Heritable pattern of oxidized DNA base repair coincides with pre-targeting of repair complexes to open chromatin.
IF: 19.160
Cited by: 19


Human genome stability requires efficient repair of oxidized bases, which is initiated via damage recognition and excision by NEIL1 and other base excision repair (BER) pathway DNA glycosylases (DGs). However, the biological mechanisms underlying detection of damaged bases among the million-fold excess of undamaged bases remain enigmatic. Indeed, mutation rates vary greatly within individual genomes, and lesion recognition by purified DGs in the chromatin context is inefficient. Employing super-resolution microscopy and co-immunoprecipitation assays, we find that acetylated NEIL1 (AcNEIL1), but not its non-acetylated form, is predominantly localized in the nucleus in association with epigenetic marks of uncondensed chromatin. Furthermore, chromatin immunoprecipitation followed by high-throughput sequencing (ChIP-seq) revealed non-random AcNEIL1 binding near transcription start sites of weakly transcribed genes and along highly transcribed chromatin domains. Bioinformatic analyses revealed a striking correspondence between AcNEIL1 occupancy along the genome and mutation rates, with AcNEIL1-occupied sites exhibiting fewer mutations compared to AcNEIL1-free domains, both in cancer genomes and in population variation. Intriguingly, from the evolutionarily conserved unstructured domain that targets NEIL1 to open chromatin, its damage surveillance of highly oxidation-susceptible sites to preserve essential gene function and to limit instability and cancer likely originated ∼500 million years ago during the buildup of free atmospheric oxygen.

MeSH terms

Cell Line, Tumor
Cell Nucleus
DNA Glycosylases
DNA Repair
Datasets as Topic
Evolution, Molecular
Genes, Helminth
Genes, Homeobox
HEK293 Cells
Helminth Proteins
Neoplasm Proteins
Protein Processing, Post-Translational
Sequence Alignment
Sequence Homology, Amino Acid
Transcription Initiation Site


Bacolla, Albino
Sengupta, Shiladitya
Ye, Zu
Yang, Chunying
Mitra, Joy
De-Paula, Ruth B
Hegde, Muralidhar L
Ahmed, Zamal
Mort, Matthew
Cooper, David N
Mitra, Sankar
Tainer, John A

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