Pretreatment: Improving endogenous ancient DNA yields using a simple enzymatic predigestion step

Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research › peer-review

Standard

Pretreatment : Improving endogenous ancient DNA yields using a simple enzymatic predigestion step. / Schroeder, Hannes; de Barros Damgaard, Peter; Allentoft, Morten E.

Methods in Molecular Biology. Humana Press, 2019. p. 21-24 (Methods in Molecular Biology, Vol. 1963).

Research output: Chapter in Book/Report/Conference proceeding › Book chapter › Research › peer-review

Harvard

Schroeder, H, de Barros Damgaard, P & Allentoft, ME 2019, Pretreatment: Improving endogenous ancient DNA yields using a simple enzymatic predigestion step. in Methods in Molecular Biology. Humana Press, Methods in Molecular Biology, vol. 1963, pp. 21-24. https://doi.org/10.1007/978-1-4939-9176-1_3

APA

Schroeder, H., de Barros Damgaard, P., & Allentoft, M. E. (2019). Pretreatment: Improving endogenous ancient DNA yields using a simple enzymatic predigestion step. In Methods in Molecular Biology (pp. 21-24). Humana Press. Methods in Molecular Biology Vol. 1963 https://doi.org/10.1007/978-1-4939-9176-1_3

Vancouver

Schroeder H, de Barros Damgaard P, Allentoft ME. Pretreatment: Improving endogenous ancient DNA yields using a simple enzymatic predigestion step. In Methods in Molecular Biology. Humana Press. 2019. p. 21-24. (Methods in Molecular Biology, Vol. 1963). https://doi.org/10.1007/978-1-4939-9176-1_3

Author

Schroeder, Hannes ; de Barros Damgaard, Peter ; Allentoft, Morten E. / Pretreatment : Improving endogenous ancient DNA yields using a simple enzymatic predigestion step. Methods in Molecular Biology. Humana Press, 2019. pp. 21-24 (Methods in Molecular Biology, Vol. 1963).

Bibtex

@inbook{4911fa0734a64d61a46a219ea4300395,
title = "Pretreatment: Improving endogenous ancient DNA yields using a simple enzymatic predigestion step",
abstract = "Ancient DNA samples generally contain a mixture of both endogenous and exogenous (contaminant) DNA. The authentic endogenous DNA content varies widely between samples and substrates but usually constitutes only a small fraction of the total DNA, while the remainder comprises contamination deriving from bacteria, fungi, and other microorganisms and in some cases also modern human DNA. Recently, several protocols have been developed to improve access to the endogenous DNA fraction by decreasing the exogenous fraction prior to extraction. The most common of these involve pretreatment with single or multiple washes with weak sodium phosphate or sodium hypochlorite (bleach) solutions, as described in Chapter 2. Here, we present an alternative, less aggressive pretreatment protocol that uses a brief predigestion step in an EDTA-based lysis buffer to increase the endogenous fraction prior to extraction.",
keywords = "Ancient DNA, Contamination, EDTA, Pretreatment, Proteinase K",
author = "Hannes Schroeder and {de Barros Damgaard}, Peter and Allentoft, {Morten E.}",
year = "2019",
month = jan,
day = "1",
doi = "10.1007/978-1-4939-9176-1_3",
language = "English",
series = "Methods in Molecular Biology",
publisher = "Humana Press",
pages = "21--24",
booktitle = "Methods in Molecular Biology",
address = "United States",

}

RIS

TY - CHAP

T1 - Pretreatment

T2 - Improving endogenous ancient DNA yields using a simple enzymatic predigestion step

AU - Schroeder, Hannes

AU - de Barros Damgaard, Peter

AU - Allentoft, Morten E.

PY - 2019/1/1

Y1 - 2019/1/1

N2 - Ancient DNA samples generally contain a mixture of both endogenous and exogenous (contaminant) DNA. The authentic endogenous DNA content varies widely between samples and substrates but usually constitutes only a small fraction of the total DNA, while the remainder comprises contamination deriving from bacteria, fungi, and other microorganisms and in some cases also modern human DNA. Recently, several protocols have been developed to improve access to the endogenous DNA fraction by decreasing the exogenous fraction prior to extraction. The most common of these involve pretreatment with single or multiple washes with weak sodium phosphate or sodium hypochlorite (bleach) solutions, as described in Chapter 2. Here, we present an alternative, less aggressive pretreatment protocol that uses a brief predigestion step in an EDTA-based lysis buffer to increase the endogenous fraction prior to extraction.

AB - Ancient DNA samples generally contain a mixture of both endogenous and exogenous (contaminant) DNA. The authentic endogenous DNA content varies widely between samples and substrates but usually constitutes only a small fraction of the total DNA, while the remainder comprises contamination deriving from bacteria, fungi, and other microorganisms and in some cases also modern human DNA. Recently, several protocols have been developed to improve access to the endogenous DNA fraction by decreasing the exogenous fraction prior to extraction. The most common of these involve pretreatment with single or multiple washes with weak sodium phosphate or sodium hypochlorite (bleach) solutions, as described in Chapter 2. Here, we present an alternative, less aggressive pretreatment protocol that uses a brief predigestion step in an EDTA-based lysis buffer to increase the endogenous fraction prior to extraction.

KW - Ancient DNA

KW - Contamination

KW - EDTA

KW - Pretreatment

KW - Proteinase K

U2 - 10.1007/978-1-4939-9176-1_3

DO - 10.1007/978-1-4939-9176-1_3

M3 - Book chapter

C2 - 30875040

AN - SCOPUS:85062956435

T3 - Methods in Molecular Biology

SP - 21

EP - 24

BT - Methods in Molecular Biology

PB - Humana Press

ER -

ID: 231244977