Identifying QTLs Associated and Marker-Assisted Selection for Salinity Tolerance at the Seedling, Vegetative and Reproductive Stages in Rice (Oryza Sativa L.) ( Vol-2,Issue-6,November - December 2017 )
Author: Nguyen Thi Lang, Nguyen Trong Phuoc, Pham Thi Thu Ha, Bui Chi Buu
Keyword: Seedling, reproductive stage, salinity, SSR, QTL, vegetative stage.
Abstract: Salinity affects rice growth in all growth stages, with the seedling and reproductive stages being the most sensitive. Genetically improving salt tolerance of rice is an important objective of rice breeding programs. Hence, mapping quantitative trait loci (QTL) will be useful for marker-assisted selection in rice breeding programs. An advanced backcross population (BC2F2) was developed with the parents included OM5629 as a donor of salt tolerance and OM7347 as a recurrent parent with good quality traits and drought tolerance. Molecular markers associated with both qualitative and quantitative trait loci (QTL) salt tolerance were identified by using 416 polymorphic SSR markers. QTLs, associated with stress tolerance at EC = 15 dS/m at seedling stage, detected from the BC2F2 population of OM7347/OM5629, were located on chromosomes 1 and 3. Three QTLs were identified at the intervals of RM3252-S1-1 - RM10694, RM3740-RM5336 and RM11125-RM9 with genetic distance of 4.4, 4.5 and 18 cM on chromosome 1, respectively. Two QTLs at the intervals of RM3867-RM6959 and RM6876-RM4425 with genetic distance of 4.5 and 18.0 cM on chromosome 3, respectively. One QTL on chromosome 5 was detected at the interval of RM874 - RM10359, it was associated with salt stress tolerance under EC = 8dS/m at vegetative stage. Three QTLs at the regions of RM1324-RM2412, RM1185-RM24, and RM1282-RM2560 on chromosome 1, and one QTL of RM453-RM511 on chromosome 12, were related to salt tolerance under EC = 8dS/m at reproductive stage. Two tightly linked markers as RM3252-S1-1 and RM3867, were exhibited their effectiveness in identification of salt tolerance genotypes in BC3F6 population of OMCS2000/ Pokkali. The identification of new QTLs associated with salt tolerance will provide important information for the functional analysis of rice salinity stress.
 A.M. Ismail, S. Heuer, M.J. Thomson, and M. Wissuwa, “Genetic and genomic approaches to develop rice germplasm for problem soils”, Plant Mol. Biol. 65(4), 2007, 547–570.
 S. Turan, K. Cornish, and S. Kumar, “Salinity tolerance in plants: Breeding and genetic engineering”, Aust. J. Crop Sci. 6(9), 2012, 1337–1348.
 R.K. Singh, G. Gregorio, and A. Ismail, “Breeding rice varieties with tolerance to salt stress”, JISCAR. 26, 2008, 16–21.
 R. Singh, and T. Flowers, “Physiology and molecular biology of the effects of salinity on rice”, Handbook of Plant and Crop Stress, 2010, pp 899–939. doi:10.1201/ b10329-44.
 M.C. Shannon, “Adaptation of plants to salinity”, AdvAgron. 60, 1998, 75–120
 S.Y. Lee, J.H. Ahn, Y.S. Cha, D.W. Yun, M.C. Lee, J.C. Ko, K.S Lee, and M.Y. Eun, “Mapping of quantitative trait loci for salt tolerance at the seedling stage in rice”. Mol. Cells. 21(2), 2006, 192–196.
 K.M. Kim, Y.S. Kwon, J.J. Lee, M.Y. Eun, and J.K. Sohn, “QTL mapping and molecular marker analysis for the resistance of rice to ozone”. Mol. Cells. 17, 2004, 151−155.
 M.L. Koyama, A. Levesley, R.M. Koebner, T.J. Flowers, and A.R. Yeo, “Quantitative trait loci for component physiological traits determining salt tolerance in rice”. Plant physiol.125, 2001, 406−422.
 G.Y. Zhang, Y. Guo, S.L. Chen, and S.Y. Chen, “RFLP tagging of a salt tolerance gene in rice”. Plant. Sci. 110, 1995, 227−234.
 N.T. Lang, Z. Li, and B.C. Buu, “Microsatellite markers linked to salt tolerance in rice”. OMon Rice. 9, 2001a, 9−21.
 N.T. Lang, “QTL mapping for salt tolerance in rice. Final report”. Japan fellowship, 1999.
 S. Tiwari, S.L. Krihnamurthy, V. Kumar, B. Singh, A.R. Rao, S.V. Amitha Mithra, V. Rai, A.K. Singh, and N.K. Singh, “Mapping QTLs for salt tolerance in rice (Oryza sativa L.) by Bullked segregant analysis of recombination inbred lines using 50K SNP chip”. PloS. One., 11(4), 2016, e0153610.
 N.T. Lang, L.Q. Loc, P.T.T. Ha, B.P. Tam, and B.C. Buu, “Screening rice for salinity tolerance by phenotypic in population OM1490/Pokkali//OM1490 cross at seedling stage”. Int. J. Cur. Inn. Res. 3 (7), 2017, 700−706.
 G.B. Gregorio, “Screening rice for salinity tolerance”. IRRI Discussion Paper Series No.22. International Rice Research Institute, Los Baños. Laguna, Philippines, 1997b, 1−30.
 IRRI, “Standard Evaluation System”. Rice Note Book, The Philippines, 1996.
 N.T. Lang, “Manual for biotechnology Lab”. Vietnam Agriculture Publisher, Ho Chi Minh City, Vietnam, 2002.
 E.S. Lander, and D. Botstein, “Mapping Mendelian Factors Underlying Quantitative Traits Using RFLP Linkage Map”. Genetics. 121, 1987, 185−199.
 S. Lincoln, M. Daly, and E. Lander, “Mapping genes controlling quantitative traits with MAPMAKER/QTL 1.1”. Whitehead Institute Techn Rep 2nd edn, Whitehead Institute, Cambridge, Massachusetts, 1992.
 D.D. Kosambi, “The estimation of map distance from recom-bination values”. Ann. Eugen. 12, 1994, 172–175.
 M.A. Causse, T.M. Fulton, Y.G. Cho, S.N. Ahn, J. Chunwongse, K. Xu, J. Xian, Z. Yu, P.C. Ronald, S.E Harrington, G. Second, S.R. McCouch, and S.D. Tanksley, “Saturated molecular map of the rice genome based on an interspecific backcross population”. Genetics. 138, 1994,1251–1274.
 Y. Harushima, M. Yano, A. Shormura, M. Sato, T. Shimano, Y. Kuboi, T. Yamamoto, S.Y. Lin, B.A. Antinio, A. Parco, H. Kajiya, N. Huang, K. Yamamoto, N. Nagamura, N. Kurata, G.S. Khush, and T. Sasaki, “A high-density rice genetic linkage map with 2,275 markers using a single F2 population”. Genetics. 148, 1998, 479–494.
 S. Temnykh, G. DeClark, A. Lukashova, L. Lipovich, S. Cartinhour, and S.R. McCouch, “Computational and experimental analysis of microsatellites in rice (Oryza sativa L.): frequency, length variation, transposon association, and genetic marker potential”. Genome. Res. 11, 2001,144–1452.
 A.H. Paterson, E.S. Lander, J.D. Hewitt, S. Paterson, S. Lincoln, and S.D. Tankley, “Resolution of quantitative traits into mendelian factors by using a complete linkage map of restriction fragment length polymorphisms”. Nature. 335, 1988,721–726.
 E.S. Lander, and D. Bostein, “Mapping Mendelian factors underly-ing quantitative traits using RFLP linkage maps”, Genetics. 121, 1989, 185–199.
 D.L. Wang, J. Zhu, Z.K. Li, and A.H. Paterson, 1999. “Mapping QTLs with epistatic effects and QTL envirment interactions by mixed linear model approaches”. Theor. Appl. Genet. 99, 1999,1255–1264.
 S.D. Tanksley, “Mapping polygenes”. Annu. Rev. Genet. 27,1993, 205–233.
 J.C. Nelson, “QGene: Software for marker-based genomic analysis and breeding”. Mol. Breed. 3, 1997, 239–245.
 S.D. Tanksley, N.D. Young, A.H. Patterson, and M.W. Bonierbale,1989. “RFLP mapping in plant breeding: New tools for an old science”, Bio. Technology.7, 1989, 257.
 N.T. Lang, S. Yanagihara, and B.C. Buu, “QTL analysis of salt tolerance in rice (Oryza sativa L.). SABRAO. 33(1), 2001b, 11–20.
 N.T. Lang, S. Yanagihara, and B.C. Buu, “A microsatellite marker for a gene conferring salt tolerance on rice at the vegetative and reproductive stages”, SABRAO., 33(1), 2001c, 1-10.
 N.T. Lang, S. Yanagihara, and B.C. Buu, “Quantitative trait loci for salt tolerance in rice (Oryza sativa L.) via molecular markers”. OMon Rice. 8, 2000, 37–48.
 J.M. Gong, P. He, Q. Qian, L.S. Shen, L.H. Zhu, and S. Chen, “Identified of salt tolerance QTLs in rice (Oryza sativa L.)”. China Sci. Bull, 44, 1999, 68–71.
 P. Bonilla, J. Dvorak, D. Mackill, K. Deal, and G. Gregorio, “RFLP and SSLP mapping of salinity tolerance genes in chromosome 1 of rice (Oryza sativa L.) using recombinant inbred lines”, Philipp. J. Agric. Sci. 85, 2002, 68–76.
 H.X. Lin, S. Yanagihara, J.Y. Zhang, T. Senboku, K.L. Zheng, and S. Yashima, 1998. “Identification of QTLs for salt tolerance in rice via molecular markers”. Chinese J Rice Sci. 12(2), 1998, 72–78.
 S.Y. Lee, J.H. Ahn, and Y.S. Cha, 2007. “Mapping QTLS related to salinity tolerance of rice at the young seedling stage”. Plant breed. 126, 2007, 43–46.
 M.J. Thomson, M.D. Ocampo, and J.L. Egdane, “Characterizing the saltol quantitative trait locus for salinity tolerance in rice”. Rice. 3, 2010, 148–160.
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