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The comparative study of two extraction methods for ancient DNA: silica suspension method and ultracentrifugal concentrator method
Analytical Science and Technology / Analytical Science and Technology, (P)1225-0163; (E)2288-8985
2018, v.31 no.2, pp.65-70
https://doi.org/10.5806/AST.2018.31.2.65
(EURAC Research)
(EURAC Research)
Frank,
M.
, &
Albert,
Z.
(2018). The comparative study of two extraction methods for ancient DNA: silica suspension method and ultracentrifugal concentrator method. Analytical Science and Technology, 31(2), 65-70, https://doi.org/10.5806/AST.2018.31.2.65
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Abstract
This study compared two methods for preparing ancient DNA (aDNA) for the construction of successful shotgun libraries that may be applied to massive parallel sequencing. For the comparative analysis, the DNA of prehistoric rib samples from Hungary was extracted using either a manually prepared silica suspension or the Amicon Ultracel-15 10K ultracentrifugal device (Millipore). After the extraction of the same amount of bone powder (about 150 mg) from three samples by each method, the amount of extracted doublestranded DNA and the subsequent degree of construction of the shotgun library were analyzed. The Amicon device method was rapid and easier to perform and resulted in an approximately 11-fold higher DNA recovery than that obtained using the silica suspension. The shotgun library constructed using DNA templates prepared by the Amicon device was more successful than that constructed from templates isolated using the silica suspension. The comparative study of these two aDNA extraction methods showed that the Amicon device has the advantages of saving time, process simplicity, and high efficiency.
- keywords
- ancient DNA (aDNA), extraction, silica suspension, Amicon Ultracel-15 10K, shot gun library, massively parallel sequencing
Reference
1
R. Higuchi, B. Bowman, M. Freiberger, O. A. Ryder, and A. C. Wilson, Nature, 312, 282-284 (1984).
2
F. Sanger, Biosci. Rep., 1(1), 3-18 (1981).
3
H. N. Poinar, C. Schwarz, J. Qi, B. Shapiro, R. D. MacPhee, B. Buigues, A. Tikhonov, D. H. Huson, L. P. Tomsho, A. Auch, M. Rampp, W. Miller, and S. C. Schuster, Science, 311(5759), 392-394 (2006).
4
E. Hagelberg, M. Hofreiter, and C. Keyser, Philos. Trans. R. Soc. Lond. B. Biol. Sci., 370(1660), 20130371. http://doi.org/10.1098/rstb.2013.0371 (2015).
5
M. Hofreiter, J. L. A. Paijmans, H. Goodchild, C. F. Speller, A. Barlow, G. G. Fortes, J. A. Thomas, A. Ludwig, and M. J. Collins, BioEssays, 37(3), 284-293 (2015).
6
N. Rohland, M. Hofreiter, BioTechniques, 42(3), 343 (2007).
7
C. Gamba, E. R. Jones, M. D. Teasdale, R. L. McLaughlin, G. Gonzalez-Fortes, V. Mattiangeli, L. Domboroczki, I. Kovari, I. Pap, A. Anders, A. Whittle, J. Dani, P. Raczky, T. F. G. Higham, M. Hofreiter, D. G. Bradley, and R. Pinhasi, Nature Communications, 5, 5257 (2014).
8
Millipore User Guide Amicon(R) Ultra-15 10K Centrifugal Filter Devices (2014).
9
Qiagen MinElute(R) Handbook (2008).
10
Premega Quantus Fluorometer Operating Manual #TM396 (2014).
11
M. Meyer and M. Kircher, Cold Spring Harbor Protocols, 2010(6), pdb-prot5448 (2010).
12
Agilent High Sensitivity DNA Kit Quick Start Guide (2009).
13
www.python.org
14
H. Jonsson, A. Ginolhac, M. Schubert, P. L. Johnson, and L. Orlando, Bioinformatics, 29(13), 1682-1684 (2013).
15
H. Y. Lee, M. J. Park, N. Y. Kim, J. E. Sim, W. I. Yang, and K. J. Shin, Forensic Sci. Int: Genetics, 4, 275-280 (2010).
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