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:	Encodes a member of the DYW subfamily of pentatricopeptide repeat (PPR) 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 dyw2 Mutant Provides New Clues for the Prediction of RNA Targets of Arabidopsis E+-Class PPR Proteins, Plants (Basel), 2020. [PMID=32098170] [2] Multiple PPR Protein Interactions Are Involved in the RNA Editing System in Arabidopsis Mitochondria and Plastids, Proc Natl Acad Sci U S A, 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	No treatment	No treatment	No treatment	No treatment	NA	3-4 weeks	Direct Sequencing of PCR Products	90.00%	High	Decreased	19252080
Col-0	Col-0	No treatment	No treatment	No treatment	No treatment	NA	3-4 weeks	Direct Sequencing of PCR Products	100.00%	Complete	None	19252080
Ler	Ler	No treatment	No treatment	No treatment	No treatment	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	No treatment	No treatment	No treatment	NA	NA	NA	RNA-seq	99.33%	High	None	32098170
Col-0	WT	No treatment	No treatment	No treatment	Normal	Rosette 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	Rosette 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	Rosette 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	No treatment	No treatment	No treatment	No treatment	NA	3-4 weeks	Direct Sequencing of PCR Products	30.00%	Low	Decreased	19252080
C24	C24 protoplasts	No treatment	No treatment	No treatment	No treatment	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	No treatment	No treatment	No treatment	No treatment	NA	3-4 weeks	Direct Sequencing of PCR Products	100.00%	Complete	None	19252080
Col-0	Col protoplasts	No treatment	No treatment	No treatment	No treatment	Protoplast	3-4 weeks	Direct Sequencing of PCR Products	100.00%	Complete	None	19252080
Ler	Ler	No treatment	No treatment	No treatment	No treatment	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	No treatment	No treatment	No treatment	No treatment	NA	NA	Direct Sequencing of PCR Products	45%	Medium	None	20828567
Col-0	Col-0	No treatment	No treatment	No treatment	No treatment	NA	NA	Direct Sequencing of PCR Products	100.00%	Complete	None	20828567
Col-0	WT	No treatment	No treatment	No treatment	NA	NA	NA	RNA-seq	92.61%	High	None	32098170
Col-0	WT	No treatment	No treatment	No treatment	Normal	Rosette 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	Rosette 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	Rosette 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	No treatment	No treatment	No treatment	No treatment	NA	3-4 weeks	Direct Sequencing of PCR Products	45.00%	Medium	Decreased	19252080
C24	C24 protoplasts	No treatment	No treatment	No treatment	No treatment	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	No treatment	No treatment	No treatment	No treatment	NA	3-4 weeks	Direct Sequencing of PCR Products	100.00%	Complete	None	19252080
Col-0	Col protoplasts	No treatment	No treatment	No treatment	No treatment	Protoplast	3-4 weeks	Direct Sequencing of PCR Products	90.00%	High	None	19252080
Ler	Ler	No treatment	No treatment	No treatment	No treatment	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	No treatment	No treatment	No treatment	No treatment	NA	NA	Direct Sequencing of PCR Products	45%	Medium	None	20828567
Col-0	Col-0	No treatment	No treatment	No treatment	No treatment	NA	NA	Direct Sequencing of PCR Products	100.00%	Complete	None	20828567
Col-0	WT	No treatment	No treatment	No treatment	NA	NA	NA	RNA-seq	89.40%	High	None	32098170
Col-0	WT	No treatment	No treatment	No treatment	Normal	Rosette 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	Rosette 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	Rosette leaf	NA	RT-PCR and calculated with the DNADynamo software (BlueTract	95.00%	High	Similar	28761003

Last update: Jul 2021 (version 1.0)