Transcriptomic Analysis of TDP1-Knockout HEK293A Cells Treated with the TDP1 Inhibitor (Usnic Acid Derivative)
Tyrosyl-DNA phosphodiesterase 1 (TDP1) is a key enzyme for the repair of stalled topoisomerase 1 (TOP1)-DNA complexes. Previously, we obtained HEK293A cells with homozygous knockout of the <i>TDP1</i> gene by the CRISPR/Cas9 method and used them as a cell model to study the mechanisms of anticancer therapy and to investigate the effect of <i>TDP1</i> gene knockout on gene expression changes in the human HEK293A cell line by transcriptome analysis. In this study, we investigated the effect of a TDP1 inhibitor ((R,E)-2-acetyl-6-(2-(2-(4-bromobenzyliden) hydrazinyl) thiazol-4-yl)-3,7,9-trihydroxy-8,9b-dimethyldibenzo[b,d] furan-1(9bH)-one, OL9-119, an usnic acid derivative), capable of potentiating the antitumor effect of topotecan, as well as its combination with topotecan, on the transcriptome of wild-type and TDP1 knockout HEK293A cells. OL9-119 was found to be able to reduce cell motility by decreasing the expression of a number of genes, which may explain the antimetastatic effect of this compound. Differentially expressed genes (DEGs) related to electron transport, mitochondrial function, and protein folding were also identified under TDP1 inhibitor treatment.
Authors
- Olga I. Lavrik (ORCID: https://orcid.org/0000-0001-5980-8889)
- Suren M. Zakian (ORCID: https://orcid.org/0000-0003-2448-6511)
- Nadezhda S. Dyrkheeva (ORCID: https://orcid.org/0000-0002-8360-1041)
- Кonstantin E. Orishchenko (ORCID: https://orcid.org/0000-0001-9718-9038)
- Мarsel R. Kabilov (ORCID: https://orcid.org/0000-0003-2777-0833)
- Larisa S. Okorokova (ORCID: https://orcid.org/0000-0001-6368-4428)
- Anastasia A. Malakhova (ORCID: https://orcid.org/0000-0003-1916-1333)
- S. P. Medvedev (ORCID: https://orcid.org/0000-0002-1520-5549)
- Sergey M. Deyev (ORCID: https://orcid.org/0000-0002-3952-0631)
- Andrey V. Markov (ORCID: https://orcid.org/0000-0001-7569-9555)
- Olga A. Luzina (ORCID: https://orcid.org/0000-0001-8627-3453)
- E. I. Ryabchikova (ORCID: https://orcid.org/0000-0003-4714-1524)
- M. A. Kleshchev (ORCID: https://orcid.org/0000-0002-7537-2525)
- Dmitriy N. Shtokalo
- Alexey A. Tupikin
- Alexandra L. Zakharenko
Institutions
- Altai State University (RU)
- Institute of Chemical Biology and Fundamental Medicine (RU)
- Novosibirsk Institute of Organic Chemistry (RU)
- Institute of Bioorganic Chemistry (RU)
- Institute of Cytology and Genetics (RU)
- Siberian Branch of the Russian Academy of Sciences (RU)
Publication Details
- Journal
- International Journal of Molecular Sciences
- Published
- 2025-09-23
- DOI
- https://doi.org/10.3390/ijms26199291
- Primary Topic
- Cancer therapeutics and mechanisms
- Type
- article
- Field-Weighted Citation Impact
- 0.00
Funders
- Siberian Branch, Russian Academy of Sciences