O6-Carboxymethylguanosine
(O6-CMG), O6-methylguanosine (O6-MeG),
and abasic site (AP
site) are DNA lesions induced by alkylating agents. Identification
of these lesions in DNA may aid in understanding their relevance to
carcinogenesis and may be used for diagnosis. Nanopore sequencing
(NPS) may directly report nucleotide modifications solely from the
nanopore readout. However, the conventional NPS strategy still suffers
from interferences from neighboring sequences. Instead, by observation
of the enzymatic stalling kinetics caused by the O6-CMG,
O6-MeG, or AP site, discrimination between different DNA
lesions is directly achieved. This strategy is not interfered with
by the sequence context around the lesion. The lesion, which retards
the movement of the DNA through the pore, efficiently prohibits misreading
of the DNA lesion. These results suggest a new strategy in the identification
of DNA lesions or DNA modifications. It also provides a high-resolution
biophysical tool to investigate enzymatic kinetics caused by DNA lesions
and the corresponding enzymes.