Visualization of the spatial positioning of the SNRPN, UBE3A, and GABRB3 genes in the normal human nucleus by three-color 3D fluorescence in situ hybridization

Rie Kawamura, Hideyuki Tanabe, Takahito Wada, Shinji Saitoh, Yoshimitsu Fukushima, Keiko Wakui

Research output: Contribution to journalArticle

12 Citations (Scopus)

Abstract

The three-dimensional (3D) structure of the genome is organized non-randomly and plays a role in genomic function via epigenetic mechanisms in the eukaryotic nucleus. Here, we analyzed the spatial positioning of three target regions; the SNRPN, UBE3A, and GABRB3 genes on human chromosome 15q11.2-q12, a representative cluster of imprinted regions, in the interphase nuclei of B lymphoblastoid cell lines, peripheral blood cells, and skin fibroblasts derived from normal individuals to look for evidence of genomic organization and function. The positions of these genes were simultaneously visualized, and all inter-gene distances were calculated for each homologous chromosome (longer/shorter UG distance between alleles). The UG distance was relatively stable between alleles; in contrast, the SU distance of one allele was obviously longer than the distance indicated by the genome size. The results therefore indicate that SNRPN, UBE3A, and GABRB3 have non-linear and non-random curved spatial positioning in the normal nucleus, with differences in the SU distance between alleles possibly representing epigenetic evidence of nuclear organization and gene expression.

Original languageEnglish
Pages (from-to)659-672
Number of pages14
JournalChromosome Research
Volume20
Issue number6
DOIs
Publication statusPublished - 01-08-2012

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snRNP Core Proteins
Fluorescence In Situ Hybridization
Color
Alleles
Epigenomics
Genes
Genome Size
Gene Order
Interphase
Human Chromosomes
Blood Cells
Fibroblasts
Chromosomes
Genome
Gene Expression
Cell Line
Skin
Spatial Navigation

All Science Journal Classification (ASJC) codes

  • Genetics

Cite this

Kawamura, Rie ; Tanabe, Hideyuki ; Wada, Takahito ; Saitoh, Shinji ; Fukushima, Yoshimitsu ; Wakui, Keiko. / Visualization of the spatial positioning of the SNRPN, UBE3A, and GABRB3 genes in the normal human nucleus by three-color 3D fluorescence in situ hybridization. In: Chromosome Research. 2012 ; Vol. 20, No. 6. pp. 659-672.
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Visualization of the spatial positioning of the SNRPN, UBE3A, and GABRB3 genes in the normal human nucleus by three-color 3D fluorescence in situ hybridization. / Kawamura, Rie; Tanabe, Hideyuki; Wada, Takahito; Saitoh, Shinji; Fukushima, Yoshimitsu; Wakui, Keiko.

In: Chromosome Research, Vol. 20, No. 6, 01.08.2012, p. 659-672.

Research output: Contribution to journalArticle

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