14

MLA

Paijmans, Johanna L. A., Gloria González Fortes and Daniel W. Förster "Application of Solid-State Capture for the Retrieval of Small-to-Medium Sized Target Loci from Ancient DNA"., Shapiro, Beth, Barlow, Axel and Heintzman, Peter D. Hofreiter, Michael Paijmans, Johanna L. A. Soares, André E. R. (editors). Ancient DNA. New York, NY: Springer New York. 2019, 129-139. https://doi.org/10.1007/978-1-4939-9176-1_14

VancouverVancouver

Paijmans JLA, González Fortes G, Förster DW. Application of Solid-State Capture for the Retrieval of Small-to-Medium Sized Target Loci from Ancient DNA. In Shapiro B, Barlow A, Heintzman PD, Hofreiter M, Paijmans JLA, Soares AER, editors, Ancient DNA. Vol. 1963. New York, NY: Springer New York. 2019. p. 129-139 doi: 10.1007/978-1-4939-9176-1_14

Author

Paijmans, Johanna L. A. ; González Fortes, Gloria ; Förster, Daniel W. / Application of Solid-State Capture for the Retrieval of Small-to-Medium Sized Target Loci from Ancient DNA. Ancient DNA. editor / Beth Shapiro ; Axel Barlow ; Peter D. Heintzman ; Michael Hofreiter ; Johanna L. A. Paijmans ; André E. R. Soares. Vol. 1963 New York, NY : Springer New York, 2019. pp. 129-139

RIS

TY - CHAP

T1 - Application of Solid-State Capture for the Retrieval of Small-to-Medium Sized Target Loci from Ancient DNA

AU - Paijmans, Johanna L. A.

AU - González Fortes, Gloria

AU - Förster, Daniel W.

PY - 2019/3/16

Y1 - 2019/3/16

N2 - Genetic studies that include ancient samples are often hampered by the low amount of endogenous DNA that ancient samples often contain, relative to co-extracted “contaminant” DNA from other organisms. One approach to mitigate this challenge is to perform hybridization-based capture of target genomic regions using DNA or RNA baits. Such baits are designed to have high sequence similarity to the target genomic regions and can reduce the off-target fraction in DNA sequencing libraries. Here, we present a protocol to use Agilent SureSelect microarrays to enrich ancient DNA libraries for small-to-medium-sized target loci, such as mitochondrial genomes, from ancient DNA extracts. The protocol that we present builds on previously published work by introducing improvements that improve recovery of short DNA fragments while minimizing the cost and duration of the experiment.

AB - Genetic studies that include ancient samples are often hampered by the low amount of endogenous DNA that ancient samples often contain, relative to co-extracted “contaminant” DNA from other organisms. One approach to mitigate this challenge is to perform hybridization-based capture of target genomic regions using DNA or RNA baits. Such baits are designed to have high sequence similarity to the target genomic regions and can reduce the off-target fraction in DNA sequencing libraries. Here, we present a protocol to use Agilent SureSelect microarrays to enrich ancient DNA libraries for small-to-medium-sized target loci, such as mitochondrial genomes, from ancient DNA extracts. The protocol that we present builds on previously published work by introducing improvements that improve recovery of short DNA fragments while minimizing the cost and duration of the experiment.

U2 - 10.1007/978-1-4939-9176-1_14

DO - 10.1007/978-1-4939-9176-1_14

M3 - Chapter

SN - 978-1-4939-9175-4 978-1-4939-9176-1

VL - 1963

SP - 129

EP - 139

BT - Ancient DNA

A2 - Shapiro, Beth

A2 - Barlow, Axel

A2 - Heintzman, Peter D.

A2 - Hofreiter, Michael

A2 - Paijmans, Johanna L. A.

A2 - Soares, André E. R.

PB - Springer New York

CY - New York, NY

ER -