Functional Marker Development and Effect Analysis of Grain Size Gene GW2 in Extreme Grain Size Germplasm in Rice

doi:10.1016/S1672-6308(14)60280-8

Abstract

Abstract:

GW2 is an important gene that regulates grain width and weight. We used cDNA clone to obtain the sequences of GW2 from large- and small-grained rice varieties, TD70 and Kasalath, respectively. Then, we developed a dCAPS (derived cleaved amplified polymorphic sequence) marker on the basis of the sequence difference between functional and nonfunctional GW2 genes to analyze the genotypes and phenotypes of recombinant inbred lines. Results showed that the sequence of GW2^TD70 had a single nucleotide deletion at site 316 that generates a termination codon. This codon terminated the GW2 protein in advance. By contrast, the sequence of GW2^Kasalathencoded an intact protein. A novel dCAPS marker was designed in accordance with a base A deletion at site 316 of the sequence. After the PCR product was digested by ApoI, TD70 showed 21 and 30 bp fragments, and Kasalath showed a 51 bp fragment. Up to 82 lines contained GW2^TD70, and 158 lines contained GW2^Kasalath. The lines that contained TD70 alleles displayed substantial increases in width and 1000-grain weight. This result suggested that GW2 played a critical role in rice breeding.

Key words: rice, grain size, GW2 gene, derived cleaved amplified polymorphic sequence, phenotype

Ya-dong Zhang, Jia Zheng, Yan-li Liang, Chun-fang Zhao, Tao Chen, Qing-yong Zhao, Zhen Zhu, Li-hui Zhou, Shu Yao, Ling Zhao, Xing Yu, Cai-lin Wang. Functional Marker Development and Effect Analysis of Grain Size Gene GW2 in Extreme Grain Size Germplasm in Rice[J]. Rice Science, 2015, 22(2): 65-70.

Figures/Tables 5

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Type	Year	KGW (g)	GL (mm)	GW (mm)	GT (mm)
TD70	2012	65.00 ± 2.35	13.40 ± 0.08	4.42 ± 0.25	2.99 ± 0.05
TD70	2013	61.00 ± 2.04	13.29 ± 0.15	4.29 ± 0.05	2.93 ± 0.15
Kasalath	2012	17.40 ± 0.66	8.04 ± 0.26	2.48 ± 0.07	1.84 ± 0.08
Kasalath	2013	17.80 ± 0.53	8.07 ± 0.09	2.48 ± 0.04	1.90 ± 0.01
RIL	2012	31.20 ± 7.18	9.83 ± 1.24	3.12 ± 0.36	2.11 ± 0.16
RIL	2013	28.43 ± 6.46	9.68 ± 1.22	3.11 ± 0.37	2.17 ± 0.18

Type	Year	KGW (g)	GL (mm)	GW (mm)	GT (mm)
TD70	2012	65.00 ± 2.35	13.40 ± 0.08	4.42 ± 0.25	2.99 ± 0.05
TD70	2013	61.00 ± 2.04	13.29 ± 0.15	4.29 ± 0.05	2.93 ± 0.15
Kasalath	2012	17.40 ± 0.66	8.04 ± 0.26	2.48 ± 0.07	1.84 ± 0.08
Kasalath	2013	17.80 ± 0.53	8.07 ± 0.09	2.48 ± 0.04	1.90 ± 0.01
RIL	2012	31.20 ± 7.18	9.83 ± 1.24	3.12 ± 0.36	2.11 ± 0.16
RIL	2013	28.43 ± 6.46	9.68 ± 1.22	3.11 ± 0.37	2.17 ± 0.18

Genotype	Year	No. of RILs	KGW (g)	GL (mm)	GW (mm)	GT (mm)
GW2^TD70	2012	82	35.18 ± 7.28	9.96 ± 1.26	3.43 ± 0.33	2.23 ± 0.14
	2013	82	32.08 ± 6.16	9.82 ± 1.21	3.44 ± 0.33	2.32 ± 0.15
GW2^Kasalath	2012	158	29.13 ± 6.22	9.77 ± 1.23	2.96 ± 0.26	2.04 ± 0.12
	2013	158	26.54 ± 5.78	9.61 ± 1.22	2.93 ± 0.25	2.10 ± 0.14

Genotype	Year	No. of RILs	KGW (g)	GL (mm)	GW (mm)	GT (mm)
GW2^TD70	2012	82	35.18 ± 7.28	9.96 ± 1.26	3.43 ± 0.33	2.23 ± 0.14
	2013	82	32.08 ± 6.16	9.82 ± 1.21	3.44 ± 0.33	2.32 ± 0.15
GW2^Kasalath	2012	158	29.13 ± 6.22	9.77 ± 1.23	2.96 ± 0.26	2.04 ± 0.12
	2013	158	26.54 ± 5.78	9.61 ± 1.22	2.93 ± 0.25	2.10 ± 0.14

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