title: Genome-wide evaluation and discovery of vertebrate A-to-I RNA editing sites.
abstract: RNA editing by adenosine deamination, catalyzed by adenosine deaminases acting on RNA (ADAR), is a post-transcriptional modification that contributes to transcriptome and proteome diversity and is widespread in mammals. Here we administer a bioinformatics search strategy to the human and mouse genomes to explore the landscape of A-to-I RNA editing. In both organisms we find evidence for high excess of A/G-type discrepancies (inosine appears as a guanosine in cloned cDNA) at non-polymorphic, non-synonymous codon sites over other types of discrepancies, suggesting the existence of several thousand recoding editing sites in the human and mouse genomes. We experimentally validate recoding-type A-to-I RNA editing in a number of human genes with high scoring positions including the coatomer protein complex subunit alpha (COPA) as well as cyclin dependent kinase CDK13.
authors.affiliation: Department of Biological Sciences, Lehigh University, Bethlehem, PA, USA. swm3@lehigh.edu
authors.forename: S
authors.initials: S
authors.lastname: Maas
authors.forename: C P
authors.initials: CP
authors.lastname: Godfried Sie
authors.forename: I
authors.initials: I
authors.lastname: Stoev
authors.forename: D E
authors.initials: DE
authors.lastname: Dupuis
authors.forename: J
authors.initials: J
authors.lastname: Latona
authors.forename: A M
authors.initials: AM
authors.lastname: Porman
authors.forename: B
authors.initials: B
authors.lastname: Evans
authors.forename: P
authors.initials: P
authors.lastname: Rekawek
authors.forename: V
authors.initials: V
authors.lastname: Kluempers
authors.forename: M
authors.initials: M
authors.lastname: Mutter
authors.forename: W M
authors.initials: WM
authors.lastname: Gommans
authors.forename: D
authors.initials: D
authors.lastname: Lopresti
mesh_terms: D000225:Adenine / Q000378:metabolism*; D000818:Animals; D001483:Base Sequence; D015894:Genome, Human; D023281:Genomics; D006801:Humans; D007288:Inosine / Q000378:metabolism; D051379:Mice; D017393:RNA Editing / Q000235:genetics*; D059467:Transcriptome
chemical_list: D007288:Inosine; D000225:Adenine