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Updated: Sep 27, 2026

Visualizing and Quantifying Endonuclease-Based Site-Specific DNA Damage
Published on: August 21, 2021
Nucleotide excision repair- and polymerase eta-mediated error-prone removal of mitomycin C interstrand cross-links
Huyong Zheng1, Xin Wang, Amy J Warren
1Departments of Experimental Radiation Oncology. Molecular Genetics. Carcinogenesis, The University of Texas M. D. Anderson Cancer Center, Houston, Texas 77030, USA.
Abstract:
Interstrand cross-links (ICLs) make up a unique class of DNA lesions in which both strands of the double helix are covalently joined, precluding strand opening during replication and transcription. The repair of DNA ICLs has become a focus of study since ICLs are recognized as the main cytotoxic lesion inflicted by an array of alkylating compounds used in cancer treatment. As is the case for double-strand breaks, a damage-free homologous copy is essential for the removal of ICLs in an error-free manner. However, recombination-independent mechanisms may exist to remove ICLs in an error-prone fashion. We have developed an in vivo reactivation assay that can be used to examine the removal of site-specific mitomycin C-mediated ICLs in mammalian cells. We found that the removal of the ICL from the reporter substrate could take place in the absence of undamaged homologous sequences in repair-proficient cells, suggesting a cross-link repair mechanism that is independent of homologous recombination. Systematic analysis of nucleotide excision repair mutants demonstrated the involvement of transcription-coupled nucleotide excision repair and a partial requirement for the lesion bypass DNA polymerase eta encoded by the human POLH gene. From these observations, we propose the existence of a recombination-independent and mutagenic repair pathway for the removal of ICLs in mammalian cells.
Insights
DNA interstrand cross-links (ICLs) are repaired independently of homologous recombination in mammalian cells. This study reveals a new, mutagenic pathway involving transcription-coupled nucleotide excision repair and DNA polymerase eta for ICL removal.
Area of Science:
- Molecular Biology
- Genetics
- DNA Repair
Background:
- Interstrand cross-links (ICLs) covalently join both DNA strands, blocking replication and transcription.
- ICLs are cytotoxic lesions induced by chemotherapy agents, necessitating efficient repair mechanisms.
- While error-free repair often requires homologous recombination, error-prone pathways may also exist.
Purpose of the Study:
- To investigate the in vivo repair mechanisms of site-specific mitomycin C-induced ICLs in mammalian cells.
- To determine if homologous recombination is essential for ICL removal.
- To identify the DNA repair pathways and proteins involved in ICL processing.
Main Methods:
- Development of an in vivo reporter assay for site-specific ICLs.
- Analysis of ICL removal in repair-proficient and mutant mammalian cells.
- Systematic examination of nucleotide excision repair (NER) mutants and DNA polymerase eta (POLH).
Main Results:
- ICL removal occurred in the absence of undamaged homologous sequences, indicating a non-homologous recombination pathway.
- Transcription-coupled NER was implicated in the repair process.
- DNA polymerase eta (POLH) showed a partial requirement for ICL removal.
Conclusions:
- Mammalian cells possess a recombination-independent pathway for repairing DNA interstrand cross-links.
- This pathway is mutagenic and involves transcription-coupled NER and DNA polymerase eta.
- The findings suggest a novel mechanism for processing DNA damage induced by alkylating agents.
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