{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"submitter":["Dittmore A"],"funding":["Intramural NIH HHS","NIDDK NIH HHS","National Heart, Lung, and Blood Institute","NCI NIH HHS","National Institutes of Health","NIGMS NIH HHS","National Science Foundation"],"pagination":["147801"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC5661871"],"repository":["biostudies-literature"],"omics_type":["Unknown"],"volume":["119(14)"],"pubmed_abstract":["We present a method of detecting sequence defects by supercoiling DNA with magnetic tweezers. The method is sensitive to a single mismatched base pair in a DNA sequence of several thousand base pairs. We systematically compare DNA molecules with 0 to 16 adjacent mismatches at 1 M monovalent salt and 3.6 pN force and show that under these conditions, a single plectoneme forms and is stably pinned at the defect. We use these measurements to estimate the energy and degree of end-loop kinking at defects. From this, we calculate the relative probability of plectoneme pinning at the mismatch under physiologically relevant conditions. Based on this estimate, we propose that DNA supercoiling could contribute to mismatch and damage sensing in vivo."],"journal":["Physical review letters"],"pubmed_title":["Supercoiling DNA Locates Mismatches."],"pmcid":["PMC5661871"],"funding_grant_id":["U54 DK107980","U54 CA193419","DMR-1206868","R01-GM105847","MCB-1022117","R01 GM105847","U54-CA193419","ZIA HL001056-10","U54-DK107980"],"pubmed_authors":["Takagi Y","Brahmachari S","Dittmore A","Marko JF","Neuman KC"],"additional_accession":[]},"is_claimable":false,"name":"Supercoiling DNA Locates Mismatches.","description":"We present a method of detecting sequence defects by supercoiling DNA with magnetic tweezers. The method is sensitive to a single mismatched base pair in a DNA sequence of several thousand base pairs. We systematically compare DNA molecules with 0 to 16 adjacent mismatches at 1 M monovalent salt and 3.6 pN force and show that under these conditions, a single plectoneme forms and is stably pinned at the defect. We use these measurements to estimate the energy and degree of end-loop kinking at defects. From this, we calculate the relative probability of plectoneme pinning at the mismatch under physiologically relevant conditions. Based on this estimate, we propose that DNA supercoiling could contribute to mismatch and damage sensing in vivo.","dates":{"release":"2017-01-01T00:00:00Z","publication":"2017 Oct","modification":"2024-10-19T01:09:17.637Z","creation":"2019-03-27T03:00:19Z"},"accession":"S-EPMC5661871","cross_references":{"pubmed":["29053317"],"doi":["10.1103/physrevlett.119.147801","10.1103/PhysRevLett.119.147801"]}}