title: Transcription factor binding study by capillary zone electrophoretic mobility shift assay.
abstract: Regulation of gene expression through interaction of proteins with specific DNA sequences is a central issue in functional genomics. Capillary electrophoretic mobility shift assay is an efficient novel method for the investigation of sequence specific protein-DNA interactions, allowing rapid and sensitive quantification of the complex formation. In this paper, we present a pilot study on capillary zone electrophoretic mobility shift assay (CZEMSA) to investigate the interaction between the transcription factors of HeLa nuclear extract and Sp1-specific fluorescein-labeled oligonucleotide, using the unlabeled probe as competitor. The mobility shift assay was accomplished by CZE in coated capillaries without polymeric buffer additives. Specificity of the DNA protein complex formation was verified by competition experiments, as well as by supershift assay with an anti-Sp1 antibody. The applied electric field strength did not affect the stability of DNA-protein complex during the electrophoretic analysis, allowing rapid identification and quantification of the protein DNA interaction. A practical application to study the interaction between Oryza sativa MADS-box transcription factor 4 (OsMADS4) and its consensus sequence is also reported.
authors.affiliation: Institute of Medical Chemistry, Molecular Biology and Pathobiochemistry, Semmelweis University, Budapest, Hungary.
authors.forename: Zsolt
authors.initials: Z
authors.lastname: Ronai
authors.forename: Yan
authors.initials: Y
authors.lastname: Wang
authors.forename: Julia
authors.initials: J
authors.lastname: Khandurina
authors.forename: Paul
authors.initials: P
authors.lastname: Budworth
authors.forename: Maria
authors.initials: M
authors.lastname: Sasvari-Szekely
authors.forename: Xun
authors.initials: X
authors.lastname: Wang
authors.forename: András
authors.initials: A
authors.lastname: Guttman
mesh_terms: D001483:Base Sequence; D019075:Electrophoresis, Capillary / Q000379:methods*; D024202:Electrophoretic Mobility Shift Assay / Q000379:methods*; D019793:Fluorescein; D006367:HeLa Cells; D006801:Humans; D066298:In Vitro Techniques; D026161:MADS Domain Proteins / Q000378:metabolism; D015345:Oligonucleotide Probes / Q000235:genetics / Q000302:isolation & purification; D010940:Plant Proteins / Q000378:metabolism; D011485:Protein Binding; D016329:Sp1 Transcription Factor / Q000378:metabolism; D014157:Transcription Factors / Q000378:metabolism*
chemical_list: D026161:MADS Domain Proteins; D015345:Oligonucleotide Probes; D010940:Plant Proteins; D016329:Sp1 Transcription Factor; D014157:Transcription Factors; D019793:Fluorescein