Quantitation of Apurinic/Apyrimidinic Sites in Isolated DNA and in Mammalian Tissue with a Reduced Level of Artifacts

Haoqing Chen, Lihua Yao, Christina Brown, Carmelo J. Rizzo, Robert J. Turesky

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3 Citations (Scopus)

Abstract

The apurinic/apyrimidinic (AP) site is a common lesion of DNA damage. The levels of AP sites reported in the literature cover a wide range, which is primarily due to the artifactual generation or loss of AP sites during processing of the DNA. Herein, we have developed a method for quantitating AP sites with a largely reduced level of artifacts by derivatizing AP sites before DNA isolation. A rapid digestion of nuclear protein was performed to minimize enzymatic DNA repair, followed by direct derivatization of AP sites in the nuclear lysate with O-(pyridin-3-yl-methyl)hydroxylamine, yielding an oxime derivative that is stable through the subsequent DNA processing steps. Quantitation was done using highly selective and sensitive liquid chromatography-tandem mass spectrometry, with a limit of quantitation at 2.2 lesions per 108 nucleotides (nts, 0.9 fmol on column). The method was applied in vivo to measure AP sites in rats undergoing oxidative stress [liver, 3.31 ± 0.47/107 nts (dosed) vs 0.91 ± 0.06/107 nts (control); kidney, 1.60 ± 0.07/107 nts (dosed) vs 1.13 ± 0.12/107 nts (control)]. The basal AP level was significantly lower than literature values. The method was also used to measure AP sites induced by the chemotherapeutic nitrogen mustard in vitro.

Original languageEnglish (US)
Pages (from-to)7403-7410
Number of pages8
JournalAnalytical chemistry
Volume91
Issue number11
DOIs
StatePublished - Jun 4 2019

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Tissue
DNA
Mechlorethamine
Hydroxylamine
Oxidative stress
Oximes
Liquid chromatography
Nuclear Proteins
Processing
Liver
Mass spectrometry
Rats
Repair
Nucleotides
Derivatives

PubMed: MeSH publication types

  • Journal Article

Cite this

Quantitation of Apurinic/Apyrimidinic Sites in Isolated DNA and in Mammalian Tissue with a Reduced Level of Artifacts. / Chen, Haoqing; Yao, Lihua; Brown, Christina; Rizzo, Carmelo J.; Turesky, Robert J.

In: Analytical chemistry, Vol. 91, No. 11, 04.06.2019, p. 7403-7410.

Research output: Contribution to journalArticle

Chen, Haoqing ; Yao, Lihua ; Brown, Christina ; Rizzo, Carmelo J. ; Turesky, Robert J. / Quantitation of Apurinic/Apyrimidinic Sites in Isolated DNA and in Mammalian Tissue with a Reduced Level of Artifacts. In: Analytical chemistry. 2019 ; Vol. 91, No. 11. pp. 7403-7410.
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