Sequence-Dependent Persistence Length of Long DNA

Using a high-throughput genome-mapping approach, we obtained circa 50 million measurements of the extension of internal human DNA segments in a 41  nm×41  nm nanochannel. The underlying DNA sequences, obtained by mapping to the reference human genome, are 2.5-393 kilobase pairs long and contain perc...

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Bibliographic Details
Published in:Physical review letters 2017-11, Vol.119 (22), p.227802-227802, Article 227802
Main Authors: Chuang, Hui-Min, Reifenberger, Jeffrey G, Cao, Han, Dorfman, Kevin D
Format: Article
Language:English
Subjects:
Base Sequence
DNA - chemistry
DNA - genetics
High-Throughput Nucleotide Sequencing - methods
Humans
Models, Chemical
Models, Genetic
Structure-Activity Relationship
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Summary:Using a high-throughput genome-mapping approach, we obtained circa 50 million measurements of the extension of internal human DNA segments in a 41  nm×41  nm nanochannel. The underlying DNA sequences, obtained by mapping to the reference human genome, are 2.5-393 kilobase pairs long and contain percent GC contents between 32.5% and 60%. Using Odijk's theory for a channel-confined wormlike chain, these data reveal that the DNA persistence length increases by almost 20% as the percent GC content increases. The increased persistence length is rationalized by a model, containing no adjustable parameters, that treats the DNA as a statistical terpolymer with a sequence-dependent intrinsic persistence length and a sequence-independent electrostatic persistence length.
ISSN:0031-9007
1079-7114
DOI:10.1103/PhysRevLett.119.227802