Molecular Breeding

, Volume 6, Issue 2, pp 145–155 | Cite as

Mapping quantitative trait loci associated with days to flowering and photoperiod sensitivity in rice (Oryza sativa L.)

  • M. Maheswaran
  • Ning Huang
  • S.R. Sreerangasamy
  • S.R. McCouch
Article

Abstract

This study was undertaken to identify putative quantitative trait loci (QTLs) associated with days to flowering (DTF) and photoperiod response in rice. A population of 143 recombinant inbred lines derived from a cross between CO39 and Moroberekan was grown under greenhouse conditions and exposed to two different photoperiod regimes. DTF of individual plants was evaluated under 10 h and 14 h day lengths, and loci associated with photoperiod sensitivity were identified based on the delay in flowering under the 14 h photoperiod (DTF at 14 h minus DTF at 10 h). An RFLP data set consisting of 127 markers provided the basis for the QTL analysis. Both single marker and interval analysis were used and interactions between putative QTLs were estimated based on two-way ANOVA. Out of 15 QTLs associated with DTF, only 4 were identified as influencing the response to photoperiod. Interactions between flowering QTLs indicated the complex nature of the control of flowering in rice. The effectiveness of using a single recombinant inbred population to study a variety of complex phenotypes is discussed in relation to practical plant breeding.

photoperiod sensitivity molecular markers flowering quantitative trait loci (QTLs) maturity rice (Oryza sativa

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References

  1. 1.
    Ahn S, Anderson JA, Sorrells ME, Tanksley SD: Homoeologous relationships of rice, wheat, and maize chromosomes. Mol Gen Genet 241: 483-490 (1994).Google Scholar
  2. 2.
    Ahn S, Tanksley SD: Comparative linkage maps of the rice and maize genomes. Proc Natl Acad Sci USA 90: 7980-7984 (1993).Google Scholar
  3. 3.
    Best, R: Some aspects of photoperiodism in rice (Oryza sativa L). Elsevier, Amsterdam 87 pp. (1961).Google Scholar
  4. 4.
    Champoux MC, Wang GL, Sarkarung S, Mackill DJ, O'Toole JC, Huang N, McCouch SR: Locating genes associated with root morphology and drought in rice via linkage to molecular markers. Theor Appl Genet 90: 969-981 (1995).Google Scholar
  5. 5.
    Chandraratna MF: Genetics of photoperiod sensitivity in rice. J Genet 53: 215-223 (1955).Google Scholar
  6. 6.
    Chang TT, Vergara BS: Ecological and genetic information on adaptability and yielding ability in tropical rice varieties. In: Rice Breeding, pp. 431-453. International Rice Research Institute, Los Banos, Philippines (1972).Google Scholar
  7. 7.
    Chang, TT, Li CC, Vergara BS: Component analysis of duration from seeding to heading in rice by the basic vegetative phase and the photoperiod sensitive phase. Euphytica 18: 79-91 (1969).Google Scholar
  8. 8.
    Churchill GA, Deorge RW: Empirical threshold values for quantitative trait mapping. Genetics 138: 963-971 (1994).Google Scholar
  9. 9.
    Fukuchi A, Suzuki Y, Hirochika H, Kikuchi F: Linkage relations between the photoperiod sensitivity gene Se-1 and two other genes, Pi-z and Pgi-2. Rice Genet Newsl 9: 47-50 (1992).Google Scholar
  10. 10.
    Ishii T, Multani DS, Brar DS, Khush GS: Molecular mapping of genes for brown plant hopper resistance and earliness introgressed from Oryza australiensis into cultivated rice, Oryza sativa. Genome 37: 217-221 (1994).Google Scholar
  11. 11.
    Kadirvel P: Mapping quantitative trait loci associated with yield, its components and resistance to white backed planthopper (Sogatella furcifera (Horvath) in rice (Oryza sativa L.). Thesis submitted to Tamil Nadu Agricultural University, Coimbatore, India, 61 p. (1998).Google Scholar
  12. 12.
    Li Z, Pinson SRM, Marchetti MA, Stansel JW, Park WD: Characterization of quantitative trait loci (QTLs) in cultivated rice contributing to field resistance to sheath blight (Rhizoctonia solani). Theor Appl Genet 91: 382-388 (1995).Google Scholar
  13. 13.
    Li Z, Pinson SRM, Stansel JW, Park WD: Identification of quantitative trait loci (QTLs) for heading date and plant height in cultivated rice (Oryza sativa L.). Theor Appl Genet 91: 374-381 (1995).Google Scholar
  14. 14.
    Lin SY, Sasaki T, Yano M: Mapping quantitative trait loci controlling seed dormancy and heading date in rice, Oryza sativa L., using backcross inbred lines. Theor Appl Genet 96: 997-1003 (1998).Google Scholar
  15. 15.
    Lin YR, Schertz KF, Paterson AH: Comparative analysis of QTLs affecting plant height and maturity across the Poaceae, in reference to an interspecific sorghum population. Genetics 141: 391-411 (1995).Google Scholar
  16. 16.
    Lincoln SM, Daly M, Lander E: Mapping genes controlling quantitative traits with MAPMAKER/QTL 1.1. Whitehead Institute Technical Report, 2nd ed. (1992).Google Scholar
  17. 17.
    Lu C, Shen L, Tan Z, Xu Y, He P, Chen Y, Zhu L: Comparative mapping of QTLs for agronomic traits of rice across environments using a doubled haploid population. Theor Appl Genet 93: 1211-1217 (1996).Google Scholar
  18. 18.
    Mackill DJ, Salam MA, Wang ZY, Tanksley SD: A major photoperiod sensitivity gene tagged with RFLP and isozyme markers in rice. Theor Appl Genet 85: 536-540 (1993).Google Scholar
  19. 19.
    Maheswaran M: Identification of quantitative trait loci for days to flowering and photoperiod sensitivity in rice (Oryza sativa L.). Ph. D thesis submitted to Tamil Nadu Agricultural University, Coimbatore, India (1994).Google Scholar
  20. 20.
    Murfet IC: Environmental interaction and the genetics of flowering. Annu Rev Plant Physiol 28: 253-278 (1977).Google Scholar
  21. 21.
    Okumuto Y, Tanisaka T, Yamagata H: Genetic analysis for heading trait of rice varieties in Japan. Linkage relationship between heading date gene E1 and blast resistant gene. Jpn J Breed 34 (Suppl 1): 292-293 (in Japanese) (1984).Google Scholar
  22. 22.
    Okumuto Y, Tanisaka T, Yamagata H: Heading time genes of the rice varieties grown in South-West warm region in Japan. Jpn J Breed 41: 135-152 (1991).Google Scholar
  23. 23.
    Oosumi TA, Miyazaki A, Uchimya H, Kikuchi F, Yokoo M: Analysis of glucose phosphate isomerase in near isogenic lines and cultivars of rice (Oryza sativa L). Bot Mag Tokyo 102: 283-289 (1989).Google Scholar
  24. 24.
    Oshima I, Kikuchi F, Watanabe Y, Asahi C: Genetic analysis of heading time in a cross between two indica varieties with inhibitor genes for photoperiod sensitivity. Jpn J Breed 43: 101-106 (1993).Google Scholar
  25. 25.
    Paterson AH, Lin YR, Li Z, Schertz KF, Doebley JF, Pinson SRM, Liu SC, Stansel JW, Irvine JE: Convergent domestication of cereal crops by independent mutations at corresponding genetic loci. Science 269: 1714-1718 (1995).Google Scholar
  26. 26.
    Phuspavesa S, and Jackson BR: Photoperiod sensitivity rainfed rice. In: Rainfed Lowland Rice. Selected papers from the 1978 International Rice Research Conference, International Rice Research Institute, Los Banos, Philippines, pp. 139-147 (1979).Google Scholar
  27. 27.
    Poonyarit M, Mackill DJ, Vergara BS: Genetics of photoperiod sensitivity and critical day length in rice. Crop Sci 29: 647-652 (1989).Google Scholar
  28. 28.
    Ramiah K: Inheritance of flowering duration in rice. Indian J Agric Sci 3: 377-410 (1933).Google Scholar
  29. 29.
    Ray JD, Yu I, McCouch SR, Champoux MC, Wang G, Nguyen HT: Mapping quantitative trait loci associated with root penetration ability in rice. (Oryza sativa L.) Theor Appl Genet 92: 627-636 (1995).Google Scholar
  30. 30.
    Sano Y: A new gene controlling sterility in F1 hybrids of two cultivated rice species: its association with photoperiod sensitivity. J Hered 74: 435-439 (1983).Google Scholar
  31. 31.
    Sato S: Action of earliness gene Ef-x derived from native cultivar Kokusyokuto-2 (A58) in Hokkaido, and its linkage analysis by the use of interchange homozygotes. Jpn J Breed 41 (suppl 1): 332-333 (in Japanese) (1991).Google Scholar
  32. 32.
    Syakudo K, Kawase T: Studies on the quantitative inheritance of the heading duration in rice (Oryza sativa L) and the quantitative function of the causal genes (E1, E2, and D1) in its determination. Jpn J Breed 3: 6-12 (in Japanese, with English summary) (1953).Google Scholar
  33. 33.
    Syakudo K, Kawase T, Yoshino K: Studies on the quantitative inheritance of the heading duration in rice (Oryza sativa L) and the quantitative function of the causal genes (E3, E4, and E6) in its determination. Jpn J Breed 3: 6-12 (in Japanese, with English summary) (1954).Google Scholar
  34. 34.
    Tsai KH: Studies on earliness genes of rice by the use of isogenic lines. Doctoral thesis submitted to Kokkaido University, Japan, 179 pp. (in Japanese, with English summary) (1972).Google Scholar
  35. 35.
    Tsai KH: Comparison of intra-allelic structure related to the major earliness genes involving in isogenic and radiation induced early maturing lines of rice variety, Taichung 56. J Agric Ass China, NS 84: 23-47 (in Chinese, English summary) (1973).Google Scholar
  36. 36.
    Tsai KH: Unusual segregation patterns found at the m-Ef locus. Rice Genet Newsl 1: 115-116 (1984).Google Scholar
  37. 37.
    Tsai KH: Genes controlling heading time found in a tropical japonica variety. Rice Genet Newsl 3: 71-72 (1996).Google Scholar
  38. 38.
    Tsai KH: Gene loci and alleles controlling the duration of basic vegetative growth of rice. In: Rice Genetics. Proceedings of the International Rice Genetics Symposium, 27-31 May 1985, International Rice Research Institute, Los Banos, Philippines, pp. 339-349 (1986).Google Scholar
  39. 39.
    Tsai KH: Genes for late heading and their interaction in the background of Taichung 65. In: Rice Genetics. Proceedings of International Rice Genetics Symposium, 27-31 May 1990, International Rice Research Institute, Los Banos, Philippines, pp. 211-215 (1991).Google Scholar
  40. 40.
    Tsai KH, Oka HI: Genetic studies of yielding capacity and adaptability in crop plants. 2. Analysis of genes controlling heading time in Taichung 65 and other rice varieties. Bot Bull Acad Sin 7: 54-70 (1966).Google Scholar
  41. 41.
    Tsai KH, Oka HI: Genetic studies of yielding capacity and adaptability in crop plants. 4. Effects of an earliness gene, mb, in the genetic background of rice variety Taichung 65. Bot Bull Acad Sin 11: 16-26 (1970).Google Scholar
  42. 42.
    Van Deynze AE, Nelson JC, Yglesias ES, Harrington SE, Braga DP, McCouch SR, Sorells ME: Comparative mapping in grasses: wheat relationships. Mol Gen Genet 248: 744-754 (1995).Google Scholar
  43. 43.
    Wallace DH, Zobel RW, Yourstone KS: A whole system reconsideration of paradigms about photoperiod and temperature control of crop yield. Theor Appl Genet 86: 17-26 (1993).Google Scholar
  44. 44.
    Wang GL, Mackill DJ, Bonmann JM, McCouch SR, Champoux MC, Nelson RJ: RFLP mapping of genes conferring complete and partial resistance to blast in a durably resistant rice cultivar. Genetics 136: 1421-1434 (1994).Google Scholar
  45. 45.
    Xiao J, Li J, Yuan L, Tanksley SD: Dominance is the major genetic basis of heterosis in rice as revealed by QTL analysis using molecular markers. Genetics 140: 745-754 (1995).Google Scholar
  46. 46.
    Yamagata H, Okumuto Y, Tanisaka T: Analysis of genes controlling heading time in japanese rice. In: 'Rice Genetics'. Proceedings of the International Rice Genetics Symposium, 27-31 May 1985, International Rice Research Institute, Los Banos, Philippines, pp. 351-359 (1986).Google Scholar
  47. 47.
    Yano M, Haurushima Y, Nagamura Y, Kurata N, Minobe Y, Sasaki T: Identification of quantitative trait loci controlling heading date of rice using a high density linkage map. Theor Appl Genet 95: 1025-1032 (1997).Google Scholar
  48. 48.
    Yokoo M, Fujimaki H: Tight linkage of blast resistant with late maturity observed in different indica varieties of rice. Jpn J Breed 21: 35-39 (1971).Google Scholar
  49. 49.
    Yokoo M, Kikuchi F: Multiple allelism of the locus controlling heading time of rice detected using the close linkage with blast resistance. Jpn J Breed 21: 35-39 (in Japanese, English summary) (1977).Google Scholar
  50. 50.
    Yokoo M, Okuno K: Genetic analysis of earliness mutations induced in the rice cultivar Norin 8. Jpn J Breed 43: 1-11 (1993).Google Scholar
  51. 51.
    Yu CJ, Yao YT: Genetische Studien beim Reis. II. Die Koppelung des Langhullspelzengens mit dem Photoperodizitätsgen. Bot Bull Acad Sin 9: 34-35 (1968).Google Scholar

Copyright information

© Kluwer Academic Publishers 2000

Authors and Affiliations

  • M. Maheswaran
    • 1
  • Ning Huang
    • 2
  • S.R. Sreerangasamy
    • 1
  • S.R. McCouch
    • 1
  1. 1.Centre for Plant Breeding and GeneticsTamil Nadu Agricultural UniversityCoimbatoreIndia
  2. 2.Genome Mapping Laboratory, Plant Breeding DivisionInternational Rice Research InstituteManilaPhilippines

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