Skip to main content
SpringerLink
Log in

QTL detection for eating quality of cooked rice in a population of chromosome segment substitution lines

Theoretical and Applied Genetics volume 110, pages 71–79 (2004)Cite this article

Abstract

The genetic mechanism underlying six palatability properties of cooked rice and three physico-chemical traits was dissected in 66 BC3F2 chromosome segment substitution lines (CSSLs), using a complete linkage map in three successive years. The CSSLs showed transgressive segregation for all traits studied. Significant correlation was detected among most palatability traits. A total of 25 QTLs for the nine traits were identified on nine chromosomes, and many QTLs affecting different quality traits were mapped in the same regions. Six QTLs—qLT-8 for luster, qTD-6 and qTD-8 for tenderness, qIVOE-6 and qIVOE-8 for integrated value of organoleptic evaluation, and qAC-8 for amylose content—were repeatedly detected across the 3 years. Phenotypic values were significantly different between the recurrent parent, cultivar Asominori, and the CSSLs harboring any of the six QTL alleles across the three environments, indicating that these six QTLs were non-environment-specific and could be used for marker-assisted selection in rice quality improvement.

This is a preview of subscription content, access via your institution.

Access options

Buy single article

Instant access to the full article PDF.

USD 39.95

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Fig. 1
Fig. 2
Fig. 3
Fig. 4

References

  • Ayres NM, McClung AM, Larkin PD, Bligh HF, Jones CA, Park WD (1997) Microsatellites and a single-nucleotide polymorphism differentiate apparent amylose classes in an extended pedigree of US rice germplasm. Theor Appl Genet 94:773–781

    Article  CAS  Google Scholar 

  • Ball SG, Wal MH, Visser RG (1998) Progress in understanding the biosynthesis of amylose. Trends Plant Sci 3(12):462–467

    Article  Google Scholar 

  • Bao JS, Zheng XW, Xia YW, He P, Shu QY, Lu X, Chen Y, Zhu LH (2000) QTL mapping for the paste viscosity characteristics in rice (Oryza Sativa L.). Theor Appl Genet 100:280–284

    Article  CAS  Google Scholar 

  • Bett-Garber KL, Champagne ET, McClung AM, Moldenhauer KA, Linscombe SD, McKenzie KS (2001) Categorizing rice cultivars based on cluster analysis of amylose content, protein content and sensory attributes. Cereal Chem 78(5):551–558

    CAS  Google Scholar 

  • Brennan RM, Hunter EA, Muir DD (1997) Genotypic effects on sensory quality of blackcurrant juice using descriptive sensory profiling. Food Res Int 30:381–390

    Article  Google Scholar 

  • Cagampang GB, Perez CM, Juliano BO (1973) A gel consistency test for the eating quality of rice. J Sci Food Agric 24:1589–1594

    CAS  PubMed  Google Scholar 

  • Causse M, Saliba-Colombani V, Lesschaeve I, Buret M (2001) Genetic analysis of organoleptic quality in fresh market tomato. 2. Mapping QTLs for sensory attributes. Theor Appl Genet 102:273–283

    Article  CAS  Google Scholar 

  • Champagne ET, Bett-Garber KL, Vinyard BT, McClung AM, Barton FE, Moldenhauer KA, Linscombe SD, McKenzie KS (1999) Correlation between cooked rice texture and rapid visco analyzer measurements. Cereal Chem 76:764–771

    CAS  Google Scholar 

  • Churchill GA, Doerge RW (1994) Empirical threshold values for quantitative trait mapping. Genetics 138:963–971

    CAS  PubMed  Google Scholar 

  • Eshed Y, Zamir D (1995) An introgression line population of Lycopersicon pennellii in the cultivated tomato enables the identification and fine mapping of yield-associated QTL. Genetics 141:1147–1162

    CAS  PubMed  Google Scholar 

  • Esti M, Messia MC, Sinesio F, Nicotra A, Conte L, La Notte E, Palleschi G (1997) Quality evaluation of peaches and nectarines by electrochemical and multivariate analyses: relationships between analytical measurements and sensory attributes. Food Chem 60:659–666

    Article  CAS  Google Scholar 

  • Falconer DS (1981) Introduction to quantitative genetics, 2nd edn. Longman, London

    Google Scholar 

  • Frary AN, Nesbitt TC, Frary AM, Grandillo S, Knaap EVD, Cong B, Liu JP, Meller J, Elber R, Alpert KB, Tanksley SD (2000) fw2.2: a quantitative trait locus key to the evolution of tomato fruit size. Science 289:85–88

    Google Scholar 

  • Harushima Y, Yano M, Shomura A, Sato M, Shimano T, Kuboki Y, Yamamoto T, Lin SY, Antonio BA, Parco A, Kajiya H, Huang N, Yamamoto K, Nagamura Y, Kurata N, Khush GS, Sasaki T (1998) A high-density rice genetic linkage map with 2,275 markers using a single F2 population. Genetics 148:479–494

    PubMed  Google Scholar 

  • He P, Li SG, Qian Q, Ma YQ, Li JZ, Wang WM, Chen Y, Zhu LH (1999) Genetic analysis of rice grain quality. Theor Appl Genet 98:502–508

    Article  CAS  Google Scholar 

  • Howell PM, Marshall DF, Lydiate DJ (1996) Towards developing intervarietal substitution lines in Brassica napus using marker-assisted selection. Genome 39:348–358

    CAS  Google Scholar 

  • Hu PS (2002) Studies on the evaluation and improvement of quality in rice (Oryza sativa L.). A dissertation submitted to Nanjing Agricultural University, pp 47–51

  • Huang FS, Sun ZX, Hu PS, Tang SQ (1998) Present situations and prospects for the research on rice grain quality forming. Chinese J Rice Sci 12(3):172–176

    Google Scholar 

  • Jiang HW (2002) The cloning and characterization of the gene for starch synthesis in rice endosperms and studies on the molecular physiological effects of high temperature on rice grain quality forming. A dissertation submitted to Zhejiang University, pp 67–76

  • Juliano BO (1971) A simplified assay for milled rice amylose. Cereal Sci Today 16:334–336

    Google Scholar 

  • Juliano BO (1985) Criteria and test for rice grain quality. In: Juliano BO (ed) Rice chemistry and technology. American Association of Cereal Chemists, Saint Paul, pp 443–513

    Google Scholar 

  • Kubo T, Nakamura K, Yoshimura A (1999) Development of a series of indica chromosome segment substitution lines in japonica background of rice. Rice Genet Newsl 16:104–106

    Google Scholar 

  • Lanceras JC, Huang ZL, Naivikul O, Vanavichit A, Ruanjaichon V, Tragoonrung S (2000) Mapping of genes for cooking and eating qualities in Thai Jasmine rice (KDML105). DNA Res 7:93–101

    CAS  PubMed  Google Scholar 

  • Lander ES, Green P, Abrahamson J, Barlow A, Daly MJ, Lincoln SE, Newburg L (1987) MAPMAKER: an interactive computer package for constructing primary genetic linkage maps of experimental and natural populations. Genomics 1:174–181

    CAS  PubMed  Google Scholar 

  • Li ZK (2001) QTL mapping in rice: a few critical considerations. Rice genetics IV. In: Khush GS, Brar DS, Hrady B (eds) Proceeding of the fourth international rice genetics symposium, 22–27 October 2000, Los Banos, Philippines, pp 153–171

  • Lin HX, Yamamoto T, Sasaki T, Yano M (2000) Characterization and detection of epistatic interactions of 3 QTLs, Hd-1, Hd-2 and Hd-3, controlling heading date of rice using nearly isogenic lines. Theor Appl Genet 101:1021–1028

    Article  CAS  Google Scholar 

  • Little RR, Hilder GB, Dawson EH (1958) Differential effect of dilute alkali on 25 varieties of milled white rice. Cereal Chem 35:111–126

    CAS  Google Scholar 

  • Murray MG, Thompson WF (1980) Rapid isolation of high molecular weight plant DNA. Nucleic Acids Res 8:4321–4325

    CAS  PubMed  Google Scholar 

  • NSPRC (National Standard of People’s Republic of China) (1999) High quality paddy, GB/T17891–1999. Standards Press of China, China

  • Sano Y (1984) Differential regulation of waxy gene expression in rice endosperm. Theor Appl Genet 68:467–473

    CAS  Google Scholar 

  • Sano Y, Katsumata M, Okuno K (1986) Genetic studies of speciation in cultivated rice. 5. Inter- and intra-specific differentiation in the waxy gene expression in rice. Euphytica 35:1–9

    Article  Google Scholar 

  • SAS Institute (1994) JMP statistics and graphics guide: version 3. SAS Institute, Cary

    Google Scholar 

  • Takahashi Y, Shomura A, Sasaki T, Yano M (2001) Hd-6, a rice quantitative trait locus involved in photoperiod sensitivity, encodes the α subunit of protein kinase CK2. PNAS USA 98:7922–7927

    Article  CAS  PubMed  Google Scholar 

  • Tan YF, Li JX, Yu SB, Xing YZ, Xu CG, Zhang Q (1999) The three important traits for cooking and eating quality of rice grains are controlled by a single locus in an elite rice hybrid, Shanyou 63. Theor Appl Genet 99:642–648

    Article  CAS  Google Scholar 

  • Tan YF, Sun M, Xing YZ, Hua JP, Sun XL, Zhang QF, Corke H (2001) Mapping quantitative trait loci for milling quality, protein content and color characteristics of rice using a recombinant inbred line population derived from an elite rice hybrid. Theor Appl Genet 103:1037–1045

    Article  CAS  Google Scholar 

  • Tanaka KI, Ohnishi S, Kishimoto N, Kawasaki T, Baba T (1995) Structure, organization, and chromosomal location of the gene encoding a form of rice soluble starch synthase. Plant Physiol 108:677–683

    Article  CAS  PubMed  Google Scholar 

  • Tsunematsu H, Yoshimura A, Harushima Y, Nagamura Y, Kurata N, Yano M, Sasaki T, Iwata N (1996) RFLP framework map using recombinant inbred lines in rice. Breed Sci 46:279–284

    Google Scholar 

  • Villareal CP, Hizukuri S, Juliano BO (1997) Amylopectin staling of cooked milled rice and properties of amylopectin and amylose. Cereal Chem 74(2):163–167

    CAS  Google Scholar 

  • Wang ZY, Zheng FQ, Shen GZ, Gao JP, Snustad DP, Li MG, Zhang JL, Meng MH (1995) The amylose content in rice endosperm is related to the post-transcriptional regulation of the waxy gene. Plant J 7:613–622

    Article  CAS  PubMed  Google Scholar 

  • Wang DL, Zhu J, Li ZK, Paterson AH (1999) Mapping QTLs with epistatic effects and QTLs environment interactions by mixed linear model approaches. Theor Appl Genet 99:1255–1264

    Article  Google Scholar 

  • Wu CM, Sun CQ, Chen L, Li ZC, Wang XK (2000) Study on QTL underlying amylose and Indica–Japonica differentiation using recombinant inbred lines in rice. J China Agric Univ 5(5):6–11

    Google Scholar 

  • Xing YZ, Tan YF, Hua JP, Sun XL, Xu CG, Zhang Q (2002) Characterization of the main effects, epistatic effects and their environmental interactions of QTLs on the genetic basis of yield traits in rice. Theor Appl Genet 105:248–257

    Article  CAS  PubMed  Google Scholar 

  • Yamamoto R, Horisue N, Ikeda R (1995) Rice breeding manual. Miscellaneous publication of the National Agriculture Research Centre in Japan, vol 30

  • Yamamoto T, Lin HX, Sasaki T, Yano M (2000) Identification of heading date quantitative trait locus Hd-6 and characterization of its epistatic interactions with Hd-2 in rice using advanced backcross progeny. Genetics 154:885–891

    CAS  PubMed  Google Scholar 

  • Yano M (2001) Naturally occurring allelic variations as a new resource for functional genomics in rice. Rice genetics IV. In: Khush GS, Brar DS, Hrady B (eds) Proceeding of the fourth international rice genetics symposium, 22–27 October 2000, Los Banos, pp 227–238

  • Yano M, Katayose Y, Ashikari M, Yamanouchi U, Monna Lisa, Fuse T, Baba T, Yamamoto K, Umehara Y, Nagamura Y, Sasaki T (2000) Hd-1, a major photoperiod sensitivity quantitative trait locus in rice, is closely related to the Arabidopsis flowering time gene CONSTANS. Plant cell 12:2473–2483

    Article  CAS  PubMed  Google Scholar 

  • Zeng ZB (1994) Precision mapping of quantitative trait loci. Genetics 136:1457–1468

    CAS  PubMed  Google Scholar 

  • Zhang XM, Shi CH, Katsura T (2002) Correlation analysis between starch characteristics and taste quality in Japonica rice (in Chinese with English abstract). Chinese J Rice Sci 16(2):157–161

    Article  Google Scholar 

  • Zhu QS, Du Y, Wang ZQ, Lang YZ, Tang SZ, Yang JC, Zhang ZJ (2001) Relationship between amylose content and edible stickiness and softness of cooked rice of hybrids. Acta Agronomica Sinica 27(3):377–382 (in Chinese with English abstract)

    Google Scholar 

Download references

Acknowledgements

We are very grateful for comments and suggestions on the manuscript from Professor Lihong Zhu and two anonymous reviewers. We acknowledge 24 panelists for degusting cooked rice for 3 years and Dr. Fulin Gu for helping field management. This research is supported by the grants from the National High Technology Research and Development Program of China (“863” Program, No. 2001AA241024; 2003AA222131>>2003AA207020), the National Natural Science Foundation of China (No.30270811), “948” project, the Ministry of Agriculture of PR China (No.201002 A), National Science and Technology Achievements Spreading Program (02EFN21 3200232), Jiangsu Science and Technology Development Program (BE 2001305).

Author information

Authors and Affiliations

  1. National Key Laboratory for Crop Genetics and Germplasm Enhancement, Jiangsu Plant Gene Engineering Research Center, Nanjing Agricultural University, Nanjing, 210095, China

    X. Y. Wan, J. M. Wan, C. C. Su, C. M. Wang, W. B. Shen, J. M. Li, H. L. Wang, L. Jiang, S. J. Liu & L. M. Chen

  2. Plant Breeding Laboratory, Faculty of Agriculture, Kyushu University, Fukuoka, 812-8581, Japan

    H. Yasui & A Yoshimura

Authors
  1. X. Y. Wan
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. J. M. Wan
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. C. C. Su
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. C. M. Wang
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. W. B. Shen
    View author publications

    You can also search for this author in PubMed Google Scholar

  6. J. M. Li
    View author publications

    You can also search for this author in PubMed Google Scholar

  7. H. L. Wang
    View author publications

    You can also search for this author in PubMed Google Scholar

  8. L. Jiang
    View author publications

    You can also search for this author in PubMed Google Scholar

  9. S. J. Liu
    View author publications

    You can also search for this author in PubMed Google Scholar

  10. L. M. Chen
    View author publications

    You can also search for this author in PubMed Google Scholar

  11. H. Yasui
    View author publications

    You can also search for this author in PubMed Google Scholar

  12. A Yoshimura
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to J. M. Wan.

Additional information

Communicated by D.J. Mackill

Rights and permissions

Reprints and Permissions

About this article

Cite this article

Wan, X.Y., Wan, J.M., Su, C.C. et al. QTL detection for eating quality of cooked rice in a population of chromosome segment substitution lines. Theor Appl Genet 110, 71–79 (2004). https://doi.org/10.1007/s00122-004-1744-3

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s00122-004-1744-3

Keywords

search

Navigation