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Series GSE33541 Query DataSets for GSE33541
Status Public on Jan 01, 2013
Title Marek's Disease Virus Infection Induces Differential Chromatin Marks and Tissue-specific effects in inbred chicken lines
Organism Gallus gallus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Marek’s disease (MD) is a viral neoplastic disease in chickens caused by the MD virus (MDV). Successful vaccination strategies against MD have resulted in a progressive increase in the virulence of MDV and therefore, the understanding of genetic resistance to MD is considered crucial to the long-term control of the disease. Here we examine whether MDV infection induces changes in the epigenetic status of genes and whether this response is dependent on the host genotype. We generated genome-wide histone 3 lysine 4 (H3K4) and histone 3 lysine 27 (H3K27) trimethylation maps in thymus tissues from chicken lines with varying resistance to MD. Differential chromatin marks were observed on several genes previously implicated in MD such as MX1, MMP2 and CTLA-4 and also on novel genes such as EAF2, IGF2BP1 and GAL. We also detected bivalent domains on transcriptional regulators such as BCL6, CITED2 and EGR1 that have particular functions in immune response. Moreover, novel putative roles for GAL and CITED2 in the mechanism of MD progression were uncovered. We also found tissue-specific effects of MDV infection with certain genes exhibiting differential marks only in spleen. Our results suggest widespread epigenetic changes are induced by MDV infection extent of which is determined by the level of MD resistance of the host.
 
Overall design 8 samples examined: 2 histone modifications X 2 chicken lines with varying resistance to MD X 2 groups - infected and control.
 
Contributor(s) Mitra A, Luo J, Song J
Citation(s) 23072359
Submission date Nov 08, 2011
Last update date May 15, 2019
Contact name Apratim Mitra
E-mail(s) apratim.mitra@nih.gov
Phone 3014020676
Organization name NICHD
Department Division of Developmental Biology
Lab Section on Genomic Imprinting
Street address 6 Center Dr Building 6B Room 2B206
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
 
Platforms (1)
GPL13797 Illumina Genome Analyzer IIx (Gallus gallus)
Samples (8)
GSM829544 63_inf.H3K4me3
GSM829545 63_non.H3K4me3
GSM829546 63_inf.H3K27me3
Relations
SRA SRP009223
BioProject PRJNA148887

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Supplementary file Size Download File type/resource
GSE33541_RAW.tar 236.8 Mb (http)(custom) TAR (of BED, PROBSCOREISLAND)
GSE33541_readme.txt 583 b (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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