PUBLICATION
Dual-initiation promoters with intertwined canonical and TCT/TOP transcription start sites diversify transcript processing
- Authors
- Nepal, C., Hadzhiev, Y., Balwierz, P., Tarifeño-Saldivia, E., Cardenas, R., Wragg, J.W., Suzuki, A.M., Carninci, P., Peers, B., Lenhard, B., Andersen, J.B., Müller, F.
- ID
- ZDB-PUB-200112-3
- Date
- 2020
- Source
- Nature communications 11: 168 (Journal)
- Registered Authors
- Hadzhiev, Yavor, Müller, Ferenc, Peers, Bernard
- Keywords
- none
- MeSH Terms
-
- Animals
- Base Sequence
- Drosophila/genetics
- Drosophila/growth & development
- Gene Expression Regulation, Developmental*
- Gene Regulatory Networks*
- Humans
- Promoter Regions, Genetic/genetics*
- RNA/genetics
- RNA/physiology
- RNA, Small Nucleolar/genetics
- RNA, Small Nucleolar/metabolism
- RNA, Small Untranslated/genetics
- RNA, Small Untranslated/physiology
- RNA, Untranslated/genetics
- RNA, Untranslated/physiology
- Regulatory Elements, Transcriptional
- Transcription Initiation Site*
- Transcription, Genetic*
- Zebrafish/genetics
- Zebrafish/growth & development
- Zygote
- PubMed
- 31924754 Full text @ Nat. Commun.
Citation
Nepal, C., Hadzhiev, Y., Balwierz, P., Tarifeño-Saldivia, E., Cardenas, R., Wragg, J.W., Suzuki, A.M., Carninci, P., Peers, B., Lenhard, B., Andersen, J.B., Müller, F. (2020) Dual-initiation promoters with intertwined canonical and TCT/TOP transcription start sites diversify transcript processing. Nature communications. 11:168.
Abstract
Variations in transcription start site (TSS) selection reflect diversity of preinitiation complexes and can impact on post-transcriptional RNA fates. Most metazoan polymerase II-transcribed genes carry canonical initiation with pyrimidine/purine (YR) dinucleotide, while translation machinery-associated genes carry polypyrimidine initiator (5'-TOP or TCT). By addressing the developmental regulation of TSS selection in zebrafish we uncovered a class of dual-initiation promoters in thousands of genes, including snoRNA host genes. 5'-TOP/TCT initiation is intertwined with canonical initiation and used divergently in hundreds of dual-initiation promoters during maternal to zygotic transition. Dual-initiation in snoRNA host genes selectively generates host and snoRNA with often different spatio-temporal expression. Dual-initiation promoters are pervasive in human and fruit fly, reflecting evolutionary conservation. We propose that dual-initiation on shared promoters represents a composite promoter architecture, which can function both coordinately and divergently to diversify RNAs.
Genes / Markers
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Orthology
Engineered Foreign Genes
Mapping