Inheritance and QTL Mapping of Salt Tolerance in Rice

Abstract

Abstract: An F₂ population derived from the cross between Jiucaiqing (japonica) and IR36 (indica) was used to analyze the inheritance of salt tolerance in rice by genetic model of major-genes plus polygenes, and to map the corresponding QTLs by SSR molecular markers. Rice plants of P₁, P₂, F₁ and F₂ at 5- to 6- leaf stage were treated under 140 mmol/LNaCl for 10 days. Three indices representing the ability of salt tolerance of rice seedlings were measured, including salt tolerance rating (STR), Na⁺/K⁺ ratioin roots and dry matter weight of shoots (DWS). STR, Na⁺/K⁺ and DWS were all controlled by two major genes with modification by polygenes. Heritability of these traits from major genes was 17.8, 53.3 and 52.3%, respectively. The linkage map constructed by 62 SSR molecular markers covered a total length of about 1 142 cM. There were three QTLs detected for STR located on chromosome 1, 5 and 9, two QTLs for DWS on chromosomes 8 and 9, and two QTLs for Na⁺/K⁺ on chromosomes 2 and 6, one on each chromosome respectively. Single QTL accounted for 6.7 to 19.3% of phenotypic variation. Identification method of salt tolerance in rice and breeding of rice varieties with salt tolerance based on molecular markers assisted selection had been discussed.

Key words: rice (Oryza sativa), salt tolerance, inheritance, quantitative trait locus, molecular marker

YAO Ming-zhe, WANG Jian-fei, CHEN Hong-you, ZHAI Hu-qu, ZHANG Hong-sheng . Inheritance and QTL Mapping of Salt Tolerance in Rice
[J]. RICE SCIENCE.

References

1 Akbar M, Khush G S, Hillerislambers D. Genetics of salt tolerance in rice. In: IRRI. Rice Genetics. Proceeding of International Rice Genetics Symposium, Manila, Philippines: IRRI, 1985. 399–409.

2 Moeljopawiro S, Ikehashi H. Inheritance of salt tolerance in rice. Euphytica, 1981, 30: 291–300.

3 Zhang Y M, Gai J Y, Zhang M C. Jointly segregation analysis of P₁, F₁, P₂, F₂or F₂_:₃families. J Southwest Agric Univ, 2000, 22(1): 6–9. (in Chinese with English abstract)

4 Wang J F, Chen H Y, Yang Q L, Yao M Z, Zhou G A, Zhang H S. Effects of salt concentration and temperature on the screening of salt-tolerance in rice. Chinese J Rice Sci, 2004, 18(5): 449–454. (in Chinese with English abstract)

5 Yoshida S, Forno D A, Cock J H, Gomez K A. Laboratory manual for physiological studies of rice. 3rd ed. Manila, Philippines: IRRI, 1976. 61–64.

6 Gregorio G B, Senadhira D. Genetic analysis of salinity tolerance in rice (O. sativa L.). Theor Appl Genet, 1993, 86: 333–338.

7 Wang B S, Zhao K F. Comparison to extractive methods of Na⁺ and K⁺ in wheat leaf. Plant Physiol Comm, 1995, 31(1): 50–52.(in Chinese)

8 Dellaporta S L, Wood J, Hicks J B. A plant DNA minipreparation. Version Ⅱ. Plant Mol Biol Rep, 1983, 1: 19–21.

9 Panaud O, Chen X, McCouch S R. Development of microsatellite markers and characterization of simple sequence length polymorphism (SSLP) in rice. Mol Gen Genet, 1996, 252: 597–607.

10 Lander, E S, Green P, Abrahamson J, Barlow A, Daly M J, Lincoln S E, Newburg L. MAPMARKER: an interactive computer package for constructing primary linkage maps of experimental and natural population. Genomics, 1987, 1: 174–181.

11 Kosambi D D. The estimation of map distances from recombination values. Ann Eugen, 1944, 12: 172–175.

12 Soller M, Brody T. On the power of experimental designs for detection of linkage between marker loci and quantitative loci in crosses between inbred lines. Theor Appl Genet, 1976, 47: 35–39.

13 Lander E S, Botstein S. Mapping Mendelian factors underlying quantitative traits using RFLP linkage maps. Genetics, 1989, 121: 185–199.

14 Zeng Z B. Precision mapping of quantitative traits loci. Genetics, 1994, 136: 1457–1468.

15 McCouch S R, Cho Y G, Yano M, Paul E, Blinstrub M, Morishima H, Kinoshita T. Report on QTL nomenclature. Rice Genet Newsl, 1997, 14: 11–13.

16 Temnykh S, Park W D, Ayres N, Cartinhour S, Hauck N, Lipovich L, Cho Y G, Ishii T, McCouch S R. Mapping and genome organization of microsatellite sequences in rice (Oryza sativa L.). Theor Appl Genet, 2000, 100: 697–712.

17 Gu X Y, Yan X L, Zheng S L, Lu Y G. Influence of salinity on genetic variation of agronomic traits in rice. Sci Agric Sin, 1999, 32(1): 1–7. (in Chinese with English abstract)

18 Gu X Y, Zhen S L, Yan X L, Lu Y G. Analysis of generation means for the inheritance of salt tolerance in

rice seedling. Acta Agron Sin, 1999, 25(6): 686–690. (in Chinese with English abstract)

19 Garcia A, Rizzo C A, Ud-din J, Bartos S L, Senadhira D, Flowers T J, Yeo A R. Sodium and potassium transport to the xylem are inherited independently in rice and the mechanism of sodium: potassium selectivity differs between rice and wheat. Plant Cell Environ, 1997, 20: 1167–1174.

20 Yeo A R, Flowers T J. Screening of rice genotypes for physiological character contributing to salinity resistance and their relationship to overall performance. Theor Appl Genet, 1990, 79: 277–384.

21 Kearsey M J, Farquhar A G. QTL analysis in plants: where are we now? Heredity, 1998, 80: 137–142.

22 Causse M A, Fulton T M, Cho Y G, Ahn S N, Chunwongse J, Wu K, Xiao J H, Yu Z H, Ronald P C, Hanington S E, Second G, McCouch S R, Tanksley S D. Saturated molecular map of the rice genome based on an interspecific backcross population. Genetics, 1994, 138: 1251–1274.

23 Gong J M, He P, Qian Q, Shen L S, Zhu L H, Chen S Y. Location of QTL for salt tolerance in rice. Chin Sci Bull, 1998, 43(17): 1847–1850. (in Chinese)

24 Koyama M L, Levesly A, Koebner R M D, Flowers T J, Yeo A R. Quantitative trait loci for component physiological traits determining salt tolerance in rice. Plant Physiol, 2001, 25: 406–422.

25 Dubcovsky J, Santa M G, Epstein E, Luo M O, Dvorak J. Mapping of K⁺/Na⁺ discrimination locus Kna1 in wheat. Theor Appl Genet, 1996, 92: 448–454.

26 Gu X Y, Mei M T, Yan X L, Zheng S L, Lu Y G. Preliminary detection of quantitative trait loci for salt tolerence in rice. Chinese J Rice Sci, 2000, 14(2): 65–70. (in Chinese with English abstract)

27 Lin H X, Yanagihara S, Zhang J Y, Senboku T, Zheng K L, Yashima S. Identification of QTL for salt tolerance in rice via molecular markers. Chinese J Rice Sci, 1998, 12(2): 72–78.

28 Prasad S R, Bagali P G, Hittalmani S, Shashidhar H E. Molecular mapping of quantitative trait loci associated with seedling tolerance to salt stress in rice. Curr Sci, 2000, 78(2): 162–164.

29 Yeo A R, Garcia A. The effects of selection for sodium transport and of selection for agronomic characteristics upon resistance in rice. Theor Appl Genet, 1995, 90: 1106–1111.

30 McCouch S R, Chen X, Panaud O. Microsatellite marker development, mapping and application in rice genetics and breeding. Plant Mol Biol, 1997, 35: 89–99.

[1]	Sundus ZAFAR, XU Jianlong. Recent Advances to Enhance Nutritional Quality of Rice [J]. Rice Science, 2023, 30(6): 4-.
[2]	Shilin Ding, Chaolei Liu, Lianguang Shang, Shenglong Yang, Anpeng Zhang, Hongzhen Jiang, Banpu Ruan, Guonan Fang, Biao Tian, Guoyou Ye, Longbiao Guo, Qian Qian, Zhenyu Gao. Identification of QTLs for Cadmium Tolerance During Seedling Stage and Validation of qCDSL1 in Rice [J]. Rice Science, 2021, 28(1): 81-88.
[3]	Hui Wang, Jiayu Zhang, Farkhanda Naz, Juan Li, Shuangfei Sun, Guanghua He, Ting Zhang, Yinghua Ling, Fangming Zhao. Identification of Rice QTLs for Important Agronomic Traits with Long-Kernel CSSL-Z741 and Three SSSLs [J]. Rice Science, 2020, 27(5): 414-422.
[4]	Hussain Kashif, Yingxing Zhang, Anley Workie, Riaz Aamir, Abbas Adil, Hasanuzzaman Rani Md., Hong Wang, Xihong Shen, Liyong Cao, Shihua Cheng. Association Mapping of Quantitative Trait Loci for Grain Size in Introgression Line Derived from Oryza rufipogon [J]. Rice Science, 2020, 27(3): 246-254.
[5]	Jinjun Zhou, Peina Ju, Fang Zhang, Chongke Zheng, Bo Bai, Yaping Li, Haifeng Wang, Fan Chen, Xianzhi Xie. OsSRK1, an Atypical S-Receptor-Like Kinase Positively Regulates Leaf Width and Salt Tolerance in Rice [J]. Rice Science, 2020, 27(2): 133-142.
[6]	Yuan Chen, Yuxiang Zeng, Zhijuan Ji, Yan Liang, Zhihua Wen, Changdeng Yang. Identification of Stable Quantitative Trait Loci for Sheath Blight Resistance Using Recombinant Inbred Line [J]. Rice Science, 2019, 26(5): 331-338.
[7]	Wenhui Wang, Linlin Wang, Yujun Zhu, Yeyang Fan, Jieyun Zhuang. Fine-Mapping of qTGW1.2a, a Quantitative Trait Locus for 1000-Grain Weight in Rice [J]. Rice Science, 2019, 26(4): 220-228.
[8]	Wenqiang Liu, Xiaowu Pan, Yongchao Li, Yonghong Duan, Jun Min, Sanxiong Liu, Licheng Liu, Xinnian Sheng, Xiaoxiang Li. Identification of QTLs and Validation of qCd-2 Associated with Grain Cadmium Concentrations in Rice [J]. Rice Science, 2019, 26(1): 42-49.
[9]	Okechukwu Anyaoha Christian, Fofana Mamadou, Gracen Vernon, Tongoona Pangirayi, Mande Semon. Introgression of Two Drought QTLs into FUNAABOR-2 Early Generation Backcross Progenies Under Drought Stress at Reproductive Stage [J]. Rice Science, 2019, 26(1): 32-41.
[10]	Zongxiang Chen, Zhiming Feng, Houxiang Kang, Jianhua Zhao, Tianxiao Chen, Qianqian Li, Hongbing Gong, Yafang Zhang, Xijun Chen, Xuebiao Pan, Wende Liu, Guoliang Wang, Shimin Zuo. Identification of New Resistance Loci Against Sheath Blight Disease in Rice Through Genome-Wide Association Study [J]. Rice Science, 2019, 26(1): 21-31.
[11]	P. M. Swamy B., Kaladhar K., Anuradha K., K. Batchu Anil, Longvah T., Sarla N.. QTL Analysis for Grain Iron and Zinc Concentrations in Two O. nivara Derived Backcross Populations [J]. Rice Science, 2018, 25(4): 197-207.
[12]	Yaobin Qin, Peng Cheng, Yichen Cheng, Yue Feng, Derun Huang, Tingxu Huang, Xianjun Song, Jiezheng Ying. QTL-Seq Identified a Major QTL for Grain Length and Weight in Rice Using Near Isogenic F₂ Population [J]. Rice Science, 2018, 25(3): 121-131.
[13]	Kazemi Sheidollah, Reza Eshghizadeh Hamid, Zahedi Morteza. Responses of Four Rice Varieties to Elevated CO₂ and Different Salinity Levels [J]. Rice Science, 2018, 25(3): 142-151.
[14]	Naga Bheema Lingeswara Reddy Inja, Kim Sung-Mi, Kim Beom-Ki, Yoon In-Sun, Kwon Taek-Ryoun. Identification of Rice Accessions Associated with K⁺/Na⁺ Ratio and Salt Tolerance Based on Physiological and Molecular Responses [J]. Rice Science, 2017, 24(6): 360-364.
[15]	Naga Bheema Lingeswara Reddy Inja, Kim Beom-Ki, Yoon In-Sun, Kim Kyung-Hwan, Kwon Taek-Ryoun. Salt Tolerance in Rice: Focus on Mechanisms and Approaches [J]. Rice Science, 2017, 24(3): 123-144.