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PMID: 26449202 Published · epublish English Journal Article Research Support, Non-U.S. Gov't

Profiling RNA editing in human tissues: towards the inosinome Atlas.

Scientific reports ·Vol. 5 ·2015-10-09 ·Pages 14941

Picardi E, Manzari C, Mastropasqua F, Aiello I, D'Erchia AM, Pesole G

Abstract

Adenine to Inosine RNA editing is a widespread co- and post-transcriptional mechanism mediated by ADAR enzymes acting on double stranded RNA. It has a plethora of biological effects, appears to be particularly pervasive in humans with respect to other mammals, and is implicated in a number of diverse human pathologies. Here we present the first human inosinome atlas comprising 3,041,422 A-to-I events identified in six tissues from three healthy individuals. Matched directional total-RNA-Seq and whole genome sequence datasets were generated and analysed within a dedicated computational framework, also capable of detecting hyper-edited reads. Inosinome profiles are tissue specific and edited gene sets consistently show enrichment of genes involved in neurological disorders and cancer. Overall frequency of editing also varies, but is strongly correlated with ADAR expression levels. The inosinome database is available at: http://srv00.ibbe.cnr.it/editing/.

MeSH Terms
Adenine/metabolism Adenosine Deaminase/genetics,metabolism Base Sequence Binding Sites/genetics Brain/metabolism Cell Line Databases, Genetic Genome, Human/genetics Humans Inosine/metabolism Internet Kidney/metabolism Liver/metabolism Lung/metabolism Muscles/metabolism Myocardium/metabolism Organ Specificity/genetics RNA/genetics,metabolism RNA Editing Sequence Analysis, DNA/methods
Chemicals
Inosine RNA Adenosine Deaminase Adenine
Authors & Affiliations
6 authors, click to expand affiliations / ORCID
Picardi Ernesto
Department of Biosciences, Biotechnology and Biopharmaceutics, University of Bari, Via Orabona 4, 70126 Bari, Italy. | Institute of Biomembranes and Bioenergetics, National Research Council, Via Amendola 165/A, 70126 Bari, Italy. | National Institute of Biostructures and Biosystems (INBB), Viale Medaglie D'Oro 305, 00136 Rome, Italy.
Manzari Caterina
Institute of Biomembranes and Bioenergetics, National Research Council, Via Amendola 165/A, 70126 Bari, Italy.
Mastropasqua Francesca
Department of Biosciences, Biotechnology and Biopharmaceutics, University of Bari, Via Orabona 4, 70126 Bari, Italy.
Aiello Italia
Department of Biosciences, Biotechnology and Biopharmaceutics, University of Bari, Via Orabona 4, 70126 Bari, Italy.
D'Erchia Anna Maria
Department of Biosciences, Biotechnology and Biopharmaceutics, University of Bari, Via Orabona 4, 70126 Bari, Italy. | Institute of Biomembranes and Bioenergetics, National Research Council, Via Amendola 165/A, 70126 Bari, Italy.
Pesole Graziano
Department of Biosciences, Biotechnology and Biopharmaceutics, University of Bari, Via Orabona 4, 70126 Bari, Italy. | Institute of Biomembranes and Bioenergetics, National Research Council, Via Amendola 165/A, 70126 Bari, Italy. | National Institute of Biostructures and Biosystems (INBB), Viale Medaglie D'Oro 305, 00136 Rome, Italy. | Center of Excellence in Comparative Genomics, University of Bari, Piazza Umberto I, 70121 Bari, Italy.
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Article Info
Journal
Scientific reports
Abbr.
Sci Rep
ISSN
2045-2322
DOI
10.1038/srep14941
Published
2015-10-09
Epub
2015-00-09
Pages
14941
Language
English
Region
England
NLM ID
101563288
PMCID
PMC4598827
Subset
IM
Corrections
ErratumIn
PMID: 26854421
External Links
PubMed source DOI: 10.1038/srep14941 PMC Full Text View journal details
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