Plant Editosome Database
a curated database of RNA editosome in plants

PpPPR_78 - Plant Editosome Database - BIG Data Center
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Summary

Editing Factor: PpPPR_78
Synonym: Phypa_192620
Description: Encodes a DYW-type PPR protein responsible for mitochondrial editing.
Protein Family: PPR
Subclass: DYW
Construct Structure: PLS-E-E+-DYW, PLS-E/E+-DYW, PLS-E-DYW
Gene ID & Species: LOC112275185 (Physcomitrella patens)
Edited Gene(s): cox1    rps14
Editing Type(s): C-to-U (58)
Publication(s): [1] The L motifs of two moss pentatricopeptide repeat proteins are involved in RNA editing but predominantly not in RNA recognition, PLoS One, 2020. [PMID=32348368]
[2] A Single-Target Mitochondrial RNA Editing Factor of Funaria hygrometrica Can Fully Reconstitute RNA Editing at Two Sites in Physcomitrella patens, Plant Cell Physiology, 2017. [PMID=28394399]
[3] The PPR-DYW proteins are required for RNA editing of rps14, cox1 and nad5 transcripts in Physcomitrella patens mitochondria, FEBS Letters, 2011. [PMID=21708151]
[4] Assigning DYW-type PPR proteins to RNA editing sites in the funariid mosses Physcomitrella patens and Funaria hygrometrica, The Plant Journal, 2011. [PMID=21466601]

Editing Details

Species Gene ID Organelle Edited Gene Position Region Editing Type Codon Amino Acid Molecular Effect Experiment Details
Physcomitrella patens LOC112275185 Mitochondrion cox1 755 CDS
NA		 C-to-U UCG=>UUG
NA=>NA		 S=>L
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
Bruch & Schimp. strain Gransden 2004FhPPR_78_trunc 1ComplementationComplementation lines are introduce truncated versions of F. hygrometrica PPR_78 lacking the DYW domain into the P. patens PPR_78 KO backgroundNANAProtonemaNADirect Sequencing of PCR Products0.00%UneditedAbsent28394399
Bruch & Schimp. strain Gransden 2004FhPPR_78_trunc 2ComplementationComplementation lines are introduce truncated versions of F. hygrometrica PPR_78 lacking the DYW domain into the P. patens PPR_78 KO backgroundNANAProtonemaNADirect Sequencing of PCR Products0.00%UneditedAbsent28394399
Bruch & Schimp. strain Gransden 2004FhPPR_78-1ComplementationComplementation lines are introduce the Funaria hygrometrica PPR_78 into the P. patens KO backgroundNANAProtonemaNADirect Sequencing of PCR Products100.00%CompleteRestored28394399
Bruch & Schimp. strain Gransden 2004FhPPR_78-2ComplementationComplementation lines are introduce the Funaria hygrometrica PPR_78 into the P. patens KO backgroundNANAProtonemaNADirect Sequencing of PCR Products100.00%CompleteRestored28394399
Bruch & Schimp. strain Gransden 2004FhPPR_78-3ComplementationComplementation lines are introduce the Funaria hygrometrica PPR_78 into the P. patens KO backgroundNANAProtonemaNADirect Sequencing of PCR Products100.00%CompleteRestored28394399
Bruch & Schimp. strain Gransden 2004PPR_78 KONANAKnockoutNo discernible phenotypeProtonemaNADirect Sequencing of PCR Products0.00%UneditedAbsent28394399
Bruch & Schimp. strain Gransden 2004WTNo treatmentNo treatmentNo treatmentNo treatmentProtonemaNADirect Sequencing of PCR Products100.00%CompleteNone28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78_79_DYW 1ComplementationThe P. patens KO PPR_78 lines are complemented with PPR_78 with the DYW domain alone swapped with the one of PPR_79Showed high expression levels (a minimum of 100-fold)NAProtonemaNADirect Sequencing of PCR Products89.00%HighRestored28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78_79_DYW 2ComplementationThe P. patens KO PPR_78 lines are complemented with PPR_78 with the DYW domain alone swapped with the one of PPR_79Showed high expression levels (a minimum of 100-fold)NAProtonemaNADirect Sequencing of PCR Products100.00%CompleteRestored28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78_79_DYW 3ComplementationThe P. patens KO PPR_78 lines are complemented with PPR_78 with the DYW domain alone swapped with the one of PPR_79Showed high expression levels (a minimum of 100-fold)NAProtonemaNADirect Sequencing of PCR Products100.00%CompleteRestored28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78_79_E-DYW 1ComplementationThe P. patens KO PPR_78 lines are complemented with PPR_78 with the E-DYW domains swapped with the one of PPR_79Showed high expression levels (a minimum of 100-fold)NAProtonemaNADirect Sequencing of PCR Products100.00%CompleteRestored28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78_79_E-DYW 2ComplementationThe P. patens KO PPR_78 lines are complemented with PPR_78 with the E-DYW domains swapped with the one of PPR_79Showed high expression levels (a minimum of 100-fold)NAProtonemaNADirect Sequencing of PCR Products100.00%CompleteRestored28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78_79_E-DYW 3ComplementationThe P. patens KO PPR_78 lines are complemented with PPR_78 with the E-DYW domains swapped with the one of PPR_79Showed high expression levels (a minimum of 100-fold)NAProtonemaNADirect Sequencing of PCR Products100.00%CompleteRestored28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78_trunc 2ComplementationThe complementation lines are introduced truncated versions of P. patens PPR_78 lacking the DYW domain into the P. patens PPR_78 KO backgroundNANAProtonemaNADirect Sequencing of PCR Products2.00%PoorDecreased28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78_trunc 3ComplementationThe complementation lines are introduced truncated versions of P. patens PPR_78 lacking the DYW domain into the P. patens PPR_78 KO backgroundNANAProtonemaNADirect Sequencing of PCR Products3.00%PoorDecreased28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78_trunc 4ComplementationThe complementation lines are introduced truncated versions of P. patens PPR_78 lacking the DYW domain into the P. patens PPR_78 KO backgroundNANAProtonemaNADirect Sequencing of PCR Products4.00%PoorDecreased28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78_trunc 5ComplementationThe complementation lines are introduced truncated versions of P. patens PPR_78 lacking the DYW domain into the P. patens PPR_78 KO backgroundNANAProtonemaNADirect Sequencing of PCR Products2.00%PoorDecreased28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78-1ComplementationThe complete P. patens PPR_78 driven by the strong rice actin1 promoter is introduced into the KO_PPR_78 backgroundExpression levels of inserted genes were shown to be a minimum of 20-fold higherNAProtonemaNADirect Sequencing of PCR Products88.00%HighRestored28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78-2ComplementationThe complete P. patens PPR_78 driven by the strong rice actin1 promoter is introduced into the KO_PPR_78 backgroundExpression levels of inserted genes were shown to be a minimum of 20-fold higherNAProtonemaNADirect Sequencing of PCR Products100.00%CompleteRestored28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78-3ComplementationThe complete P. patens PPR_78 driven by the strong rice actin1 promoter is introduced into the KO_PPR_78 backgroundExpression levels of inserted genes were shown to be a minimum of 20-fold higherNAProtonemaNADirect Sequencing of PCR Products100.00%CompleteRestored28394399
NAΔ78Gene cassettehpt gene cassetteknockoutSlightly reduced growth of the protonemataProtonema3 daysDirect Sequencing of PCR Products0.00%UneditedAbsent21708151
NAWTNo treatmentNo treatmentNo treatmentNo treatmentProtonema3 daysDirect Sequencing of PCR Products100.00%CompleteNone21708151
NAPhypa_192620 KOGene cassetteDisruption of the Phypa_192620 locus by homologous recombination introducing the nptII cassetteknockoutIndistinguishable from wild-typeProtonema2-4 weeksDirect Sequencing of PCR Products0.00%UneditedAbsent21466601
NAWTNo treatmentNo treatmentNo treatmentNo treatmentProtonema2-4 weeksDirect Sequencing of PCR Products100.00%CompleteNone21466601
NA78 comp #1Complemented with PpPPR_78 (78comp) #1PpPPR_78 KO mosses complemented with PpPPR_78 (78comp)KnockoutNAProtonemata4-day-oldRT-PCR, cDNA sequencing and chromatographs were analyzed usi99.00%HighRestored32348368
NA78 comp #3Complemented with PpPPR_78 (78comp) #3PpPPR_78 KO mosses complemented with PpPPR_78 (78comp)KnockoutNAProtonemata4-day-oldRT-PCR, cDNA sequencing and chromatographs were analyzed usi96.00%HighRestored32348368
NA78-16L19L #1Complemented with 78-16L19L #1Creating the 78-16L19L variant, wherein 16L[ID] and 19L[VT] were changed to 16L[ND] and 19L[TN] for the recognition of U and A, respectively. Introducing each of them into the PpPPR_78 KO mutant (Δ78–KnockoutNAProtonemata4-day-oldRT-PCR, cDNA sequencing and chromatographs were analyzed usi87.00%HighNA32348368
NA78-16L19L #2Complemented with 78-16L19L #2Creating the 78-16L19L variant, wherein 16L[ID] and 19L[VT] were changed to 16L[ND] and 19L[TN] for the recognition of U and A, respectively. Introducing each of them into the PpPPR_78 KO mutant (Δ78–KnockoutNAProtonemata4-day-oldRT-PCR, cDNA sequencing and chromatographs were analyzed usi94.00%HighRestored32348368
NA78-16L19L #3Complemented with 78-16L19L #3Creating the 78-16L19L variant, wherein 16L[ID] and 19L[VT] were changed to 16L[ND] and 19L[TN] for the recognition of U and A, respectively. Introducing each of them into the PpPPR_78 KO mutant (Δ78–KnockoutNAProtonemata4-day-oldRT-PCR, cDNA sequencing and chromatographs were analyzed usi92.00%HighRestored32348368
Physcomitrella patens LOC112275185 Mitochondrion rps14 137 CDS
NA		 C-to-U UCG=>UUG
NA=>NA		 S=>L
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
Bruch & Schimp. strain Gransden 2004FhPPR_78_trunc 1ComplementationComplementation lines are introduce truncated versions of F. hygrometrica PPR_78 lacking the DYW domain into the P. patens PPR_78 KO backgroundNANAProtonemaNADirect Sequencing of PCR Products0.00%UneditedAbsent28394399
Bruch & Schimp. strain Gransden 2004FhPPR_78_trunc 2ComplementationComplementation lines are introduce truncated versions of F. hygrometrica PPR_78 lacking the DYW domain into the P. patens PPR_78 KO backgroundNANAProtonemaNADirect Sequencing of PCR Products0.00%UneditedAbsent28394399
Bruch & Schimp. strain Gransden 2004FhPPR_78-1ComplementationComplementation lines are introduce the Funaria hygrometrica PPR_78 into the P. patens KO backgroundNANAProtonemaNADirect Sequencing of PCR Products88.00%HighRestored28394399
Bruch & Schimp. strain Gransden 2004FhPPR_78-2ComplementationComplementation lines are introduce the Funaria hygrometrica PPR_78 into the P. patens KO backgroundNANAProtonemaNADirect Sequencing of PCR Products89.00%HighRestored28394399
Bruch & Schimp. strain Gransden 2004FhPPR_78-3ComplementationComplementation lines are introduce the Funaria hygrometrica PPR_78 into the P. patens KO backgroundNANAProtonemaNADirect Sequencing of PCR Products92.00%HighRestored28394399
Bruch & Schimp. strain Gransden 2004PPR_78 KONANAKnockoutNo discernible phenotypeProtonemaNADirect Sequencing of PCR Products0.00%UneditedAbsent28394399
Bruch & Schimp. strain Gransden 2004WTNo treatmentNo treatmentNo treatmentNo treatmentProtonemaNADirect Sequencing of PCR Products75%HighNone28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78_79_DYW 1ComplementationThe P. patens KO PPR_78 lines are complemented with PPR_78 with the DYW domain alone swapped with the one of PPR_79Showed high expression levels (a minimum of 100-fold)NAProtonemaNADirect Sequencing of PCR Products79.00%HighDecreased28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78_79_DYW 2ComplementationThe P. patens KO PPR_78 lines are complemented with PPR_78 with the DYW domain alone swapped with the one of PPR_79Showed high expression levels (a minimum of 100-fold)NAProtonemaNADirect Sequencing of PCR Products83.00%HighDecreased28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78_79_DYW 3ComplementationThe P. patens KO PPR_78 lines are complemented with PPR_78 with the DYW domain alone swapped with the one of PPR_79Showed high expression levels (a minimum of 100-fold)NAProtonemaNADirect Sequencing of PCR Products70.00%HighDecreased28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78_79_E-DYW 1ComplementationThe P. patens KO PPR_78 lines are complemented with PPR_78 with the E-DYW domains swapped with the one of PPR_79Showed high expression levels (a minimum of 100-fold)NAProtonemaNADirect Sequencing of PCR Products62.00%HighDecreased28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78_79_E-DYW 2ComplementationThe P. patens KO PPR_78 lines are complemented with PPR_78 with the E-DYW domains swapped with the one of PPR_79Showed high expression levels (a minimum of 100-fold)NAProtonemaNADirect Sequencing of PCR Products63.00%HighDecreased28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78_79_E-DYW 3ComplementationThe P. patens KO PPR_78 lines are complemented with PPR_78 with the E-DYW domains swapped with the one of PPR_79Showed high expression levels (a minimum of 100-fold)NAProtonemaNADirect Sequencing of PCR Products26.00%LowDecreased28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78_trunc 2ComplementationThe complementation lines are introduced truncated versions of P. patens PPR_78 lacking the DYW domain into the P. patens PPR_78 KO backgroundNANAProtonemaNADirect Sequencing of PCR Products0.00%UneditedAbsent28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78_trunc 3ComplementationThe complementation lines are introduced truncated versions of P. patens PPR_78 lacking the DYW domain into the P. patens PPR_78 KO backgroundNANAProtonemaNADirect Sequencing of PCR Products0.00%UneditedAbsent28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78_trunc 4ComplementationThe complementation lines are introduced truncated versions of P. patens PPR_78 lacking the DYW domain into the P. patens PPR_78 KO backgroundNANAProtonemaNADirect Sequencing of PCR Products0.00%UneditedAbsent28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78_trunc 5ComplementationThe complementation lines are introduced truncated versions of P. patens PPR_78 lacking the DYW domain into the P. patens PPR_78 KO backgroundNANAProtonemaNADirect Sequencing of PCR Products0.00%UneditedAbsent28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78-1ComplementationThe complete P. patens PPR_78 driven by the strong rice actin1 promoter is introduced into the KO_PPR_78 backgroundExpression levels of inserted genes were shown to be a minimum of 20-fold higherNAProtonemaNADirect Sequencing of PCR Products88.00%HighRestored28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78-2ComplementationThe complete P. patens PPR_78 driven by the strong rice actin1 promoter is introduced into the KO_PPR_78 backgroundExpression levels of inserted genes were shown to be a minimum of 20-fold higherNAProtonemaNADirect Sequencing of PCR Products86.00%HighRestored28394399
Bruch & Schimp. strain Gransden 2004PpPPR_78-3ComplementationThe complete P. patens PPR_78 driven by the strong rice actin1 promoter is introduced into the KO_PPR_78 backgroundExpression levels of inserted genes were shown to be a minimum of 20-fold higherNAProtonemaNADirect Sequencing of PCR Products85.00%HighRestored28394399
NAΔ78Gene cassettehpt gene cassetteknockoutSlightly reduced growth of the protonemataProtonema3 daysDirect Sequencing of PCR Products0.00%UneditedAbsent21708151
NAWTNo treatmentNo treatmentNo treatmentNo treatmentProtonema3 daysDirect Sequencing of PCR ProductsNAHighNone21708151
NAPhypa_192620 KOGene cassetteDisruption of the Phypa_192620 locus by homologous recombination introducing the nptII cassetteknockoutIndistinguishable from wild-typeProtonema2-4 weeksDirect Sequencing of PCR Products0.00%UneditedAbsent21466601
NAWTNo treatmentNo treatmentNo treatmentNo treatmentProtonema2-4 weeksDirect Sequencing of PCR ProductsNAHighNone21466601
NA78 comp #1Complemented with PpPPR_78 (78comp) #1PpPPR_78 KO mosses complemented with PpPPR_78 (78comp)KnockoutNAProtonemata4-day-oldRT-PCR, cDNA sequencing and chromatographs were analyzed usi94.00%HighRestored32348368
NA78 comp #3Complemented with PpPPR_78 (78comp) #3PpPPR_78 KO mosses complemented with PpPPR_78 (78comp)KnockoutNAProtonemata4-day-oldRT-PCR, cDNA sequencing and chromatographs were analyzed usi88.00%HighNA32348368
NA78-16L19L #1Complemented with 78-16L19L #1Creating the 78-16L19L variant, wherein 16L[ID] and 19L[VT] were changed to 16L[ND] and 19L[TN] for the recognition of U and A, respectively. Introducing each of them into the PpPPR_78 KO mutant (Δ78–KnockoutNAProtonemata4-day-oldRT-PCR, cDNA sequencing and chromatographs were analyzed usi18.00%PoorDecreased32348368
NA78-16L19L #2Complemented with 78-16L19L #2Creating the 78-16L19L variant, wherein 16L[ID] and 19L[VT] were changed to 16L[ND] and 19L[TN] for the recognition of U and A, respectively. Introducing each of them into the PpPPR_78 KO mutant (Δ78–KnockoutNAProtonemata4-day-oldRT-PCR, cDNA sequencing and chromatographs were analyzed usi34.00%LowDecreased32348368
NA78-16L19L #3Complemented with 78-16L19L #3Creating the 78-16L19L variant, wherein 16L[ID] and 19L[VT] were changed to 16L[ND] and 19L[TN] for the recognition of U and A, respectively. Introducing each of them into the PpPPR_78 KO mutant (Δ78–KnockoutNAProtonemata4-day-oldRT-PCR, cDNA sequencing and chromatographs were analyzed usi29.00%LowDecreased32348368
Last update: Jul 2021 (version 1.0)