High-quality genomic DNA extraction from formalin-fixed and paraffin-embedded samples deparaffinized using mineral oil.

TitleHigh-quality genomic DNA extraction from formalin-fixed and paraffin-embedded samples deparaffinized using mineral oil.
Publication TypeJournal Article
Year of Publication2009
AuthorsLin, J, Kennedy, SH, Svarovsky, T, Rogers, J, Kemnitz, JW, Xu, A, Zondervan, KT
JournalAnal Biochem
Volume395
Issue2
Pagination265-7
Date Published2009 Dec 15
ISSN1096-0309
KeywordsDNA, Fixatives, Formaldehyde, Mineral Oil, Paraffin Embedding, Polymerase Chain Reaction, Time Factors
Abstract

Extracting DNA from formalin-fixed and paraffin-embedded (FFPE) tissue remains a challenge, despite numerous attempts to develop a more effective method. Polymerase chain reaction (PCR) success rates with DNA extracted using current methods remain low. We extracted DNA from 140 long-term archived FFPE samples using a simple but effective deparaffinization method, removing the wax with mineral oil, and a commercially available DNA extraction kit. DNA quality was subsequently tested in a genotyping experiment with 14 microsatellite markers. High-quality DNA was obtained with a mean PCR success rate of 97% (range: 88-100%) across markers. The results suggested that DNA extracted using this novel method is likely to be suitable for genetic studies involving DNA fragments <200 bp.

DOI10.1016/j.ab.2009.08.016
Alternate JournalAnal. Biochem.
PubMed ID19698695
PubMed Central IDPMC2764035
Grant List085235 / / Wellcome Trust / United Kingdom