RNA editing site recognition in heterologous plant mitochondria

2006 ◽  
Vol 50 (6) ◽  
pp. 405-416 ◽  
Author(s):  
David Choury ◽  
Alejandro Araya
Keyword(s):  
Rna Editing ◽  
Plant Mitochondria ◽  
Editing Site ◽  
Site Recognition

scholarly journals cis Recognition Elements in Plant Mitochondrion RNA Editing

2001 ◽  
Vol 21 (20) ◽  
pp. 6731-6737 ◽  
Author(s):  
Jean-Claude Farré ◽  
Gabriel Leon ◽  
Xavier Jordana ◽  
Alejandro Araya
Keyword(s):  
Rna Editing ◽  
Nearest Neighbor ◽  
Mitochondrial Gene ◽  
Plant Mitochondria ◽  
Editing Site ◽  
Higher Plant ◽  
Plant Mitochondrion ◽  
Directed Mutation ◽  
Recognition Elements ◽  
Editing Process

ABSTRACT RNA editing in higher plant mitochondria modifies mRNA sequences by means of C-to-U conversions at highly specific sites. To determine thecis elements involved in recognition of an editing site in plant mitochondria, deletion and site-directed mutation constructs containing the cognate cox II mitochondrial gene were introduced into purified mitochondria by electroporation. The RNA editing status was analyzed for precursor and spliced transcripts from the test construct. We found that only a restricted number of nucleotides in the vicinity of the target C residue were necessary for recognition by the editing machinery and that the nearest neighbor 3′ residues were crucial for the editing process. We provide evidence that two functionally distinguishable sequences can be defined: the 16-nucleotide 5′ region, which can be replaced with the same region from another editing site, and a 6-nucleotide 3′ region specific to the editing site. The latter region may play a role in positioning the actual editing residue.

scholarly journals Organelle Genetics in Plants

2021 ◽  
Vol 22 (4) ◽  
pp. 2104
Author(s):  
Pedro Robles ◽  
Víctor Quesada
Keyword(s):  
Rna Editing ◽  
Posttranscriptional Regulation ◽  
Genome Engineering ◽  
Plant Mitochondria ◽  
Plastid Dna ◽  
Chloroplast Genomes ◽  
Wide Range ◽  
Organelle Genetics ◽  
Selection Of

Eleven published articles (4 reviews, 7 research papers) are collected in the Special Issue entitled “Organelle Genetics in Plants.” This selection of papers covers a wide range of topics related to chloroplasts and plant mitochondria research: (i) organellar gene expression (OGE) and, more specifically, chloroplast RNA editing in soybean, mitochondria RNA editing, and intron splicing in soybean during nodulation, as well as the study of the roles of transcriptional and posttranscriptional regulation of OGE in plant adaptation to environmental stress; (ii) analysis of the nuclear integrants of mitochondrial DNA (NUMTs) or plastid DNA (NUPTs); (iii) sequencing and characterization of mitochondrial and chloroplast genomes; (iv) recent advances in plastid genome engineering. Here we summarize the main findings of these works, which represent the latest research on the genetics, genomics, and biotechnology of chloroplasts and mitochondria.

Deepred-Mt: Deep representation learning for predicting C-to-U RNA editing in plant mitochondria

2021 ◽  
pp. 104682
Author(s):  
Alejandro A. Edera ◽  
Ian Small ◽  
Diego H. Milone ◽  
M. Virginia Sanchez-Puerta
Keyword(s):  
Rna Editing ◽  
Plant Mitochondria ◽  
Representation Learning

scholarly journals Editing site recognition and nucleotide insertion are separable processes in Physarum mitochondria

2002 ◽  
Vol 21 (22) ◽  
pp. 6154-6161 ◽  
Author(s):  
Elaine M. Byrne ◽  
Angela Stout ◽  
Jonatha M. Gott
Keyword(s):  
Editing Site ◽  
Nucleotide Insertion ◽  
Site Recognition

scholarly journals Recognition of RNA Editing Sites Is Directed by Unique Proteins in Chloroplasts: Biochemical Identification of cis-Acting Elements and trans-Acting Factors Involved in RNA Editing in Tobacco and Pea Chloroplasts

2002 ◽  
Vol 22 (19) ◽  
pp. 6726-6734 ◽  
Author(s):  
Tetsuya Miyamoto ◽  
Junichi Obokata ◽  
Masahiro Sugiura
Keyword(s):  
Rna Editing ◽  
Editing Site ◽  
Mrna Editing ◽  
Higher Plant ◽  
In Vitro System ◽  
Cis Acting ◽  
Biochemical Identification ◽  
Editing Activity

ABSTRACT RNA editing in higher-plant chloroplasts involves C-to-U conversions at specific sites. Although in vivo analyses have been performed, little is known about the biochemical aspects of chloroplast editing reactions. Here we improved our original in vitro system and devised a procedure for preparing active chloroplast extracts not only from tobacco plants but also from pea plants. Using our tobacco in vitro system, cis-acting elements were defined for psbE and petB mRNAs. Distinct proteins were found to bind specifically to each cis-element, a 56-kDa protein to the psbE site and a 70-kDa species to the petB site. Pea chloroplasts lack the corresponding editing site in psbE since T is already present in the DNA. Parallel in vitro analyses with tobacco and pea extracts revealed that the pea plant has no editing activity for psbE mRNAs and lacks the 56-kDa protein, whereas petB mRNAs are edited and the 70-kDa protein is also present. Therefore, coevolution of an editing site and its cognate trans-factor was demonstrated biochemically in psbE mRNA editing between tobacco and pea plants.

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