ArticleBiochemistry2013
RNA-Seq analysis identifies a novel set of editing substrates for human ADAR2 present in Saccharomyces cerevisiae.
Article in Biochemistry, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.
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34 citing papers in PubMed, 44 citations in OpenAlex.
- Evaluation of novel computational methods to identify RNA-binding protein footprints from structural data.RNA (New York, N.Y.) · 2025Article
- Structural perspectives on adenosine to inosine RNA editing by ADARs.Molecular therapy. Nucleic acids · 2024Review
- Article
- Exploring functional conservation in silico: a new machine learning approach to RNA-editing.Briefings in bioinformatics · 2024Article
- A pipeline for identifying guide RNA sequences that promote RNA editing of nonsense mutations that cause inherited retinal diseases.Molecular therapy. Nucleic acids · 2024Article
- Development of a selection assay for small guide RNAs that drive efficient site-directed RNA editing.Nucleic acids research · 2023Article
- Site-directed A → I RNA editing as a therapeutic tool: moving beyond genetic mutations.RNA (New York, N.Y.) · 2023Article
- Identification of exceptionally potent adenosine deaminases RNA editors from high body temperature organisms.PLoS genetics · 2023Article
- ADAR activation by inducing a syn conformation at guanosine adjacent to an editing site.Nucleic acids research · 2022Article
- Regulation of RNA editing by intracellular acidification.Nucleic acids research · 2021Article
- RNA timestamps identify the age of single molecules in RNA sequencing.Nature biotechnology · 2021Article
- Asymmetric dimerization of adenosine deaminase acting on RNA facilitates substrate recognition.Nucleic acids research · 2020Article
- Genome-Wide Characterization of RNA Editing Sites in Primary Gastric Adenocarcinoma through RNA-seq Data Analysis.International journal of genomics · 2020Article
- The preponderance of nonsynonymous A-to-I RNA editing in coleoids is nonadaptive.Nature communications · 2019Article
- ADAR, the carcinogenesis mechanisms of ADAR and related clinical applications.Annals of translational medicine · 2019Review
- Signal Transduction in Ribosome Biogenesis: A Recipe to Avoid Disaster.International journal of molecular sciences · 2019Review
- Nucleoside analogs in the study of the epitranscriptome.Methods (San Diego, Calif.) · 2019Review
- A Bump-Hole Approach for Directed RNA Editing.Cell chemical biology · 2019Article
- Implementation of the CRISPR-Cas13a system in fission yeast and its repurposing for precise RNA editing.Nucleic acids research · 2018Article
- Selective Recognition of RNA Substrates by ADAR Deaminase Domains.Biochemistry · 2018Article
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
Abstract
ADAR2 is a member of a family of RNA editing enzymes found in metazoa that bind double helical RNAs and deaminate select adenosines. We find that when human ADAR2 is overexpressed in the budding yeast Saccharomyces cerevisiae it substantially reduces the rate of cell growth. This effect is dependent on the deaminase activity of the enzyme, suggesting yeast transcripts are edited by ADAR2. Characterization of this novel set of RNA substrates provided a unique opportunity to gain insight into ADAR2's site selectivity. We used RNA-Seq. to identify transcripts present in S. cerevisiae subject to ADAR2-catalyzed editing. From this analysis, we identified 17 adenosines present in yeast RNAs that satisfied our criteria for candidate editing sites. Substrates identified include both coding and noncoding RNAs. Subsequent Sanger sequencing of RT-PCR products from yeast total RNA confirmed efficient editing at a subset of the candidate sites including BDF2 mRNA, RL28 intron RNA, HAC1 3'UTR RNA, 25S rRNA, U1 snRNA, and U2 snRNA. Two adenosines within the U1 snRNA sequence not identified as substrates during the original RNA-Seq. screen were shown to be deaminated by ADAR2 during the follow-up analysis. In addition, examination of the RNA sequence surrounding each edited adenosine in this novel group of ADAR2 sites revealed a previously unrecognized sequence preference. Remarkably, rapid deamination at one of these sites (BDF2 mRNA) does not require ADAR2's dsRNA-binding domains (dsRBDs). Human glioma-associated oncogene 1 (GLI1) mRNA is a known ADAR2 substrate with similar flanking sequence and secondary structure to the yeast BDF2 site discovered here. As observed with the BDF2 site, rapid deamination at the GLI1 site does not require ADAR2's dsRBDs.
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