ArticleThe Journal of biological chemistry2016
Promoter-Terminator Gene Loops Affect Alternative 3'-End Processing in Yeast.
Article in The Journal of biological chemistry, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed.
- Transcription-dependent polyadenylation signal activity contributes to transcriptomic regulation during Forskolin-induced BeWo cell syncytialization.Frontiers in cell and developmental biology · 2026Article
- A Compendium of G-Flipon Biological Functions That Have Experimental Validation.International journal of molecular sciences · 2024Review
- TFIIB-Termination Factor Interaction Affects Termination of Transcription on Genome-Wide Scale.International journal of molecular sciences · 2024Article
- Genome-wide analysis of TFIIB's role in termination of transcription.Research square · 2024Article
- Article
- Context-specific regulation and function of mRNA alternative polyadenylation.Nature reviews. Molecular cell biology · 2022Review
- Review
- Ssu72 Dual-Specific Protein Phosphatase: From Gene to Diseases.International journal of molecular sciences · 2021Review
- Diverse and conserved roles of the protein Ssu72 in eukaryotes: from yeast to higher organisms.Current genetics · 2021Review
- Full-length transcriptome reconstruction reveals a large diversity of RNA and protein isoforms in rat hippocampus.Nature communications · 2019Article
- A population of adult satellite-like cells ineLife · 2018Article
- A protein complex regulates RNA processing of intronic heterochromatin-containing genes inProceedings of the National Academy of Sciences of the United States of America · 2017Article
- Alternate promoter usage generates two subpopulations of the neuronal RhoGEF Kalirin-7.Journal of neurochemistry · 2017Article
Corrections and comments
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Authors and funding
4 authors.
Funding
Abstract
Many eukaryotic genes undergo alternative 3'-end poly(A)-site selection producing transcript isoforms with 3'-UTRs of different lengths and post-transcriptional fates. Gene loops are dynamic structures that juxtapose the 3'-ends of genes with their promoters. Several functions have been attributed to looping, including memory of recent transcriptional activity and polarity of transcription initiation. In this study, we investigated the relationship between gene loops and alternative poly(A)-site. Using the KlCYC1 gene of the yeast Kluyveromyces lactis, which includes a single promoter and two poly(A) sites separated by 394 nucleotides, we demonstrate in two yeast species the formation of alternative gene loops (L1 and L2) that juxtapose the KlCYC1 promoter with either proximal or distal 3'-end processing sites, resulting in the synthesis of short and long forms of KlCYC1 mRNA. Furthermore, synthesis of short and long mRNAs and formation of the L1 and L2 loops are growth phase-dependent. Chromatin immunoprecipitation experiments revealed that the Ssu72 RNA polymerase II carboxyl-terminal domain phosphatase, a critical determinant of looping, peaks in early log phase at the proximal poly(A) site, but as growth phase advances, it extends to the distal site. These results define a cause-and-effect relationship between gene loops and alternative poly(A) site selection that responds to different physiological signals manifested by RNA polymerase II carboxyl-terminal domain phosphorylation status.
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