EMP9 - Plant Editosome Database - BIG Data Center

Summary

Editing Factor: EMP9
Synonym: AtEMP9, GROWING SLOWLY 1, GRS1
Description: Encodes a protein required for mitochondrial editing, mitochondrial complex biogenesis and seed development.
Protein Family: PPR
Subclass: E+
Construct Structure: PLS-E1/E2-E+
Gene ID & Species: AT4G32430 (Arabidopsis thaliana)
AC212684.3_FG012 (Zea mays subsp. mays)
Edited Gene(s): rps4    ccmB    nad1    nad4L    nad6
Editing Type(s): C-to-U (36)
Publication(s): [1] The pentatricopeptide repeat protein EMP9 is required for mitochondrial ccmB and rps4 transcript editing, mitochondrial complex biogenesis and seed development in maize, New Phytologist, 2017. [PMID=28121385]
[2] Growing Slowly 1 locus encodes a PLS-type PPR protein required for RNA editing and plant development in Arabidopsis, Journal of Experimental Botany, 2016. [PMID=27670716]

Editing Details

Species Gene ID Organelle Edited Gene Position Region Editing Type Codon Amino Acid Molecular Effect Experiment Details
Arabidopsis thaliana AT4G32430 Mitochondrion nad1 265 CDS C-to-U CGG=>UGG R=>W Recoding
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
NAgrs1-1T-DNA InsertionT-DNA is located at 1325 bp downstream of the ATG start codonKnockoutgrs1-1 homozygotes are either lethal or exhibited growth retardation; cell division activity is reduced dramatically in the roots of grs1 plantsSeedling20 daysDirect Sequencing of PCR Products0.00%UneditedAbsent27670716
NAgrs1-2T-DNA InsertionT-DNA is inserted at 850 bp downstream of the ATG start codonKnockoutHomozygous grs1-2 plants are found to phenocopy grs1-1 homozygous plantsSeedling20 daysDirect Sequencing of PCR Products0.00%UneditedNone27670716
qrt 1WTNo treatmentNo treatmentNo treatmentNo treatmentSeedling20 daysDirect Sequencing of PCR Products100.00%CompleteNone27670716
NAgrs1-1 complemented linesComplementationGenomic complemented linesHomozygousNo obvious differences compared to the wild-typeSeedling20 daysDirect Sequencing of PCR Products100.00%CompleteRestored27670716
Arabidopsis thaliana AT4G32430 Mitochondrion nad4L 55 CDS C-to-U CGG=>UGG R=>W Recoding
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
NAgrs1-1T-DNA InsertionT-DNA is located at 1325 bp downstream of the ATG start codonKnockoutgrs1-1 homozygotes are either lethal or exhibited growth retardation; cell division activity is reduced dramatically in the roots of grs1 plantsSeedling20 daysDirect Sequencing of PCR Products0.00%UneditedAbsent27670716
NAgrs1-2T-DNA InsertionT-DNA is inserted at 850 bp downstream of the ATG start codonKnockoutHomozygous grs1-2 plants are found to phenocopy grs1-1 homozygous plantsSeedling20 daysDirect Sequencing of PCR Products0.00%UneditedNone27670716
qrt 1WTNo treatmentNo treatmentNo treatmentNo treatmentSeedling20 daysDirect Sequencing of PCR Products100.00%CompleteNone27670716
NAgrs1-1 complemented linesComplementationGenomic complemented linesHomozygousNo obvious differences compared to the wild-typeSeedling20 daysDirect Sequencing of PCR Products100.00%CompleteRestored27670716
Arabidopsis thaliana AT4G32430 Mitochondrion nad6 103 CDS C-to-U CGC=>UGC R=>C Recoding
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
NAgrs1-1T-DNA InsertionT-DNA is located at 1325 bp downstream of the ATG start codonKnockoutgrs1-1 homozygotes are either lethal or exhibited growth retardation; cell division activity is reduced dramatically in the roots of grs1 plantsSeedling20 daysDirect Sequencing of PCR Products0.00%UneditedAbsent27670716
NAgrs1-2T-DNA InsertionT-DNA is inserted at 850 bp downstream of the ATG start codonKnockoutHomozygous grs1-2 plants are found to phenocopy grs1-1 homozygous plantsSeedling20 daysDirect Sequencing of PCR Products0.00%UneditedNone27670716
qrt 1WTNo treatmentNo treatmentNo treatmentNo treatmentSeedling20 daysDirect Sequencing of PCR Products100.00%CompleteNone27670716
NAgrs1-1 complemented linesComplementationGenomic complemented linesHomozygousNo obvious differences compared to the wild-typeSeedling20 daysDirect Sequencing of PCR Products100.00%CompleteRestored27670716
Arabidopsis thaliana AT4G32430 Mitochondrion rps4 377 CDS C-to-U CCG=>CUG P=>L Recoding
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
CS428796atemp9T-DNA InsertionNAKnockoutSeed and seedling lethalNANADirect Sequencing of PCR Products0.00%UneditedAbsent28121385
CS428796atemp9:atemp9 AtEmp9-FL-OX-1 (FL, full-length; OX, overexpression)ComplementationThe atemp9 mutants are complemented with the full-length AtEMP9 coding region under the control of CaMV 35 promoterNASeedling growth is restored to the WT levelNANADirect Sequencing of PCR Products100.00%CompleteRestored28121385
CS428796atemp9:atemp9 ZmEmp9-FL-OX-1 (FL, full-length; OX, overexpression)ComplementationThe full-length EMP9 coding region is expressed in the atemp9 plants under the control of the CaMV 35S promoterNAGrow wellNANADirect Sequencing of PCR Products30.00%LowRestored28121385
Col-0WTNo treatmentNo treatmentNo treatmentNo treatmentNANADirect Sequencing of PCR Products100.00%CompleteNone28121385
NAgrs1-1T-DNA InsertionT-DNA is located at 1325 bp downstream of the ATG start codonKnockoutgrs1-1 homozygotes are either lethal or exhibited growth retardation; cell division activity is reduced dramatically in the roots of grs1 plantsSeedling20 daysDirect Sequencing of PCR Products0.00%UneditedAbsent27670716
NAgrs1-2T-DNA InsertionT-DNA is inserted at 850 bp downstream of the ATG start codonKnockoutHomozygous grs1-2 plants are found to phenocopy grs1-1 homozygous plantsSeedling20 daysDirect Sequencing of PCR Products0.00%UneditedNone27670716
qrt 1WTNo treatmentNo treatmentNo treatmentNo treatmentSeedling20 daysDirect Sequencing of PCR Products100.00%CompleteNone27670716
NAgrs1-1 complemented linesComplementationGenomic complemented linesHomozygousNo obvious differences compared to the wild-typeSeedling20 daysDirect Sequencing of PCR Products100.00%CompleteRestored27670716
Zea mays subsp. mays AC212684.3_FG012 Mitochondrion ccmB 43 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
W22emp9-1Mu InsertionMu is inserted in the middle of the PPR repeatsRecessive mutation; Heterozygous; Null allelesArrested in embryogenesis and endosperm development; The mutant kernels are white, small and defectiveKernelNADirect Sequencing of PCR Products0.00%UneditedAbsent28121385
NAemp9-2Mu InsertionMu is inserted in the E domain (at +2074 bp)Null allelesSevere emp phenotypeKernelNADirect Sequencing of PCR Products0.00%UneditedAbsent28121385
NAemp9-3Mu InsertionMu is inserted in the putative N-terminal signal peptide (sp) region (at +19 bp)NASlow growth (Slo) phenotypeKernel9 DAPDirect Sequencing of PCR Products25.00%LowDecreased28121385
NAemp9-3Mu InsertionMu is inserted in the putative N-terminal signal peptide (sp) region (at +19 bp)NASlow growth (Slo) phenotypeKernel11 DAPDirect Sequencing of PCR Products25.00%LowDecreased28121385
NAemp9-3Mu InsertionMu is inserted in the putative N-terminal signal peptide (sp) region (at +19 bp)NASlow growth (Slo) phenotypeKernel14 DAPDirect Sequencing of PCR Products25.00%LowDecreased28121385
NAemp9-3Mu InsertionMu is inserted in the putative N-terminal signal peptide (sp) region (at +19 bp)NASlow growth (Slo) phenotypeLeafNADirect Sequencing of PCR Products25.00%LowDecreased28121385
NAemp9-4Mu InsertionMu is inserted in the E+ domain (at +2190 bp)NANo visible seed and seedling phenotypesKernelNADirect Sequencing of PCR Products75.00%HighDecreased28121385
NACol-0No treatmentNo treatmentNo treatmentNo treatmentKernelNADirect Sequencing of PCR Products90.00%HighNone28121385
Zea mays subsp. mays AC212684.3_FG012 Mitochondrion rps4 335 CDS C-to-U CCG=>CUG P=>L Recoding
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
NAemp9-1Mu InsertionMu is inserted in the middle of the PPR repeatsRecessive mutation; Heterozygous; Null allelesArrested in embryogenesis and endosperm development; The mutant kernels are white, small and defectiveKernelNADirect Sequencing of PCR Products0.00%UneditedAbsent28121385
NAemp9-2Mu InsertionMu is inserted in the E domain (at +2074 bp)Null allelesSevere emp phenotypeKernelNADirect Sequencing of PCR Products0.00%UneditedAbsent28121385
NAemp9-3Mu InsertionMu is inserted in the putative N-terminal signal peptide (sp) region (at +19 bp)NASlow growth (Slo) phenotypeKernel9 DAPDirect Sequencing of PCR Products20.00%LowDecreased28121385
NAemp9-3Mu InsertionMu is inserted in the putative N-terminal signal peptide (sp) region (at +19 bp)NASlow growth (Slo) phenotypeKernel11 DAPDirect Sequencing of PCR Products20.00%LowDecreased28121385
NAemp9-3Mu InsertionMu is inserted in the putative N-terminal signal peptide (sp) region (at +19 bp)NASlow growth (Slo) phenotypeKernel14 DAPDirect Sequencing of PCR Products20.00%LowDecreased28121385
NAemp9-3Mu InsertionMu is inserted in the putative N-terminal signal peptide (sp) region (at +19 bp)NASlow growth (Slo) phenotypeLeafNADirect Sequencing of PCR Products20.00%LowDecreased28121385
NAemp9-4Mu InsertionMu is inserted in the E+ domain (at +2190 bp)NANo visible seed and seedling phenotypesKernelNADirect Sequencing of PCR Products75.00%HighDecreased28121385
NACol-0No treatmentNo treatmentNo treatmentNo treatmentKernelNADirect Sequencing of PCR Products90.00%HighNone28121385
Last update: Jul 2021 (version 1.0)