Plant Editosome Database
a curated database of RNA editosome in plants

PpPPR_65 - Plant Editosome Database - BIG Data Center
  1. Home
  2. Editing Factors
  3. PpPPR_65

Summary

Editing Factor: PpPPR_65
Synonym: Phypa_175641
Description: Encoding DYW subclass PPR protein as RNA editing factor for atp9 site; Knockout of DYW-PPR_65 in Physcomitrella patens causes a severe developmental phenotype in the moss and specifically affects two editing sites located 18 nucleotides apart on the mitochondrial ccmFC mRNA
Protein Family: PPR
Subclass: DYW
Construct Structure: PLS-E/E+-DYW
Gene ID & Species: PP1S13_264V6 (Physcomitrium patens)
Edited Gene(s): ccmFc
Editing Type(s): C-to-U (17)
Publication(s): [1] Two DYW subclass PPR proteins are involved in RNA editing of ccmFc and atp9 transcripts in the moss Physcomitrella patens: first complete set of PPR editing factors in plant mitochondria., Plant & cell physiology, 2013. [PMID=24058147]
[2] A DYW-protein knockout in Physcomitrella affects two closely spaced mitochondrial editing sites and causes a severe developmental phenotype., The Plant journal : for cell and molecular biology, 2013. [PMID=23909746]

Editing Details

Species Gene ID Organelle Edited Gene Position Region Editing Type Codon Amino Acid Molecular Effect Experiment Details
Physcomitrium patens PP1S13_264V6 Mitochondrion ccmFc 103 CDS C-to-U CCC=>UCC P=>S Recoding
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
NAWTControlControlControlNormalProtonema4 daysDirect Sequencing of PCR Products90.00%HighNone24058147
NA△65-1Gene cassetteGene cassette deletes the cognate gene by replacing the coding region with the gfp and hptKnockoutSevere growth retardation of the moss protonemataProtonema4 daysDirect Sequencing of PCR Products0.00%UneditedAbsent24058147
GFP-tubulin/histone H2B-RFP expression line (GH line)GH line (-) (control to RNAi line)Without β-estradiolControlControlNAProtonema4 daysDirect Sequencing of PCR Products90.00%HighNone24058147
GFP-tubulin/histone H2B-RFP expression line (GH line)GH line (+) (control to RNAi line)With β-estradiolProtonemata are cultured for 4 d in the presence of 1 mM β-estradiolControlNAProtonema4 daysDirect Sequencing of PCR Products90.00%HighNone24058147
GFP-tubulin/histone H2B-RFP expression line (GH line)65RNAi#5 (-)RNAi without β-estradiolpMI-65RNAi is introduced into protonemata of GH line by particle bombardmentKnockdownNAProtonema4 daysDirect Sequencing of PCR Products70.00%HighDecreased24058147
GFP-tubulin/histone H2B-RFP expression line (GH line)65RNAi#16 (-)RNAi without β-estradiolpMI-65RNAi is introduced into protonemata of GH line by particle bombardmentKnockdownNAProtonema4 daysDirect Sequencing of PCR Products70.00%HighDecreased24058147
NAWTControlControlControlNormalNANADirect Sequencing of PCR ProductsNAHighNone23909746
NAKO_PPR_65Gene cassetteHomologous recombination is used to insert the selectable nptII marker cassette into PPR_65 upon protoplast transformationKnockoutSevere growth retardationNANADirect Sequencing of PCR Products0.00%UneditedAbsent23909746
Physcomitrium patens PP1S13_264V6 Mitochondrion ccmFc 122 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
NAWTControlControlControlNormalProtonema4 daysDirect Sequencing of PCR Products80.00%HighNone24058147
NA△65-1Gene cassetteGene cassette deletes the cognate gene by replacing the coding region with the gfp and hptKnockoutSevere growth retardation of the moss protonemataProtonema4 daysDirect Sequencing of PCR Products0.00%UneditedAbsent24058147
GFP-tubulin/histone H2B-RFP expression line (GH line)GH line (+) (control to RNAi line)With β-estradiolProtonemata are cultured for 4 d in the presence of 1 mM β-estradiolControlNAProtonema4 daysDirect Sequencing of PCR Products80.00%HighNone24058147
GFP-tubulin/histone H2B-RFP expression line (GH line)65RNAi#5 (-)RNAi without β-estradiolpMI-65RNAi is introduced into protonemata of GH line by particle bombardmentKnockdownNAProtonema4 daysDirect Sequencing of PCR Products70.00%HighDecreased24058147
GFP-tubulin/histone H2B-RFP expression line (GH line)65RNAi#16 (-)RNAi without β-estradiolpMI-65RNAi is introduced into protonemata of GH line by particle bombardmentKnockdownNAProtonema4 daysDirect Sequencing of PCR Products70.00%HighDecreased24058147
NAWTControlControlControlNormalNANADirect Sequencing of PCR Products100.00%CompleteNone23909746
NAKO_PPR_65Gene cassetteHomologous recombination is used to insert the selectable nptII marker cassette into PPR_65 upon protoplast transformationKnockoutSevere growth retardationNANADirect Sequencing of PCR Products0.00%UneditedAbsent23909746
NAKO_PPR_65Gene cassetteHomologous recombination is used to insert the selectable nptII marker cassette into PPR_65 upon protoplast transformationKnockoutSevere growth retardationNANAPoisoned Primer Extension (PPE) Assay0.00%UneditedAbsent23909746
NAKO_PPR_65Gene cassetteHomologous recombination is used to insert the selectable nptII marker cassette into PPR_65 upon protoplast transformationKnockoutSevere growth retardationNANAPoisoned Primer Extension (PPE) Assay0.00%UneditedAbsent23909746
Last update: Jul 2021 (version 1.0)