Core promoter sequence in yeast is a major determinant of expression level

The core promoter is the regulatory sequence to which RNA polymerase is recruited and where it acts to initiate transcription. Here, we present the first comprehensive study of yeast core promoters, providing massively parallel measurements of core promoter activity and of TSS locations and relative...

Full description

Saved in:
Bibliographic Details
Published in:Genome research 2015-07, Vol.25 (7), p.1008-1017
Main Authors: Lubliner, Shai, Regev, Ifat, Lotan-Pompan, Maya, Edelheit, Sarit, Weinberger, Adina, Segal, Eran
Format: Article
Language:English
Subjects:
Gene Expression Regulation, Fungal
Genomics
Promoter Regions, Genetic
TATA Box
Transcription Initiation Site
Transcriptional Activation
Yeasts - genetics
Citations: Items that this one cites
Items that cite this one
Online Access:Get full text
Tags: Add Tag
No Tags, Be the first to tag this record!
Description
Summary:The core promoter is the regulatory sequence to which RNA polymerase is recruited and where it acts to initiate transcription. Here, we present the first comprehensive study of yeast core promoters, providing massively parallel measurements of core promoter activity and of TSS locations and relative usage for thousands of native and designed sequences. We found core promoter activity to be highly correlated to the activity of the entire promoter and that sequence variation in different core promoter regions substantially tunes its activity in a predictable way. We also show that location, orientation, and flanking bases critically affect TATA element function, that transcription initiation in highly active core promoters is focused within a narrow region, that poly(dA:dT) orientation has a functional consequence at the 3' end of promoters, and that orthologous core promoters across yeast species have conserved activities. Our results demonstrate the importance of core promoters in the quantitative study of gene regulation.
ISSN:1088-9051
1549-5469
DOI:10.1101/gr.188193.114