DUA1 - Plant Editosome Database

Editing Details

Species

Gene ID

Organelle

Edited Gene

Position

Region

Nuclear Genome

Organelle Genome

Other Region

Other Position

Editing Type

Codon

Amino Acid

Molecular Effect

Experiment Details

Oryza sativa

LOC_Os09g29825

Chloroplast

rpoB

545

CDS

TIGR (http://rice.uga.edu)

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
Indica	dua1	At low temperature; Mutation	At 19℃; An eight‐nucleotide deletion 58 bp downstream of ATG resulted in a frameshift mutation in dua1. A base change from ‘T’ to ‘C’ upstream of the ORF.	Recessive; Heterozygous	A pale leaf phenotype	Leaf	Third‐leaf‐stage	PCR sequencing	10.00%	Poor	Decreased	30295937
Nipponbare	nip	At low temperature	At 19℃	No mutant	Normal pigment content	Leaf	Third‐leaf‐stage	PCR sequencing	100.00%	Complete	None	30295937
Indica	cp1	At low temperature; Complementation	At 19℃; A complementation experiment was conducted by transforming the dua1 calli. We amplified the DUA1 full‐length ORF using a cDNA clone (J043016D20) as a template. Under the activity of the actin	Recessive; Heterozygous	Normal pigment content	Leaf	Third‐leaf‐stage	PCR sequencing	90.00%	High	Restored	30295937
Indica	dua1	At normal temperature; Mutation	At 30℃; An eight‐nucleotide deletion 58 bp downstream of ATG resulted in a frameshift mutation in dua1. A base change from ‘T’ to ‘C’ upstream of the ORF.	Recessive; Heterozygous	A pale leaf phenotype	Leaf	Third‐leaf‐stage	PCR sequencing	50.00%	Medium	Decreased	30295937
Nipponbare	nip	At normal temperature	At 30℃	No mutant	Normal pigment content	Leaf	Third‐leaf‐stage	PCR sequencing	100.00%	Complete	None	30295937

Oryza sativa

LOC_Os09g29825

Chloroplast

rpoB

560

CDS

TIGR (http://rice.uga.edu)

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
Indica	dua1	At low temperature; Mutation	At 19℃; An eight‐nucleotide deletion 58 bp downstream of ATG resulted in a frameshift mutation in dua1. A base change from ‘T’ to ‘C’ upstream of the ORF.	Recessive; Heterozygous	A pale leaf phenotype	Leaf	Third‐leaf‐stage	PCR sequencing	0.00%	Unedited	Absent	30295937
Nipponbare	nip	At low temperature	At 19℃	No mutant	Normal pigment content	Leaf	Third‐leaf‐stage	PCR sequencing	100.00%	Complete	None	30295937
Indica	cp1	At low temperature; Complementation	At 19℃; A complementation experiment was conducted by transforming the dua1 calli. We amplified the DUA1 full‐length ORF using a cDNA clone (J043016D20) as a template. Under the activity of the actin	Recessive; Heterozygous	Normal pigment content	Leaf	Third‐leaf‐stage	PCR sequencing	85.00%	High	Restored	30295937
Indica	dua1	At normal temperature; Mutation	At 30℃; An eight‐nucleotide deletion 58 bp downstream of ATG resulted in a frameshift mutation in dua1. A base change from ‘T’ to ‘C’ upstream of the ORF.	Recessive; Heterozygous	A pale leaf phenotype	Leaf	Third‐leaf‐stage	PCR sequencing	50.00%	Medium	Decreased	30295937
Nipponbare	nip	At normal temperature	At 30℃	No mutant	Normal pigment content	Leaf	Third‐leaf‐stage	PCR sequencing	100.00%	Complete	None	30295937

Oryza sativa

LOC_Os09g29825

Chloroplast

rps8

182

CDS

TIGR (http://rice.uga.edu)

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
Indica	dua1	At low temperature; Mutation	At 19℃; An eight‐nucleotide deletion 58 bp downstream of ATG resulted in a frameshift mutation in dua1. A base change from ‘T’ to ‘C’ upstream of the ORF.	Recessive; Heterozygous	A pale leaf phenotype	Leaf	Third‐leaf‐stage	PCR sequencing	0.00%	Unedited	Absent	30295937
Nipponbare	nip	At low temperature	At 19℃	No mutant	Normal pigment content	Leaf	Third‐leaf‐stage	PCR sequencing	100.00%	Complete	None	30295937
Indica	cp1	At low temperature; Complementation	At 19℃; A complementation experiment was conducted by transforming the dua1 calli. We amplified the DUA1 full‐length ORF using a cDNA clone (J043016D20) as a template. Under the activity of the actin	Recessive; Heterozygous	Normal pigment content	Leaf	Third‐leaf‐stage	PCR sequencing	90.00%	High	Restored	30295937
Indica	dua1	At normal temperature; Mutation	At 30℃; An eight‐nucleotide deletion 58 bp downstream of ATG resulted in a frameshift mutation in dua1. A base change from ‘T’ to ‘C’ upstream of the ORF.	Recessive; Heterozygous	A pale leaf phenotype	Leaf	Third‐leaf‐stage	PCR sequencing	100.00%	Complete	Similar	30295937
Nipponbare	nip	At normal temperature	At 30℃	No mutant	Normal pigment content	Leaf	Third‐leaf‐stage	PCR sequencing	100.00%	Complete	None	30295937

Editing Factor:	DUA1
Synonym:	NA
Description:	Western blot analysis indicates that WSP1 enhances DUA1 stability under low temperatures; DUA1 sequence analyses of rice core germplasm revealed that three major haplotypes of DUA1 and one haplotype showed substantial differences in chlorophyll content under low-temperature conditions; Variation at DUA1 may play an important role in the adaptation of rice to different growing regions.
Protein Family:	Pentatricopeptide repeat (PPR) protein
Subclass:	DYW
Physical Interaction:	WSP1
Construct Structure:	PLS-DYW
Gene ID & Species:	LOC_Os09g29825 (Oryza sativa)
Edited Gene(s):	rpoB rps8
Editing Type(s):	C-to-U (15)
Publication(s):	[1] The RNA editing factor DUA1 is crucial to chloroplast development at low temperature in rice, New Phytol, 2019. [doi:10.1111/nph.15448]

Summary

Editing Details