期刊
NUCLEIC ACIDS RESEARCH
卷 44, 期 5, 页码 2085-2092出版社
OXFORD UNIV PRESS
DOI: 10.1093/nar/gkv1199
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资金
- National Institutes of Health [R21-HG006873, R01-HG007406]
- National Science Foundation [DMR-0955959]
- XSEDE Allocation Grant [MCA05S028]
- Division Of Materials Research
- Direct For Mathematical & Physical Scien [955959] Funding Source: National Science Foundation
Oxidation of a DNA thymine to 5-hydroxymethyluracil is one of several recently discovered epigenetic modifications. Here, we report the results of nanopore translocation experiments and molecular dynamics simulations that provide insight into the impact of this modification on the structure and dynamics of DNA. When transported through ultrathin solid-state nanopores, short DNA fragments containing thymine modifications were found to exhibit distinct, reproducible features in their transport characteristics that differentiate them from unmodified molecules. Molecular dynamics simulations suggest that 5-hydroxymethyluracil alters the flexibility and hydrophilicity of the DNA molecules, which may account for the differences observed in our nanopore translocation experiments. The altered physico-chemical properties of DNA produced by the thymine modifications may have implications for recognition and processing of such modifications by regulatory DNA-binding proteins.
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