CWM1 - Plant Editosome Database - BIG Data Center

CWM1 - Plant Editosome Database - BIG Data Center

Summary

Editing Factor:	CWM1
Synonym:	CELL WALL MAINTAINER 1
Description:	Encodes a PPR protein involved in mitochondrial functioning. Mutants suppress cell wall defects caused by C17 chemical inhibitor. Mutants are defective in cytochrome c maturation and activation of mitochondrial retrograde signalling.
Protein Family:	PPR
Subclass:	E
Construct Structure:	PLS-E1-E2
Gene ID & Species:	AT1G17630 (Arabidopsis thaliana) NA (Macadamia integrifolia)
Edited Gene(s):	ccmB nad5 ccmC
Editing Type(s):	C-to-U (65)
Publication(s):	[1] One C-to-U RNA Editing Site and Two Independently Evolved Editing Factors: Testing Reciprocal Complementation with DYW-Type PPR Proteins from the Moss Physcomitrium (Physcomitrella) patens and the Flowering Plants Macadamia integrifolia and Arabidopsis, Plant Cell, 2020. [PMID=32616665] [2] 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] [3] 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] [4] Mitochondrial Defects Confer Tolerance against Cellulose Deficiency, Plant Cell, 2016. [PMID=27543091]

Editing Details

Species

Gene ID

Organelle

Edited Gene

Position

Region

Editing Type

Codon

Amino Acid

Molecular Effect

Experiment Details

Arabidopsis thaliana

AT1G17630

Mitochondrion

428

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
Col-0	WT	No treatment	No treatment	No treatment	Normal	Root	5-day-old	RT-PCR and direct sequencing	89.29%	High	None	27543091
SALK_017325C	cwm1-1	T-DNA insertion	A T-DNA insertion is approximately at +448bp in the exon in AT1G17630	NA	Higher respiration than the wild type;C17 tolerance	Root	5-day-old	RT-PCR and direct sequencing	29.63%	Low	Decreased	27543091
SALK_124160	cwm1-2	T-DNA insertion	A T-DNA insertion is approximately at +624bp in the exon in AT1G17630	NA	Higher respiration than the wild type;C17 tolerance	Root	5-day-old	RT-PCR and direct sequencing	37.50%	Low	Decreased	27543091
Col-0	WT	No treatment	No treatment	No treatment	NA	NA	NA	RNA-seq	95.55%	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	68.00%	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	30.00%	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	Rosette leaf	NA	RT-PCR and calculated with the DNADynamo software (BlueTract	15.00%	Poor	Decreased	28761003
Col-0	WT	No treatment	No treatment	No treatment	Normal	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	100.00%	Complete	None	32616665
SALK_017325C	cwm1-1	A T-DNA Insertion	NA	Homozygous	A mild root growth phenotype and reduced seed germination rates on soil.	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	0.00%	Unedited	Absent	32616665
SALK_124160	cwm1-2	A T-DNA Insertion	NA	Homozygous	A mild root growth phenotype and reduced seed germination rates on soil.	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	14.00%	Poor	Decreased	32616665
Col-0	A. thaliana CWM1	Transformation and Complementation	The Arabidopsis cwm1 mutants were transformed with the Arabidopsis CWM1 gene.	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	100.00%	Complete	Restored	32616665
Col-0	P. patens PPR79	Transformation and Complementation	Expressing the original PPR79 coding sequence in the cwm1 background.	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	73.00%	High	Decreased	32616665
Col-0	P. patens PPR79△DYW	Transformation and Complementation	Expressing the original PPR79 coding sequence lacking the C-terminal DYW domain in the cwm1 background.	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	85.00%	High	Decreased	32616665
Col-0	CWM1-DYWPPR79	Transformation and Complementation	Adding the DYW domain from PPR79 after the PG-Box of CWM1 (CWM1-DYWPPR79), expressed in the cwm1 background.	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	100.00%	Complete	Restored	32616665
Col-0	CWM1PLS-E1E2DYWPPR79	Transformation and Complementation	Replacing the complete set of C-terminal domains from CWM1 with those from PPR79 (CWM1PLS-E1E2DYWPPR79), expressed in the cwm1 background.	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	100.00%	Complete	Restored	32616665
NA	At cwm1 ko complementation Line 1	Transformation and Complementation	CWM1 targets transgenic lines in the Arabidopsis cwm1 mutant expressing Macadamia CWM1,	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	0.00%	Unedited	Absent	32616665
NA	At cwm1 ko complementation Line 2	Transformation and Complementation	CWM1 targets transgenic lines in the Arabidopsis cwm1 mutant expressing Macadamia CWM1,	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	27.00%	Low	Decreased	32616665

Arabidopsis thaliana

AT1G17630

Mitochondrion

463

CDS

C-to-U

CGU=>UGU
NA=>NA

R=>C
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	WT	No treatment	No treatment	No treatment	Normal	Root	5-day-old	RT-PCR and direct sequencing	100.00%	Complete	None	27543091
SALK_017325C	cwm1-1	T-DNA insertion	A T-DNA insertion is approximately at +448bp in the exon in AT1G17630	NA	Higher respiration than the wild type;C17 tolerance	Root	5-day-old	RT-PCR and direct sequencing	10.71%	Poor	Decreased	27543091
SALK_124160	cwm1-2	T-DNA insertion	A T-DNA insertion is approximately at +624bp in the exon in AT1G17630	NA	Higher respiration than the wild type;C17 tolerance	Root	5-day-old	RT-PCR and direct sequencing	17.86%	Poor	Decreased	27543091
Col-0	WT	No treatment	No treatment	No treatment	NA	NA	NA	RNA-seq	94.11%	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	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	Rosette leaf	NA	RT-PCR and calculated with the DNADynamo software (BlueTract	0.00%	Unedited	Absent	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	5.00%	Poor	Decreased	28761003
Col-0	WT	No treatment	No treatment	No treatment	Normal	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	100.00%	Complete	None	32616665
SALK_017325C	cwm1-1	A T-DNA Insertion	NA	Homozygous	A mild root growth phenotype and reduced seed germination rates on soil.	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	0.00%	Unedited	Absent	32616665
SALK_124160	cwm1-2	A T-DNA Insertion	NA	Homozygous	A mild root growth phenotype and reduced seed germination rates on soil.	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	0.00%	Unedited	Absent	32616665
Col-0	A. thaliana CWM1	Transformation and Complementation	The Arabidopsis cwm1 mutants were transformed with the Arabidopsis CWM1 gene.	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	93.00%	High	Restored	32616665
Col-0	P. patens PPR79	Transformation and Complementation	Expressing the original PPR79 coding sequence in the cwm1 background.	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	34.00%	Low	Decreased	32616665
Col-0	P. patens PPR79△DYW	Transformation and Complementation	Expressing the original PPR79 coding sequence lacking the C-terminal DYW domain in the cwm1 background.	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	62.00%	High	Decreased	32616665
Col-0	CWM1-DYWPPR79	Transformation and Complementation	Adding the DYW domain from PPR79 after the PG-Box of CWM1 (CWM1-DYWPPR79), expressed in the cwm1 background.	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	100.00%	Complete	Restored	32616665
Col-0	CWM1PLS-E1E2DYWPPR79	Transformation and Complementation	Replacing the complete set of C-terminal domains from CWM1 with those from PPR79 (CWM1PLS-E1E2DYWPPR79), expressed in the cwm1 background.	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	100.00%	Complete	Restored	32616665
NA	At cwm1 ko complementation Line 1	Transformation and Complementation	CWM1 targets transgenic lines in the Arabidopsis cwm1 mutant expressing Macadamia CWM1,	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	100.00%	Complete	Restored	32616665
NA	At cwm1 ko complementation Line 2	Transformation and Complementation	CWM1 targets transgenic lines in the Arabidopsis cwm1 mutant expressing Macadamia CWM1,	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	100.00%	Complete	Restored	32616665

Arabidopsis thaliana

AT1G17630

Mitochondrion

598

CDS

C-to-U

CGU=>UGU
NA=>NA

R=>C
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	WT	No treatment	No treatment	No treatment	Normal	Root	5-day-old	RT-PCR and direct sequencing	100.00%	Complete	None	27543091
SALK_017325C	cwm1-1	T-DNA insertion	A T-DNA insertion is approximately at +448bp in the exon in AT1G17630	NA	Higher respiration than the wild type;C17 tolerance	Root	5-day-old	RT-PCR and direct sequencing	7.89%	Poor	Decreased	27543091
SALK_124160	cwm1-2	T-DNA insertion	A T-DNA insertion is approximately at +624bp in the exon in AT1G17630	NA	Higher respiration than the wild type;C17 tolerance	Root	5-day-old	RT-PCR and direct sequencing	5.41%	Poor	Decreased	27543091
Col-0	WT	No treatment	No treatment	No treatment	NA	NA	NA	RNA-seq	99.09%	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	22.00%	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	Rosette leaf	NA	RT-PCR and calculated with the DNADynamo software (BlueTract	9.00%	Poor	Decreased	28761003
Col-0	WT	No treatment	No treatment	No treatment	Normal	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	100.00%	Complete	None	32616665
SALK_017325C	cwm1-1	A T-DNA Insertion	NA	Homozygous	A mild root growth phenotype and reduced seed germination rates on soil.	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	0.00%	Unedited	Absent	32616665
SALK_124160	cwm1-2	A T-DNA Insertion	NA	Homozygous	A mild root growth phenotype and reduced seed germination rates on soil.	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	0.00%	Unedited	Absent	32616665
Col-0	A. thaliana CWM1	Transformation and Complementation	The Arabidopsis cwm1 mutants were transformed with the Arabidopsis CWM1 gene.	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	100.00%	Complete	Restored	32616665
Col-0	P. patens PPR79	Transformation and Complementation	Expressing the original PPR79 coding sequence in the cwm1 background.	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	51.00%	Medium	Decreased	32616665
Col-0	P. patens PPR79△DYW	Transformation and Complementation	Expressing the original PPR79 coding sequence lacking the C-terminal DYW domain in the cwm1 background.	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	70.00%	High	Decreased	32616665
Col-0	CWM1-DYWPPR79	Transformation and Complementation	Adding the DYW domain from PPR79 after the PG-Box of CWM1 (CWM1-DYWPPR79), expressed in the cwm1 background.	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	100.00%	Complete	Restored	32616665
Col-0	CWM1PLS-E1E2DYWPPR79	Transformation and Complementation	Replacing the complete set of C-terminal domains from CWM1 with those from PPR79 (CWM1PLS-E1E2DYWPPR79), expressed in the cwm1 background.	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	100.00%	Complete	Restored	32616665
NA	At cwm1 ko complementation Line 1	Transformation and Complementation	CWM1 targets transgenic lines in the Arabidopsis cwm1 mutant expressing Macadamia CWM1,	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	100.00%	Complete	Restored	32616665
NA	At cwm1 ko complementation Line 2	Transformation and Complementation	CWM1 targets transgenic lines in the Arabidopsis cwm1 mutant expressing Macadamia CWM1,	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	71.00%	High	Decreased	32616665

Arabidopsis thaliana

AT1G17630

Mitochondrion

609

CDS

C-to-U

GUC=>GUU

V=>V

Synonymous

**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	No treatment	No treatment	No treatment	Normal	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	86.00%	High	None	32616665
SALK_017325C	cwm1-1	A T-DNA Insertion	NA	Homozygous	A mild root growth phenotype and reduced seed germination rates on soil.	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	27.00%	Low	Decreased	32616665
SALK_124160	cwm1-2	A T-DNA Insertion	NA	Homozygous	A mild root growth phenotype and reduced seed germination rates on soil.	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	25.00%	Low	Decreased	32616665
Col-0	A. thaliana CWM1	Transformation and Complementation	The Arabidopsis cwm1 mutants were transformed with the Arabidopsis CWM1 gene.	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	73.00%	High	Decreased	32616665
Col-0	P. patens PPR79	Transformation and Complementation	Expressing the original PPR79 coding sequence in the cwm1 background.	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	44.00%	Medium	Decreased	32616665
Col-0	P. patens PPR79△DYW	Transformation and Complementation	Expressing the original PPR79 coding sequence lacking the C-terminal DYW domain in the cwm1 background.	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	29.00%	Low	Decreased	32616665
Col-0	CWM1-DYWPPR79	Transformation and Complementation	Adding the DYW domain from PPR79 after the PG-Box of CWM1 (CWM1-DYWPPR79), expressed in the cwm1 background.	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	73.00%	High	Decreased	32616665
Col-0	CWM1PLS-E1E2DYWPPR79	Transformation and Complementation	Replacing the complete set of C-terminal domains from CWM1 with those from PPR79 (CWM1PLS-E1E2DYWPPR79), expressed in the cwm1 background.	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	57.00%	Medium	Decreased	32616665
NA	At cwm1 ko complementation Line 1	Transformation and Complementation	CWM1 targets transgenic lines in the Arabidopsis cwm1 mutant expressing Macadamia CWM1,	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	100.00%	Complete	Restored	32616665
NA	At cwm1 ko complementation Line 2	Transformation and Complementation	CWM1 targets transgenic lines in the Arabidopsis cwm1 mutant expressing Macadamia CWM1,	Homozygous	NA	Leaf from the rosette	2- to 3-week old	cDNA sequencing and performing peak height calculations with	64.00%	High	Decreased	32616665

Macadamia integrifolia

NA

Mitochondrion

428

CDS

C-to-U

UCG=>UUG

S=>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	M. integrifolia CWM1	No treatment	No treatment	No treatment	NA	NA	NA	cDNA sequencing and performing peak height calculations with	41.00%	Medium	None	32616665

Macadamia integrifolia

NA

Mitochondrion

463

CDS

C-to-U

CGU=>UGU

R=>C

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	M. integrifolia CWM1	No treatment	No treatment	No treatment	NA	NA	NA	cDNA sequencing and performing peak height calculations with	100.00%	Complete	None	32616665

Macadamia integrifolia

NA

Mitochondrion

598

CDS

C-to-U

CGU=>UGU

R=>C

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	M. integrifolia CWM1	No treatment	No treatment	No treatment	NA	NA	NA	cDNA sequencing and performing peak height calculations with	100.00%	Complete	None	32616665

Macadamia integrifolia

NA

Mitochondrion

609

CDS

C-to-U

GUC=>GUU

V=>V

Synonymous

**Experiment Details**
Genotype (Ecotype)	Allele	Treatment	Treatment Detail	Mutant Type	Phenotype	Tissue	Development Stage	Detection Method	Editing Frequency	Editing Extent	Mutant Effect	PMID
NA	M. integrifolia CWM1	No treatment	No treatment	No treatment	NA	NA	NA	cDNA sequencing and performing peak height calculations with	0.00%	Unedited	None	32616665

Last update: Jul 2021 (version 1.0)