ISE2 - Plant Editosome Database

Editing Details

Species

Gene ID

Organelle

Edited Gene

Position

Region

Editing Type

Codon

Amino Acid

Molecular Effect

Experiment Details

Arabidopsis thaliana

AT1G70070

Chloroplast

clpP

559

CDS

C-to-U

CAU=>UAU

H=>Y

Recoding

**Experiment Details**
Genotype (Ecotype)	Allele	Treatment	Treatment Detail	Mutant Type	Phenotype	Tissue	Development Stage	Detection Method	Editing Frequency	Editing Extent	Mutant Effect	PMID
ise2-2 homozygous	var2-2	NA	NA	NA	Variegation mutant	Leaf	12 days	Direct Sequencing of PCR Products	63.00%	High	Decreased	28346704
ise2-2 homozygous	ISE2-GFP (ISE2-OE)	Complementation	NA	Rescued plants	NA	Leaf	12 days	Direct Sequencing of PCR Products	77.30%	High	Restored	28346704
ise2-2 homozygous	ISE2-GFP transgene (ISE2-SUP)	Complementation	NA	Cosuppression; Reduced accumulation of the transgene transcript and No ISE2-GFP Protein	Leaves developed chlorosis	Leaf	12 days	Direct Sequencing of PCR Products	25.80%	Low	Decreased	28346704
NA	WT	Control	Control	Control	Normal	Leaf	12 days	Direct Sequencing of PCR Products	83.10%	High	None	28346704

Arabidopsis thaliana

AT1G70070

Chloroplast

petL

CDS

C-to-U

CCU=>CUU

P=>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
ise2-2 homozygous	var2-2	NA	NA	NA	Variegation mutant	Leaf	12 days	Direct Sequencing of PCR Products	64.00%	High	Decreased	28346704
ise2-2 homozygous	ISE2-GFP (ISE2-OE)	Complementation	NA	Rescued plants	NA	Leaf	12 days	Direct Sequencing of PCR Products	87.80%	High	Restored	28346704
ise2-2 homozygous	ISE2-GFP transgene (ISE2-SUP)	Complementation	NA	Cosuppression; Reduced accumulation of the transgene transcript and No ISE2-GFP Protein	Leaves developed chlorosis	Leaf	12 days	Direct Sequencing of PCR Products	48.50%	Medium	Decreased	28346704
NA	WT	Control	Control	Control	Normal	Leaf	12 days	Direct Sequencing of PCR Products	88.90%	High	None	28346704

Arabidopsis thaliana

AT1G70070

Chloroplast

rpoA

200

CDS

C-to-U

UCU=>UUU

S=>F

Recoding

**Experiment Details**
Genotype (Ecotype)	Allele	Treatment	Treatment Detail	Mutant Type	Phenotype	Tissue	Development Stage	Detection Method	Editing Frequency	Editing Extent	Mutant Effect	PMID
ise2-2 homozygous	var2-2	NA	NA	NA	Variegation mutant	Leaf	12 days	Direct Sequencing of PCR Products	64.10%	High	Decreased	28346704
ise2-2 homozygous	ISE2-GFP (ISE2-OE)	Complementation	NA	Rescued plants	NA	Leaf	12 days	Direct Sequencing of PCR Products	90.50%	High	Restored	28346704
ise2-2 homozygous	ISE2-GFP transgene (ISE2-SUP)	Complementation	NA	Cosuppression; Reduced accumulation of the transgene transcript and No ISE2-GFP Protein	Leaves developed chlorosis	Leaf	12 days	Direct Sequencing of PCR Products	40.50%	Medium	Decreased	28346704
NA	WT	Control	Control	Control	Normal	Leaf	12 days	Direct Sequencing of PCR Products	88.20%	High	None	28346704

Arabidopsis thaliana

AT1G70070

Chloroplast

rpoB

338

CDS

C-to-U

UCU=>UUU

S=>F

Recoding

**Experiment Details**
Genotype (Ecotype)	Allele	Treatment	Treatment Detail	Mutant Type	Phenotype	Tissue	Development Stage	Detection Method	Editing Frequency	Editing Extent	Mutant Effect	PMID
ise2-2 homozygous	var2-2	NA	NA	NA	Variegation mutant	Leaf	12 days	Direct Sequencing of PCR Products	93.80%	High	Similar	28346704
ise2-2 homozygous	ISE2-GFP (ISE2-OE)	Complementation	NA	Rescued plants	NA	Leaf	12 days	Direct Sequencing of PCR Products	97.60%	High	Restored	28346704
ise2-2 homozygous	ISE2-GFP transgene (ISE2-SUP)	Complementation	NA	Cosuppression; Reduced accumulation of the transgene transcript and No ISE2-GFP Protein	Leaves developed chlorosis	Leaf	12 days	Direct Sequencing of PCR Products	72.30%	High	Decreased	28346704
NA	WT	Control	Control	Control	Normal	Leaf	12 days	Direct Sequencing of PCR Products	94.10%	High	None	28346704

Arabidopsis thaliana

AT1G70070

Chloroplast

rpoB

551

CDS

C-to-U

UCA=>UUA

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
ise2-2 homozygous	var2-2	NA	NA	NA	Variegation mutant	Leaf	12 days	Direct Sequencing of PCR Products	98.80%	High	Similar	28346704
ise2-2 homozygous	ISE2-GFP (ISE2-OE)	Complementation	NA	Rescued plants	NA	Leaf	12 days	Direct Sequencing of PCR Products	97.70%	High	Restored	28346704
ise2-2 homozygous	ISE2-GFP transgene (ISE2-SUP)	Complementation	NA	Cosuppression; Reduced accumulation of the transgene transcript and No ISE2-GFP Protein	Leaves developed chlorosis	Leaf	12 days	Direct Sequencing of PCR Products	76.20%	High	Decreased	28346704
NA	WT	Control	Control	Control	Normal	Leaf	12 days	Direct Sequencing of PCR Products	95.70%	High	None	28346704

Arabidopsis thaliana

AT1G70070

Chloroplast

rps14

149

CDS

C-to-U

CCA=>CUA

P=>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
ise2-2 homozygous	var2-2	NA	NA	NA	Variegation mutant	Leaf	12 days	Direct Sequencing of PCR Products	66.20%	High	Similar	28346704
ise2-2 homozygous	ISE2-GFP (ISE2-OE)	Complementation	NA	Rescued plants	NA	Leaf	12 days	Direct Sequencing of PCR Products	86.10%	High	Restored	28346704
ise2-2 homozygous	ISE2-GFP transgene (ISE2-SUP)	Complementation	NA	Cosuppression; Reduced accumulation of the transgene transcript and No ISE2-GFP Protein	Leaves developed chlorosis	Leaf	12 days	Direct Sequencing of PCR Products	42.20%	Medium	Decreased	28346704
NA	WT	Control	Control	Control	Normal	Leaf	12 days	Direct Sequencing of PCR Products	69.10%	High	None	28346704

Nicotiana benthamiana

Chloroplast

ndhD

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
NA	TRV-WT	TRV-infected and non-silenced controls	NA	No mutant	NA	Leaf	6 weeks	Sanger sequencing	NA	NA	None	36865278
NA	TRV-ISE2	Tobacco rattle virus (TRV)-mediated VIGS was used to knockdown NbISE2 expression in N. benthamiana leaves	NA	Knockdown	NA	Leaf	6 weeks	Sanger sequencing	NA	NA	Decreased	36865278

Nicotiana benthamiana

Chloroplast

rpoB

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
NA	TRV-WT	TRV-infected and non-silenced controls	NA	No mutant	NA	Leaf	6 weeks	Sanger sequencing	NA	NA	None	36865278
NA	TRV-ISE2	Tobacco rattle virus (TRV)-mediated VIGS was used to knockdown NbISE2 expression in N. benthamiana leaves	NA	Knockdown	NA	Leaf	6 weeks	Sanger sequencing	NA	NA	Increased	36865278

Editing Factor:	ISE2
Synonym:	EMB25; EMBRYO DEFECTIVE 25; INCREASED SIZE EXCLUSION LIMIT 2; PDE317; PIGMENT DEFECTIVE 317; NbISE2
Description:	Encoding a chloroplast RNA helicase required for multiple chloroplast RNA processing steps in Arabidopsis thaliana.
Protein Family:	RNA helicase,NA
Subclass:	NA
Construct Structure:	NA
Gene ID & Species:	AT1G70070 (Arabidopsis thaliana) NA (Nicotiana benthamiana)
Edited Gene(s):	clpP rps14 petL rpoA rpoB ndhD
Editing Type(s):	C-to-U (28)
Publication(s):	[1] The dicot homolog of maize PPR103 carries a C-terminal DYW domain and is required for C-to-U editing of chloroplast RNA transcripts., Research square, 2023. [PMID=36865278] [2] The chloroplast RNA helicase ISE2 is required for multiple chloroplast RNA processing steps in Arabidopsis thaliana., The Plant journal : for cell and molecular biology, 2017. [PMID=28346704]

Plant Editosome Database
a curated database of RNA editosome in plants

Summary

Editing Details