CRR4 - Plant Editosome Database

Summary

Editing Factor:	CRR4
Synonym:	CHLORORESPIRATORY REDUCTION 4
Description:	Encodes a protein involved in RNA editing of ndhD in the chloroplast.
Protein Family:	PPR
Subclass:	E+
Construct Structure:	PLS-E-E+
Gene ID & Species:	AT2G45350 (Arabidopsis thaliana) NA (Nicotiana sylvestris) NA (Nicotiana tabacum) LOC104119586 (Nicotiana tomentosiformis)
Edited Gene(s):	ndhD
Editing Type(s):	C-to-U (21)
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] Amino acid sequence variations in Nicotiana CRR4 orthologs determine the species-specific efficiency of RNA editing in plastids., Nucleic acids research, 2008. [PMID=18824480] [4] A pentatricopeptide repeat protein is essential for RNA editing in chloroplasts., Nature, 2005. [PMID=15662426]

Editing Details

Species

Gene ID

Organelle

Edited Gene

Position

Region

Editing Type

Codon

Amino Acid

Molecular Effect

Experiment Details

Arabidopsis thaliana

AT2G45350

Chloroplast
Plastid

ndhD

CDS

C-to-U

ACG=>AUG
NA=>NA

T=>M
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	crr4-3	NA	NA	NA	NA	Leaf	4 weeks	Direct Sequencing of PCR Products	0.00%	Unedited	Absent	18824480
Col-0	crr4-3+NsylCRR4	Heterogous Complementationation	NA	NA	NA	Leaf	4 weeks	Direct Sequencing of PCR Products	40.00%	Medium	Decreased	18824480
Col-0	crr4-3+NtomCRR4	Heterogous Complementationation	NA	NA	NA	Leaf	4 weeks	Direct Sequencing of PCR Products	21.00%	Low	Decreased	18824480
Col-0	WT	Control	Control	Control	NA	Leaf	4 weeks	Direct Sequencing of PCR Products	58.00%	Medium	None	18824480
NA	35S::CRR4 line	Overexpression	CRR4 is overexpressed under the control of the 35S promoter	Upregulation of CRR4 expression in the RNA level	NA	Root	NA	Direct Sequencing of PCR Products	0.00%	Unedited	Restored	15662426
NA	35S::CRR4 line	Overexpression	CRR4 is overexpressed under the control of the 35S promoter	Upregulation of CRR4 expression in the RNA level	NA	Seedling	NA	Direct Sequencing of PCR Products	NA	Low	Restored	15662426
NA	35S::CRR4 line	Overexpression	CRR4 is overexpressed under the control of the 35S promoter	Upregulation of CRR4 expression in the RNA level	NA	Leaf	NA	Direct Sequencing of PCR Products	NA	Low	Restored	15662426
NA	crr4-1	NA	NA	NA	Impaired in NDH activity and lacking post-illumination increase in chlorophyll fluorescence	Leaf	NA	Direct Sequencing of PCR Products	0.90%	Poor	Decreased	15662426
NA	crr4-2	NA	NA	NA	NA	Leaf	NA	Direct Sequencing of PCR Products	0.00%	Unedited	Decreased	15662426
NA	crr4-3	NA	NA	Knockout	NA	Leaf	NA	Direct Sequencing of PCR Products	0.00%	Unedited	Decreased	15662426
NA	crr4-4	NA	NA	NA	NA	Leaf	NA	Direct Sequencing of PCR Products	2.80%	Poor	Decreased	15662426
NA	WT	Control	Control	Control	Normal	Root	NA	Direct Sequencing of PCR Products	0.00%	Unedited	None	15662426
NA	WT	Control	Control	Control	Normal	Leaf	NA	Direct Sequencing of PCR Products	48.00%	Medium	None	15662426
NA	WT	Control	Control	Control	Normal	Seedling	NA	Direct Sequencing of PCR Products	NA	Low	None	15662426
Col-0	WT	Control	Control	Control	NA	NA	NA	RNA-seq	32.97%	Low	None	32098170
Col-0	WT	Control	Control	Control	Normal	Leaf	NA	RT-PCR and calculated with the DNADynamo software (BlueTract	26.00%	Low	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	37.00%	Low	Increased	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	46.00%	Medium	Increased	28761003

Nicotiana sylvestris

Chloroplast

ndhD

CDS

C-to-U

ACG=>AUG

T=>M

Recoding

**Experiment Details**
Genotype (Ecotype)	Allele	Treatment	Treatment Detail	Mutant Type	Phenotype	Tissue	Development Stage	Detection Method	Editing Frequency	Editing Extent	Mutant Effect	PMID
Nicotiana sylvestris	WT	Control	Control	Control	NA	Leaf	6 weeks	Direct Sequencing of PCR Products	37.00%	Low	None	18824480

Nicotiana tabacum

Chloroplast

ndhD

CDS

C-to-U

ACG=>AUG

T=>M

Recoding

**Experiment Details**
Genotype (Ecotype)	Allele	Treatment	Treatment Detail	Mutant Type	Phenotype	Tissue	Development Stage	Detection Method	Editing Frequency	Editing Extent	Mutant Effect	PMID
Nicotiana tabacum	WT	Control	Control	Control	NA	Leaf	6 weeks	Direct Sequencing of PCR Products	42.00%	Medium	None	18824480

Nicotiana tomentosiformis

LOC104119586

Chloroplast

ndhD

CDS

C-to-U

ACG=>AUG

T=>M

Recoding

**Experiment Details**
Genotype (Ecotype)	Allele	Treatment	Treatment Detail	Mutant Type	Phenotype	Tissue	Development Stage	Detection Method	Editing Frequency	Editing Extent	Mutant Effect	PMID
Nicotiana tabacum (L. var. Xanthi)	WT	Control	Control	Control	NA	Leaf	6 weeks	Direct Sequencing of PCR Products	15.00%	Poor	None	18824480