Advertisement

Fine mapping and grain yield analysis of a major QTL controlling primary branch number in rice (Oryza sativa L.)

  • Fei Shang
  • Lifang Chen
  • Xianghe Meng
  • Kun Yang
  • Jianfei WangEmail author
Research Article
  • 20 Downloads

Abstract

Panicle size is one of the most important agronomic traits highly associated with grain yield in rice. For quantitative trait locus (QTL) analysis and breeding utilization of panicle size in rice, a large panicle rice line YR1 was used as a donor to cross and backcross with a commercial cultivar Ningjing 1 (NJ1), and developed backcross populations. In a BC2F2 population, a total of 3 QTL associated with panicle size were found on chromosome 1 and 8. Two of the QTLs, qPBN1 and qGNP1, were mapped to an interval on chromosome 1, where a previously cloned gene GN1a was located. qPBN8, a major QTL for primary branch number on chromosome 8, was finally narrowed to a 51.8 kb region, containing reported gene OsSPL14 regulating branch number and plant architecture. Through sequence and expression comparison, the qPBN8 was considered to be the allele of OsSPL14. The investigation of yield structure in six pairs of near-isogenic lines revealed that the effects of qPBN8 on grain yield were related to the length of vegetative period. The qPBN8 allele of large panicle was suitable for late-maturing varieties to improve yield.

Keywords

Rice Primary branch number Quantitative trait loci Fine mapping Yield 

Notes

Acknowledgements

This work was supported by the Natural Science Foundation of Jiangsu Province (Grant No. BK20151427).

Compliance with ethical standards

Conflict of interest

All authors declare that they have no conflict of interest.

References

  1. Ashikari M, Sakakibara H, Lin SY, Yamamoto T, Takashi T, Nishimura A, Matsuoka M (2005) Cytokinin oxidase regulates rice grain production. Science 309(5735):741–745CrossRefGoogle Scholar
  2. Bai X, Huang Y, Mao D, Wen M, Zhang L, Xing Y (2016) Regulatory role of FZP in the determination of panicle branching and spikelet formation in rice. Sci Rep 6:19022CrossRefGoogle Scholar
  3. Cheng FM, Zhang QF, Zhu HJ, Zhao NC, Wang F, Chen KM, Zhang GP (2007) The difference in amylose content within a panicle as affected by the panicle morphology of rice cultivars. J Cereal Sci 46(1):49–57CrossRefGoogle Scholar
  4. Cheng J, Wang L, Du W, Lai Y, Huang X, Wang Z, Zhang H (2014) Dynamic quantitative trait locus analysis of seed dormancy at three development stages in rice. Mol Breed 34(2):501–510CrossRefGoogle Scholar
  5. Fang NY, Wang RS, He WW, Yin CF, Guan CH, Chen H, Zhang HS (2016) QTL mapping of panicle blast resistance in japonica landrace heikezijing and its application in rice breeding. Mol Breed 36(12):171CrossRefGoogle Scholar
  6. Fujita D, Trijatmiko KR, Tagle AG, Sapasap MV, Koide Y, Sasaki K, Kobayashi N (2013) NAL1 allele from a rice landrace greatly increases yield in modern indica cultivars. Proc Natl Acad Sci USA 110(51):20431–20436CrossRefGoogle Scholar
  7. Hu ZJ, Cao LM, Sun XJ, Zhu Y, Zhang TY, Jiang L, Luo XJ (2018) Fine mapping of a major quantitative trait locus, qgnp7(t), controlling grain number per panicle in African rice (Oryza glaberrima S.). Breed Sci 68(5):606–613CrossRefGoogle Scholar
  8. Huang X, Qian Q, Liu Z, Sun H, He S, Luo D, Fu X (2009) Natural variation at the DEP1 locus enhances grain yield in rice. Nat Genet 41(4):494–497CrossRefGoogle Scholar
  9. Huo X, Wu S, Zhu Z, Liu F, Fu Y, Cai H, Sun C (2017) NOG1 increases grain production in rice. Nat Commun 8(1):1497CrossRefGoogle Scholar
  10. Ikeda K, Ito M, Nagasawa N, Kyozuka J, Nagato Y (2007) Rice ABERRANT PANICLE ORGANIZATION 1, encoding an F-box protein, regulates meristem fate. Plant J 51(6):1030–1040CrossRefGoogle Scholar
  11. Jiao Y, Wang Y, Xue D, Wang J, Yan M, Liu G, Li J (2010) Regulation of OsSPL14 by OsmiR156 defines ideal plant architecture in rice. Nat Genet 42(6):541–544CrossRefGoogle Scholar
  12. Jin J, Huang W, Yang J, Shi M, Zhu M, Luo D, Lin H (2008) Genetic control of rice plant architecture under domestication. Nat Genet 40(11):1365–1369CrossRefGoogle Scholar
  13. Kumar V, Ladha JK (2011) Direct seeding of rice: recent developments and future research needs. Adv Agron 111:297–413CrossRefGoogle Scholar
  14. Li S, Zhao B, Yuan D, Duan M, Qian Q, Tang L, Li C (2013) Rice zinc finger protein DST enhances grain production through controlling Gn1a/OsCKX2 expression. Proc Natl Acad Sci USA 110(8):3167–3172CrossRefGoogle Scholar
  15. Liu HY, Hussain S, Zheng MM, Peng SB, Huang JL, Cui KH, Nie LX (2015) Dry direct-seeded rice as an alternative to transplanted-flooded rice in Central China. Agron Sustain Dev 35(1):285–294CrossRefGoogle Scholar
  16. Livak KJ, Schmittgen TD (2001) Analysis of relative gene expression data using real-time quantitative PCR and the 2 − ΔΔCT method. Methods 25(4):402–408CrossRefGoogle Scholar
  17. Luo X, Tian F, Fu Y, Yang J, Sun C (2009) Mapping quantitative trait loci influencing panicle-related traits from Chinese common wild rice (Oryza rufipogon) using introgression lines. Plant Breed 128(6):559–567CrossRefGoogle Scholar
  18. Mei HW, Xu JL, Li ZK, Yu XQ, Guo LB, Wang YP, Luo LJ (2006) QTLs influencing panicle size detected in two reciprocal introgressive line (IL) populations in rice (Oryza sativa L.). Theor Appl Genet 112(4):648–656CrossRefGoogle Scholar
  19. Miura K, Ikeda M, Matsubara A, Song XJ, Ito M, Asano K, Ashikari M (2010) OsSPL14 promotes panicle branching and higher grain productivity in rice. Nat Genet 42(6):545–549CrossRefGoogle Scholar
  20. Miura K, Ashikari M, Matsuoka M (2011) The role of QTLs in the breeding of high-yielding rice. Trends Plant Sci 16(6):319–326CrossRefGoogle Scholar
  21. Peng SB, Khush GS, Virk P, Tang QY, Zou YB (2008) Progress in ideotype breeding to increase rice yield potential. Field Crops Res 108(1):32–38CrossRefGoogle Scholar
  22. Peng YL, Gao ZY, Zhang B, Liu CL, Xu J, Ruan BP, Qian Q (2014) Fine mapping and candidate gene analysis of a major QTL for panicle structure in rice. Plant Cell Rep 33(11):1843–1850CrossRefGoogle Scholar
  23. Sasaki K, Fujita D, Koide Y, Lumanglas PD, Gannaban RB, Tagle AG, Ishimaru T (2017) Fine mapping of a quantitative trait locus for spikelet number per panicle in a new plant type rice and evaluation of a near-isogenic line for grain productivity. J Exp Bot 68(11):2693–2702CrossRefGoogle Scholar
  24. Tabuchi H, Zhang Y, Hattori S, Omae M, Shimizu-Sato S, Oikawa T, Sato Y (2011) LAX PANICLE2 of rice encodes a novel nuclear protein and regulates the formation of axillary meristems. Plant Cell 23(9):3276–3287CrossRefGoogle Scholar
  25. Takai T, Nakano H, Yoshinaga S, Kondo M (2018) Identification of a novel QTL for the number of spikelets per panicle using a cross between indica- and japonica-type high-yielding rice cultivars in Japan. Plant Breed 137(2):109–117CrossRefGoogle Scholar
  26. Tan L, Li X, Liu F, Sun X, Li C, Zhu Z, Sun C (2008) Control of a key transition from prostrate to erect growth in rice domestication. Nat Genet 40:1360CrossRefGoogle Scholar
  27. Wang J, Zhou L, Shi H, Chern M, Yu H, Yi H, Li Y (2018) A single transcription factor promotes both yield and immunity in rice. Science 361(6406):1026–1028CrossRefGoogle Scholar
  28. Weng X, Wang L, Wang J, Hu Y, Du H, Xu C, Zhang Q (2014) Grain number, plant height, and heading date7 is a central regulator of growth, development, and stress response. Plant Physiol 164(2):735–747CrossRefGoogle Scholar
  29. Xing Y, Zhang Q (2010) Genetic and molecular bases of rice yield. Annu Rev Plant Biol 61:421–442CrossRefGoogle Scholar
  30. Xue WY, Xing YZ, Weng XY, Zhao Y, Tang WJ, Wang L, Zhang QF (2008) Natural variation in Ghd7 is an important regulator of heading date and yield potential in rice. Nat Genet 40(6):761–767CrossRefGoogle Scholar
  31. Zhao L, Tan L, Zhu Z, Xiao L, Xie D, Sun C (2015) PAY1 improves plant architecture and enhances grain yield in rice. Plant J 83(3):528–536CrossRefGoogle Scholar
  32. Zhu JY, Zhou Y, Liu YH, Wang ZD, Tang ZX, Yi CD, Liang GH (2011) Fine mapping of a major QTL controlling panicle number in rice. Mol Breed 27(2):171–180CrossRefGoogle Scholar

Copyright information

© Springer Nature B.V. 2019

Authors and Affiliations

  1. 1.The State Key Laboratory of Crop Genetics and Germplasm EnhancementNanjing Agricultural UniversityNanjingChina

Personalised recommendations