ArticleRNA biology2013
Genome-wide mapping of polyadenylation sites in fission yeast reveals widespread alternative polyadenylation.
Article in RNA biology, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
36 citing papers in PubMed, 55 citations in OpenAlex.
- Morphogenesis, starvation, and light responses in a mushroom-forming fungus revealed by long-read sequencing and extensive expression profiling.Cell genomics · 2025Article
- DSIF factor Spt5 coordinates transcription, maturation and exoribonucleolysis of RNA polymerase II transcripts.Nature communications · 2025Article
- Coupling of alternative splicing and alternative polyadenylation.Acta biochimica et biophysica Sinica · 2024Review
- Imaging Organization of RNA Processing within the Nucleus.Cold Spring Harbor perspectives in biology · 2021Review
- Nuclear mRNA maturation and mRNA export control: from trypanosomes to opisthokonts.Parasitology · 2021Review
- Genetic screen for suppression of transcriptional interference identifies a gain-of-function mutation in Pol2 termination factor Seb1.Proceedings of the National Academy of Sciences of the United States of America · 2021Article
- The Detection and Bioinformatic Analysis of Alternative 3International journal of molecular sciences · 2021Review
- Characterization and Functional Analysis of Polyadenylation Sites in Fast and Slow Muscles.BioMed research international · 2020Article
- RNA polymerase II CTD interactome with 3' processing and termination factors in fission yeast and its impact on phosphate homeostasis.Proceedings of the National Academy of Sciences of the United States of America · 2018Article
- Common mechanism of transcription termination at coding and noncoding RNA genes in fission yeast.Nature communications · 2018Article
- A compendium of conserved cleavage and polyadenylation events in mammalian genes.Genome research · 2018Article
- Long noncoding RNA repertoire and targeting by nuclear exosome, cytoplasmic exonuclease, and RNAi in fission yeast.RNA (New York, N.Y.) · 2018Article
- An integrative model for alternative polyadenylation, IntMAP, delineates mTOR-modulated endoplasmic reticulum stress response.Nucleic acids research · 2018Article
- A long noncoding (lnc)RNA governs expression of the phosphate transporter Pho84 in fission yeast and has cascading effects on the flankingThe Journal of biological chemistry · 2018Article
- Article
- Poly(A) site choice and Pol2 CTD Serine-5 status govern lncRNA control of phosphate-responsiveRNA (New York, N.Y.) · 2018Article
- PomBase: The Scientific Resource for Fission Yeast.Methods in molecular biology (Clifton, N.J.) · 2018Review
- Transcription elongation rate has a tissue-specific impact on alternative cleavage and polyadenylation inRNA (New York, N.Y.) · 2017Article
- Alternative Polyadenylation: Methods, Findings, and Impacts.Genomics, proteomics & bioinformatics · 2017Review
- Comparative analysis of alternative polyadenylation inGenome research · 2017Article
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Authors and funding
1 author at 1 institution in 1 country.
Funding
Abstract
Regulatory elements in the 3' untranslated regions (UTRs) of eukaryotic mRNAs influence mRNA localization, translation, and stability. 3'-UTR length is determined by the location at which mRNAs are cleaved and polyadenylated. The use of alternative polyadenylation sites is common, and can be regulated in different situations. I present a new method to identify cleavage and polyadenylation sites (CSs) at the genome-wide level. The approach is strand-specific, avoids RNA enzymatic modification steps that can introduce sequence-specific biases, and uses unique molecular identifiers to ensure that all identified CS originates from individual RNA molecules. I applied this method to create the first comprehensive genome-wide map of polyadenylation sites of the fission yeast Schizosaccharomyces pombe, comprising the analysis of 2,021,000 individual mRNAs that defined 8,883 CSs. CSs were identified for 90% of coding genes and 50% of ncRNAs. Alternative polyadenylation was prevalent in both groups, with 41% and 45% of all detected genes, respectively, displaying more than one CS. The specificity of the cleavage reaction was gene-specific, resulting in highly variable levels of heterogeneity in 3'-UTR lengths. Finally, I show that for both coding and non-coding genes, the most common regulatory motif associated with CSs in fission yeast is the canonical human AAUAAA sequence.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.