Endogenous DNA damage can contribute to aging, sporadic cancers, and neurodegeneration. There are many sources of endogenous DNA damage, including oxidation, alkylation, nucleobase deamination, and hydrolysis of the glycosidic bond to generate abasic sites. DNA repair systems mitigate the effects of these endogenous damages, but some lesions inevitably evade repair with deleterious consequences. Importantly, not all DNA damage is created equal. Interstrand cross-links are exceptionally bioactive lesions because they block the DNA strand separation required for read-out and replication of genetic information in cells. Cells have no good answer to cross-links in their genome: Failure to repair cross-links may lead to cell death, tissue dysfunction, and aging, while error-prone repair may result in mutagenesis and cancer. The evolution and retention of elaborate cross-link repair systems across all walks of life suggest that the generation of endogenous interstrand cross-links is an unavoidable fact of life, but the identities of these cross-links and their biological consequences remain uncertain. The long-term objective of this application is to assess the occurrence and biological endpoints of endogenous DNA cross-links, which will contribute significantly to overall understanding of cancer etiology. Work during the previous grant period characterized a group of interstrand cross-links derived from an abasic (Ap) site that is the most common endogenous lesion found in cellular DNA. The work further developed LC-MS methods for the detection and characterization of these lesions in duplex DNA, and described a shuttle vector method for assessing the efficiency and fidelity with which the Ap-derived cross-links are repaired and replicated in human cells. The proposed work, will (1) conduct unbiased screens to comprehensively determine the sequence hotspots for Ap-derived cross-link formation, (2) detect the occurrence of Ap-derived cross-links in cellular DNA, and (3) determine the efficiency and fidelity with which Ap-derived cross-links are repaired in human cells and define the mechanisms of replication-dependent cross-link ?unhooking? in vitro and in human cells. The proposed work explores the hypothesis that formation and replication-coupled repair of Ap-derived cross-links may be particularly important in cancer, neurodegeneration, and aging. The work is significant because the formation and repair of endogenous DNA cross-links may contribute to the causal processes involved in aging and early carcinogenesis. The work is innovative because it examines structurally novel cross-links and novel repair mechanisms, thus promising novel insights regarding the roles of endogenous DNA damage in human health and disease. In the long run, the results may enable understanding of how genetic differences in cross-link repair capacity contribute to human healthspan. Ultimately such insights could inspire approaches that improve health by genetic means or by pharmacological agents that inhibit the formation and/or enhance the repair of endogenous cross-links.

Public Health Relevance

A significant fraction of human cancers cannot be traced to known inherited genetic mutations or exposure to environmental carcinogens, instead they arise from endogenous (internal) damage to DNA that causes the introduction of mutations into the genetic code during DNA replication. Endogenous DNA cross-links could be an important source of mutations because the replication-coupled repair of these lesions is particularly error-prone due to the fact that, in cross-linked DNA, there exists no unmodified strand that can be used as a template to reconstitute the genetic code. Our work characterizing the formation and repair of interstrand cross-links derived from endogenous abasic sites in duplex DNA has the long-term potential to define how endogenous cross-links contribute to the causal processes involved in early carcinogenesis and how genetic variation leading to differences in endogenous cross-link formation and repair contribute to an individual's predisposition toward cancer and other aging-related illness.

Agency
National Institute of Health (NIH)
Institute
National Institute of Environmental Health Sciences (NIEHS)
Type
Research Project (R01)
Project #
5R01ES021007-08
Application #
10054954
Study Section
Special Emphasis Panel (ZRG1)
Program Officer
Reinlib, Leslie J
Project Start
2012-08-15
Project End
2023-10-31
Budget Start
2020-11-01
Budget End
2021-10-31
Support Year
8
Fiscal Year
2021
Total Cost
Indirect Cost
Name
University of Missouri-Columbia
Department
Chemistry
Type
Schools of Arts and Sciences
DUNS #
153890272
City
Columbia
State
MO
Country
United States
Zip Code
65211
Gu, Li-Qun; Gates, Kent S; Wang, Michael X et al. (2018) What is the potential of nanolock- and nanocross-nanopore technology in cancer diagnosis? Expert Rev Mol Diagn 18:113-117
Yang, Zhiyu; Price, Nathan E; Johnson, Kevin M et al. (2017) Interstrand cross-links arising from strand breaks at true abasic sites in duplex DNA. Nucleic Acids Res 45:6275-6283
Nejad, Maryam Imani; Shi, Ruicheng; Zhang, Xinyue et al. (2017) Sequence-Specific Covalent Capture Coupled with High-Contrast Nanopore Detection of a Disease-Derived Nucleic Acid Sequence. Chembiochem 18:1383-1386
Price, Nathan E; Li, Lin; Gates, Kent S et al. (2017) Replication and repair of a reduced 2?-deoxyguanosine-abasic site interstrand cross-link in human cells. Nucleic Acids Res 45:6486-6493
Yang, Zhiyu; Nejad, Maryam Imani; Varela, Jacqueline Gamboa et al. (2017) A role for the base excision repair enzyme NEIL3 in replication-dependent repair of interstrand DNA cross-links derived from psoralen and abasic sites. DNA Repair (Amst) 52:1-11
Gamboa Varela, Jacqueline; Gates, Kent S (2016) Simple, High-Yield Syntheses of DNA Duplexes Containing Interstrand DNA-DNA Cross-Links Between an N(4) -Aminocytidine Residue and an Abasic Site. Curr Protoc Nucleic Acid Chem 65:5.16.1-5.16.15
Catalano, Michael J; Price, Nathan E; Gates, Kent S (2016) Effective molarity in a nucleic acid-controlled reaction. Bioorg Med Chem Lett 26:2627-30
Yang, Zhiyu; Price, Nathan E; Johnson, Kevin M et al. (2015) Characterization of Interstrand DNA-DNA Cross-Links Derived from Abasic Sites Using Bacteriophage ?29 DNA Polymerase. Biochemistry 54:4259-66
Liu, Shuo; Wang, Yinsheng (2015) Mass spectrometry for the assessment of the occurrence and biological consequences of DNA adducts. Chem Soc Rev 44:7829-54
Zhang, Xinyue; Price, Nathan E; Fang, Xi et al. (2015) Characterization of Interstrand DNA-DNA Cross-Links Using the ?-Hemolysin Protein Nanopore. ACS Nano 9:11812-9

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