EMP9 - Plant Editosome Database

Summary

Editing Factor:	EMP9
Synonym:	Empty Pericarp 9; GROWING SLOWLY 1; GRS1
Description:	Deletions of two N-terminal PPR motifs and partial E+ domain do not eliminate the editing function of EMP9; Loss of EMP9 function abolishes the C-to-U editing of ccmB-43 and rps4-335 sites in mitochondria; The loss of editing at ccmB-43 and rps4-335 affects the maturation of cytochrome c and impairs the biogenesis of mitochondrial respiratory complexes, particularly complex III
Protein Family:	Pentatricopeptide repeat (PPR) protein
Subclass:	E+
Physical Interaction:	NA
Construct Structure:	PLS-E1-E2-E+
Gene ID & Species:	AT4G32430 (Arabidopsis thaliana) AC212684.3_FG012 (Zea mays)
Edited Gene(s):	rps4 ccmB
Editing Type(s):	C-to-U (20)
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. [doi:10.1111/nph.14424]

Editing Details

Species

Gene ID

Organelle

Edited Gene

Position

Region

Nuclear Genome

Organelle Genome

Other Region

Other Position

Editing Type

Codon

Amino Acid

Molecular Effect

Experiment Details

Arabidopsis thaliana

AT4G32430

Mitochondrion

rps4

377

CDS

W22

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
CS428796	atemp9	T-DNA Insertion	NA	Knockout	Seed and seedling lethal	NA	NA	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	28121385
CS428796	atemp9:atemp9 AtEmp9-FL-OX-1 (FL, full-length; OX, overexpression)	Complementation	The atemp9 mutants are complemented with the full-length AtEMP9 coding region under the control of CaMV 35 promoter	NA	Seedling growth is restored to the WT level	NA	NA	Direct Sequencing of PCR Products	100.00%	Complete	Restored	28121385
CS428796	atemp9:atemp9 ZmEmp9-FL-OX-1 (FL, full-length; OX, overexpression)	Complementation	The full-length EMP9 coding region is expressed in the atemp9 plants under the control of the CaMV 35S promoter	NA	Grow well	NA	NA	Direct Sequencing of PCR Products	30.00%	Low	Restored	28121385
Col-0	WT	Control	Control	No mutant	Normal	NA	NA	Direct Sequencing of PCR Products	100.00%	Complete	None	28121385

Zea mays

AC212684.3_FG012

Mitochondrion

ccmB

CDS

W22

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
W22	emp9-1	Mu Insertion	Mu is inserted in the middle of the PPR repeats	Recessive; Heterozygous	Arrested in embryogenesis and endosperm development; The mutant kernels are white, small and defective	Kernel	NA	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	28121385
NA	emp9-2	Mu Insertion	Mu is inserted in the E domain (at +2074 bp)	Heterozygous	Severe emp phenotype	Kernel	NA	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	28121385
NA	emp9-3	Mu Insertion	Mu is inserted in the putative N-terminal signal peptide (sp) region (at +19 bp)	NA	Slow growth (Slo) phenotype	Kernel	9 DAP	Direct Sequencing of PCR Products	25.00%	Low	Decreased	28121385
NA	emp9-3	Mu Insertion	Mu is inserted in the putative N-terminal signal peptide (sp) region (at +19 bp)	NA	Slow growth (Slo) phenotype	Kernel	11 DAP	Direct Sequencing of PCR Products	25.00%	Low	Decreased	28121385
NA	emp9-3	Mu Insertion	Mu is inserted in the putative N-terminal signal peptide (sp) region (at +19 bp)	NA	Slow growth (Slo) phenotype	Kernel	14 DAP	Direct Sequencing of PCR Products	25.00%	Low	Decreased	28121385
NA	emp9-3	Mu Insertion	Mu is inserted in the putative N-terminal signal peptide (sp) region (at +19 bp)	NA	Slow growth (Slo) phenotype	Leaf	NA	Direct Sequencing of PCR Products	25.00%	Low	Decreased	28121385
NA	emp9-4	Mu Insertion	Mu is inserted in the E+ domain (at +2190 bp)	NA	No visible seed and seedling phenotypes	Kernel	NA	Direct Sequencing of PCR Products	75.00%	High	Decreased	28121385
NA	Col-0	Control	Control	No mutant	Normal	Kernel	NA	Direct Sequencing of PCR Products	90.00%	High	None	28121385

Zea mays

AC212684.3_FG012

Mitochondrion

rps4

335

CDS

W22

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
NA	emp9-1	Mu Insertion	Mu is inserted in the middle of the PPR repeats	Recessive; Heterozygous	Arrested in embryogenesis and endosperm development; The mutant kernels are white, small and defective	Kernel	NA	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	28121385
NA	emp9-2	Mu Insertion	Mu is inserted in the E domain (at +2074 bp)	Heterozygous	Severe emp phenotype	Kernel	NA	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	28121385
NA	emp9-3	Mu Insertion	Mu is inserted in the putative N-terminal signal peptide (sp) region (at +19 bp)	NA	Slow growth (Slo) phenotype	Kernel	9 DAP	Direct Sequencing of PCR Products	20.00%	Low	Decreased	28121385
NA	emp9-3	Mu Insertion	Mu is inserted in the putative N-terminal signal peptide (sp) region (at +19 bp)	NA	Slow growth (Slo) phenotype	Kernel	11 DAP	Direct Sequencing of PCR Products	20.00%	Low	Decreased	28121385
NA	emp9-3	Mu Insertion	Mu is inserted in the putative N-terminal signal peptide (sp) region (at +19 bp)	NA	Slow growth (Slo) phenotype	Kernel	14 DAP	Direct Sequencing of PCR Products	20.00%	Low	Decreased	28121385
NA	emp9-3	Mu Insertion	Mu is inserted in the putative N-terminal signal peptide (sp) region (at +19 bp)	NA	Slow growth (Slo) phenotype	Leaf	NA	Direct Sequencing of PCR Products	20.00%	Low	Decreased	28121385
NA	emp9-4	Mu Insertion	Mu is inserted in the E+ domain (at +2190 bp)	NA	No visible seed and seedling phenotypes	Kernel	NA	Direct Sequencing of PCR Products	75.00%	High	Decreased	28121385
NA	Col-0	Control	Control	No mutant	Normal	Kernel	NA	Direct Sequencing of PCR Products	90.00%	High	None	28121385