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Determinants of promoter and enhancer transcription directionality in metazoans

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Item Type:Article
Title:Determinants of promoter and enhancer transcription directionality in metazoans
Creators Name:Ibrahim, M.M. and Karabacak, A. and Glahs, A. and Kolundzic, E. and Hirsekorn, A. and Carda, A. and Tursun, B. and Zinzen, R.P. and Lacadie, S.A. and Ohler, U.
Abstract:Divergent transcription from promoters and enhancers is pervasive in many species, but it remains unclear if it is a general feature of all eukaryotic cis regulatory elements. To address this, here we define cis regulatory elements in C. elegans, D. melanogaster and H. sapiens and investigate the determinants of their transcription directionality. In all three species, we find that divergent transcription is initiated from two separate core promoter sequences and promoter regions display competition between histone modifications on the +1 and -1 nucleosomes. In contrast, promoter directionality, sequence composition surrounding promoters, and positional enrichment of chromatin states, are different across species. Integrative models of H3K4me3 levels and core promoter sequence are highly predictive of promoter and enhancer directionality and support two directional classes, skewed and balanced. The relative importance of features to these models are clearly distinct for promoters and enhancers. Differences in regulatory architecture within and between metazoans are therefore abundant, arguing against a unified eukaryotic model.
Keywords:Chromatin, Genetic Enhancer Elements, Genetic Models, Genetic Promoter Regions, Genetic Transcription, Histone Code, Nucleosomes, Animals, Caenorhabditis elegans, Drosophila Melanogaster
Source:Nature Communications
Publisher:Nature Publishing Group
Page Range:4472
Date:26 October 2018
Official Publication:https://doi.org/10.1038/s41467-018-06962-z
PubMed:View item in PubMed
Related to:
https://edoc.mdc-berlin.de/17569/Preprint version

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