YLWS - Plant Editosome Database

Editing Details

Species

Gene ID

Organelle

Edited Gene

Position

Region

Nuclear Genome

Organelle Genome

Other Position Region

Other Position

Editing Type

Codon

Amino Acid

Molecular Effect

Experiment Details

Oryza sativa

Os03g0309800

Chloroplast

ndhA

473

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
Nanjing 11	WT	Control	Control	No mutant	Normal	Leaf	15-d-old	PCR	100.00%	Complete	None	36897026
Nanjing 11	ylws	An 8-bp deletion	An 8-bp deletion in the coding region (Between the 448th amino acid to the 450th amino acid).	Recessive; Knockout	The ylws mutant exhibited a white-striped leaf phenotype during the two- to four-leaf growth stage, after which the leaves gradually became green with no apparent difference from the WT. The chlorophyll (Chl a and Chl b) and carotenoid contents at the three-leaf stage were significantly reduced in the ylws mutant compared with the WT. Chloroplasts from green portions of ylws mutant leaves were indistinguishable from those of the WT, whereas chloroplasts from white sectors of mutant leaves had abnormal structures, including vacuolated plastids and lack of structurally organized, stacked thylakoid membranes.	Leaf	15-d-old	PCR	67.80%	High	Decreased	36897026
Nanjing 11	COM	Complementation	For complementation tests of the ylws mutant, an ~4-kb WT genomic fragment containing the promoter, two exons, and one intron of YLWS was amplified and cloned into the pCUbi-1390 binary vector. The pC	Recessive; Knockout	Normal	Leaf	15-d-old	PCR	100.00%	Complete	Restored	36897026

Oryza sativa

Os03g0309800

Chloroplast

ndhB

611

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
Nanjing 11	WT	Control	Control	No mutant	Normal	Leaf	15-d-old	PCR	100.00%	Complete	None	36897026
Nanjing 11	ylws	An 8-bp deletion	An 8-bp deletion in the coding region (Between the 448th amino acid to the 450th amino acid).	Recessive; Knockout	The ylws mutant exhibited a white-striped leaf phenotype during the two- to four-leaf growth stage, after which the leaves gradually became green with no apparent difference from the WT. The chlorophyll (Chl a and Chl b) and carotenoid contents at the three-leaf stage were significantly reduced in the ylws mutant compared with the WT. Chloroplasts from green portions of ylws mutant leaves were indistinguishable from those of the WT, whereas chloroplasts from white sectors of mutant leaves had abnormal structures, including vacuolated plastids and lack of structurally organized, stacked thylakoid membranes.	Leaf	15-d-old	PCR	87.00%	High	Decreased	36897026

Oryza sativa

Os03g0309800

Chloroplast

ndhB

737

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
Nanjing 11	WT	Control	Control	No mutant	Normal	Leaf	15-d-old	PCR	100.00%	Complete	None	36897026
Nanjing 11	ylws	An 8-bp deletion	An 8-bp deletion in the coding region (Between the 448th amino acid to the 450th amino acid).	Recessive; Knockout	The ylws mutant exhibited a white-striped leaf phenotype during the two- to four-leaf growth stage, after which the leaves gradually became green with no apparent difference from the WT. The chlorophyll (Chl a and Chl b) and carotenoid contents at the three-leaf stage were significantly reduced in the ylws mutant compared with the WT. Chloroplasts from green portions of ylws mutant leaves were indistinguishable from those of the WT, whereas chloroplasts from white sectors of mutant leaves had abnormal structures, including vacuolated plastids and lack of structurally organized, stacked thylakoid membranes.	Leaf	15-d-old	PCR	67.80%	High	Decreased	36897026
Nanjing 11	COM	Complementation	For complementation tests of the ylws mutant, an ~4-kb WT genomic fragment containing the promoter, two exons, and one intron of YLWS was amplified and cloned into the pCUbi-1390 binary vector. The pC	Recessive; Knockout	Normal	Leaf	15-d-old	PCR	100.00%	Complete	Restored	36897026

Oryza sativa

Os03g0309800

Chloroplast

ndhF

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
Nanjing 11	WT	Control	Control	No mutant	Normal	Leaf	15-d-old	PCR	70.00%	High	None	36897026
Nanjing 11	ylws	An 8-bp deletion	An 8-bp deletion in the coding region (Between the 448th amino acid to the 450th amino acid).	Recessive; Knockout	The ylws mutant exhibited a white-striped leaf phenotype during the two- to four-leaf growth stage, after which the leaves gradually became green with no apparent difference from the WT. The chlorophyll (Chl a and Chl b) and carotenoid contents at the three-leaf stage were significantly reduced in the ylws mutant compared with the WT. Chloroplasts from green portions of ylws mutant leaves were indistinguishable from those of the WT, whereas chloroplasts from white sectors of mutant leaves had abnormal structures, including vacuolated plastids and lack of structurally organized, stacked thylakoid membranes.	Leaf	15-d-old	PCR	80.00%	High	Increased	36897026

Oryza sativa

Os03g0309800

Chloroplast

rpoB

467

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
Nanjing 11	WT	Control	Control	No mutant	Normal	Leaf	15-d-old	PCR	8.00%	Poor	None	36897026
Nanjing 11	ylws	An 8-bp deletion	An 8-bp deletion in the coding region (Between the 448th amino acid to the 450th amino acid).	Recessive; Knockout	The ylws mutant exhibited a white-striped leaf phenotype during the two- to four-leaf growth stage, after which the leaves gradually became green with no apparent difference from the WT. The chlorophyll (Chl a and Chl b) and carotenoid contents at the three-leaf stage were significantly reduced in the ylws mutant compared with the WT. Chloroplasts from green portions of ylws mutant leaves were indistinguishable from those of the WT, whereas chloroplasts from white sectors of mutant leaves had abnormal structures, including vacuolated plastids and lack of structurally organized, stacked thylakoid membranes.	Leaf	15-d-old	PCR	70.00%	High	Increased	36897026

Oryza sativa

Os03g0309800

Chloroplast

rpoB

545

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
Nanjing 11	WT	Control	Control	No mutant	Normal	Leaf	15-d-old	PCR	23.00%	Low	None	36897026
Nanjing 11	ylws	An 8-bp deletion	An 8-bp deletion in the coding region (Between the 448th amino acid to the 450th amino acid).	Recessive; Knockout	The ylws mutant exhibited a white-striped leaf phenotype during the two- to four-leaf growth stage, after which the leaves gradually became green with no apparent difference from the WT. The chlorophyll (Chl a and Chl b) and carotenoid contents at the three-leaf stage were significantly reduced in the ylws mutant compared with the WT. Chloroplasts from green portions of ylws mutant leaves were indistinguishable from those of the WT, whereas chloroplasts from white sectors of mutant leaves had abnormal structures, including vacuolated plastids and lack of structurally organized, stacked thylakoid membranes.	Leaf	15-d-old	PCR	71.00%	High	Increased	36897026

Oryza sativa

Os03g0309800

Chloroplast

rpoB

560

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
Nanjing 11	WT	Control	Control	No mutant	Normal	Leaf	15-d-old	PCR	26.00%	Low	None	36897026
Nanjing 11	ylws	An 8-bp deletion	An 8-bp deletion in the coding region (Between the 448th amino acid to the 450th amino acid).	Recessive; Knockout	The ylws mutant exhibited a white-striped leaf phenotype during the two- to four-leaf growth stage, after which the leaves gradually became green with no apparent difference from the WT. The chlorophyll (Chl a and Chl b) and carotenoid contents at the three-leaf stage were significantly reduced in the ylws mutant compared with the WT. Chloroplasts from green portions of ylws mutant leaves were indistinguishable from those of the WT, whereas chloroplasts from white sectors of mutant leaves had abnormal structures, including vacuolated plastids and lack of structurally organized, stacked thylakoid membranes.	Leaf	15-d-old	PCR	73.00%	High	Increased	36897026

Oryza sativa

Os03g0309800

Chloroplast

rps14

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
Nanjing 11	WT	Control	Control	No mutant	Normal	Leaf	15-d-old	PCR	80.00%	High	None	36897026
Nanjing 11	ylws	An 8-bp deletion	An 8-bp deletion in the coding region (Between the 448th amino acid to the 450th amino acid).	Recessive; Knockout	The ylws mutant exhibited a white-striped leaf phenotype during the two- to four-leaf growth stage, after which the leaves gradually became green with no apparent difference from the WT. The chlorophyll (Chl a and Chl b) and carotenoid contents at the three-leaf stage were significantly reduced in the ylws mutant compared with the WT. Chloroplasts from green portions of ylws mutant leaves were indistinguishable from those of the WT, whereas chloroplasts from white sectors of mutant leaves had abnormal structures, including vacuolated plastids and lack of structurally organized, stacked thylakoid membranes.	Leaf	15-d-old	PCR	50.00%	Medium	Decreased	36897026
Nanjing 11	COM	Complementation	For complementation tests of the ylws mutant, an ~4-kb WT genomic fragment containing the promoter, two exons, and one intron of YLWS was amplified and cloned into the pCUbi-1390 binary vector. The pC	Recessive; Knockout	Normal	Leaf	15-d-old	PCR	73.68%	High	Restored	36897026

Editing Factor:	YLWS
Synonym:	Young Leaf White Stripe
Description:	The ylws mutant was impaired in chloroplast ribosome biogenesis and chloroplast development under low-temperature conditions; The ylws mutation causes defects in the splicing of atpF, ndhA, rpl2, and rps12, and editing of ndhA, ndhB, and rps14 transcripts; YLWS directly binds to specific sites in the atpF, ndhA, and rpl2 pre-mRNAs
Protein Family:	PPR
Subclass:	P
Physical Interaction:	OsMORF8a; OsMORF8b
Construct Structure:	P
Gene ID & Species:	Os03g0309800 (Oryza sativa)
Edited Gene(s):	ndhA ndhB rps14 ndhF rpoB
Editing Type(s):	C-to-U (19)
Publication(s):	[1] Young Leaf White Stripe encodes a P-type PPR protein required for chloroplast development., Journal of integrative plant biology, 2023. [PMID=36897026]

Summary

Editing Details