Mapping of three QTLs for seed setting and analysis on the candidate gene for qSS-1 in rice (Oryza sativa L.)

doi:10.1016/S2095-3119(15)61299-0

Journal of Integrative Agriculture ›› 2016, Vol. 15 ›› Issue (4): 735-743.DOI: 10.1016/S2095-3119(15)61299-0

Mapping of three QTLs for seed setting and analysis on the candidate gene for qSS-1 in rice (Oryza sativa L.)

Elsheikh Y M Ahmed, ZHANG Yan-pei, YU Jian-ping, Rashid M A Rehman, ZHANG Zhan-ying, ZHANG Hong-liang, LI Jin-jie, LI Zi-chao

Key Laboratory of Crop Heterosis and Utilization, Ministry of Education/Beijing Key Laboratory of Crop Genetic Improvement, China Agricultural University, Beijing 100193, P.R.China

收稿日期:2015-04-07 出版日期:2016-04-01 发布日期:2016-04-07
通讯作者: LI Zi-chao, Tel: +86-10-62731414, E-mail: lizichao@cau.edu.cn
基金资助:
This study was supported by the National Key Technologies R&D Program of China during the 12th Five-Year Plan period (2013BAD01B02-15 and 2015BAD02B01), and the 948 Project of Minstry of Agriculture, China (2011-G2B and 2011-G1 (2)-25).

Mapping of three QTLs for seed setting and analysis on the candidate gene for qSS-1 in rice (Oryza sativa L.)

Elsheikh Y M Ahmed, ZHANG Yan-pei, YU Jian-ping, Rashid M A Rehman, ZHANG Zhan-ying, ZHANG Hong-liang, LI Jin-jie, LI Zi-chao

Key Laboratory of Crop Heterosis and Utilization, Ministry of Education/Beijing Key Laboratory of Crop Genetic Improvement, China Agricultural University, Beijing 100193, P.R.China

Received:2015-04-07 Online:2016-04-01 Published:2016-04-07
Contact: LI Zi-chao, Tel: +86-10-62731414, E-mail: lizichao@cau.edu.cn
Supported by:
This study was supported by the National Key Technologies R&D Program of China during the 12th Five-Year Plan period (2013BAD01B02-15 and 2015BAD02B01), and the 948 Project of Minstry of Agriculture, China (2011-G2B and 2011-G1 (2)-25).

摘要/Abstract

摘要： The lower seed setting is one of the major hindrances which face grain yield in rice. One of the main reasons to cause low spikelet fertility (seed setting) is male sterility or pollen abortion. Notably, pollen abortion has been frequently observed in advanced progenies of rice. In the present study, 149 BC₂F₆individuals with significant segregation in spikelet fertility were generated from the cross between N040212 (indica) and Nipponbare (japonica) and used for primary gene mapping. Three QTLs, qSS-1, qSS-7 and qSS-9 at chromosomes 1, 7 and 9, respectively, were found to be associated with seed setting. The recombinant analysis and the physical mapping information from publicly available resources exhibited that the qSS-1, qSS-7 and qSS-9 loci were mapped to an interval of 188, 701 and 3 741 kb, respectively. The seed setting responsible for QTL qSS-1 was further fine mapped to 93.5 kb by using BC₂F₇ population of 1 849 individuals. There are 16 possible putative genes in this 93.5 kb region. Pollen vitality tests and artificial pollination indicated that the male gamete has abnormal pollen while the female gamete was normal. These data showed that low seed setting rate relative to qSS-1 may be caused by abnormal pollen grains. These results will be useful for cloning, functional analysis of the target gene governing spikelet fertility (seed setting) and understanding the genetic bases of pollen sterility.

关键词: rice (Oryza sativa L.) , QTL mapping , seed setting , pollen sterility

Abstract: The lower seed setting is one of the major hindrances which face grain yield in rice. One of the main reasons to cause low spikelet fertility (seed setting) is male sterility or pollen abortion. Notably, pollen abortion has been frequently observed in advanced progenies of rice. In the present study, 149 BC₂F₆individuals with significant segregation in spikelet fertility were generated from the cross between N040212 (indica) and Nipponbare (japonica) and used for primary gene mapping. Three QTLs, qSS-1, qSS-7 and qSS-9 at chromosomes 1, 7 and 9, respectively, were found to be associated with seed setting. The recombinant analysis and the physical mapping information from publicly available resources exhibited that the qSS-1, qSS-7 and qSS-9 loci were mapped to an interval of 188, 701 and 3 741 kb, respectively. The seed setting responsible for QTL qSS-1 was further fine mapped to 93.5 kb by using BC₂F₇ population of 1 849 individuals. There are 16 possible putative genes in this 93.5 kb region. Pollen vitality tests and artificial pollination indicated that the male gamete has abnormal pollen while the female gamete was normal. These data showed that low seed setting rate relative to qSS-1 may be caused by abnormal pollen grains. These results will be useful for cloning, functional analysis of the target gene governing spikelet fertility (seed setting) and understanding the genetic bases of pollen sterility.

Key words: rice (Oryza sativa L.) , QTL mapping , seed setting , pollen sterility

Elsheikh Y M Ahmed, ZHANG Yan-pei, YU Jian-ping, Rashid M A Rehman, ZHANG Hong-l. Mapping of three QTLs for seed setting and analysis on the candidate gene for qSS-1 in rice (Oryza sativa L.)[J]. Journal of Integrative Agriculture, 2016, 15(4): 735-743.

Elsheikh Y M Ahmed, ZHANG Yan-pei, YU Jian-ping, Rashid M A Rehman, ZHANG Zhan-ying, ZHANG Hong-liang, LI Jin-jie, LI Zi-chao. Mapping of three QTLs for seed setting and analysis on the candidate gene for qSS-1 in rice (Oryza sativa L.)[J]. Journal of Integrative Agriculture, 2016, 15(4): 735-743.

参考文献

Griffiths J, Murase K, Rieu I, Zentella R, Zhang Z L, Powers S J, Gong F, Phillips A L, Hedden P, Sun T P, Thomas S G. 2006. Genetic characterization and functional analysis of the gid1 gibberellin receptors in arabidopsis. The Plant Cell, 18, 3399–3414.

Han M J, Jung K H, Yi G, Lee D Y, An G. 2006. Rice immature pollen 1 (RIP1) is a regulator of late pollen development. Plant and Cell Physiology, 47, 1457–1472.

Hernould M, Suharsono S, Zabaleta E, Carde J P, Litvak S, Araya A, Mouras A. 1998. Impairment of tapetum and mitochondria in engineered male-sterile tobacco plants. Plant Molecular Biology, 36, 499–508.

Jiang G, Xiang Y, Zhao J, Yin D, Zhao X, Zhu L, Zhai W. 2014. Regulation of inflorescence branch development in rice through a novel pathway involving the pentatricopeptide repeat protein sped1-d. Genetics, 197, 1395–1407.

Khush G S. 2005. What it will take to feed 5.0 billion rice consumers in 2030. Plant Molecular Biology, 59, 1–6.

Kinoshita T. 1998. Report of the committee on gene symbolization, nomenclature and linkage groups. II. Linkage mapping using mutant genes in rice. Rice Genetics Newsletters, 15, 13–74.

Kosambi D D. 1943. The estimation of map distances from recombination values. Annals of Eugenics, 12, 172–175.

Lander E S, Green P, Abrahamson J, Barlow A, Daly M J, Lincon S E, Newburg L. 1987. Mapmaker: An interactive computer package for constructing primary genetic linkage maps of experimental and natural populations. Genomics, 1, 174–181.

Li N, Zhang D S, Liu H S, Yin C S, Li X X, Liang W Q, Yuan Z, Xu B, Chu H W, Wang J, Wen T Q, Huang H, Luo D, Ma H, Zhang D B. 2006. The rice tapetum degeneration retardation gene is required for tapetum degradation and anther development. The Plant Cell, 18, 2999–3014.

Li W T, Zeng R Z, Zhang Z M, Ding X H, Zhang G Q. 2008. Identification and fine mapping of S-d, a new locus conferring the partial pollen sterility of intersubspecific F1 hybrids in rice (Oryza sativa L.). Theoretical and Applied Genetics, 116, 915–922.

Li W T, Zeng R Z, Zhang Z M, Zhang G Q. 2002. Mapping of S-b locus for F1 pollen sterility in cultivated rice using PCR based marker. Acta Botanica Sinica, 44, 463–467.

Lin S Y, Ikehashi H, Yanagihara S, Kawashima A. 1992. Segregation distortion via male gametes in hybrids between indica and japonica or wide-compatibility varieties in rice (Oryza sativa L). Theoretical and Applied Genetics, 84, 812–818.

Lin S Y, Takashi T, Sasaki T, Yano M. 2008. Map-based cloning of Ps1, a gene for pollen abortion in rice. Advances in Rice Genetics, 1, 319–321.

Lincoln S E, Daly M J, Lander E S. 1993. Constructing Genetic Linkage Maps with Mapmaker/Exp Version 3.0: A Tutorial and Reference Manual. A Whitehead Institute for Biomedical Research Technical Report. pp. 78–79.

Liu H Y, Xu C G, Zhang Q. 2004. Male and female gamete abortions, and reduced affinity between the uniting gametes as the causes for sterility in an indica/japonica hybrid in rice. Sexual Plant Reproduction, 17, 55–62.

Liu W, Zhang D, Tang M, Li D, Zhu Y, Zhu L, Chen C. 2013. THIS1 is a putative lipase that regulates tillering, plant height, and spikelet fertility in rice. Journal of Experimental Botany, 64, 4389–4402.

Liu Y S, Zhu L H, Sun J S, He P, Liu Y S, Zhu L H, Sun J S. 1997. Mapping quantitative trait loci for reproductive barriers occurring in hybrid between indica and japonica rice. Acta Botanica Sinica, 39, 1099–1104.

Lu Y N, Zhang G Q. 2008. Histological observations on induced genetic male sterile mutants in rice. Rice Genetics, 1, 661–671.

Ma H. 2005. Molecular genetic analyses of microsporogenesis and microgametogenesis in flowering plants. Annual Review of Plant Biology, 56, 393–434.

Maekawa M, Inukai T, Shinbashi N. 1997. Genic analysis of hybrid sterility caused by anther indehiscence between distantly related rice varieties. Euphytica, 94, 311–318.

Mariani C, Deuckeleer M D, Truetterne J, Leemans J, Goldberg R B. 1990. Induction of male sterility in plants by a chimeric ribonuclease gene. Nature, 347, 737–741.

Mizuno S, Osakabe Y, Maruyama K, Ito T, Osakabe K, Sato T,Shinozaki K, Yamaguchi K. 2007. Receptor-like protein kinase2 (RPK2) is a novel factor controlling anther development in Arabidopsis thaliana. The Plant Journal, 50, 751–766.

Ouyang Y, Liu Y, Zhang Q. 2010. Hybrid sterility in plant: Stories from rice. Current Opinion in Plant Biology, 13, 186–192.

Panaud O, Chen X, McCouch S R. 1996. Development of microsatellite markers and characterization of simple sequence length polymorphism (SSLP) in rice (Oryza sativa L.). Molecular and General Genetics, 252, 597–607.

Prasad P, Boote K, Allen L, Sheehy J, Thomas J. 2006. Species, ecotype and cultivar differences in spikelet fertility and harvest index of rice in response to high temperature stress. Field Crops Research, 95, 398–411.

Rogers O S, Bendich A J. 1988. Extraction of DNA from plant tissues. Plant Molecular Biology Manual, 6, 1–10.

Sheng Z H, Tang L Q, Shao G N, Xie L H, Jiao G A, Tang S Q, Hu P S. 2014. The rice thermo-sensitive genic male sterility gene tms9: Pollen abortion and gene isolation. Euphytica, doi: 10.1007/s10681-014-1285-z

Shi X, Sun X, Zhang Z, Feng D, Zhang Q, Han L, Wu J, Lu T. 2015. GLUCAN SYNTHASE-LIKE 5 (GSL5) plays an essential role in male fertility by regulating callose metabolism during microsporogenesis in rice. Plant and Cell Physiology, doi:10.1093/pcp/pcu193

Song X, Qiu S Q, Xu C G, Li X H, Zhang Q F. 2005. Genetic dissection of embryo sac fertility, pollen fertility, and their contributions to spikelet fertility of intersubspecific hybrids in rice. Theoretical and Applied Genetics, 110, 205–211.

Wilson Z A, Zhang D B. 2009. From Arabidopsis to rice: pathways in pollen development. Journal of Experimental Botany, 60, 1479–1492.

Xiao Y H, Pan Y, Luo L H, Zhang G L, Deng H B, Dai L Y, Liu X L, Tang W B, Chen L Y, Wang G L. 2011. Quantitative trait loci associated with seed set under high temperature stress at the flowering stage in rice (Oryza sativa L.). Euphytica, 178, 331–338.

Xu H, Knox R B, Tayor P E, Sing M B. 1995. Bcp1, a gene required for male fertility in Arabidopsis. Proceedings of the National Academy of Sciences of the United States of America, 92, 2106–2110.

Zhang D, Luo X, Zhu L. 2011. Cytological analysis and genetic control of rice anther development. Journal of Genetics and Genomics, 38, 379–390.

Zhang G, Chen L, Xiao G, Xiao Y, Chen X, Zhang S. 2009. Bulked segregant analysis to detect QTL related to heat tolerance in rice using SSR markers. Agricultural Sciences in China, 8, 482–487.

Zhang G Q, Lu Y G. 1989. Genetic studies of the hybrid sterility in cultivated rice (Oryza sativa). I. Diallel analysis of the hybrid sterility among isogenic F1 sterile lines. Chinese Journal of Rice Science, 3, 97–101. (in Chinese)

Zhang H, Xu C X, He Y, Zong J, Yang X J, Si H M, Sun Z X, Hu J P, liang W Q, Zhang D B. 2013. Mutation in CSA creates a new photoperiod-sensitive genic male sterile line applicable for hybrid rice seed production. Proceedings of the National Academy of Sciences of the United States of America, 110, 76–81.

Zhou S, Zhu M, Wang F, Huang J, Wang G. 2013. Mapping of QTLs for yield and its components in a rice recombinant inbred line population. Pakistan Journal of Botany, 45, 183–189.

Zhu Q, Ramm K, Shivakkumar R, Dennis E S, Upadhyaya N M. 2004. The anther indehiscence1 gene encoding a single Myb domain protein is involved in anther development in rice. Plant Physiology, 135, 1514–1525.

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Mapping of three QTLs for seed setting and analysis on the candidate gene for qSS-1 in rice (Oryza sativa L.)

Mapping of three QTLs for seed setting and analysis on the candidate gene for qSS-1 in rice (Oryza sativa L.)

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