MEF11 - Plant Editosome Database - BIG Data Center

Summary

Editing Factor: MEF11
Synonym: LOI1, LOVASTATIN INSENSITIVE 1, MEF11, MITOCHONDRIAL RNA EDITING FACTOR 11
Description: Encodes a pentatricopeptide (PPR) protein that binds single-stranded RNA, the N-terminal portion of the protein can localize to the mitochondria. Mutations in this gene make plants less sensitive to inhibitors of the MEP and MVA pathways of isoprenoid biosynthesis and increase the activity of HMG CoA reductase.
Protein Family: PPR
Subclass: DYW
Construct Structure: PLS-E-DYW, PLS-E like-DYW
Gene ID & Species: AT4G14850 (Arabidopsis thaliana)
Edited Gene(s): nad4    ccmFN2    cox3    matR    ccmC    ccmFc
Editing Type(s): C-to-U (70)
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] The ABA-Deficiency Suppressor Locus HAS2 Encodes the PPR Protein LOI1/MEF11 Involved in Mitochondrial RNA Editing, Molecular Plant, 2015. [PMID=25708384]
[4] Improved computational target site prediction for pentatricopeptide repeat RNA editing factors, PLoS One, 2013. [PMID=23762347]
[5] A truncated MEF11 protein shows site-specific effects on mitochondrial RNA editing, Plant Signaling & Behavior, 2010. [PMID=20436293]
[6] The mitochondrial PPR protein LOVASTATIN INSENSITIVE 1 plays regulatory roles in cytosolic and plastidial isoprenoid biosynthesis through RNA editing, The Plant Journal, 2010. [PMID=19929879]
[7] The PPR protein encoded by the LOVASTATIN INSENSITIVE 1 gene is involved in RNA editing at three sites in mitochondria of Arabidopsis thaliana, The Plant Journal, 2010. [PMID=19919573]

Editing Details

Species Gene ID Organelle Edited Gene Position Region Editing Type Codon Amino Acid Molecular Effect Experiment Details
Arabidopsis thaliana AT4G14850 Mitochondrion ccmC 568 CDS 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
Col-0WTNo treatmentNo treatmentNo treatmentNANANAPCR products were purified by alkaline phosphatase and ExoI100.00%CompleteNone23762347
Col-0mef11-1Treated with EMSNAKnockoutNANANAPCR products were purified by alkaline phosphatase and ExoI18.18%PoorDecreased23762347
Col-0WTNo treatmentNo treatmentNo treatmentNANANARNA-seq96.47%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 (BlueTract99.00%HighSimilar28761003
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 (BlueTract97.00%HighSimilar28761003
Arabidopsis thaliana AT4G14850 Mitochondrion ccmFc 378 CDS C-to-U NA=>NA NA=>NA Synonymous
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 treatmentNANANAPCR products were purified by alkaline phosphatase and ExoI50.00%MediumNone23762347
Col-0mef11-1Treated with EMSNAKnockoutNANANAPCR products were purified by alkaline phosphatase and ExoI0.00%UneditedAbsent23762347
Arabidopsis thaliana AT4G14850 Mitochondrion ccmFN2 344 CDS C-to-U CCA=>CUA
NA=>NA
P=>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
Col-0Loi1Promotor::Loi1/loi1-1Complementationloi1-1 is complemented by the introduction of the gene cassette of the LOI1 promoter::LOI1 geneNANASeedling2 weeksDirect Sequencing of PCR ProductsNAHighRestored19929879
Col-0loi1-1T-DNA InsertionT-DNA is inserted at site 542bpNALower sensitivity to lovastatin and clomazoneSeedling2 weeksDirect Sequencing of PCR Products0.00%UneditedAbsent19929879
Col-0WTNo treatmentNo treatmentNo treatmentNo treatmentSeedling2 weeksDirect Sequencing of PCR Products100.00%CompleteNone19929879
NAmef11-1Point MutationThe single amino acid is exchanged in the second PPR repeatNANANANADirect Sequencing of PCR Products0.00%UneditedAbsent20436293
Salk_131734mef11-2T-DNA InsertionT-DNA is inserted in the DYW-domainProcessing of the transcripts does not seem to be affectedNANANADirect Sequencing of PCR Products60.00%HighDecreased20436293
Colmef11-1EMS MutantThe EMS mutant causes a single amino acid alteration of Leu to Pheat residue 48 in the second PPR repeathomozygousThe mef11-1 mutant shows slightly increased tolerance against lovastatin. In the presence of lovastatin, root elongation was inhibited more profoundly in the wild-type plants than in the mutant plants.NANADirect Sequencing of PCR Products0.00%UneditedAbsent19919573
SALK_131734mef11-2T-DNA InsertionhomozygousNANormal growth under standard greenhouse conditionsNANADirect Sequencing of PCR Products60.00%MediumDecreased19919573
ColMEF11ComplementationThe wild-type Col MEF11 gene is cloned under the control of the CaMV 35S promoter, and the plasmid DNA was transfected into mef11-1 mutant protoplastsNANAProtoplastNADirect Sequencing of PCR ProductsNALowDecreased19919573
Colmef11-3The mutant sequences selected mef11-3 were transfected into mef11-1 protoplastsGene variant mef11-3 contains a single mutation in the fourth PPR repeat, which changes amino acid 125 from Val to ThrNANAProtoplastNADirect Sequencing of PCR ProductsNAMediumDecreased19919573
Colmef11-4The mutant sequences selecte mef11-4 were transfected into mef11-1 protoplastsThe mef11-4 gene variant with single nucleotide variations in PPR repeats 8 and 12 and in the E-like domainNANAProtoplastNADirect Sequencing of PCR ProductsNAMediumDecreased19919573
NAmef11-2T-DNA InsertionT-DNA is located in the DYW domainNAExhibited a wild-type phenotypeSeedlingNADirect Sequencing of PCR ProductsNAMediumDecreased25708384
SALK_061056mef11-5T-DNA InsertionT-DNA is inserted in the first exonNAHot leaf phenotype similar to mef11-6SeedlingNADirect Sequencing of PCR Products0.00%UneditedAbsent25708384
Col-0mef11-6Γ-Irradiation Induced MutantThree consecutive mutations (a G to C substitution, a 4-nucleotide deletion, and a 2-nucleotide insertion), which introduced a premature stop codon in the coding sequenceNAmef11 plants are more resistant to progressive water stress and seed germination is more sensitive to paclobutrazolSeedlingNADirect Sequencing of PCR Products0.00%UneditedAbsent25708384
NAWTNo treatmentNo treatmentNo treatmentNo treatmentSeedlingNADirect Sequencing of PCR ProductsNAMediumNone25708384
Col-0WTNo treatmentNo treatmentNo treatmentNANANARNA-seq93.41%HighNone32098170
Col-0WTNo treatmentNo treatmentNo treatmentNormalRosette leafNART-PCR and calculated with the DNADynamo software (BlueTract98.00%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 (BlueTract97.00%HighSimilar28761003
Arabidopsis thaliana AT4G14850 Mitochondrion cox3 422 CDS C-to-U CCU=>CUU
NA=>NA
P=>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
Col-0Loi1Promotor::Loi1/loi1-1Complementationloi1-1 is complemented by the introduction of the gene cassette of the LOI1 promoter::LOI1 geneNANASeedling2 weeksDirect Sequencing of PCR Products100.00%CompleteRestored19929879
Col-0loi1-1T-DNA InsertionT-DNA is inserted at site 542bpNALower sensitivity to lovastatin and clomazoneSeedling2 weeksDirect Sequencing of PCR Products0.00%UneditedAbsent19929879
Col-0WTNo treatmentNo treatmentNo treatmentNo treatmentSeedling2 weeksDirect Sequencing of PCR Products100.00%CompleteNone19929879
NAmef11-1Point MutationThe single amino acid is exchanged in the second PPR repeatNANANANADirect Sequencing of PCR Products0.00%UneditedAbsent20436293
Salk_131734mef11-2T-DNA InsertionT-DNA is inserted in the DYW-domainProcessing of the transcripts does not seem to be affectedNANANADirect Sequencing of PCR Products0.00%UneditedAbsent20436293
Colmef11-1EMS MutantThe EMS mutant causes a single amino acid alteration of Leu to Pheat residue 48 in the second PPR repeathomozygousThe mef11-1 mutant shows slightly increased tolerance against lovastatin. In the presence of lovastatin, root elongation was inhibited more profoundly in the wild-type plants than in the mutant plants.NANAmultiplexed SNaPshot approach0.00%UneditedAbsent19919573
SALK_131734mef11-2T-DNA InsertionhomozygousNANormal growth under standard greenhouse conditionsNANAmultiplexed SNaPshot approach0.00%UneditedAbsent19919573
ColWTNo treatmentNo treatmentNo treatmentNo treatmentNANAmultiplexed SNaPshot approach100.00%CompleteNone19919573
ColMEF11ComplementationThe wild-type Col MEF11 gene is cloned under the control of the CaMV 35S promoter, and the plasmid DNA was transfected into mef11-1 mutant protoplastsNANAProtoplastNADirect Sequencing of PCR Products50.00%MediumDecreased19919573
Colmef11-3The mutant sequences selected mef11-3 were transfected into mef11-1 protoplastsGene variant mef11-3 contains a single mutation in the fourth PPR repeat, which changes amino acid 125 from Val to ThrNANAProtoplastNADirect Sequencing of PCR Products50.00%MediumDecreased19919573
Colmef11-4The mutant sequences selecte mef11-4 were transfected into mef11-1 protoplastsThe mef11-4 gene variant with single nucleotide variations in PPR repeats 8 and 12 and in the E-like domainNANAProtoplastNADirect Sequencing of PCR Products50.00%MediumDecreased19919573
NAmef11-2T-DNA InsertionT-DNA is located in the DYW domainNAExhibited a wild-type phenotypeSeedlingNADirect Sequencing of PCR Products0.00%UneditedAbsent25708384
SALK_061056mef11-5T-DNA InsertionT-DNA is inserted in the first exonNAHot leaf phenotype similar to mef11-6SeedlingNADirect Sequencing of PCR Products0.00%UneditedAbsent25708384
Col-0mef11-6Γ-Irradiation Induced MutantThree consecutive mutations (a G to C substitution, a 4-nucleotide deletion, and a 2-nucleotide insertion), which introduced a premature stop codon in the coding sequenceNAmef11 plants are more resistant to progressive water stress and seed germination is more sensitive to paclobutrazolSeedlingNADirect Sequencing of PCR Products0.00%UneditedAbsent25708384
NAWTNo treatmentNo treatmentNo treatmentNo treatmentSeedlingNADirect Sequencing of PCR Products100.00%CompleteNone25708384
Col-0WTNo treatmentNo treatmentNo treatmentNANANARNA-seq97.85%HighNone32098170
Col-0WTNo treatmentNo treatmentNo treatmentNormalRosette leafNART-PCR and calculated with the DNADynamo software (BlueTract100.00%CompleteNone28761003
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 AT4G14850 Mitochondrion matR 1730 CDS 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
Col-0WTNo treatmentNo treatmentNo treatmentNANANAPCR products were purified by alkaline phosphatase and ExoI100.00%CompleteNone23762347
Col-0mef11-1Treated with EMSNAKnockoutNANANAPCR products were purified by alkaline phosphatase and ExoI0.00%UneditedAbsent23762347
Col-0WTNo treatmentNo treatmentNo treatmentNANANARNA-seq91.62%HighNone32098170
Col-0WTNo treatmentNo treatmentNo treatmentNormalRosette leafNART-PCR and calculated with the DNADynamo software (BlueTract87.00%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 (BlueTract96.00%HighSimilar28761003
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 (BlueTract74.00%HighDecreased28761003
Arabidopsis thaliana AT4G14850 Mitochondrion nad4 124 CDS C-to-U CUG=>UUG
NA=>NA
L=>L
NA=>NA
Synonymous
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-0Loi1Promotor::Loi1/loi1-1Complementationloi1-1 is complemented by the introduction of the gene cassette of the LOI1 promoter::LOI1 geneNANASeedling2 weeksDirect Sequencing of PCR Products100.00%CompleteRestored19929879
Col-0loi1-1T-DNA InsertionT-DNA is inserted at site 542bpNALower sensitivity to lovastatin and clomazoneSeedling2 weeksDirect Sequencing of PCR Products0.00%UneditedAbsent19929879
Col-0WTNo treatmentNo treatmentNo treatmentNo treatmentSeedling2 weeksDirect Sequencing of PCR Products100.00%CompleteNone19929879
NAmef11-1Point MutationThe single amino acid is exchanged in the second PPR repeatNANANANADirect Sequencing of PCR Products0.00%UneditedAbsent20436293
Salk_131734mef11-2T-DNA InsertionT-DNA is inserted in the DYW-domainProcessing of the transcripts does not seem to be affectedNANANADirect Sequencing of PCR Products0.00%UneditedAbsent20436293
Colmef11-1EMS MutantThe EMS mutant causes a single amino acid alteration of Leu to Pheat residue 48 in the second PPR repeathomozygousThe mef11-1 mutant shows slightly increased tolerance against lovastatin. In the presence of lovastatin, root elongation was inhibited more profoundly in the wild-type plants than in the mutant plants.NANAmultiplexed SNaPshot approach0.00%UneditedAbsent19919573
SALK_131734mef11-2T-DNA InsertionhomozygousNANormal growth under standard greenhouse conditionsNANAmultiplexed SNaPshot approachNAPoorDecreased19919573
ColWTNo treatmentNo treatmentNo treatmentNo treatmentNANAmultiplexed SNaPshot approach100.00%CompleteNone19919573
ColMEF11ComplementationThe wild-type Col MEF11 gene is cloned under the control of the CaMV 35S promoter, and the plasmid DNA was transfected into mef11-1 mutant protoplastsNANAProtoplastNADirect Sequencing of PCR Products50.00%MediumDecreased19919573
Colmef11-3The mutant sequences selected mef11-3 were transfected into mef11-1 protoplastsGene variant mef11-3 contains a single mutation in the fourth PPR repeat, which changes amino acid 125 from Val to ThrNANAProtoplastNADirect Sequencing of PCR Products50.00%MediumDecreased19919573
Colmef11-4The mutant sequences selecte mef11-4 were transfected into mef11-1 protoplastsThe mef11-4 gene variant with single nucleotide variations in PPR repeats 8 and 12 and in the E-like domainNANAProtoplastNADirect Sequencing of PCR Products50.00%MediumDecreased19919573
NAmef11-2T-DNA InsertionT-DNA is located in the DYW domainNAExhibited a wild-type phenotypeSeedlingNADirect Sequencing of PCR Products0.00%UneditedAbsent25708384
SALK_061056mef11-5T-DNA InsertionT-DNA is inserted in the first exonNAHot leaf phenotype similar to mef11-6SeedlingNADirect Sequencing of PCR Products0.00%UneditedAbsent25708384
Col-0mef11-6Γ-Irradiation Induced MutantThree consecutive mutations (a G to C substitution, a 4-nucleotide deletion, and a 2-nucleotide insertion), which introduced a premature stop codon in the coding sequenceNAmef11 plants are more resistant to progressive water stress and seed germination is more sensitive to paclobutrazolSeedlingNADirect Sequencing of PCR Products0.00%UneditedAbsent25708384
NAWTNo treatmentNo treatmentNo treatmentNo treatmentSeedlingNADirect Sequencing of PCR ProductsNALowNone25708384
Col-0WTNo treatmentNo treatmentNo treatmentNANANARNA-seq98.94%HighNone32098170
Col-0WTNo treatmentNo treatmentNo treatmentNormalRosette leafNART-PCR and calculated with the DNADynamo software (BlueTract100.00%CompleteNone28761003
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 (BlueTract99.00%HighSimilar28761003
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
Last update: Jul 2021 (version 1.0)