Upregulation of SPS100 gene expression by an antisense RNA via a switch of mRNA isoforms with different stabilities

0506620 - ÚFCH JH 2020 RIV GB eng J - Journal Article
Bunina, D. - Štefl, Martin - Huber, F. - Khmelinskii, A. - Meurer, M. - Barry, J.D. - Kats, I. - Kirrmaier, D. - Huber, W. - Knop, M.
Upregulation of SPS100 gene expression by an antisense RNA via a switch of mRNA isoforms with different stabilities.
Nucleic Acids Research. Roč. 45, č. 19 (2017), s. 11144-11158. ISSN 0305-1048. E-ISSN 1362-4962
Institutional support: RVO:61388955
Keywords : saccharomyces-cerevisiae * budding yeast * pervasive transcription * noncoding transcription * bidirectional promoters * nucleosome occupancy * genome * heterogeneity * proteins * identification
OECD category: Physical chemistry
Impact factor: 11.561, year: 2017
Method of publishing: Open access

Pervasive transcription of genomes generates multiple classes of non-coding RNAs. One of these classes are stable long non-coding RNAs which overlap coding genes in antisense direction (asRNAs). The function of such asRNAs is not fully understood but several cases of antisense-dependent gene expression regulation affecting the overlapping genes have been demonstrated. Using high-throughput yeast genetics and a limited set of four growth conditions we previously reported a regulatory function for similar to 25% of asRNAs, most of which repress the expression of the sense gene. To further explore the roles of asRNAs we tested more conditions and identified 15 conditionally antisense-regulated genes, 6 of which exhibited antisense-dependent enhancement of gene expression. We focused on the sporulation-specific gene SPS100, which becomes upregulated upon entry into starvation or sporulation as a function of the antisense transcript SUT169. We demonstrate that the antisense effect is mediated by its 3 ' intergenic region (3 '-IGR) and that this regulation can be transferred to other genes. Genetic analysis revealed that SUT169 functions by changing the relative expression of SPS100 mRNA isoforms from a short and unstable transcript to a long and stable species. These results suggest a novel mechanism of antisense-dependent gene regulation via mRNA isoform switching.
Permanent Link: http://hdl.handle.net/11104/0297831