A-to-I editing; C-to-U editing; MT: RNA/DNA editing; RNA editing; cardiovascular disease; methodology; neurodegenerative disease; neurovascular disease; Drug Discovery; Molecular Medicine
Abstract :
[en] RNA editing, a common and potentially highly functional form of RNA modification, encompasses two different RNA modifications, namely adenosine to inosine (A-to-I) and cytidine to uridine (C-to-U) editing. As inosines are interpreted as guanosines by the cellular machinery, both A-to-I and C-to-U editing change the nucleotide sequence of the RNA. Editing events in coding sequences have the potential to change the amino acid sequence of proteins, whereas editing events in noncoding RNAs can, for example, affect microRNA target binding. With advancing RNA sequencing technology, more RNA editing events are being discovered, studied, and reported. However, RNA editing events are still often overlooked or discarded as sequence read quality defects. With this position paper, we aim to provide guidelines and recommendations for the detection, validation, and follow-up experiments to study RNA editing, taking examples from the fields of cardiovascular and brain disease. We discuss all steps, from sample collection, storage, and preparation, to different strategies for RNA sequencing and editing-sensitive data analysis strategies, to validation and follow-up experiments, as well as potential pitfalls and gaps in the available technologies. This paper may be used as an experimental guideline for RNA editing studies in any disease context.
Disciplines :
Cardiovascular & respiratory systems Neurology Biochemistry, biophysics & molecular biology
Author, co-author :
Karagianni, Korina; Department of Genetics, Development, and Molecular Biology, School of Biology, Aristotle University of Thessaloniki, 541 24 Thessaloniki, Greece
Bibi, Alessia; Molecular Cardiology Laboratory, IRCCS Policlinico San Donato, Via Morandi 30, San Donato Milanese, 20097 Milan, Italy ; Department of Biosciences, University of Milan, Milan, Italy
Madé, Alisia; Molecular Cardiology Laboratory, IRCCS Policlinico San Donato, Via Morandi 30, San Donato Milanese, 20097 Milan, Italy
ACHARYA, Shubhra ; University of Luxembourg ; Cardiovascular Research Unit, Luxembourg Institute of Health, Strassen, Luxembourg
Parkkonen, Mikko; Research Unit of Biomedicine and Internal Medicine, Department of Pharmacology and Toxicology, University of Oulu, Oulu, Finland
Barbalata, Teodora; Lipidomics Department, Institute of Cellular Biology and Pathology "Nicolae Simionescu" of the Romanian Academy, 8, B. P. Hasdeu Street, 050568 Bucharest, Romania
Srivastava, Prashant K; National Heart & Lung Institute, Imperial College London, London, UK
de Gonzalo-Calvo, David; Translational Research in Respiratory Medicine, University Hospital Arnau de Vilanova and Santa Maria, IRBLleida, Lleida, Spain ; CIBER of Respiratory Diseases (CIBERES), Institute of Health Carlos III, Madrid, Spain
Emanueli, Constanza; National Heart & Lung Institute, Imperial College London, London, UK
Martelli, Fabio; Molecular Cardiology Laboratory, IRCCS Policlinico San Donato, Via Morandi 30, San Donato Milanese, 20097 Milan, Italy
DEVAUX, Yvan ; University of Luxembourg ; Cardiovascular Research Unit, Luxembourg Institute of Health, Strassen, Luxembourg
Dafou, Dimitra; Department of Genetics, Development, and Molecular Biology, School of Biology, Aristotle University of Thessaloniki, 541 24 Thessaloniki, Greece
Nossent, A Yaël; Department of Surgery, Leiden University Medical Center, Leiden, the Netherlands ; Department of Nutrition, Exercise and Sports (NEXS), University of Copenhagen, Copenhagen, Denmark
FNR14566210 - Long Noncoding Rnas In Tissue Repair, 2020 (01/08/2020-31/07/2023) - Shubhra Acharya
Funders :
Instituto de Salud Carlos III Hellenic Foundation for Research and Innovation Italian Society of Cardiology AFM-Telethon Horizon 2020 British Heart Foundation Telethon Foundation Nederlandse Organisatie voor Wetenschappelijk Onderzoek Fonds National de la Recherche
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