qAC2, a novel QTL that interacts with Wx and controls the low amylose content in rice (Oryza sativa L.)

Key message This manuscript reports the fine mapping of a novel QTL, qAC2 controlling the low amylose in rice. The action mechanism of the qAC2 is also investigated by the analysis of genetic interactions to Wx a , Wx b , du1 , du2 and du3 . Amylose content of the rice ( Oryza sativa L.) endosperm g...

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Bibliographic Details
Published in:Theoretical and applied genetics 2015-04, Vol.128 (4), p.563-573
Main Authors: Takemoto-Kuno, Yoko, Mitsueda, Hiroki, Suzuki, Keitaro, Hirabayashi, Hideyuki, Ideta, Osamu, Aoki, Noriaki, Umemoto, Takayuki, Ishii, Takuro, Ando, Ikuo, Kato, Hiroshi, Nemoto, Hiroshi, Imbe, Tokio, Takeuchi, Yoshinobu
Format: Article
Language:English
Subjects:
Agricultural research
Agriculture
Alleles
Amylopectin - chemistry
Amylose
Amylose - chemistry
Biochemistry
Biomedical and Life Sciences
Biotechnology
Chromosome Mapping
Chromosomes
Chromosomes, Plant
Crop science
Cultivars
Epistasis, Genetic
Gene Expression Regulation, Plant
Genes
Genetic aspects
Genetic Linkage
Genetic Markers
Identification and classification
INDEL Mutation
Life Sciences
Microsatellite Repeats
Original Paper
Oryza - chemistry
Oryza - genetics
Oryza sativa
Physiological aspects
Plant Biochemistry
Plant Breeding/Biotechnology
Plant Genetics and Genomics
Quantitative Trait Loci
Rice
Seeds
Seeds - chemistry
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Summary:Key message This manuscript reports the fine mapping of a novel QTL, qAC2 controlling the low amylose in rice. The action mechanism of the qAC2 is also investigated by the analysis of genetic interactions to Wx a , Wx b , du1 , du2 and du3 . Amylose content of the rice ( Oryza sativa L.) endosperm greatly affects starch properties and eating quality of cooked rice. Seeds of japonica rice cultivar Kuiku162 have low amylose content (AC) and good eating quality. Our analysis revealed a novel QTL, designated as qAC2 that contributed to the low AC of Kuiku162. qAC2 was fine mapped within a 74.9-kb region between two insertion and deletion markers, KID3001 and KID5101, on the long arm of chromosome 2. Seven genes are predicted in this region, but none of them is known to be related to the regulation of AC. The AC of a near-isogenic line (NIL110) carrying qAC2 Kuiku , the Kuiku162 allele of qAC2 , in the genetic background of japonica cultivar Itadaki was lower by 1.1 % points than that of Itadaki. The chain length distributions of amylopectin were similar in NIL110 and Itadaki; therefore, the low AC of NIL110 was caused by a decrease in the actual AC, but not by a difference in the amylopectin structure. The interaction analyses revealed that qAC2 Kuiku has epistatic interaction with Wx a . The qAC2 Kuiku has epistatic interactions with two loci, du1 and du2 , on Wx b , whereas the genetic effect of qAC2 Kuiku has additive to that of du3 on Wx b . Thus, similar to du1 and du2 , qAC2 may have a function related to Wx b mRNA splicing.
ISSN:0040-5752
1432-2242
DOI:10.1007/s00122-014-2432-6