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DNA Probes for Analysis of the Activity of Key Enzymes of the Base Excision DNA Repair Pathway in Human Cells

  • CELL MOLECULAR BIOLOGY: FROM DNA REPAIR TO METABOLOMICS
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Abstract—The important role of DNA damage in the occurrence of various diseases, including cancer, has led to study of the mechanisms of genetic information stability, that have been carried out since the discovery of DNA repair systems. The question of the relationship between the accumulation of DNA damage, disorders in DNA repair pathways, and increased risk of disease development is still relevant. Over the past few years, significant efforts have been made to develop methods for analyzing the activity of DNA repair enzymes in human cells. In this work, we developed fluorescent DNA probes that allow us to determine the activity of key enzymes of base excision DNA repair in cell extracts, namely the DNA glycosylases UNG2, SMUG1, MBD4, TDG, AAG, NEIL1, NTHL1, and OGG1 and the AP endonuclease APE1. The sensitivity of DNA probes was determined on pure enzyme preparations. Determination of the activity of repair enzymes in cell extracts of the human ovarian tumor lines TOV112, 79, OVCAR3, MESOV, SCOV3, and TOV21 revealed significant variability in the level of enzyme activity in these cell lines. These results may become a test system platform for analyzing the activity of the base excision DNA repair system in the human body.

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Funding

This work was supported by the Russian Science Foundation (grant no. 21-14-00018) and with partial support from the budget funding project no. 121031300041-4.

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Authors and Affiliations

  1. Institute of Chemical Biology and Fundamental Medicine, Siberian Branch of the Russian Academy of Sciences, 630090, Novosibirsk, Russia

    I. V. Alekseeva, A. A. Kuznetsova, O. A. Kladova, O. S. Fedorova & N. A. Kuznetsov

  2. Federal Research and Clinical Center of Physical-Chemical Medicine, 119435, Moscow, Russia

    V. O. Shender & P. V. Schneider

  3. Novosibirsk National Research State University, 630090, Novosibirsk, Russia

    N. A. Kuznetsov

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  1. I. V. Alekseeva
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  2. A. A. Kuznetsova
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Correspondence to N. A. Kuznetsov.

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Abbreviations: OGG1, 8-oxoguanine DNA glycosylase; AAG, alkyl adenine DNA glycosylase; APE1, human AP endonuclease 1; MBD4, methylcytosine-binding domain 4; TDG, thymine DNA glycosylase; NEIL1, endonuclease VIII; AP site, apurine/apyrimidine site; F, (2R.3S)-2-(hydroxymethyl)-3-hydroxytetrahydrofuran residue; εА, 1,N6-ethenoadenosine; oxoG, 7,8-dihydro-8-oxoguanosine; FRET, Förster resonance energy transfer; Tg, thymidine glycol; FAM, 5(6)-carboxyfluorescein; BHQ1, black hole quencher; ps, thiophosphate group.

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Alekseeva, I.V., Kuznetsova, A.A., Kladova, O.A. et al. DNA Probes for Analysis of the Activity of Key Enzymes of the Base Excision DNA Repair Pathway in Human Cells. Mol Biol 57, 299–311 (2023). https://doi.org/10.1134/S0026893323020024

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