Conserved non-AUG uORFs revealed by a novel regression analysis of ribosome profiling data
Description
<jats:p>Upstream open reading frames (uORFs), located in transcript leaders (5′ UTRs), are potent <jats:italic>cis</jats:italic>-acting regulators of translation and mRNA turnover. Recent genome-wide ribosome profiling studies suggest that thousands of uORFs initiate with non-AUG start codons. Although intriguing, these non-AUG uORF predictions have been made without statistical control or validation; thus, the importance of these elements remains to be demonstrated. To address this, we took a comparative genomics approach to study AUG and non-AUG uORFs. We mapped transcription leaders in multiple <jats:italic>Saccharomyces</jats:italic> yeast species and applied a novel machine learning algorithm (uORF-seqr) to ribosome profiling data to identify statistically significant uORFs. We found that AUG and non-AUG uORFs are both frequently found in <jats:italic>Saccharomyces</jats:italic> yeasts. Although most non-AUG uORFs are found in only one species, hundreds have either conserved sequence or position within <jats:italic>Saccharomyces</jats:italic>. uORFs initiating with UUG are particularly common and are shared between species at rates similar to that of AUG uORFs. However, non-AUG uORFs are translated less efficiently than AUG-uORFs and are less subject to removal via alternative transcription initiation under normal growth conditions. These results suggest that a subset of non-AUG uORFs may play important roles in regulating gene expression.</jats:p>
Journal
-
- Genome Research
-
Genome Research 28 (2), 214-222, 2017-12-18
Cold Spring Harbor Laboratory
- Tweet
Details 詳細情報について
-
- CRID
- 1361137044198111872
-
- ISSN
- 15495469
- 10889051
-
- Data Source
-
- Crossref