Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

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Arabidopsis thaliana strain:Col 0 Transcriptome or Gene expression


ABSTRACT: We obtained an Arabidopsis mutant from the Arabidopsis Biological Resource Center stock collection and verified that it was homozygous for a T-DNA insertion in the first exon of ORRM1 (SALK_072648, designated here as orrm1). The homozygous mutant did not show any phenotypic defect when grown under growth room conditions. We examined the organelle transcriptome of the mutant for editing defects because other proteins carrying RIP domains have been shown to be editing factors. We analyzed the plastid RNA editing extent with a new methodology based on RNA-seq. Briefly, total RNA is isolated from leaves and RT-PCR products corresponding to known organelle genes are obtained by using gene-specific primers. The products are mixed in equimolar ratio, sheared, and used as templates to produce an Illumina TruSeq library. This RNA-seq analysis demonstrated that ORRM1 is a plastid editing factor; 12 among 34 plastid sites exhibit a severe reduction of editing extent in the mutant relative to the wild-type

INSTRUMENT(S): Illumina HiSeq 2500

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Stéphane Bentolila 

PROVIDER: E-MTAB-4378 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

An RNA recognition motif-containing protein is required for plastid RNA editing in Arabidopsis and maize.

Sun Tao T   Germain Arnaud A   Giloteaux Ludovic L   Hammani Kamel K   Barkan Alice A   Hanson Maureen R MR   Bentolila Stéphane S  

Proceedings of the National Academy of Sciences of the United States of America 20130304 12


Plant RNA editing modifies cytidines (C) to uridines (U) at specific sites in the transcripts of both mitochondria and plastids. Specific targeting of particular Cs is achieved by pentatricopeptide proteins that recognize cis elements upstream of the C that is edited. Members of the RNA-editing factor interacting protein (RIP) family in Arabidopsis have recently been shown to be essential components of the plant editosome. We have identified a gene that contains a pair of truncated RIP domains (  ...[more]

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