MEF13 - Plant Editosome Database

Editing Details

Species

Gene ID

Organelle

Edited Gene

Position

Region

Nuclear Genome

Organelle Genome

Other Position Region

Other Position

Editing Type

Codon

Amino Acid

Molecular Effect

Experiment Details

Arabidopsis thaliana

AT3G02330

Mitochondrion

ccmFc

415

CDS

NA
EnsemblGenomes (release 39)

NA
BK010421

C-to-U

CUC=>UUC
NA=>NA

L=>F
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-0	Col-0	Control	Control	Control	Normal	Leaf	3 weeks	Direct Sequencing of PCR Products	100.00%	Complete	None	26048647
Col-0	mef13-1	EMS Mutant	The EMS mutant causes a single nucleotide (and concomitantamino acid) alteration in the most N-terminal PPR element	NA	Initially slower growth; Later stages of development show no gross defects and are fully fertile	Leaf	3 weeks	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	26048647
Col-0	mef13-1+35S:At3g02330	Complementation	Transgenic overexpression of the MEF13 gene in the mef13-1 mutant	NA	NA	Leaf	3 weeks	Direct Sequencing of PCR Products	100.00%	Complete	Restored	26048647
Col-0	WT	Control	Control	Control	NA	NA	NA	RNA-seq	58.98%	Medium	None	32098170
Col-0	WT	Control	Control	Control	Normal	Leaf	NA	RT-PCR and calculated with the DNADynamo software (BlueTract	97.00%	High	None	28761003
Col-0	DYW2-GFP-OE1	Generating Arabidopsis plants overexpressing the GFP-tagged DYW2 gene	Col-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 independen	NA	Slow growth	Leaf	NA	RT-PCR and calculated with the DNADynamo software (BlueTract	21.00%	Low	Decreased	28761003
Col-0	DYW2-GFP-OE2	Generating Arabidopsis plants overexpressing the GFP-tagged DYW2 gene	Col-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 independen	NA	Slow growth	Leaf	NA	RT-PCR and calculated with the DNADynamo software (BlueTract	23.00%	Low	Decreased	28761003

Arabidopsis thaliana

AT3G02330

Mitochondrion

ccmFc

CDS

NA
EnsemblGenomes (release 39)

NA
BK010421

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-0	Col-0	Control	Control	Control	Normal	Leaf	3 weeks	Direct Sequencing of PCR Products	70.00%	High	None	26048647
Col-0	mef13-1	EMS Mutant	The EMS mutant causes a single nucleotide (and concomitantamino acid) alteration in the most N-terminal PPR element	NA	Initially slower growth; Later stages of development show no gross defects and are fully fertile	Leaf	3 weeks	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	26048647
Col-0	mef13-1+35S:At3g02330	Complementation	Transgenic overexpression of the MEF13 gene in the mef13-1 mutant	NA	NA	Leaf	3 weeks	Direct Sequencing of PCR Products	70.00%	High	Restored	26048647
Col-0	WT	Control	Control	Control	NA	NA	NA	RNA-seq	57.30%	Medium	None	32098170
Col-0	WT	Control	Control	Control	Normal	Leaf	NA	RT-PCR and calculated with the DNADynamo software (BlueTract	94.00%	High	None	28761003
Col-0	DYW2-GFP-OE1	Generating Arabidopsis plants overexpressing the GFP-tagged DYW2 gene	Col-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 independen	NA	Slow growth	Leaf	NA	RT-PCR and calculated with the DNADynamo software (BlueTract	49.00%	Medium	Decreased	28761003
Col-0	DYW2-GFP-OE2	Generating Arabidopsis plants overexpressing the GFP-tagged DYW2 gene	Col-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 independen	NA	Slow growth	Leaf	NA	RT-PCR and calculated with the DNADynamo software (BlueTract	39.00%	Low	Decreased	28761003

Arabidopsis thaliana

AT3G02330

Mitochondrion

cox3

314

CDS

NA
EnsemblGenomes (release 39)

NA
BK010421

C-to-U

UCU=>UUU
NA=>NA

S=>F
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-0	Col-0	Control	Control	Control	Normal	Leaf	3 weeks	Direct Sequencing of PCR Products	100.00%	Complete	None	26048647
Col-0	mef13-1	EMS Mutant	The EMS mutant causes a single nucleotide (and concomitantamino acid) alteration in the most N-terminal PPR element	NA	Initially slower growth; Later stages of development show no gross defects and are fully fertile	Leaf	3 weeks	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	26048647
Col-0	mef13-1+35S:At3g02330	Complementation	Transgenic overexpression of the MEF13 gene in the mef13-1 mutant	NA	NA	Leaf	3 weeks	Direct Sequencing of PCR Products	100.00%	Complete	Restored	26048647
Col-0	WT	Control	Control	Control	NA	NA	NA	RNA-seq	98.55%	High	None	32098170
Col-0	WT	Control	Control	Control	Normal	Leaf	NA	RT-PCR and calculated with the DNADynamo software (BlueTract	100.00%	Complete	None	28761003
Col-0	DYW2-GFP-OE1	Generating Arabidopsis plants overexpressing the GFP-tagged DYW2 gene	Col-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 independen	NA	Slow growth	Leaf	NA	RT-PCR and calculated with the DNADynamo software (BlueTract	26.00%	Low	Decreased	28761003
Col-0	DYW2-GFP-OE2	Generating Arabidopsis plants overexpressing the GFP-tagged DYW2 gene	Col-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 independen	NA	Slow growth	Leaf	NA	RT-PCR and calculated with the DNADynamo software (BlueTract	21.00%	Low	Decreased	28761003

Arabidopsis thaliana

AT3G02330

Mitochondrion

nad2

CDS

NA
EnsemblGenomes (release 39)

NA
BK010421

C-to-U

UCC=>UUC
NA=>NA

S=>F
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-0	Col-0	Control	Control	Control	Normal	Leaf	3 weeks	Direct Sequencing of PCR Products	100.00%	Complete	None	26048647
Col-0	mef13-1	EMS Mutant	The EMS mutant causes a single nucleotide (and concomitantamino acid) alteration in the most N-terminal PPR element	NA	Initially slower growth; Later stages of development show no gross defects and are fully fertile	Leaf	3 weeks	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	26048647
Col-0	mef13-1+35S:At3g02330	Complementation	Transgenic overexpression of the MEF13 gene in the mef13-1 mutant	NA	NA	Leaf	3 weeks	Direct Sequencing of PCR Products	100.00%	Complete	Restored	26048647
Col-0	WT	Control	Control	Control	NA	NA	NA	RNA-seq	98.41%	High	None	32098170
Col-0	WT	Control	Control	Control	Normal	Leaf	NA	RT-PCR and calculated with the DNADynamo software (BlueTract	100.00%	Complete	None	28761003
Col-0	DYW2-GFP-OE1	Generating Arabidopsis plants overexpressing the GFP-tagged DYW2 gene	Col-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 independen	NA	Slow growth	Leaf	NA	RT-PCR and calculated with the DNADynamo software (BlueTract	70.00%	High	Decreased	28761003
Col-0	DYW2-GFP-OE2	Generating Arabidopsis plants overexpressing the GFP-tagged DYW2 gene	Col-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 independen	NA	Slow growth	Leaf	NA	RT-PCR and calculated with the DNADynamo software (BlueTract	43.00%	Medium	Decreased	28761003

Arabidopsis thaliana

AT3G02330

Mitochondrion

nad4

158

CDS

NA
EnsemblGenomes (release 39)

NA
BK010421

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-0	Col-0	Control	Control	Control	Normal	Leaf	3 weeks	Direct Sequencing of PCR Products	100.00%	Complete	None	26048647
Col-0	mef13-1	EMS Mutant	The EMS mutant causes a single nucleotide (and concomitantamino acid) alteration in the most N-terminal PPR element	NA	Initially slower growth; Later stages of development show no gross defects and are fully fertile	Leaf	3 weeks	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	26048647
Col-0	mef13-1+35S:At3g02330	Complementation	Transgenic overexpression of the MEF13 gene in the mef13-1 mutant	NA	NA	Leaf	3 weeks	Direct Sequencing of PCR Products	100.00%	Complete	Restored	26048647
Col-0	WT	Control	Control	Control	NA	NA	NA	RNA-seq	99.09%	High	None	32098170

Arabidopsis thaliana

AT3G02330

Mitochondrion

nad5

1665

CDS

NA
EnsemblGenomes (release 39)

NA
BK010421

C-to-U

CUC=>CUU
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-0	Col-0	Control	Control	Control	Normal	Leaf	3 weeks	Direct Sequencing of PCR Products	20.00%	Low	None	26048647
Col-0	mef13-1	EMS Mutant	The EMS mutant causes a single nucleotide (and concomitantamino acid) alteration in the most N-terminal PPR element	NA	Initially slower growth; Later stages of development show no gross defects and are fully fertile	Leaf	3 weeks	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	26048647
Col-0	mef13-1+35S:At3g02330	Complementation	Transgenic overexpression of the MEF13 gene in the mef13-1 mutant	NA	NA	Leaf	3 weeks	Direct Sequencing of PCR Products	60.00%	High	Increased	26048647
Col-0	WT	Control	Control	Control	NA	NA	NA	RNA-seq	8.15%	Poor	None	32098170

Arabidopsis thaliana

AT3G02330

Mitochondrion

nad5

1916

CDS

NA
EnsemblGenomes (release 39)

NA
BK010421

C-to-U

UCU=>UUU
NA=>NA

S=>F
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-0	Col-0	Control	Control	Control	Normal	Leaf	3 weeks	Direct Sequencing of PCR Products	100.00%	Complete	None	26048647
Col-0	mef13-1	EMS Mutant	The EMS mutant causes a single nucleotide (and concomitantamino acid) alteration in the most N-terminal PPR element	NA	Initially slower growth; Later stages of development show no gross defects and are fully fertile	Leaf	3 weeks	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	26048647
Col-0	mef13-1+35S:At3g02330	Complementation	Transgenic overexpression of the MEF13 gene in the mef13-1 mutant	NA	NA	Leaf	3 weeks	Direct Sequencing of PCR Products	100.00%	Complete	Restored	26048647
Col-0	WT	Control	Control	Control	NA	NA	NA	RNA-seq	99.62%	High	None	32098170

Arabidopsis thaliana

AT3G02330

Mitochondrion

nad7

213

CDS

NA
EnsemblGenomes (release 39)

NA
BK010421

C-to-U

GAC=>GAU
NA=>NA

D=>D
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
C24	C24	Control	Control	Control	Normal	Leaf	3 weeks	Direct Sequencing of PCR Products	70.00%	High	None	26048647
Col-0	Col-0	Control	Control	Control	Normal	Leaf	3 weeks	Direct Sequencing of PCR Products	100.00%	Complete	None	26048647
Col-0	mef13-1	EMS Mutant	The EMS mutant causes a single nucleotide (and concomitantamino acid) alteration in the most N-terminal PPR element	NA	Initially slower growth; Later stages of development show no gross defects and are fully fertile	Leaf	3 weeks	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	26048647
Col-0	mef13-1+35S:At3g02330	Complementation	Transgenic overexpression of the MEF13 gene in the mef13-1 mutant	NA	NA	Leaf	3 weeks	Direct Sequencing of PCR Products	100.00%	Complete	Restored	26048647
SALK_097270C	mef13-2	T-DNA Insertion	T-DNA is inserted at the C terminus of the E domain which removes the C-terminal 67 amino acids	NA	NA	Leaf	3 weeks	Direct Sequencing of PCR Products	100.00%	Complete	Restored	26048647
Col-0	WT	Control	Control	Control	NA	NA	NA	RNA-seq	91.31%	High	None	32098170
Col-0	WT	Control	Control	Control	Normal	Leaf	NA	RT-PCR and calculated with the DNADynamo software (BlueTract	100.00%	Complete	None	28761003
Col-0	DYW2-GFP-OE1	Generating Arabidopsis plants overexpressing the GFP-tagged DYW2 gene	Col-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 independen	NA	Slow growth	Leaf	NA	RT-PCR and calculated with the DNADynamo software (BlueTract	51.00%	Medium	Decreased	28761003
Col-0	DYW2-GFP-OE2	Generating Arabidopsis plants overexpressing the GFP-tagged DYW2 gene	Col-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 independen	NA	Slow growth	Leaf	NA	RT-PCR and calculated with the DNADynamo software (BlueTract	21.00%	Low	Decreased	28761003

Editing Factor:	MEF13
Synonym:	MITOCHONDRIAL EDITING FACTOR 13
Description:	Encoding an editing factor that requires MORF3 and MORF8 for RNA editing at eight targets in mitochondrial mRNAs in Arabidopsis thaliana
Protein Family:	PPR
Subclass:	E,E+
Physical Interaction:	MORF1; MORF3; MORF8
Construct Structure:	PLS-E, NA
Gene ID & Species:	AT3G02330 (Arabidopsis thaliana)
Edited Gene(s):	nad7 nad5 ccmFc nad2 cox3 nad4
Editing Type(s):	C-to-U (49)
Publication(s):	[1] The Analysis of the Editing Defects in the Mutant Provides New Clues for the Prediction of RNA Targets of Arabidopsis E+-Class PPR Proteins., Plants (Basel, Switzerland), 2020. [PMID=32098170] [2] Multiple PPR protein interactions are involved in the RNA editing system in mitochondria and plastids., Proceedings of the National Academy of Sciences of the United States of America, 2017. [PMID=28761003] [3] MEF13 Requires MORF3 and MORF8 for RNA Editing at Eight Targets in Mitochondrial mRNAs in Arabidopsis thaliana., Molecular plant, 2015. [PMID=26048647]

Summary

Editing Details