Towards a comprehensive picture of C-to-U RNA editing sites in angiosperm mitochondria

Plant Molecular Biology
Alejandro A EderaM Virginia Sanchez-Puerta

Abstract

Our understanding of the dynamic and evolution of RNA editing in angiosperms is in part limited by the few editing sites identified to date. This study identified 10,217 editing sites from 17 diverse angiosperms. Our analyses confirmed the universality of certain features of RNA editing, and offer new evidence behind the loss of editing sites in angiosperms. RNA editing is a post-transcriptional process that substitutes cytidines (C) for uridines (U) in organellar transcripts of angiosperms. These substitutions mostly take place in mitochondrial messenger RNAs at specific positions called editing sites. By means of publicly available RNA-seq data, this study identified 10,217 editing sites in mitochondrial protein-coding genes of 17 diverse angiosperms. Even though other types of mismatches were also identified, we did not find evidence of non-canonical editing processes. The results showed an uneven distribution of editing sites among species, genes, and codon positions. The analyses revealed that editing sites were conserved across angiosperms but there were some species-specific sites. Non-synonymous editing sites were particularly highly conserved (~ 80%) across the plant species and were efficiently edited (80% editing ext...Continue Reading

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Citations

Oct 21, 2019·The Plant Journal : for Cell and Molecular Biology·Ian D SmallOren Ostersetzer-Biran
May 23, 2020·Plant Molecular Biology·M Emilia RouletM Virginia Sanchez-Puerta
Jun 21, 2019·International Journal of Molecular Sciences·Kamil MyszczyńskiJakub Sawicki
Nov 21, 2019·Functional & Integrative Genomics·Aidi ZhangXiujun Zhang
May 3, 2020·Molecular Biology Reports·Ahmed M Ramadan
Sep 16, 2020·The New Phytologist·Laura E GarciaM Virginia Sanchez-Puerta
Mar 1, 2019·G3 : Genes - Genomes - Genetics·Wolfram Georg BrennerBirgit Kersten
Apr 27, 2021·Plant Communications·Shengchun LiJiang Zhang
May 11, 2021·American Journal of Botany·Blake D FauskeeAmanda L Grusz

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Datasets Mentioned

BETA
ESM

Methods Mentioned

BETA
protein folding
RNA-seq
DNA-seq

Software Mentioned

Picard
BLAST
TREE
UNREST
bam
BayesTraits
IQ
PREP
Magic
SAMtools

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