MEF1 - Plant Editosome Database - BIG Data Center

MEF1 - Plant Editosome Database - BIG Data Center

Summary

Editing Factor:	MEF1
Synonym:	MITOCHONDRIAL RNA EDITING FACTOR 1
Description:	Encoding a member of the DYW subfamily of pentatricopeptide repeat proteins; Loss of MEF1 function affects RNA editing at specific sites in the mitochondrial genome but do not exhibit obvious phenotypes
Protein Family:	PPR
Subclass:	DYW
Construct Structure:	PLS-E-E+-DYW, PLS-E-DYW, NA
Gene ID & Species:	AT5G52630 (Arabidopsis thaliana)
Edited Gene(s):	nad7 rps4 nad2
Editing Type(s):	C-to-U (45)
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] RNA editing competence of trans-factor MEF1 is modulated by ecotype-specific differences but requires the DYW domain., FEBS letters, 2010. [PMID=20828567] [4] A DYW domain-containing pentatricopeptide repeat protein is required for RNA editing at multiple sites in mitochondria of Arabidopsis thaliana., The Plant cell, 2009. [PMID=19252080]

Editing Details

Species

Gene ID

Organelle

Edited Gene

Position

Region

Editing Type

Codon

Amino Acid

Molecular Effect

Experiment Details

Arabidopsis thaliana

AT5G52630

Mitochondrion

1160

CDS

C-to-U

UCG=>UUG
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
C24	C24	Control	Control	Control	Normal	NA	3-4 weeks	Direct Sequencing of PCR Products	90.00%	High	Decreased	19252080
Col-0	Col-0	Control	Control	Control	Normal	NA	3-4 weeks	Direct Sequencing of PCR Products	100.00%	Complete	None	19252080
Ler	Ler	Control	Control	Control	Normal	NA	3-4 weeks	Direct Sequencing of PCR Products	100.00%	Complete	None	19252080
Col-0	mef1-1	The Single Mutation	Gly To Glu in the C-terminal L motif in one of the 35 amino acids repeats	Homozygous	Normal growth phenotype	Protoplast	3-4 weeks	Direct Sequencing of PCR Products	20.00%	Low	Decreased	19252080
Col-0	mef1-1 + MEF1	Complementation	The Col wild-type MEF1 gene is transfected into mef1-1	NA	NA	Protoplast	3-4 weeks	Direct Sequencing of PCR Products	75.00%	High	Increased	19252080
Col-0	mef1-2	The Single Mutation	Ser to Phe in the DYW domain	NA	Normal growth phenotype	Protoplast	3-4 weeks	Direct Sequencing of PCR Products	20.00%	Low	Decreased	19252080
Col-0	mef1-2 + MEF1	Complementation	The Col wild-type MEF1 gene is transfected into mef1-2	NA	NA	Protoplast	3-4 weeks	Direct Sequencing of PCR Products	50.00%	Medium	Increased	19252080
Col-0	WT	Control	Control	Control	NA	NA	NA	RNA-seq	99.33%	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

AT5G52630

Mitochondrion

963

CDS

C-to-U

UCC=>UCU
NA=>NA

S=>S
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	NA	3-4 weeks	Direct Sequencing of PCR Products	30.00%	Low	Decreased	19252080
C24	C24 protoplasts	Control	Control	Control	Normal	Protoplast	3-4 weeks	Direct Sequencing of PCR Products	15.00%	Poor	Decreased	19252080
C24	C24 protoplasts + GFP	Transformation	35S:GFP is introduced into C24 protoplasts	NA	NA	Protoplast	3-4 weeks	Direct Sequencing of PCR Products	20.00%	Low	Restored	19252080
C24	C24 protoplasts + Col MEF1	Transformation	Col version of gene MEF1 (35S:MEF1 sequence traces) is introduced into C24 protoplasts	NA	NA	Protoplast	3-4 weeks	Direct Sequencing of PCR Products	100.00%	Complete	Restored	19252080
Col-0	Col-0	Control	Control	Control	Normal	NA	3-4 weeks	Direct Sequencing of PCR Products	100.00%	Complete	None	19252080
Col-0	Col protoplasts	Control	Control	Control	Normal	Protoplast	3-4 weeks	Direct Sequencing of PCR Products	100.00%	Complete	None	19252080
Ler	Ler	Control	Control	Control	Normal	NA	3-4 weeks	Direct Sequencing of PCR Products	100.00%	Complete	None	19252080
Col-0	mef1-1	The Single Mutation	Gly To Glu in the C-terminal L motif in one of the 35 amino acids repeats	Homozygous	Normal growth phenotype	Protoplast	3-4 weeks	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	19252080
Col-0	mef1-1 + MEF1	Complementation	The Col wild-type MEF1 gene is transfected into mef1-1	NA	NA	Protoplast	3-4 weeks	Direct Sequencing of PCR Products	55.00%	Medium	Increased	19252080
Col-0	mef1-2	The Single Mutation	Ser to Phe in the DYW domain	NA	Normal growth phenotype	Protoplast	3-4 weeks	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	19252080
Col-0	mef1-2 + MEF1	Complementation	The Col wild-type MEF1 gene is transfected into mef1-2	NA	NA	Protoplast	3-4 weeks	Direct Sequencing of PCR Products	65.00%	High	Increased	19252080
C24	C24	Control	Control	Control	Normal	NA	NA	Direct Sequencing of PCR Products	45%	Medium	None	20828567
Col-0	Col-0	Control	Control	Control	Normal	NA	NA	Direct Sequencing of PCR Products	100.00%	Complete	None	20828567
Col-0	WT	Control	Control	Control	NA	NA	NA	RNA-seq	92.61%	High	None	32098170
Col-0	WT	Control	Control	Control	Normal	Leaf	NA	RT-PCR and calculated with the DNADynamo software (BlueTract	99.00%	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	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

AT5G52630

Mitochondrion

956

CDS

C-to-U

UCG=>UUG
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
C24	C24	Control	Control	Control	Normal	NA	3-4 weeks	Direct Sequencing of PCR Products	45.00%	Medium	Decreased	19252080
C24	C24 protoplasts	Control	Control	Control	Normal	Protoplast	3-4 weeks	Direct Sequencing of PCR Products	20.00%	Low	Decreased	19252080
C24	C24 protoplasts + GFP	Transformation	35S:GFP is introduced into C24 protoplasts	NA	NA	Protoplast	3-4 weeks	Direct Sequencing of PCR Products	20.00%	Low	Decreased	19252080
C24	C24 protoplasts + Col MEF1	Transformation	Col version of gene MEF1 (35S:MEF1 sequence traces) is introduced into C24 protoplasts	NA	NA	Protoplast	3-4 weeks	Direct Sequencing of PCR Products	80.00%	High	Decreased	19252080
Col-0	Col-0	Control	Control	Control	Normal	NA	3-4 weeks	Direct Sequencing of PCR Products	100.00%	Complete	None	19252080
Col-0	Col protoplasts	Control	Control	Control	Normal	Protoplast	3-4 weeks	Direct Sequencing of PCR Products	90.00%	High	None	19252080
Ler	Ler	Control	Control	Control	Normal	NA	3-4 weeks	Direct Sequencing of PCR Products	100.00%	Complete	None	19252080
Col-0	mef1-1	The Single Mutation	Gly To Glu in the C-terminal L motif in one of the 35 amino acids repeats	Homozygous	Normal growth phenotype	Protoplast	3-4 weeks	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	19252080
Col-0	mef1-1 + MEF1	Complementation	The Col wild-type MEF1 gene is transfected into mef1-1	NA	NA	Protoplast	3-4 weeks	Direct Sequencing of PCR Products	50.00%	Medium	Increased	19252080
Col-0	mef1-2	The Single Mutation	Ser to Phe in the DYW domain	NA	Normal growth phenotype	Protoplast	3-4 weeks	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	19252080
Col-0	mef1-2 + MEF1	Complementation	The Col wild-type MEF1 gene is transfected into mef1-2	NA	NA	Protoplast	3-4 weeks	Direct Sequencing of PCR Products	50.00%	Medium	Increased	19252080
C24	C24	Control	Control	Control	Normal	NA	NA	Direct Sequencing of PCR Products	45%	Medium	None	20828567
Col-0	Col-0	Control	Control	Control	Normal	NA	NA	Direct Sequencing of PCR Products	100.00%	Complete	None	20828567
Col-0	WT	Control	Control	Control	NA	NA	NA	RNA-seq	89.40%	High	None	32098170
Col-0	WT	Control	Control	Control	Normal	Leaf	NA	RT-PCR and calculated with the DNADynamo software (BlueTract	91.00%	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	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	95.00%	High	Similar	28761003

Last update: Jul 2021 (version 1.0)