title: Compartmentalization of interphase chromosomes observed in simulation and experiment.
abstract: Human interphase chromosomes were simulated as a flexible fiber with excluded volume interaction, which represents the chromatin fiber of each chromosome. For the higher-order structures, we assumed a folding into 120 kb loops and an arrangement of these loops into rosette-like subcompartments. Chromosomes consist of subcompartments connected by small fragments of chromatin. Number and size of subcompartments correspond with chromosome bands in early prophase. We observed essentially separated chromosome arms in both our model calculations and confocal laser scanning microscopy, and measured the same overlap in simulation and experiment. Overlap, number and size of chromosome 15 subcompartments of our model chromosomes agree with subchromosomal foci composed of either early or late replicating chromatin, which were observed at all stages of the cell cycle and possibly provide a functionally relevant unit of chromosome territory compartmentalization. Computed distances of chromosome specific markers both on Mb and 10-100 Mb scale agree with fluorescent in situ hybridization measurements under different preparation conditions.
authors.affiliation: Division Biophysics of Macromolecules, Deutsches Krebsforschungszentrum (DKFZ), Im Neuenheimer Feld 280, Heidelberg, D-69120, Germany.
authors.forename: C
authors.initials: C
authors.lastname: Münkel
authors.forename: R
authors.initials: R
authors.lastname: Eils
authors.forename: S
authors.initials: S
authors.lastname: Dietzel
authors.forename: D
authors.initials: D
authors.lastname: Zink
authors.forename: C
authors.initials: C
authors.lastname: Mehring
authors.forename: G
authors.initials: G
authors.lastname: Wedemann
authors.forename: T
authors.initials: T
authors.lastname: Cremer
authors.forename: J
authors.initials: J
authors.lastname: Langowski
mesh_terms: D002453:Cell Cycle / Q000235:genetics; D002843:Chromatin / Q000235:genetics; D002875:Chromosomes / Q000235:genetics* / Q000648:ultrastructure; D003198:Computer Simulation; D006801:Humans; D017403:In Situ Hybridization; D007399:Interphase / Q000235:genetics*; D018613:Microscopy, Confocal; D008958:Models, Molecular; D009010:Monte Carlo Method
chemical_list: D002843:Chromatin