CREF7 - Plant Editosome Database - BIG Data Center

Summary

Editing Factor: CREF7
Synonym: CHLOROPLAST RNA EDITING FACTOR 7
Description: Encodes a pentatricopeptide repeat protein involved in chloroplast mRNA editing.
Protein Family: PPR
Subclass: DYW
Construct Structure: PLS-DYW
Gene ID & Species: AT5G66520 (Arabidopsis thaliana)
Edited Gene(s): ndhB    rpoA
Editing Type(s): C-to-U (15)
Publication(s): [1] The Analysis of the Editing Defects in the dyw2 Mutant Provides New Clues for the Prediction of RNA Targets of Arabidopsis E+-Class PPR Proteins, Plants (Basel), 2020. [PMID=32098170]
[2] Multiple PPR Protein Interactions Are Involved in the RNA Editing System in Arabidopsis Mitochondria and Plastids, Proc Natl Acad Sci U S A, 2017. [PMID=28761003]
[3] A Conserved Glutamate Residue in the C-terminal Deaminase Domain of Pentatricopeptide Repeat Proteins Is Required for RNA Editing Activity, The Journal of Biological Chemistry, 2015. [PMID=25739442]
[4] Pentatricopeptide repeat proteins involved in plant organellar RNA editing, RNA Biol, 2013. [PMID=23669716]

Editing Details

Species Gene ID Organelle Edited Gene Position Region Editing Type Codon Amino Acid Molecular Effect Experiment Details
Arabidopsis thaliana AT5G66520 Chloroplast
Plastid
ndhB 1255 CDS C-to-U CAU=>UAU
NA=>NA
H=>Y
NA=>NA
Recoding
NA
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
Col-0WTNo treatmentNo treatmentNo treatmentNo treatmentLeafNABulk Sequencing100.00%CompleteNone25739442
SALK_078415Ccref7-1T-DNA InsertionT-DNA is inserted in the PLS repeat regionKnockoutNALeafNABulk Sequencing0.00%UneditedAbsent25739442
Col-0WT + CREF7TransformationWild type plants with CREF7 transgeneNANALeafNABulk Sequencing100.00%CompleteSimilar25739442
SALK_078415CKO + CREF7-E554ATransformationTransgene for a mutant variant with the HXE motif changed to HXA (CREF7-E554A) is introduced into a CREF7 knock-out line (cref7-1)NANALeafNABulk SequencingNALowDecreased25739442
Col-0WT + CREF7-E554ATransformationTransgene for a mutant variant with the HXE motif changed to HXA (CREF7-E554A) is introduced into a wild type lineNANALeafNABulk Sequencing100.00%CompleteSimilar25739442
Col-0WTNo treatmentNo treatmentNo treatmentNANANARNA-seq98.44%HighNone32098170
Col-0WTNo treatmentNo treatmentNo treatmentNormalRosette leafNART-PCR and calculated with the DNADynamo software (BlueTract95.00%HighNone28761003
Col-0DYW2-GFP-OE1Generating Arabidopsis plants overexpressing the GFP-tagged DYW2 geneCol-0 A. thaliana plants were transformed with the 35S::DYW2-GFP plasmids (in pK7WGF2 backbone) by the floral-dip method. Transformed plants were selected based on Kanamycin resistance. Two independenNASlow growthRosette leafNART-PCR and calculated with the DNADynamo software (BlueTract100.00%CompleteSimilar28761003
Col-0DYW2-GFP-OE2Generating Arabidopsis plants overexpressing the GFP-tagged DYW2 geneCol-0 A. thaliana plants were transformed with the 35S::DYW2-GFP plasmids (in pK7WGF2 backbone) by the floral-dip method. Transformed plants were selected based on Kanamycin resistance. Two independenNASlow growthRosette leafNART-PCR and calculated with the DNADynamo software (BlueTract100.00%CompleteSimilar28761003
Arabidopsis thaliana AT5G66520 Chloroplast ndhB 95225 NA C-to-U NA=>NA NA=>NA NA
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
ColombiaWTNo treatment No treatmentNo treatmentNormalLeafNART-PCR and direct sequencing83.33%HighNone23669716
Salk_078415Salk_078415T-DNA insertionAn insertion of the T-DNA in the coding regions of the transgenic lineNANo aberrant visible phenotypeLeafNART-PCR and direct sequencing0.00%UneditedAbsent23669716
Arabidopsis thaliana AT5G66520 Chloroplast rpoA 200 CDS C-to-U UCU=>UUU S=>F Recoding
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
Col-0WTNo treatmentNo treatmentNo treatmentNo treatmentLeafNABulk SequencingNAHighNone25739442
SALK_078415Ccref7-1T-DNA InsertionT-DNA is inserted in the PLS repeat regionKnockoutNALeafNABulk SequencingNAHighSimilar25739442
SALK_078415CKO + CREF7TransformationTransgene for wild type CREF7 is introduced into a CREF7 knock-out line (cref7-1)NANALeafNABulk SequencingNAHighSimilar25739442
SALK_078415CKO + CREF7-E554ATransformationTransgene for a mutant variant with the HXE motif changed to HXA (CREF7-E554A) is introduced into a CREF7 knock-out line (cref7-1)NANALeafNABulk SequencingNALowDecreased25739442
Last update: Jul 2021 (version 1.0)