title: Heteroduplex analysis using flow cytometric microbead assays to detect deletions, insertions, and single-strand lesions.
abstract: We explore the possibilities offered by flow cytometric microbead analysis to develop high throughput methods for the detection of deletions/insertions and single-strand DNA lesions. The products of PCR reactions derived from reference and test samples are denatured and reannealed, then exposed to enzymatic or chemical treatments distinguishing homoduplices from heteroduplices. The biotin- and dye labeled reaction products are immobilized on microbeads and the homo- and heteroduplices are assessed in separate fluorescence channels, by flow cytometry. Using a model system based on the mixed lineage leukemia gene breakpoint cluster region, we demonstrate that deletions and insertions in genomic DNA can be detected, using S1 nuclease and chemical cleavage to distinguish hetero- from homoduplices, or a restriction enzyme cleaving only the homoduplices. Single-strand discontinuities can also be detected, by combining nick-translation, using labeled nucleotide, and flow cytometric microbead analysis. The methodical approaches demonstrated are applicable in a versatile manner in basic cell and molecular biological research and also promise direct application for high throughput screening of genetic diseases and lesions, including insertions or deletions of short sequence elements and single-strand lesions formed at hypersensitive sites in response to apoptotic stimuli.
authors.affiliation: Department of Biophysics and Cell Biology, University of Debrecen, Debrecen, Hungary.
authors.forename: Eva
authors.initials: E
authors.lastname: Hegedüs
authors.forename: László
authors.initials: L
authors.lastname: Imre
authors.forename: Judit
authors.initials: J
authors.lastname: Pataki
authors.forename: Erzsébet
authors.initials: E
authors.lastname: Lizanecz
authors.forename: Lóránt
authors.initials: L
authors.lastname: Székvölgyi
authors.forename: Ferenc
authors.initials: F
authors.lastname: Fazakas
authors.forename: Zsolt
authors.initials: Z
authors.lastname: Bacsó
authors.forename: Attila
authors.initials: A
authors.lastname: Tóth
authors.forename: Miklós
authors.initials: M
authors.lastname: Szabó
authors.forename: Zoltán
authors.initials: Z
authors.lastname: Seres
authors.forename: Gábor
authors.initials: G
authors.lastname: Szabó
mesh_terms: D004277:DNA, Single-Stranded / Q000032:analysis* / Q000235:genetics; D005434:Flow Cytometry / Q000379:methods*; D017353:Gene Deletion; D020180:Heteroduplex Analysis / Q000379:methods*; D006801:Humans; D008863:Microspheres; D016254:Mutagenesis, Insertional / Q000379:methods*
chemical_list: D004277:DNA, Single-Stranded