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Journal of Integrative Agriculture  2020, Vol. 19 Issue (5): 1163-1169    DOI: 10.1016/S2095-3119(19)62751-6
Special Issue: 水稻遗传育种合辑Rice Genetics · Breeding · Germplasm Resources
Crop Science Advanced Online Publication | Current Issue | Archive | Adv Search |
Identification of long-grain chromosome segment substitution line Z744 and QTL analysis for agronomic traits in rice
MA Fu-ying, DU Jie, WANG Da-chuan, WANG Hui, ZHAO Bing-bing, HE Guang-hua, YANG Zheng-lin, ZHANG Ting, WU Ren-hong, ZHAO Fang-ming
Rice Research Institute, Academy of Agricultural Sciences, Southwest University, Chongqing 400715, P.R.China
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Abstract  
Length of grain affects the appearance, quality, and yield of rice.  A rice long-grain chromosome segment substitution line Z744, with Nipponbare as the recipient parent and Xihui 18 as the donor parent, was identified.  Z744 contains a total of six substitution segments distributed on chromosomes (Chrs.) 1, 2, 6, 7, and 12, with an average substitution length of 2.72 Mb.  The grain length, ratio of length to width, and 1 000-grain weight of Z744 were significantly higher than those in Nipponbare.  The plant height, panicle number, and seed-set ratio in Z744 were significantly lower than those in Nipponbare, but they were still 78.7 cm, 13.5 per plant, and 86.49%, respectively.  Furthermore, eight QTLs of different traits were identified in the secondary F2 population, constructed by Nipponbare and Z744 hybridization.  The grain weight of Z744 was controlled by two synergistic QTLs (qGWT1 and qGWT7) and two subtractive QTLs (qGWT2 and qGWT6), respectively.  The increase in the grain weight of Z744 was caused mainly by the increase in grain length.  Two QTLs were detected, qGL1 and qGL7-3, which accounted for 25.54 and 15.58% of phenotypic variation, respectively.  A Chi-square test showed that the long-grain number and the short-grain number were in accordance with the 3:1 separation ratio, which indicates that the long grain is dominant over the short-grain and Z744 was controlled mainly by the principal effect qGL1.  These results offered a good basis for further fine mapping of qGL1 and further dissection of other QTLs into single-segment substitution lines.
Keywords:  rice        chromosome segment substitution line        grain length        QTL  
Received: 30 January 2018   Accepted:
Fund: This study was supported by the National Natural Science Foundation of China (31871593), the Chongqing Science and Technology Commission Special Project, China (cstc2016shms-ztzx0032), and the Southwest University Innovation Team Project, China (XDJK2017A004).
Corresponding Authors:  Correspondence ZHAO Fang-ming, Tel/Fax: +86-23-68250486, E-mail: zhaofangming2004@163.com    
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MA Fu-ying, DU Jie, WANG Da-chuan, WANG Hui, ZHAO Bing-bing, HE Guang-hua, YANG Zheng-lin, ZHANG Ting, WU Ren-hong, ZHAO Fang-ming. 2020. Identification of long-grain chromosome segment substitution line Z744 and QTL analysis for agronomic traits in rice. Journal of Integrative Agriculture, 19(5): 1163-1169.

Bai X F, Luo L J, Yan W H, Kovi M R, Zhan W, Xing Y Z. 2010. Genetic dissection of rice grain shape using a recombinant inbred line population derived from two contrasting parents and fine mapping a pleiotropic quantitative trait locus qGL7. BMC Genetics, 11, 16.
Fan C C, Xing Y Z, Mao H L, Lu T T, Han B, Xu C G, Li X H, Zhang Q F. 2006. GS3, a major QTL for grain length and weight and minor QTL for grain width and thickness in rice, encodes a putative transmembrane protein. Theoretical and Applied Genetics, 112, 1164–1171.
Li S F, Wei X J, Ren Y L, Qiu J H, Jiao G A, Guo X P, Tang S Q, Wan J M, Hu P S. 2017. OsBT1 encodes an ADP-glucose transporter involved in starch synthesis and compound granule formation in rice endosperm. Scientific Reports, 7, 40124.
Liu J F, Chen J, Zheng X M, Wu F Q, Lin Q B, Heng Y Q, Tian P, Cheng Z J, Yu X W, Zhou K N, Zhang X, Guo X P, Wang J L, Wang H Y, Wan J M. 2017. GW5 acts in the brassinosteroid signalling pathway to regulate grain width and weight in rice. Nature Plants, 3, 17043.
Liu Q, Han R X, Wu K, Zhang J Q, Ye Y F, Wang S S, Chen J F, Pan Y J, Li Q, Xu X P, Zhou J W, Tao D Y, Wu Y J, Fu X D. 2018. Protein βγ subunits determine grain size through interaction with MADS-domain transcription factors in rice. Nature Communications, 9, 852.
Liu T, Mao D, Zhang S, Xu C, Xing Y. 2009. Fine mapping SPP1, a QTL controlling the number of spikelets per panicle, to a BAC clone in rice (Oryza sativa). Theoretical and Applied Genetics, 118, 1509–1517.
Lu G H, Wu Y F, Bai W B, Ma B, Wang C Y, Song J Q. 2013. Influence of high temperature stress on net photosynthesis, dry matter partitioning and rice grain yield at flowering and grain filling stages. Journal of Integrative Agriculture, 12, 603–609.
Mao H L, Sun S Y, Yao J L, Wang C R, Yu S B, Xu C G, Li X H, Zhang Q F. 2010. Linking differential domain functions of the GS3 protein to natural variation of grain size in rice. Proceedings of the National Academy of Sciences of the United States of America, 107, 19579–19584.
McCouch S R, Kochert G, Yu Z H, Wang Z Y, Khush G S, Coffman W R, Tanksley S D. 1988. Molecular mapping of rice chromosomes. Theoretical and Applied Genetics, 76, 148–159.
Paterson A H, Damon S, Hewitt J D, Zamir D, Rabinowitch H D, Lincoln S E, Lander E S, Tanksley S D. 1991. Mendelian factors underlying quantitative traits in tomato: Comparison across species, generations, and environments. Genetics, 127, 181–197.
Shao G N, Tang S Q, Luo J, Jiao G A, Wei X J, Tang A, Wu J L, Zhuang J Y, Hu P S. 2010. Mapping of qGL7-2, a grain length QTL on chromosome 7 of rice. Journal of Genetics and Genomics, 37, 523–531.
Song X J, Huang W, Shi M, Zhu M Z, Lin H X. 2007. A QTL for rice grain width and weight encodes a previously unknown RING-type E3 ubiquitin ligase. Nature Genetics, 39, 623–630.  
Tanabe S, Ashikari M, Fujioka S, Takatsuto S, Yoshida S, Yano M, Yoshimura A, Kitano H, Matsuoka M, Fujisawa Y, Kato H, Iwasaki Y. 2005. A novel cytochrome P450 is implicated in brassinosteroid biosynthesis via the characterization of a rice dwarf mutant, dwarf11, with reduced seed length. The Plant Cell, 17, 776–790.   
Wang E, Wang J J, Zhu X D, Hao W, Wang L Y, Li Q, Zhang L X, He W, Lu B R, Lin H X, Ma H, Zhang G Q, He Z H. 2008. Control of rice grain-filling and yield by a gene with a potential signature of domestication. Nature Genetics, 40, 1370–1374.
Wang S K, Li S, Liu Q, Wu K, Zhang J Q, Wang S S, Wang Y, Chen X B, Zhang Y, Gao C X, Wang F, Huang H X, Fu X D. 2015. The OsSPL16-GW7 regulatory module determines grain shape and simultaneously improves rice yield and grain quality. Nature Genetics, 47, 949–954.
Wang S M, Cui G Q, Wang H, Ma F Y, Xia S S, Li Y F, Yang Z L, Ling Y H, Zhang C W, He G H, Zhao F M. 2019. Identification and QTL mapping of Z550, a rice backcrossed inbred line with increased grains per panicle. Journal of Integrative Agriculture, 18, 526–531.
Wang Y X, Xiong G S, Hu J, Jiang L, Yu H, Xu J, Fang Y X, Zeng L J, Xu E, Xu J, Ye W J, Meng X B, Liu R F, Chen H Q, Jing Y H, Wang Y H, Zhu X D, Li J Y, Qian Q. 2015. Copy number variation at the GL7 locus contributes to grain size diversity in rice. Nature Genetics, 47, 944–948.
Wu T, Shen Y Y, Zheng M, Yang C Y, Chen Y L, Feng Z M, Liu X, Liu S J, Chen Z J, Lei C L, Wang J L, Jiang L, Wan J M. 2014. Gene SGL, encoding a kinesin-like protein with transactivation activity, is involved in grain length and plant height in rice. Plant Cell Reports, 33, 235–244.
Wu Y Z, Fu Y C, Zhao S S, Gu P, Zhu Z F, Sun C Q, Tan L B. 2016. CLUSTERED PRIMARY BRANCH 1, a new allele of DWARF11, controls panicle architecture and seed size in rice. Plant Biotechnology Journal, 14, 377–386.
Xu J Y, Xue Q Z, Luo L J, Li Z K. 2002. Genetic dissection of grain weight and its related traits in rice (Oryza sativa L.). Chinese Journal of Rice Science, 16, 6–10. (in Chinese)
Yan S, Zou G H, Li S J, Wang H, Liu H Q, Zhai G W, Guo P, Song H M, Yan C J, Tao Y Z. 2011. Seed size is determined by the combinations of the genes controlling different seed characteristics in rice. Theoretical and Applied Genetics, 123, 1173–1178.
Zhao F M, Tan Y, Zheng L Y, Zhou K, He G H, Ling Y H, Zhang L H, Xu S Z. 2016. Identification of rice chromosome segment substitution line Z322-1-10 and mapping QTLs for agronomic traits from the F3 population. Cereal Research Communications, 44, 1–11.
Zhao Y, Cheng S F, Song Y L, Huang Y L, Zhou S L, Liu X Y, Zhou D X. 2015. The interaction between rice ERF3 and WOX11 promotes crown root development by regulating gene expression involved in cytokinin signaling. The Plant Cell, 27, 2469–2483.
Zhu X L, Liang W Q, Cui X, Chen M J, Yin C S, Luo Z J, Zhu J Y, Lucas W J, Wang Z Y, Zhang D B. 2015. Brassinosteroids promote development of rice pollen grains and seeds by triggering expression of Carbon Starved Anther, a MYB domain protein. The Plant Journal, 82, 570–581.
 
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