E-GEOD-45186 - Chromosome-wide profiling of X-inactivation status and epigenetic regulation in fetal brain

Status
Released on 23 September 2013, last updated on 2 June 2014
Organism
Monodelphis domestica
Samples (8)
Protocols (1)
Description
Evidence from a few genes of diverse species suggests that marsupial X-chromosome inactivation (XCI) is characterized by exclusive, but leaky, inactivation of the paternally derived X chromosome. To comprehensively study the mechanism of marsupial XCI, we profiled parent-of-origin-specific-allele expression, DNA methylation, and histone modifications in opossum fetal brain and extra-embryonic membranes. The majority (152/176) of X-linked genes exhibited paternally imprinted expression with nearly 100% maternal allele expression, whereas 24 loci (14%) escaped inactivation showing varying levels of biallelic expression. In addition to regulation by the non-coding RSX transcript, strong depletion of H3K27me3 at escaper gene loci indicates that histone states also influence opossum XCI. Notably, the opossum does not show an association between X-linked gene expression and promoter DNA methylation. Our study provides the first comprehensive catalogue of parent-of-origin expression status for X-linked genes in a marsupial and sheds light on the regulation and evolution of imprinted XCI in mammals. Profiling of four histone modifications in embryonic day 13 opossum (Monodelphis domestica) fetal brain by Illumina ChIP-seq
Experiment type
ChIP-seq 
Contacts
Kory Douglas <kodouglas@tamu.edu>, Andrew G Clark, John L VandeBerg, Kory C Douglas, Paul B Samollow
MINSEQE
Exp. designProtocolsFactorsProcessedSeq. reads
Files
Investigation descriptionE-GEOD-45186.idf.txt
Sample and data relationshipE-GEOD-45186.sdrf.txt
Links