The causal deletions in the second exon of An-3 closely associated with awn development and rice yield

• Published in: Genes & genomics Vol. 39; no. 11; pp. 1205 - 1213
• Main Authors: Liu, Lilong, Li, Yunzhen, Wei, Minyi, Wu, Zishuai, Liu, Fang, Qiu, Yongfu, Luo, Jijing, Li, Rongbai, Qin, Baoxiang
• Format: Journal Article
• Language: English
• Published: Seoul The Genetics Society of Korea 01-11-2017; Springer Nature B.V; 한국유전학회
• Subjects: Alleles; Animal Genetics and Genomics; Biomedical and Life Sciences; Chromosome 8; Domestication; Human Genetics; Life Sciences; Microbial Genetics and Genomics; Oryza sativa; Plant Genetics and Genomics; Quantitative trait loci; Research Article; Rice; 생물학; Awn; Epidermal patterning factor-like protein; Rice
• ISSN: 1976-9571; 2092-9293
• DOI: 10.1007/s13258-017-0587-7

Awn is one of important traits during rice domestication. To understand the development of rice awn and the roles it played in rice domestication, we preliminary mapped a major QTL
An-3
for awn development using chromosome segment substitution line CSSL138 developed by introgressed genomic fragments of long-awned Guangxi common wild rice (GXCWR,
Oryza rufipogon
Griff.) into genetic background of short-awned
indica
cultivar 93–11.
An-3
was then fine mapped to a 7-kb region of chromosome 8. An epidermal patterning factor-like protein gene was identified as the single candidate gene corresponding to this QTL.
An-3
was showed to be an allele of
RAE2
and
GAD1
, and negatively regulated 1000-grains weight, grain length, and length–width ratio. Comparing with the coding sequences of
An-3
from CSSL138, a 2- and 4-bp frame-shift deletions in the second exon were identified in 93–11 and Nipponbare, respectively. Taken together, our results provide valuable natural variation in the alleles of
An-3
between common wild rice and cultivated rice, which will be helpful in clarifying the mechanism of awn development and promoting the application of
an-3
in genetic improvement of rice yield traits.