Enhancer Sharing Promotes Neighborhoods of Transcriptional Regulation Across Eukaryotes

Porfirio Quintero-Cadena, Paul W. Sternberg
2016 G3: Genes, Genomes, Genetics  
Enhancers physically interact with transcriptional promoters, looping over distances that can span multiple regulatory elements. Given that enhancer-promoter (EP) interactions generally occur via common protein complexes, it is unclear whether EP pairing is predominantly deterministic or proximity guided. Here, we present cross-organismic evidence suggesting that most EP pairs are compatible, largely determined by physical proximity rather than specific interactions. By reanalyzing
more » ... datasets, we find that the transcription of gene neighbors is correlated over distances that scale with genome size. We experimentally show that nonspecific EP interactions can explain such correlation, and that EP distance acts as a scaling factor for the transcriptional influence of an enhancer. We propose that enhancer sharing is commonplace among eukaryotes, and that EP distance is an important layer of information in gene regulation. KEYWORDS
doi:10.1534/g3.116.036228 pmid:27799341 pmcid:PMC5144984 fatcat:rqbw5yjef5dvbocas3n6ndiuaa