Mining Elite Alleles of Growth Duration and Productive Panicle Number per Plant by Association Mapping with Conditional Phenotypic Value in Japonica Rice

JIANG Jian-hua1, 2, CHEN Lan1, LIU Qiang-ming1, HE Ying-jun1, HONG De-lin1

doi:10.1016/S1672-6308(13)60126-2

2013 , Vol. 20 >Issue 3: 200 - 206

DOI: https://doi.org/10.1016/S1672-6308(13)60126-2

Research Paper

Mining Elite Alleles of Growth Duration and Productive Panicle Number per Plant by Association Mapping with Conditional Phenotypic Value in Japonica Rice

Expand

1State Key Laboratory of Crop Genetics and Germplasm Enhancement, Nanjing Agricultural University, Nanjing 210095, China; 2Institute of Crops, Anhui Academy of Agriculture Sciences, Hefei 230031, China

Revised date: 2012-12-31

Online published: 2013-03-27

Supported by

This study was supported by the Program of National High Technology Research and Development, Ministry of Science and Technology, China (Grant No. 2010AA101301), the Program of Introducing Talents of Discipline to University in China (Grant No. B08025), the Program of Introducing International Advanced Agricultural Science and Technology in China (Grant No. 2006-G8[4]-31-1) and the Program of Science-Technology Basis and Conditional Platform in China (Grant No. 505005).

Fold

Abstract

To provide genetic information and materials for breeding hybrid japonica rice with wide adaptability and strong competitive advantage of yield, elite alleles and their carrier varieties of growth duration (GD) and productive panicle number per plant (PN) were detected. A natural population composed of 94 japonica varieties was phenotyped for the GD, PN and plant height (PH) in two environments. The conditional phenotypic data were transferred by the linear model method in software QGAStation 1.0, and association mapping based on the unconditional and conditional phenotype values of GD and PN was analyzed by using general linear model in software TASSEL. A total of 34 simple sequence repeat (SSR) marker loci associated with GD and PN were detected in the two environments. Among them, 15 were associated with GD, and 19 were associated with PN. Four elite alleles of RM8095-120bp, RM7102-176bp, RM72-170bp and RM72-178bp were associated with GD, and their carrier varieties were Hongmangshajing, Nipponbare, Hongmangshajing and Nannongjing 62401, respectively. These elite alleles from the carrier varieties can shorten GD by 2.03?9.93 d when they were introduced into improved materials. RM72-182bp associated with PN was an elite allele, and its carrier variety was Xiaoqingzhong. It can increase PN by three when introduced into improved materials. Moreover, these elite alleles can be used to improve target traits without influencing another two traits.

Key words： japonica rice; growth duration; productive panicle number per plant; plant height; association mapping with conditional phenotypic value; elite allele

Cite this article

JIANG Jian-hua1, 2, CHEN Lan1, LIU Qiang-ming1, HE Ying-jun1, HONG De-lin1 . Mining Elite Alleles of Growth Duration and Productive Panicle Number per Plant by Association Mapping with Conditional Phenotypic Value in Japonica Rice[J]. Rice Science, 2013 , 20(3) : 200 -206 . DOI: 10.1016/S1672-6308(13)60126-2

References

Breseghello F, Sorrells M S. 2006. Association mapping of kernel size and milling quality in wheat (Triticum aestivum L.) cultivars. Genetics, 172: 1165–1177.
Cui K H, Peng S B, Xing Y Z, Yu S B, Xu C G. 2004. Molecular dissection of the relationships among tiller number, plant height and heading date in rice. Plant Prod Sci, 7(3): 309–318.
Flint-Garcia S A, Jeffry M, Thornsberry E S, Buckler I V. 2003. Structure of linkage disequilibrium in plants. Annu Rev Plant Biol, 54: 357–374.
Gai J Y. 2000. Methods of Experimental Statistics. Beijing: China Agriculture Press: 35–125. (in Chinese)
Guo Y, Chen B S, Hong D L. 2009. Construction of SSR linkage map and analysis of QTL for rolled leaf of restorer line in japonica rice (Oryza sativa). Chin J Rice Sci, 23(3): 245–251. (in Chinese with English abstract)
Guo Y, Hong D L. 2010. Novel pleiotropic loci controlling panicle architecture across environments in japonica rice (Oryza sativa L.). J Genet Genom, 37(8): 533–544.
Jiang J H, Zhao Q B, Liu Q M, Chen L, Chen F L, Qiao B J, Hong D L. 2011. Mining applicable elite alleles of growth duration, plant height and panicle number per plant by conditional QTL mapping in japonica rice. Rice Sci, 18(3): 196–203.
Jin W D, Hong D L. 2007. Establishment of core collections of japonica rice landraces (Oryza sativa L.) in Taihu Lake valley. J Jiangsu Agric Sci, 23(6): 516–525. (in Chinese with English abstract)
Jin W D, Cheng B S, Hong D L. 2008. Genetic diversity analysis of japonica rice landraces (Oryza sativa L.) in Tai Lake region based on SSR markers. Sci Agric Sin, 41(11): 3822–3830. (in Chinese with English abstract)
Li S G, Ma Y Q, He P, Wang Y P, Zhou K D, Zhu L H. 2002. Comparative mapping of quantitative trait loci for heading date and plant height in cultivated rice (Oryza sativa L.) across environments. Acta Agron Sin, 28(4): 546–550. (in Chinese with English abstract)
Li X L, Jiang Y S, Wang P R, Deng X J. 2008. Genetic analysis and gene mapping of dominant earliness of rice line H14. Chin J Appl Environ Biol, 14(3): 332–336. (in Chinese with English abstract)
Li X Y, Qian Q, Fu Z M, Wang Y H, Xiong G S, Zeng D L, Wang X Q, Liu X F, Teng S, Hiroshi F, Yuan M, Luo D, Han B, Li J Y. 2003. Control of tillering in rice. Nature, 422: 618–621.
Li Z F, Xia J F, Su Z S, Zhai H Q, Wan J M. 2002. Mapping quantitative trait loci controlling yield and its related characters in rice (Oryza sativa L.). J Nanjing Agric Univ, 25(2): 1–6. (in Chinese with English abstract)
Liu H Q, Gu L Q, Wu M J, Chen J M, Chen Z J, Wang F. 2008. Genetic analysis and gene mapping of a short growth period mutant sgp(t) in rice (Oryza sativa L.). Chin Sci Bull, 53(13): 1552–1559. (in Chinese)
March R E. 1999. Gene mapping by linkage and association analysis. Mol Biotechnol, 13: 113–122.
Tan X L, Huang Z L, Vanavichit A, Trangoonrung S. 2000. Molecular markers and QTL analysis of growth duration of rice. J Jiangsu Agric Sci, 16(4): 249–250. (in Chinese with English abstract)
Wang Y, Guo Y, Hong D L. 2010. Mining of elite alleles for seed vigor traits in two populations of japonica rice (Oryza sativa L.) in Taihu Lake region. Acta Agron Sin, 36(5): 754–763. (in Chinese with English abstract)
Xu J L, Xue Q Z, Luo L J, Li Z K. 2001. QTL dissection of panicle number per plant and spikelet number per panicle in rice (Oryza sativa L.). Acta Genet Sin, 28(8): 752–759. (in Chinese with English abstract)
Zhang N, Xu Y, Akash M, McCouch S, Oard J H. 2005. Identification of candidate markers associated with agronomic traits in rice using discriminant analysis. Theor Appl Genet, 110: 721–729.
Zhou Z L, Wei X J, Jiang L, Liu K, Xu D Y, Zhai H Q, Wan J M. 2011. Genetic analysis of heading date of japonica rice cultivars in southwest China. Chin J Rice Sci, 25(3): 267–276. (in Chinese with English abstract)
Zhu J. 1995. Analysis of conditional genetic effects and variance components in developmental genetics. Genetics, 141: 1633– 1639.

Options

Outlines

模态框（Modal）标题

Abstract

Cite this article

References