Differential binding of three major human ADAR isoforms to coding and long non-coding transcripts

Josephine Galipon, Rintaro Ishii, Yutaka Suzuki, Masaru Tomita, Kumiko Ui-Tei

Research output: Contribution to journalArticle

9 Citations (Scopus)

Abstract

RNA editing by deamination of adenosine to inosine is an evolutionarily conserved process involved in many cellular pathways, from alternative splicing to miRNA targeting. In humans, it is carried out by no less than three major adenosine deaminases acting on RNA (ADARs): ADAR1-p150, ADAR1-p110, and ADAR2. However, the first two derive from alternative splicing, so that it is currently impossible to delete ADAR1-p110 without also knocking out ADAR1-p150 expression. Furthermore, the expression levels of ADARs varies wildly among cell types, and no study has systematically explored the effect of each of these isoforms on the cell transcriptome. In this study, RNA immunoprecipitation (RIP)-sequencing on overexpressed ADAR isoforms tagged with green fluorescent protein (GFP) shows that each ADAR is associated with a specific set of differentially expressed genes, and that they each bind to distinct set of RNA targets. Our results show a good overlap with known edited transcripts, establishing RIP-seq as a valid method for the investigation of RNA editing biology.

Original languageEnglish
Article number68
JournalGenes
Volume8
Issue number2
DOIs
Publication statusPublished - 2017 Feb 1

Fingerprint

RNA Isoforms
Adenosine Deaminase
RNA
RNA Editing
Alternative Splicing
Immunoprecipitation
RNA Sequence Analysis
Inosine
Deamination
Green Fluorescent Proteins
MicroRNAs
Transcriptome
Adenosine
Protein Isoforms
human ADA protein
Genes

Keywords

  • ADAR1-p110
  • ADAR1-p150
  • ADAR3
  • GO
  • KEGG
  • RIP sequence

ASJC Scopus subject areas

  • Genetics
  • Genetics(clinical)

Cite this

Differential binding of three major human ADAR isoforms to coding and long non-coding transcripts. / Galipon, Josephine; Ishii, Rintaro; Suzuki, Yutaka; Tomita, Masaru; Ui-Tei, Kumiko.

In: Genes, Vol. 8, No. 2, 68, 01.02.2017.

Research output: Contribution to journalArticle

Galipon, Josephine ; Ishii, Rintaro ; Suzuki, Yutaka ; Tomita, Masaru ; Ui-Tei, Kumiko. / Differential binding of three major human ADAR isoforms to coding and long non-coding transcripts. In: Genes. 2017 ; Vol. 8, No. 2.
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