Transcriptomics,Genomics

Dataset Information

152

Spatially varying cis-regulatory divergence in Drosophila embryos elucidates cis-regulatory logic


ABSTRACT: Both cis- and trans-acting changes could accumulate and participate in complex interactions, so to isolate the cis-regulatory component of patterning evolution, we measured allele-specific spatial gene expression patterns in Drosophila melanogaster × D. simulans hybrid embryos. RNA-seq of cryosectioned slices revealed 55 genes with strong spatially-varying allele-specific expression, and several hundred more with weaker but significant spatial divergence. Combined with mathematical modeling and regulatory locus editing, we determine the SNP responsible for the allele-specific expression observed in the gene hunchback. Overall design: Embryonic mRNA profiles of mid-stage 5 hybrid and parental embryos were generated using RNA-seq

REANALYSED by: GSE117217

INSTRUMENT(S): Illumina NextSeq 500 (Drosophila melanogaster)

SUBMITTER: Peter Acuña Combs  

PROVIDER: GSE102233 | GEO | 2017-08-04

SECONDARY ACCESSION(S): PRJNA397062

REPOSITORIES: GEO

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Publications

Spatially varying cis-regulatory divergence in Drosophila embryos elucidates cis-regulatory logic.

Combs Peter A PA   Fraser Hunter B HB  

PLoS genetics 20181101 11


Spatial patterning of gene expression is a key process in development, yet how it evolves is still poorly understood. Both cis- and trans-acting changes could participate in complex interactions, so to isolate the cis-regulatory component of patterning evolution, we measured allele-specific spatial gene expression patterns in D. melanogaster × simulans hybrid embryos. RNA-seq of cryo-sectioned slices revealed 66 genes with strong spatially varying allele-specific expression. We found that hunchb  ...[more]

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