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Dynamic expression of nine QTLs for tiller number detected with single segment substitution lines in rice

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Abstract

Nine single segment substitution lines (SSSLs) in rice, which contain quantitative trait loci (QTLs) for tiller number on substituted segments detected in previous studies, were selected as materials to analyse dynamic expression of the QTLs in this study. These SSSLs and their recipient parent, Hua-jing-xian 74 (HJX74), were grown in four different environments and were measured for tiller number at nine different growth stages. An indirect methodology was applied in QTL mapping through analyzing multi-environment phenotypic data. Dynamics of three types of effects (including total effect, main effect, and QE interaction effect) of QTLs was released. It was shown that nine QTLs exhibited statistically significant effects only at certain stages. Effects of a QTL, although insignificant at certain stages, displayed dynamic change with the growth of rice plants. Two common features of nine QTLs were detected, one is no expression within 7 days after transplanting, and the other is opposite expression existed during the whole growth period. Nine QTLs largely focused on expression in certain stages, and accordingly were suggested to partition into three types, expression in prophase, both in prophase and in anaphase, and evenly during the whole stage. It may be reasonable explanation that dynamics of main effects of QTLs are likely due to gene expression selectly at certain times, while dynamics of QE interaction effects of QTLs might attribute to the subrogation of environmental factors. Examination of the association between QE interaction effect and specified environmental factors across stages may provide useful information on how an environmental factor regulates QTL expression.

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References

  • Atchley WR, Zhu J (1997) Developmental quantitative genetics, conditional epigenetical variability and growth in mice. Genetics 147:765–776

    PubMed  CAS  Google Scholar 

  • Bradshaw HD, Settler RF (1995) Molecular genetics of growth and development in populus. IV. Mapping QTLs with large effects on growth, form, and phenology traits in a forest tree. Genetics 139:963–973

    PubMed  CAS  Google Scholar 

  • Cao GQ, Zhu J, He CX, Gao YM, Yan JQ (2001) Impacts of epistasis and QTL × environment interaction for developmental behavior of plant height in rice (Oryza sativa L.). Theor Appl Genet 103:153–160

    Article  CAS  Google Scholar 

  • Dong YJ, Kamiunten HS, Ogawa TF, Tsuzuki EJ, Terao HY, Lin DZ, Matsuo MH (2004) Mapping of QTLs for leaf developmental behavior in rice (Oryza sativa L.). Euphytica 138:169–175

    Article  CAS  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

    PubMed  CAS  Google Scholar 

  • He FH, Xi ZY, Zeng RZ, Zhang GQ (2005a) Developing single segment substitution lines (SSSLs) in rice (Oryza sativa L.) using advanced backcrosses and MAS. Acta Genet Sinica 32(8):825–831 (in Chinese)

    Google Scholar 

  • He FH, Xi ZY, Zeng RZ, Zhang GQ (2005b) Mapping heading date QTL in rice (Oryza sativa L.) using single segment substitution lines (SSSLs). Acta Agric Sinica 38(8):1505–1513 (in Chinese)

    CAS  Google Scholar 

  • He FH, Zeng RZ, Xi ZY, Talukdar A, Zhang GQ (2005c) Identification of QTLs for plant height and its components by using single segment substitution lines in rice (Oryza sativa L.). Rice Science 12(3):151–156

    Google Scholar 

  • Hittalmani S, Shashidhar HE, Bagali PG, Huang N, Sidhu JS, Singh VP, Khush GS (2002) Molecular mapping of quantitative trait loci for plant growth, yield and yield related traits across three diverse locations in a doubled haploid rice population. Euphytica 125:207–214

    Article  CAS  Google Scholar 

  • Hittalmani S, Huang N, Courtois B, Venuprasad R, Shashidhar HE, Zhuang JY, Zheng KL, Liu GF, Wang GC, Sidhu JS, Srivantaneeyakul S, Singh VP, Bagali PG, Prasanna HC, McLaren G, Khush GS (2003) Identification of QTL for growth- and grain yield-related traits in rice across nine locations of Asia. Theor Appl Genet 107:679–690

    Article  PubMed  Google Scholar 

  • Ishikawa S, Maekawa M, Arite T, Onishi K, Takemura I, Kyozuka J (2005) Supression of tiller bud activity in tillering dwarf mutants of rice. Plant Cell Physiol 46:79–86

    Article  PubMed  CAS  Google Scholar 

  • Jiang GH, Xu CG, Li XH, He YQ (2004) Characterization of the genetic basis for yield and its component traits of rice revealed by doubled haploid population. Acta genetica sinica 31(1):63–72

    PubMed  Google Scholar 

  • Jiang GH, Guo LB, Xue DW, Zeng DL, Zhang GH (2006) Genetic analysis and gene-mapping of two reduced-culm- number mutants in rice. J Integr Plant Biol 48(3):341–347

    Article  CAS  Google Scholar 

  • Leon AJ, Lee M, Andrade FH (2001) Quantitative trait loci for growing degree days to flowering and photoperiod response in Sunflower (Helianthus annuus L.). Theor Appl Genet 102:497–503

    Article  Google Scholar 

  • Li YH (1979) Morphology and Anatomy of Grass Family Crops. Shanghai Science and Technology Press, Shanghai, pp 138–142 (in Chinese)

    Google Scholar 

  • Li X, Qian Q, Fu Z, Wang Y, Xiong G, Zeng D, Wang X, Liu X, Teng S, Fujimoto H, Yuan M, Luo D, Han B, Li J (2003a) Control of tillering in rice. Nature 422:618–621

    Article  PubMed  CAS  Google Scholar 

  • Li ZK, Yu SB, Lafitte HR, Huang N, Courtois B, Hittalmani S, Vijayakumar CHM, Liu GF, Wang GC, Shashidhar HE, Zhuang JY, Zheng KL, Singh VP, Sidhu JS, Srivantaneeyakul S, Khush GS (2003b) QTL × environment interactions in rice. I. Heading date and plant height. Theor Appl Genet 108:141–153

    Article  PubMed  CAS  Google Scholar 

  • Lin HX, Qian HR, Zhuang JY, Lu J, Min SK, Xiong ZM, Huang N, Zheng KL (1996) RFLP mapping of QTLs for yield and related characters in rice (Oryza sativa L.). Theor Appl Genet 92:920–927

    Article  CAS  Google Scholar 

  • Liu GF, Yang J, Xu HM, Zhu J (2006) Genetic analysis on tiller number and plant height per plant in rice (Oryza sativa L.). J Zhejiang Univ (Agriculture and life science) 32(5):527–534

    Google Scholar 

  • Liu GF, Zhang ZM, Zhu HT, Zhao FM, Ding XH, Zeng RZ, Li WT, Zhang GQ (2008) Detection of QTLs with additive effects and additive-by-environment interaction effects on panicle number in rice (Oryza sativa L.) by using single segment substituted lines. Theor Appl Genet 116:923–931

    Article  PubMed  CAS  Google Scholar 

  • McCouch SR, Doerge R (1995) QTL mapping in rice. Trends Genet 11:482–487

    Article  PubMed  CAS  Google Scholar 

  • Murai M, Kinoshita T (1986) Diallel analysis of traits concerning yield in rice. Jpn J Breed 36:7–15

    Google Scholar 

  • Perera ALT, Senadhira D, Lawrence MJ (1986) Genetic architecture of economically important characters and prediction of performance of recombinant inbred lines in rice. In: Rice Genetics. IRRI, Manila, pp 564–578

  • Plomion C, Durel CE, O’Malley DM (1996) Genetic dissection of height in maritime pine seedlings raised under accelerated growth conditions. Theor Appl Genet 93:849–858

    Article  CAS  Google Scholar 

  • Price AH, Tomos AD (1997) Genetic dissection of root growth in rice (Oryza sativa L.): II. Mapping quantitative trait loci using molecular markers. Theor Appl Genet 95:143–152

    Article  CAS  Google Scholar 

  • Tang JB, Zeng WY, Wang WM, Ma BT, Liu Y (2001) The genetic analysis and gene mapping of a few-tillering mutant in rice. Sci China (Ser C) 3:208–212

    Google Scholar 

  • Tian F, Li DJ, Fu Q, Zhu ZF, Fu YC, Wang XK, Sun CQ (2006) Construction of introgression lines carrying wild rice (Oryza rufipogon Griff.) segments in cultivated rice (Oryza sativa L.) background and characterization of introgressed segments associated with yield-related traits. Theor Appl Genet 112:570–580

    Article  PubMed  CAS  Google Scholar 

  • Wan JL, Zhai HQ, Wan JM, Hideshi Y, Atsushi Y (2003) Mapping QTL for traits associated with resistance to ferrous iron toxicity in rice (Oryza sativa L.), using japonica chromosome segment substitution lines. Acta Genetica Sinica 30(10):893–898

    PubMed  CAS  Google Scholar 

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

    Article  Google Scholar 

  • Wu P, Zhang GQ, Huang N (1996) Identification of QTLs controlling quantitative characters in rice using RFLP markers. Euphytica 89:349–354

    CAS  Google Scholar 

  • Wu WR, Li WM, Tang DZ, Lu HR, Worland AJ (1999) Time-related mapping of quantitative trait loci underlying tiller number in rice. Genetics 151:297–303

    PubMed  CAS  Google Scholar 

  • Xi ZY, He FH, Zeng RZ, Zhang ZM, Ding XH, Li WT, Zhang GQ (2006) Development of a wide population of chromosome single segment substitution lines in the genetic background of an elite cultivar of rice (Oryza sativa L.). Genome 49:476–484

    Article  PubMed  CAS  Google Scholar 

  • Xiao J, Li J, Yuan L, Tanksley L (1995a) Dominance is the major genetic basis of heterosis in rice as revealed by QTL analysis using molecular markers. Genetics 140:745–754

    PubMed  CAS  Google Scholar 

  • Xiao J, Li J, Yuan L, Tanksley L (1995b) Identification of QTLs affecting traits of agronomic importance in a recombinant inbred population derived from a subspecific rice cross. Theor Appl Genet 92:230–244

    Article  Google Scholar 

  • Xiong ZM (1992) Research outline on rice genetics in China. In: Xiong ZM, Cai HF (eds) Rice in China. Chinese Agricultural Science Press, Beijing, p 4057

    Google Scholar 

  • Xu YB, Shen ZT (1991) Diallel analysis of tiller number at different growth stages in rice (Oryza Sativa L.). Theor Appl Genet 83:243–249

    Article  Google Scholar 

  • Yan JQ, Zhu J, He C, Benmoussa M, Wu P (1998a) Quantitative trait loci analysis for the developmental behavior of tiller number in rice (Oryza sativa L.). Theor Appl Genet 97:267–274

    Article  CAS  Google Scholar 

  • Yan JQ, Zhu J, He C, Benmoussa M, Wu P (1998b) Molecular dissection of developmental behavior of plant height in rice (Oryza sativa L.). Genetics 150:1257–1265

    PubMed  CAS  Google Scholar 

  • Yan JQ, Zhu J, He C, Benmoussa M, Wu P (1999) Molecular marker-assisted dissection of genotype × environment interaction for plant type traits in rice (Oryza sativa L.). Crop Sci 39:538–544

    Google Scholar 

  • Yano M, Harushima Y, Nagamura Y, Kurata N, Minobe Y, Sasaki T (1997) Identification of quantitative trait loci controlling heading date in rice using a high–density linkage map. Theor Appl Genet 95:1025–1032

    Article  CAS  Google Scholar 

  • Yano M, Katayose Y, Ashikari M, Yamanouchi U, Monna L, Fuse T, Baba T, Yamamoto K, Umehara Y, Nagamura Y, Sasaki T (2000) Hd1, a major photoperiod sensitivity quantitative trait loci in rice, is closely related to the Arabidopsis flowering time gene CONSTANS. The Plant Cell 12:2473–2483

    Article  PubMed  CAS  Google Scholar 

  • Yano M, Kojima S, Takahashi Y, Lin HX, Sasaki T (2001) Genetic control of flowering time in rice, a short-day plant. Plant Physiology 127:1425–1429

    Article  PubMed  CAS  Google Scholar 

  • Zhang GQ, Zeng RZ, Zhang ZM, Ding XH, Li WT, Liu GM, He FH, Tulukdar A, Huang CF, Xi ZY, Qin LJ, Shi JQ, Zhao FM, Feng MJ, Shan ZL, Chen L, Guo XQ, Zhu HT, Lu YG (2004) The construction of a library of single segment substitution lines in rice (Oryza sativa L.). Rice Genet Newsl 21:85–87

    Google Scholar 

  • Zhao FM, Liu GF, Zhu HT, Ding XH, Zeng RZ, Zhang ZM, Li WT, Zhang GQ (2008) Unconditional and conditional QTL mapping for tiller numbers at various stages with single segment substitution lines in rice (Oryza sativa L.). Agric Sci China 7:257–265

    Google Scholar 

  • Zhu J (1992) Mixed model approaches for estimating variances and covariances. J Biomath 7(1):1–11

    Google Scholar 

  • Zhu J (1994) General genetic models and new analysis methods for quantitative traits. J Zhejiang Agric Univ 20(6):551–559 (in Chinese)

    Google Scholar 

  • Zhu J (1995) Analysis of conditional genetic effects and variance components in developmental genetics. Genetics 141:1633–1639

    PubMed  CAS  Google Scholar 

  • Zhu J (1996) Analysis methods for seed models with genotype × environment interactions. Acta Genetica Sinica 23(1):56–68 (in Chinese)

    PubMed  CAS  Google Scholar 

  • Zhu J (1998) Mixed model approaches of mapping genes for complex quantitative traits. In: Wang LZ, Dai JR (eds) Proceedings of genetics and crop breeding of China. Chinese Agricultural Science and Technology Publication House, Beijing, pp 19–20

    Google Scholar 

  • Zhu J (1999) Mixed model approaches of mapping genes for complex quantitative traits. J Zhejiang Univ (Natural Science) 33:327–335

    Google Scholar 

  • Zhu J, Weir BS (1996) Diallel analysis for sex-linked and maternal effects. Theor Appl Genet 92(1):1–9

    Article  Google Scholar 

  • Zou JH, Chen ZX, Zhang SY, Zhang WP, Jiang GH et al (2005) Characterizations and fine mapping of a mutant gene for high tillering and dwarf in rice (Oryza sativa L.). Planta 222:604–612

    Article  PubMed  CAS  Google Scholar 

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Acknowledgments

This research was supported by the National Natural Science Foundation of China (30330370 and 30830074).

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Authors and Affiliations

  1. Guangdong Key Lab of Plant Molecular Breeding, South China Agricultural University, 510642, Guangzhou, People’s Republic of China

    Guifu Liu, Ruizhen Zeng, Haitao Zhu, Zemin Zhang, Xiaohua Ding, Fangming Zhao, Wentao Li & Guiquan Zhang

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  1. Guifu Liu
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  2. Ruizhen Zeng
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  3. Haitao Zhu
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  4. Zemin Zhang
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  5. Xiaohua Ding
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  6. Fangming Zhao
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  7. Wentao Li
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  8. Guiquan Zhang
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Correspondence to Guiquan Zhang.

Additional information

Communicated by M. Cooper.

G. Liu and R. Zeng contributed equally to this work.

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Liu, G., Zeng, R., Zhu, H. et al. Dynamic expression of nine QTLs for tiller number detected with single segment substitution lines in rice. Theor Appl Genet 118, 443–453 (2009). https://doi.org/10.1007/s00122-008-0911-3

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  • DOI: https://doi.org/10.1007/s00122-008-0911-3

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