MEF7 - 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

AT5G09950

Mitochondrion

ccmB

CDS

TAIR
EnsemblGenomes (release 39)

NA
BK010421

C-to-U

CAU=>UAU
NA=>NA

H=>Y
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	WT	Control	Control	Control	Normal	Leaf	NA	Direct Sequencing of PCR Products	100.00%	Complete	None	22258224
Col	mef7-1	EMS Mutant	The EMS mutant causes single amino acid exchange (G->R) in the PLS repeat region	Homozygous	Grow normally	Leaf	NA	Direct Sequencing of PCR Products	NA	Poor	Decreased	22258224
Col	mef7-2	EMS Mutant	The EMS mutant causes single amino acid exchange (W->Stop) in the PLS repeat region	NA	Grow normally	Leaf	NA	Direct Sequencing of PCR Products	NA	Poor	Decreased	22258224
SALK_041847	mef7-3	T-DNA Insertion	T-DNA is inserted in the PLS repeat region	Homozygous	Grow slower	Leaf	NA	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	22258224
Col-0	WT	Control	Control	Control	NA	NA	NA	RNA-seq	90.55%	High	None	32098170

Arabidopsis thaliana

AT5G09950

Mitochondrion

cob

325

CDS

TAIR
EnsemblGenomes (release 39)
NA

NA
BK010421

C-to-U

CAU=>UAU
NA=>NA

H=>Y
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	WT	Control	Control	Control	Normal	Leaf	NA	Direct Sequencing of PCR Products	100.00%	Complete	None	22258224
Col	mef7-1	EMS Mutant	The EMS mutant causes single amino acid exchange (G->R) in the PLS repeat region	Homozygous	Grow normally	Leaf	NA	Direct Sequencing of PCR Products	NA	Poor	Decreased	22258224
Col	mef7-2	EMS Mutant	The EMS mutant causes single amino acid exchange (W->Stop) in the PLS repeat region	NA	Grow normally	Leaf	NA	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	22258224
SALK_041847	mef7-3	T-DNA Insertion	T-DNA is inserted in the PLS repeat region	Homozygous	Grow slower	Leaf	NA	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	22258224
Col-0	WT	Control	Control	Control	NA	NA	NA	RNA-seq	98.07%	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	100.00%	Complete	Similar	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	100.00%	Complete	Similar	28761003

Arabidopsis thaliana

AT5G09950

Mitochondrion

nad2

1433

CDS

TAIR
EnsemblGenomes (release 39)
NA

NA
BK010421

C-to-U

UCA=>UUA
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
Col	WT	Control	Control	Control	Normal	Leaf	NA	Direct Sequencing of PCR Products	100.00%	Complete	None	22258224
Col	mef7-1	EMS Mutant	The EMS mutant causes single amino acid exchange (G->R) in the PLS repeat region	Homozygous	Grow normally	Leaf	NA	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	22258224
Col	mef7-2	EMS Mutant	The EMS mutant causes single amino acid exchange (W->Stop) in the PLS repeat region	NA	Grow normally	Leaf	NA	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	22258224
SALK_041847	mef7-3	T-DNA Insertion	T-DNA is inserted in the PLS repeat region	Homozygous	Grow slower	Leaf	NA	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	22258224
Col-0	WT	Control	Control	Control	NA	NA	NA	RNA-seq	97.00%	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	100.00%	Complete	Similar	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	100.00%	Complete	Similar	28761003

Arabidopsis thaliana

AT5G09950

Mitochondrion

nad4

896

CDS

EnsemblGenomes (release 39)
NA

BK010421
NA

C-to-U

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-0	WT	Control	Control	Control	NA	NA	NA	RNA-seq	99.58%	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	95.00%	High	Similar	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	95.00%	High	Similar	28761003

Arabidopsis thaliana

AT5G09950

Mitochondrion

nad4L

CDS

TAIR
EnsemblGenomes (release 39)
NA

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	WT	Control	Control	Control	Normal	Leaf	NA	Direct Sequencing of PCR Products	100.00%	Complete	None	22258224
Col	mef7-1	EMS Mutant	The EMS mutant causes single amino acid exchange (G->R) in the PLS repeat region	Homozygous	Grow normally	Leaf	NA	Direct Sequencing of PCR Products	NA	Low	Decreased	22258224
Col	mef7-2	EMS Mutant	The EMS mutant causes single amino acid exchange (W->Stop) in the PLS repeat region	NA	Grow normally	Leaf	NA	Direct Sequencing of PCR Products	NA	Low	Decreased	22258224
SALK_041847	mef7-3	T-DNA Insertion	T-DNA is inserted in the PLS repeat region	Homozygous	Grow slower	Leaf	NA	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	22258224
Col-0	WT	Control	Control	Control	NA	NA	NA	RNA-seq	95.53%	High	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	92.00%	High	Similar	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	99.00%	High	Similar	28761003

Editing Factor:	MEF7
Synonym:	MITOCHONDRIAL EDITING FACTOR 7
Description:	Encoding a DYW-class PPR protein required for RNA editing at four sites in mitochondria of Arabidopsis thaliana
Protein Family:	PPR
Subclass:	DYW
Physical Interaction:	NA
Construct Structure:	PLS-E-DYW
Gene ID & Species:	AT5G09950 (Arabidopsis thaliana)
Edited Gene(s):	ccmB cob nad2 nad4L nad4
Editing Type(s):	C-to-U (33)
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] The DYW-class PPR protein MEF7 is required for RNA editing at four sites in mitochondria of Arabidopsis thaliana., RNA biology, 2012. [PMID=22258224]

Summary

Editing Details