title: DNA loop domain organization in nucleoids from cells of different types.
abstract: The loop domain organization of chromatin plays an important role in transcription regulation and thus may be assumed to vary in cells of different types. We investigated the kinetics of DNA loop migration during single cell gel electrophoresis (the comet assay) for nucleoids obtained from human lymphocytes, lymphoblasts and glioblastoma T98G cells. The results confirm our previous observation that there are three parts of DNA in nucleoids: DNA on the nucleoid surface, loops up to ∼150 kb inside the nucleoid, and larger loops that cannot migrate. However, the relative amounts of the three parts were found to be very different for different cell types. The distributions of the loop length up to 150 kb were shown to be exponential, with the distribution parameter, the loop density, to be dependent on the cell type.
authors.affiliation: Department of General and Molecular Genetics, Taras Shevchenko National University, 64/13, Volodymyrska Street, 01601, Kiev, Ukraine.
authors.forename: Katerina
authors.initials: K
authors.lastname: Afanasieva
authors.affiliation: Department of General and Molecular Genetics, Taras Shevchenko National University, 64/13, Volodymyrska Street, 01601, Kiev, Ukraine.
authors.forename: Marianna
authors.initials: M
authors.lastname: Chopei
authors.affiliation: Department of General and Molecular Genetics, Taras Shevchenko National University, 64/13, Volodymyrska Street, 01601, Kiev, Ukraine.
authors.forename: Alexandra
authors.initials: A
authors.lastname: Lozovik
authors.affiliation: Department of General and Molecular Genetics, Taras Shevchenko National University, 64/13, Volodymyrska Street, 01601, Kiev, Ukraine.
authors.forename: Anastasia
authors.initials: A
authors.lastname: Semenova
authors.affiliation: Institute of Molecular Biology and Genetics, National Academy of Sciences of Ukraine, 150, Acad. Zabolotnogo Street, 03680, Kiev, Ukraine.
authors.forename: Lyubov
authors.initials: L
authors.lastname: Lukash
authors.affiliation: Department of General and Molecular Genetics, Taras Shevchenko National University, 64/13, Volodymyrska Street, 01601, Kiev, Ukraine. Electronic address: sivolob@univ.kiev.ua.
authors.forename: Andrei
authors.initials: A
authors.lastname: Sivolob
mesh_terms: D000328:Adult; D022003:Cell Nucleus Structures / Q000737:chemistry; D020552:Comet Assay / Q000379:methods*; D004247:DNA / Q000737:chemistry*; D005260:Female; D006801:Humans; D007700:Kinetics; D008214:Lymphocytes / Q000166:cytology / Q000502:physiology; D008297:Male
chemical_list: D004247:DNA
keywords: Comet assay; DNA loops; Lymphoblasts; Lymphocytes; Nucleoid; T98G cells