Back to Search
Start Over
Chromosome Conformation Capture Uncovers Potential Genome-Wide Interactions between Human Conserved Non-Coding Sequences
- Source :
- PLoS ONE, Vol 6, Iss 3, p e17634 (2011), PloS one, PLOS ONE, Vol. 6, No 3 (2011) P. e17634, PLoS ONE
- Publisher :
- Public Library of Science
-
Abstract
- Comparative analyses of various mammalian genomes have identified numerous conserved non-coding (CNC) DNA elements that display striking conservation among species, suggesting that they have maintained specific functions throughout evolution. CNC function remains poorly understood, although recent studies have identified a role in gene regulation. We hypothesized that the identification of genomic loci that interact physically with CNCs would provide information on their functions. We have used circular chromosome conformation capture (4C) to characterize interactions of 10 CNCs from human chromosome 21 in K562 cells. The data provide evidence that CNCs are capable of interacting with loci that are enriched for CNCs. The number of trans interactions varies among CNCs; some show interactions with many loci, while others interact with few. Some of the tested CNCs are capable of driving the expression of a reporter gene in the mouse embryo, and associate with the oligodendrocyte genes OLIG1 and OLIG2. Our results underscore the power of chromosome conformation capture for the identification of targets of functional DNA elements and raise the possibility that CNCs exert their functions by physical association with defined genomic regions enriched in CNCs. These CNC-CNC interactions may in part explain their stringent conservation as a group of regulatory sequences.
- Subjects :
- lcsh:Medicine
Expression
beta-Globins
Genome
Locus Control Region/genetics
Open Reading Frames/genetics
Conserved sequence
Chromosome conformation capture
Mice
0302 clinical medicine
Molecular Cell Biology
Chromosomes, Human
ddc:576.5
Genomic library
lcsh:Science
Conserved Sequence
Genetics
0303 health sciences
Multidisciplinary
Chromosome Biology
Genomics
Functional Genomics
Oligodendroglia
Beta-Globins/genetics
Regions
DNA, Circular/genetics
DNA, Intergenic
Conserved Sequence/genetics
DNA, Circular
In-Vivo
Transcription
Organization
Research Article
Chromosome Structure and Function
Territories
DNA, Intergenic/genetics
Computational biology
Biology
Open Reading Frames
03 medical and health sciences
Ultraconserved Elements
Animals
Humans
Chromosomes, Human/chemistry/genetics
Locus control region
030304 developmental biology
Base Sequence
Genome, Human
Circular bacterial chromosome
lcsh:R
Locus Control Region
Oligodendroglia/metabolism
Genome, Human/genetics
Nucleic Acid Conformation
Disruption
Human genome
lcsh:Q
K562 Cells
Chromosome 21
030217 neurology & neurosurgery
Enhancer
Subjects
Details
- ISSN :
- 19326203
- Database :
- OpenAIRE
- Journal :
- PLoS ONE, Vol 6, Iss 3, p e17634 (2011), PloS one, PLOS ONE, Vol. 6, No 3 (2011) P. e17634, PLoS ONE
- Accession number :
- edsair.doi.dedup.....0a7754f707d1304f4ebf32d027df24cb