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Series GSE83305 Query DataSets for GSE83305
Status Public on Feb 02, 2017
Title Stable Binding of the Conserved Transcription Factor Grainy Head to Its Target Genes Throughout Drosophila melanogaster Development
Organism Drosophila melanogaster
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary It has been suggested that transcription factor binding is temporally dynamic, and that changes in binding determine transcriptional output. Nonetheless, this model is based on relatively few examples in which transcription factor binding has been assayed at multiple developmental stages. The essential transcription factor Grainy head (Grh) is conserved from fungi to humans, and controls epithelial development and barrier formation in numerous tissues. Drosophila melanogaster, which possess a single grainy head (grh) gene, provide an excellent system to study this conserved factor. To determine whether temporally distinct binding events allow Grh to control cell fate specification in different tissue types, we used a combination of ChIP-seq and RNA-seq to elucidate the gene regulatory network controlled by Grh during four stages of embryonic development (spanning stages 5-17) and in larval tissue. Contrary to expectations, we discovered that Grh remains bound to at least 1146 genomic loci over days of development. In contrast to this stable DNA occupancy, the subset of genes whose expression is regulated by Grh varies. Grh transitions from functioning primarily as a transcriptional repressor early in development to functioning predominantly as an activator later. Our data reveal that Grh binds to target genes well before the Grh-dependent transcriptional program commences, suggesting it sets the stage for subsequent recruitment of additional factors that execute stage-specific Grh functions.
 
Overall design Examination of Grainy head binding in Drosophila melanogaster embryos during four stages of development, and the effect of depletion on gene expression at three stages.
 
Contributor(s) Nevil MA, Bondra ER, Shulz KN, Kaplan T, Harrison MM
Citation(s) 28007888
Submission date Jun 13, 2016
Last update date May 15, 2019
Contact name Melissa M Harrison
E-mail(s) mharrison3@wisc.edu
Organization name University of Wisconsin Madison
Department Biomolecular Chemistry
Lab 1135 Biochemical Sciences Bldg
Street address 420 Henry Mall
City Madison
State/province WI
ZIP/Postal code 53706
Country USA
 
Platforms (1)
GPL13304 Illumina HiSeq 2000 (Drosophila melanogaster)
Samples (19)
GSM2199197 2-3hr_GRH_ChIPseq
GSM2199198 2-3hr_1-441GRH_ChIPseq
GSM2199199 5-6hr_GRH_ChIPseq
Relations
BioProject PRJNA325526
SRA SRP076487

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE83305_RAW.tar 17.6 Gb (http)(custom) TAR (of BAM, BED, TXT, WIG)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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