Single-cell analysis of long-range interactions of POU5F1 foci in hESC cells

STEJSKAL, Stanislav, Bára SZAROWSKÁ, Lenka TESAŘOVÁ, Pavel ŠIMARA and Irena KRONTORÁD KOUTNÁ. Single-cell analysis of long-range interactions of POU5F1 foci in hESC cells. In EMBL konference: Frontiers in Stec Cells and Cancer. 2015.

Basic information

• Original name: Single-cell analysis of long-range interactions of POU5F1 foci in hESC cells
• Name in Czech: Single-cell analýza vzdálených interaktomů s POU5F1 v hESC liniích
• Authors: STEJSKAL, Stanislav, Bára SZAROWSKÁ, Lenka TESAŘOVÁ, Pavel ŠIMARA and Irena KRONTORÁD KOUTNÁ.
• Edition: EMBL konference: Frontiers in Stec Cells and Cancer, 2015.

Other information

• Original language: English
• Type of outcome: Conference abstract
• Field of Study: 10601 Cell biology
• Country of publisher: Czech Republic
• Confidentiality degree: is not subject to a state or trade secret
• Organization unit: Faculty of Informatics
• Keywords (in Czech): Single-cell analyza, long-range interakce, POU5F1, hESC, FISH
• Keywords in English: Single-cell analysis, long-range interactions, POU5F1, hESC, FISH

Abstract

In the interphase nuclei, the chromosome territories are organized into the domains and chromatin loops. The chromatin loops are able to intermingle together to facilitate gene regulation in mutual nuclear sub-compartments. Stabilization of the genomic fibers in areas with increased transcription factors concentration also contributes to the high-order chromatin organization in the interphase nuclei. The communication between the chromatin regions mostly occurrs between the proximal genomic areas, but in some cases, the distal or the interchromosomal interactions were observed. Origin and the dynamics of those long-range genomic interactions are unknown. We are focused on the single cell analysis of long-range interactions with POU5F1(OCT4) gene in human embryonic stem cells (hESCs). According to the Chromatin Conformation Capture study (F. Gao, et al., Nature, 2013) we chose 5 candidates with distal interaction with POU5F1 gene. Fluorescent tagged probes (for the genomic regions that surrounded genes for POU5F1, MSX1, RARG, RUNX and TLE2) were used for visualization of genomic localization in the 3D fixed nuclei.

Abstract (in Czech)

In the interphase nuclei, the chromosome territories are organized into the domains and chromatin loops. The chromatin loops are able to intermingle together to facilitate gene regulation in mutual nuclear sub-compartments. Stabilization of the genomic fibers in areas with increased transcription factors concentration also contributes to the high-order chromatin organization in the interphase nuclei. The communication between the chromatin regions mostly occurrs between the proximal genomic areas, but in some cases, the distal or the interchromosomal interactions were observed. Origin and the dynamics of those long-range genomic interactions are unknown. We are focused on the single cell analysis of long-range interactions with POU5F1(OCT4) gene in human embryonic stem cells (hESCs). According to the Chromatin Conformation Capture study (F. Gao, et al., Nature, 2013) we chose 5 candidates with distal interaction with POU5F1 gene. Fluorescent tagged probes (for the genomic regions that surrounded genes for POU5F1, MSX1, RARG, RUNX and TLE2) were used for visualization of genomic localization in the 3D fixed nuclei.

Links

• CZ.1.07/2.3.00/30.0030, interní kód MU: Name: Rozvoj lidských zdrojů pro oblast buněčné biologie

Investor: Ministry of Education, Youth and Sports of the CR, 2.3 Human resources in research and development

• GBP302/12/G157, research and development project: Name: Dynamika a organizace chromosomů během buněčného cyklu a při diferenciaci v normě a patologii

Investor: Czech Science Foundation

• MUNI/C/0993/2013, interní kód MU: Name: Regulace aktivity nádorového supresoru p53 syntetickými inhibitory CDK (Acronym: Nádorový supresor p53)

Investor: Masaryk University, Rector's Program