Identification of QTLs for Improvement of Plant Type in Rice (Oryza sativa L.) Using Koshihikari / Kasalath Chromosome Segment Substitution Lines and Backcross Progeny F₂ Population

References

• Bouchez, A., Hospital, F., Causse, M., Gallais, A. and Charcosset, A. 2002. Marker-assisted introgression of favorable alleles at quantitative trait loci between maize elite lines. Genetics 162 : 1945-1959.
   Google Scholar
• Cold Spring Harbor Laboratory and Cornell University. 2007. GRAMENE Genome Browser. [Online]. Available at www.gramene.org/(accessed 1 April 2006; verified 21 April 2008). GRAMENE Database, Ithaca.
   Google Scholar
• Cui, K. H., Peng, S. B., Ying, Y. Z., Yu S. B. and Xu C. G. 2004. Molecular dissection of the relationships among tiller number, plant height and heading date in rice. Plant Prod. Sci. 7 : 309-318.
   Google Scholar
• Dong, Y., Ogawa, T., Lin, D., Kamiunten, H., Terao, H. and Matsuo, H. 2005. Detection of quantitative trait loci for leaf chlorophyll content at maximum tillering. Int. Rice Res. Notes 30 : 16-17.
   Google Scholar
• Ebitani, T., Takeuchi, Y., Nonoue, Y., Yamamoto, T., Takeuchi, K. and Yano, M. 2005. Construction and evaluation of chromosome segment substitution lines carrying overlapping chromosome segments of indica rice cultivar Kasalath in a genetic background of japonica elite cultivar Koshihikari. Breed. Sci. 55 : 65-73.
   Google Scholar
• Evans, J. R. and Terashima, I. 1987. Effects of nitrogen on electron transport components and photosynthesis in spinach. Aust. J. Plant Physiol. 14 : 59-68.
   Google Scholar
• Fridman, E., Liu, Y. S., Carmel-Goren, L., Gur, A., Shoresh, M., Pleban, T., Eshed, Y. and Zamir, D. 2002. Two tightly linked QTLs modify tomato sugar content via different physiological pathways. Mol. Genet. Genom 266 : 821-826.
   Google Scholar
• Inaba, M. 1991. Yield increase with the improvement leaf laminar structure. In Rural Culture Association Ed., The outline of agricultural technology. Crop. 2-1. Rice; Basic technology (1). Theory for the high-yielding in rice. Nobunkyo, Tokyo, Japan. 104. 2-21.
   Google Scholar
• Ishikawa, S., Ae, N. and Yano, M. 2005. Chromosomal regions with quantitative trait loci controlling cadmium concentration in brown rice (Oryza sativa). New Phytol. 168 : 345-350.
   Google Scholar
• Ishimaru, K., Yano, M., Aoki, N., Ono, K., Hirose, T., Lin, S., Monna, L., Sasaki, T. and Ohsugi, R. 2001. Toward the mapping of physiological and agronomic characters on a rice function map : QTL analysis and comparison between QTLs and expressed sequence tags. Theor. Appl. Genet. 102 : 793-800.
   Google Scholar
• Jaiswal, P., Ni, J. J., Yap, I., Ware, D., Spooner, W., Youens-Clark, K., Ren, L. Y., Liang, C. Z., Zhao, W., Ratnapu, K., Faga, B., Canaran, P., Fogleman, M., Hebbard, C., Avraham, S., Schmidt, S., Casstevens, T. M., Buckler, E. S., Stein, L. and McCouch, S. 2006. Gramene : a bird’s eye view of cereal genomes. Nucleic Acids Res. 34 D : 717-723.
   Google Scholar
• Japan Meteorological Agency. 2002. Past meteorogical data retrieval. [Online]. Available at www.data.jma.go.jp/obd/stats/etrn/index.php (Accessed 7 April 2007). Japan Meteorological Agency homepage, Tokyo.
   Google Scholar
• Kobayashi, S., Fukuta, Y., Morita, S., Sato, T., Osaki, M. and Khush, G. S. 2003. Quantitative trait loci affecting flag leaf development in rice (Oryza sativa L.). Breed. Sci. 53 : 255-262.
   Google Scholar
• Kubo, T., Aida, Y., Nakamura, K., Tsunematsu, H., Doi, K. and Yoshimura, A. 2002. Reciprocal chromosome segment substitution series derived from japonica and indica cross of rice. Breed. Sci. 52 : 319-325.
   Google Scholar
• Li, Z. K., Yu, S. B., Lafitte, H. R., Huang, N., Courtois, B., Hittalmani, S., Vijayakumar, C. H. M., Liu, G. F., Wang, G. C., Shashidhar, H. E., Zhuang, J. Y., Zheng, K. L., Singh, V. P., Sidhu, J. S., Srivantaneeyakul, S. and Khush, G. S. 2003. QTL × environment interactions in rice. I. Heading date and plant height. Theor. Appl. Genet. 108 : 141-153.
   Google Scholar
• Liu, Y. S., Gur, A., Ronen, G., Causse, M., Damidaux, R., Buret, M., Hirschberg, J. and Zamir, D. 2003. There is more to tomato fruit colour than candidate carotenoid genes. Plant Biotech. J. 1 : 195-207.
   Google Scholar
• Matsushima, S. 1995. III Physiological mechanism of dry matter production. Chapter 8 physiology of high-yielding rice plants from the view point of yield components. In T. Matsuo, K. Kumazawa, R. Ishii, K. Ishihara and H. Hirata Eds., Science of the rice plant Vol. 2 physiology. Nobunkyo, Tokyo. 737-766.
   Google Scholar
• McCouch, S. R., Cho, Y. G., Yano, M., Paul, E., Blinstrub, M., Morishima, H. and Kinoshita, T. 1997. Report of the committee on gene symbolization, nomenclature and linkage groups II. Report from coordinators 1) Suggestions for QTL nomenclature for rice. Rice Genet. Newsl. 14 : 11-13.
   Google Scholar
• McCouch, S. R., Teytelman, L., Xu, Y. B., Lobos, K. B., Clare, K., Walton, M., Fu, B. Y., Maghirang, R., Li, Z. K., Xing, Y. Z., Zhang, Q. F., Kono, I., Yano, M., Fjellstorm, R., DeClerck, G., Schneider, D., Cartinhour, S., Ware, D. and Stein, L. 2002. Development and mapping of 2240 new SSR markers for rice (Oryza sativa L.). DNA Res. 9 : 199-207.
   Google Scholar
• Paran, I. and Zamir, D. 2003. Quantitative traits in plants : beyond the QTL. Trends Genet. 19 : 303-306.
   Google Scholar
• Rice Genome Research Program. 2007. Generic genome browser version 1.66. [Online]. Available at rgp.dna.affrc. go.jp/whoga/index.html.en (accessed 1 April 2006; verified 21 April 2008). WhoGA Database, Tsukuba.
   Google Scholar
• Rice Genome Resource Center. 2003. Koshihikari/Kasalath Chromosome Segment Substitution Lines (CSSLs) 39 lines. [Online]. Available at www.rgrc.dna.affrc.go.jp/index.html.en(accessed 1 April 2006). National Institute of Agrobiological Sciences, Tsukuba.
   Google Scholar
• Sakata, K., Antonio, B. A., Mukai, Y., Nagasaki, H., Sakai, Y., Makino, K. and Sasaki, T. 2000. INE : a rice genome database with an integrated map view. Nucleic Acids Res. 28 : 97-101.
   Google Scholar
• Samejima, M. and Kumura, A. 1971. Pigment content and kind in leaf and photosynthesis. In Y. Togari Ed., Photosynthesis and matter production of crops. Yokendo, Tokyo. 85-86.
   Google Scholar
• Serraj, R., Hash, C. T., Rizvi, S. M. H., Sharma, A., Yadav R. S. and Bidinger F. R. 2005. Recent Advances in marker-assisted selection for drought tolerance in pearl millet. Plant Prod. Sci. 8 : 334-337.
   Google Scholar
• Smith, J. H. C. and Benitez, A. 1955. Chlorophylls : analysis in plant materials. In K. Paech and M. V. Tracey Eds., Modern methods of plant analysis. Vol.4. Springer-Verlag, Berlin. 143-196.
   Google Scholar
• Takeuchi, Y., Nonoue, Y., Ebitani, T., Suzuki, K., Aoki, N., Sato, H., Ideta, O., Hirabayashi, H., Hirayama, M., Ohta, H., Nemoto, H., Kato, H., Ando, I., Ohtsubo, K., Yano, M. and Imbe T. 2007. QTL detection for eating quality including glossiness, stickiness, taste and hardness of cooked rice. Breed. Sci. 57 : 231-242.
   Google Scholar
• Tanksley, S. D. and Nelson, J. C. 1996. Advanced backcross QTL analysis : a method for the simultaneous discovery and transfer of valuable QTLs from unadapted germplasm into elite breeding lines. Theor. Appl. Genet. 92 : 191-203.
   Google Scholar
• Tuinstra, M. R., Ejeta, G. and Goldsbrough, P. B. 1997. Heterogeneous inbred family (HIF) analysis : a method for developing near-isogenic lines that differ at quantitative trait loci. Theor. Appl. Genet. 95 : 1005-1011.
   Google Scholar
• Uchimura, Y., Sato, H., Ogata, T., Matsue, Y. and Yoshimura, A. 2003. Selection of the DNA markers for rice amylose content in japonica-indica cross variety. Bull. Nat. Agr. Res. Cent. Kyushu Okinawa Region 18 : 59-60.
   Google Scholar
• Wan, X. Y., Wan, J. M., Weng, J. F., Jiang, L., Bi, J. C., Wang, C. M. and Zhai, H. Q. 2005. Stability of QTLs for rice grain dimension and endosperm chalkiness characteristics across eight environments. Theor. Appl. Genet. 110 : 1334-1346.
   Google Scholar
• Wang, H., Qi, M. Q. and Cutler, A. J. 1993. A simple method of preparing plant samples for PCR. Nucleic Acids Res. 21 : 4153-4154.
   Google Scholar
• Wang, B., Lan, T., Wu, W. R. and Li, W. M. 2003. Mapping of QTLs controlling chlorophyll content in rice. Acta Genet. Sin. 30 : 1127-1132.
   Google Scholar
• Wang, S., Basten, C. J. and Zeng, Z. B. 2006. Windows QTL Cartographer 2.5. [Online]. Available at statgen.ncsu.edu/ qtlcart/WQTLCart.htm (accessed 1 April 2007). Department of Statistics, North Carolina State University, Raleigh.
   Google Scholar
• Wissuwa, M., Yano, M. and Ae, N. 1998. Mapping of QTLs for phosphorus-deficiency tolerance in rice (Oryza sativa L.). Theor. Appl. Genet. 97 : 777-783.
   Google Scholar
• Wissuwa, M. and Ae, N. 2001. Further characterization of two QTLs that increase phosphorus uptake of rice (Oryza sativa L.) under phosphorus deficiency. Plant Soil 237 : 275-286.
   Google Scholar
• Wissuwa, M., Wegner, J., Ae, N. and Yano, M. 2002. Substitution mapping of Pup1 : a major QTL increasing phosphorus uptake of rice from a phosphorus-deficient soil. Theor. Appl. Genet. 105 : 890-897.
   Google Scholar
• Wu, P. and Luo, A. C. 1996. Investigation on genetic background of leaf chlorophyll content variation in rice under nitrogen stressed condition via molecular markers. Acta Genet. Sin. 23 : 431-438.
   Google Scholar
• Yamamoto, T., Lin, H., Sasaki, T. and Yano, M. 2000. Identification of heading date quantitative trait locus Hd6 and characterization of its epistatic interactions with Hd2 in rice using advanced backcross progeny. Genetics 154 : 885-891.
   Google Scholar
• Yamamoto, T., Taguchi-Shiobara, F., Ukai, Y., Sasaki, T. and Yano, M. 2001. Mapping quantitative trait loci for days-toheading, and culm, panicle and internode lengths in a BC1F3 population using an elite rice variety, Koshihikari, as the recurrent parent. Breed. Sci. 51 : 63-71.
   Google Scholar
• Zhuang, J. Y., Lin, H. X., Lu, J., Qian, H. R., Hittalmani, S., Huang, N. and Zheng, K. L. 1997. Analysis of QTL × environment interaction for yield components and plant height in rice. Theor. Appl. Genet. 95 : 799-808.
   Google Scholar