Anomalous diffusion in the interphase cell nucleus: The effect of spatial correlations of chromatin

2010 ◽  
Vol 133 (2) ◽  
pp. 025101 ◽  
Author(s):  
Christian C. Fritsch ◽  
Jörg Langowski
Keyword(s):  
Cell Nucleus ◽  
Anomalous Diffusion ◽  
Spatial Correlations ◽  
Interphase Cell

scholarly journals Modeling diffusional transport in the interphase cell nucleus

2007 ◽  
Vol 127 (4) ◽  
pp. 045102 ◽  
Author(s):  
Annika Wedemeier ◽  
Holger Merlitz ◽  
Chen-Xu Wu ◽  
Jörg Langowski
Keyword(s):  
Cell Nucleus ◽  
Interphase Cell

scholarly journals Mapping replicational sites in the eucaryotic cell nucleus.

1989 ◽  
Vol 108 (1) ◽  
pp. 1-11 ◽  
Author(s):  
H Nakayasu ◽  
R Berezney
Keyword(s):  
Cell Nucleus ◽  
Nuclear Matrix ◽  
Nuclear Dna ◽  
Fluorescent Microscopy ◽  
Mouse Fibroblast ◽  
Type I ◽  
Interphase Cell ◽  
Permeabilized Cells ◽  
Replication Sites

We have used fluorescent microscopy to map DNA replication sites in the interphase cell nucleus after incorporation of biotinylated dUTP into permeabilized PtK-1 kangaroo kidney or 3T3 mouse fibroblast cells. Discrete replication granules were found distributed throughout the nuclear interior and along the periphery. Three distinct patterns of replication sites in relationship to chromatin domains in the cell nucleus and the period of S phase were detected and termed type I (early to mid S), type II (mid to late S) and type III (late S). Similar patterns were seen with in vivo replicated DNA using antibodies to 5-bromodeoxyuridine. Extraction of the permeabilized cells with DNase I and 0.2 M ammonium sulfate revealed a striking maintenance of these replication granules and their distinct intranuclear arrangements with the remaining nuclear matrix structures despite the removal of greater than 90% of the total nuclear DNA. The in situ prepared nuclear matrix structures also incorporated biotinylated dUTP into replication granules that were indistinguishable from those detected within the intact nucleus.

The ultrastructural study of the interphase cell nucleus of Lacandonia schismatica (Lacandoniaceae: Triuridales) reveals a non-typical extranucleolar particle

1992 ◽  
Vol 75 (2) ◽  
pp. 101-110 ◽  
Author(s):  
Luis Felipe Jiménez-Garcia ◽  
Lourdes Teresa Agredano-Moreno ◽  
Maria Lourdes Segura-Valdez ◽  
Olga Margarita Echeverria ◽  
Esteban Martinez ◽  
...  
Keyword(s):  
Cell Nucleus ◽  
Ultrastructural Study ◽  
Interphase Cell

scholarly journals Alternating regimes of motion in cell motility models

2019 ◽  
Author(s):  
Nara Guisoni ◽  
Karina I. Mazzitello ◽  
Luis Diambra
Keyword(s):  
Anomalous Diffusion ◽  
Mean Square Displacement ◽  
Cell Movement ◽  
Cell Polarization ◽  
Dependent Manner ◽  
Spatial Correlations ◽  
Cellular Potts Model ◽  
Driving Field ◽  
First Case ◽  
The Mean

Cellular movement is a complex dynamic process, resulting from the interaction of multiple elements at the intra and extra-cellular levels. This epiphenomenon presents a variety of behaviors, which can include normal and anomalous diffusion or collective migration. In some cases cells can get neighborhood information through chemical or mechanical cues. A unified understanding about how such information can influence the dynamics of cell movement is still lacking. In order to improve our comprehension of cell migration we consider a cellular Potts model where cells move actively in the direction of a driving field. The intensity of this driving field is constant, while its orientation can evolves according to two alternative dynamics based on the Ornstein-Uhlenbeck process. In the first case, the next orientation of the driving field depends on the previous direction of the field. In the second case, the direction update considers the mean orientation performed by the cell in previous steps. Thus, the latter update rule mimics the ability of cells to perceive the environment, avoiding obstacles and thus increasing the cellular displacement. Our results indicate that both dynamics introduce temporal and spatial correlations in cell velocity in a friction coefficient and cell density dependent manner. Furthermore, we observe alternating regimes in the mean square displacement, with normal and anomalous diffusion. The crossovers between superdiffusive and diffusive regimes, are strongly affected by both the driving field dynamics and cell-cell interactions. In this sense, when cell polarization update grants information about the previous cellular displacement decreases the duration of the diffusive regime, in particular for high density cultures.

scholarly journals Computer methods of analysis of chromosome contacts in the cell nucleus based on sequencing technology data

2017 ◽  
Vol 63 (5) ◽  
pp. 418-422 ◽  
Author(s):  
Y.L. Orlov ◽  
O. Thierry ◽  
A.G. Bogomolov ◽  
A.V. Tsukanov ◽  
E.V. Kulakova ◽  
...  
Keyword(s):  
Transcription Factors ◽  
Gene Transcription ◽  
Cell Nucleus ◽  
Binding Sites ◽  
Dimensional Space ◽  
Genome Structure ◽  
Three Dimensional ◽  
Gene Location ◽  
Interphase Cell ◽  
Eukaryotic Genes

The study spatial chromosome structure and chromosome folding in the interphase cell nucleus is an important challenge of world science. Detection of eukaryotic genome regions that physically interact with each other could be done by modern sequencing technologies. A basic method of chromosome folding by total sequencing of contacting DNA fragments is HI-C. Long-range chromosomal interactions play an important role in gene transcription and regulation. The study of chromosome interactions, 3D (three-dimensional) genome structure and its effect on gene transcription allows revealing fundamental biological processes from a viewpoint of structural regulation and are important for cancer research. The technique of chromatin immunoprecipitation and subsequent sequencing (ChIP-seq) make possible to determine binding sites of transcription factors that regulate expression of eukaryotic genes; genome transcription factors binding maps have been. The ChIA-PET technology allows exploring not only target protein binding sites, but also pairs of such sites on proximally located and interacting with each other chromosomes co-located in three-dimensional space of the cell nucleus. Here we discuss the principles of the construction of genomic maps and matrices of chromosome contacts according to ChIA-PET and Hi-C data that capture the chromosome conformation and overview existing software for 3D genome analysis including in house programs of gene location analysis in topological domains.

ULTRASTRUCTURAL LOCALIZATION OF PROTEINS AND NUCLEOPROTEINS IN THE INTERPHASE NUCLEUS

1972 ◽  
Vol 71 (2_Suppla) ◽  
pp. S11-S34 ◽  
Author(s):  
Michel Bouteille
Keyword(s):  
Present State ◽  
Cell Nucleus ◽  
Interphase Nucleus ◽  
Cell Activity ◽  
Ultrastructural Localization ◽  
Nuclear Inclusions ◽  
Interphase Cell

ABSTRACT A review is given on the present state of knowledge of the location of diffuse and »figured« proteins, and ribonucleoproteins in the interphase cell nucleus. Attention is focused on structures of still obscure function, and on various types of nuclear inclusions which do not seem to be constant, but are presumably related to the degree of cell activity, whether physiologic or pathologic.

Organization of transcription and pre-mRNA splicing within the mammalian cell nucleus

1995 ◽  
Vol 53 ◽  
pp. 768-769
Author(s):  
D.L. Spector ◽  
S. Huang ◽  
S. Kaurin
Keyword(s):  
Rna Polymerase Ii ◽  
Cell Nucleus ◽  
Functional Organization ◽  
Mrna Splicing ◽  
Splicing Factors ◽  
Interchromatin Granule Clusters ◽  
Interchromatin Granule ◽  
Nuclear Regions ◽  
Relationship Of ◽  
Perichromatin Fibrils

We have been interested in the organization of RNA polymerase II transcription and pre-mRNA splicing within the cell nucleus. Several models have been proposed for the functional organization of RNA within the eukaryotic nucleus and for the relationship of this organization to the distribution of pre-mRNA splicing factors. One model suggests that RNAs which must be spliced are capable of recruiting splicing factors to the sites of transcription from storage and/or reassembly sites. When one examines the organization of splicing factors in the nucleus in comparison to the sites of chromatin it is clear that splicing factors are not localized in coincidence with heterochromatin (Fig. 1). Instead, they are distributed in a speckled pattern which is composed of both perichromatin fibrils and interchromatin granule clusters. The perichromatin fibrils are distributed on the periphery of heterochromatin and on the periphery of interchromatin granule clusters as well as being diffusely distributed throughout the nucleoplasm. These nuclear regions have been previously shown to represent initial sites of incorporation of 3H-uridine.

Sign in / Sign up

Export Citation Format

Share Document