Springer Nature is making SARS-CoV-2 and COVID-19 research free. View research | View latest news | Sign up for updates

Genetic analysis and fine mapping of a rice brown planthopper (Nilaparvata lugens Stål) resistance gene bph19(t)


Genetic analysis and fine mapping of a resistance gene against brown planthopper (BPH) biotype 2 in rice was performed using two F2 populations derived from two crosses between a resistant indica cultivar (cv.), AS20-1, and two susceptible japonica cvs., Aichi Asahi and Lijiangxintuanheigu. Insect resistance was evaluated using F1 plants and the two F2 populations. The results showed that a single recessive gene, tentatively designated as bph19(t), conditioned the resistance in AS20-1. A linkage analysis, mainly employing microsatellite markers, was carried out in the two F2 populations through bulked segregant analysis and recessive class analysis (RCA), in combination with bioinformatics analysis (BIA). The resistance gene locus bph19(t) was finely mapped to a region of about 1.0 cM on the short arm of chromosome 3, flanked by markers RM6308 and RM3134, where one known marker RM1022, and four new markers, b1, b2, b3 and b4, developed in the present study were co-segregating with the locus. To physically map this locus, the bph19(t)-linked markers were landed on bacterial artificial chromosome or P1 artificial chromosome clones of the reference cv., Nipponbare, released by the International Rice Genome Sequencing Project. Sequence information of these clones was used to construct a physical map of the bph19(t) locus, in silico, by BIA. The bph19(t) locus was physically defined to an interval of about 60 kb. The detailed genetic and physical maps of the bph19(t) locus will facilitate marker-assisted gene pyramiding and cloning.

This is a preview of subscription content, log in to check access.

Fig. 1
Fig. 2
Fig. 3


  1. Alam SN, Cohen MB (1998) Detection and analysis of QTLs for resistance to the brown planthopper, Nilaparvata lugens, in a doubled-haploid rice population. Theor Appl Genet 97:1370–1379

  2. Athwal DS, Pathak MD, Bacalangco EH, Pura CD (1971) Genetics of resistance to brown planthoppers and green leafhoppers in Oryza sativa L. Crop Sci 11:747–750

  3. Beavis WD, Grant D, Albersen M, Fincher R (1991) Quantitative trait loci for plant height in four maize populations and their associations with qualitative genetic loci. Theor Appl Genet 83:141–145

  4. Chen S, Wang L, Que ZQ, Pan RQ, Pan QH (2005) Genetic and physical mapping of Pi37(t), a new gene conferring resistance to rice blast in the famous cultivar st. no. 1. Theor Appl Genet 111:1563–1570

  5. Dyck VA, Thomas B (1979) The brown planthopper problem. In: International Rice Research Institute (eds) Brown planthopper: threat to rice production in Asia. IRRI, Los Baños, Philippines, pp 3–17

  6. Fidantsef AL, Stout MJ, Thaler JS, Duffey SS, Bostock RM (1999) Signal interactions in pathogen and insect attack: expression of lipoxygenase, proteinase inhibitor II, and pathogenesis-related protein P4 in the tomato, Lycopersicon esculentum. Physiol Mol Plant Pathol 54:97–114

  7. Gu K, Tian D, Yang F, Wu L, Sreekala C, Wang D, Wang GL, Yin Z (2004) High-resolution genetic mapping of Xa27(t), a new bacterial blight resistance gene in rice, Oryza sativa L. Theor Appl Genet 108:800–807

  8. Hirabayashi H, Ogawa T (1995) RFLP mapping of Bph-1 (brown planthopper resistance gene) in rice. Breed Sci 45:369–371

  9. Hirabayashi H, Angeles ER, Kaji R, Ogawa T, Brar DS, Khush GS (1998) Identification of brown planthopper resistance gene derived from O. officinalis using molecular markers in rice (in Japanese). Breed Sci Suppl 48:82

  10. Hirabayashi H, Kaji R, Angeles ER, Ogawa T, Brar DS, Khush GS (1999) RFLP analysis of a new gene for resistance to brown planthopper derived from O. officinalis on rice chromosome 4 (in Japanese). Breed Sci Suppl 49:48

  11. Holt J, Chancellor TCB, Reynolds DR, Tiongco ER (1996) Risk assessment for rice planthopper and tungro disease outbreaks. Crop Protection 15(4):359–368

  12. Huang CF (2003) Development of position specific microsatellite markers and molecular mapping of insect resistant genes in rice (Oryza sativa L.) (in Chinese). MS Thesis, South China Agricultural University

  13. Huang Z, He G, Shu L, Li X, Zhang Q (2001) Identification and mapping of two brown planthopper resistance genes in rice. Theor Appl Genet 102:929–934

  14. Inukai T, Zeigler RS, Sarkarung S, Bronson M, Dung LV, Kinoshita T, Nelson RJ (1996) Development of pre-isogenic lines for rice blast-resistance by marker-aided selecting from inbred population. Theor Appl Genet 93:560–567

  15. IRRI (1988) Standard evaluation system for rice. International Rice Research Institute, Manila

  16. Ishii T, Brar DS, Multani DS, Khush GS (1994) Molecular tagging of genes for brown planthopper resistance and earliness introgressed from Oryza australiensis into cultivated rice, O. sativa. Genome 37:217–221

  17. Jena KK, Jeung JU, Lee JH, Choi HC, Brar DS (2005) High-resolution mapping of a new brown planthopper (BPH) resistance gene, Bph18(t), and marker-assisted selection for BPH resistance in rice (Oryza sativa L.) Theor Appl Genet, DOI 10. 1007/s00122-005-1027-8

  18. Kabir MA, Khush GS (1988) Genetic analysis of resistance to brown planthopper in rice, Oryza sativa L. Plant Breed 100:54–58

  19. Kawaguchi M, Murata K, Ishii T, Takumi S, Mori N, Nakamura C (2001) Assignment of a brown planthopper (Nilaparvata lugens Stål) resistance gene bph4 to the rice chromosome 6. Breed Sci 51:13–18

  20. Khush GS, Rezaul-Karim ANM, Angeles ER (1985) Genetics of resistance of rice cultivar ARC10550 to Bangladesh brown planthopper biotype. J Genet 64:121–125

  21. Kosambi DD (1944) The estimation of map distances from recombination values. Ann Eugen 12:172–175

  22. Lakshminarayana A, Khush GS (1977) New genes for resistance to the brown planthopper in rice. Crop Sci 17:96–100

  23. Li Q, Luo SY, Wei SM (1999) Mensuration of the brown planthopper biotypes and the relationship of the migration. Entomol Knowl 36:257–260

  24. Liu GQ, Yan HH, Fu Q, Qian Q, Zhang ZT, Zhai WX, Zhu LH (2001) Mapping of a new gene for brown planthopper resistance in cultivated rice introgressed from Oryza eichingeri. Chin Sci Bull 46:1459–1462

  25. Liu XQ, Wang L, Chen S, Lin F, Pan QH (2005) Genetic and physical mapping of Pi36(t), a novel rice blast resistance gene located on rice chromosome 8. Mol Gen Genomics 274:394–401

  26. McCouch SR, Temnykh S, Lukashova A, Coburn J, Declerck G, Cartinhour S, Harrington S, Thomson M, Septiningsih E, Semon M, Moncada P, Li JM (2001) Microsatellite markers in rice: abundance, diversity, and applications. In: Khush GS, Brar DS, Hardy B (eds) Rice Genetics IV. Science Publishers, Enfield, pp 117–135

  27. McCouch SR, Teytelman L, Xu YB, Lobos KB, Clare K, Walton M, Fu BY, Maghirang R, Li ZK, Xing YZ, Zhang QF, Kono I, Yano M, Fjellstrom R, Declerck G, Schneider D, Cartinhour S, Ware D, Stein L (2002) Development and mapping of 2240 new SSR markers for rice (Oryza sativa L.). DNA Res 9:199–207

  28. Michelmore RW, Paran I, Kesseli RV (1991) Identification of markers linked to disease-resistance genes by bulked segregant analysis: A rapid method to detect markers in specific genomic regions by using segregating populations. Proc Natl Acad Sci USA 88:9828–9832

  29. Monna L, Lin HX, Kojima S, Sasaki T, Yano M (2002) Genetic dissection of a genomic region for quantitative trait locus, Hd3, into two loci, Hd3a and Hd3b, controlling heading date in rice. Theor Appl Genet 104:772–778

  30. Murai H, Hashimoto Z, Sharma PN, Shimizu T, Murata K, Takumi S, Mori N, Kawasaki S, Nakamura C (2001) Construction of a high-resolution linkage map of a rice brown planthopper (Nilaparvata lugens Stål) resistance gene bph2. Theor Appl Genet 103:526–532

  31. Murata K, Fujiwara M, Kaneda C, Takumi S, Mori N, Nakamura C (1998) RFLP mapping of a brown planthopper (Nilaparvata lugens Stål) resistance gene bph2 of indica rice introgressed into a japonica breeding line ‘Norin-PL4’. Genes Genet Syst 73:359–364

  32. Murata K, Fujiwara M, Murai H, Takumi S, Mori N, Nakamura C (2001) Mapping of a brown planthopper (Nilaparvata lugens Stål) resistance gene Bph9 on the long arm of rice chromosome 12. Cereal Res Commun 29:245–250

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

  34. Nemoto H, Ikeda R, Kaneda C (1989) New genes for resistance to brown planthopper, Nilaparvata lugens Stål, in rice. Jpn J Breed 39:23–28

  35. Pan QH, Hu ZD, Takatoshi T, Wang L (2003) Fine mapping of the blast resistance gene Pi15, linked to Pii, on rice chromosome 9. Acta Bot Sin 45:871–877

  36. Paterson AH, Deverna JW, Lanini B, Tanksley SD (1990) Fine mapping of quantitative trait loci using selected overlapping recombinant chromosomes, in an interspecies cross of tomato. Genetics 124:736–742

  37. Pataki MD (1969) Resistance to Nephotettix impicticeps and N. lugens in varieties of rice. Nature 223:502–504

  38. Pathak MD (1972) Resistance to insect pests in rice varieties. In: International Rice Research Institute (ed) Rice breeding. IRRI, Los Baños, Philippines, pp 325–341

  39. Peters JL, Cnudde F, Gerats T (2003) Forward genetics and map-based cloning approaches. Trends Plant Sci 8:484–491

  40. Ramalingam J, Vera-Cruz CM, Kukreja K, Chittoor JM, Wu JL, Lee SW, Baraoidan M, George ML, Cohen MB, Hulbert SH, Leach JE, Leung H (2003) Candidate defense genes from rice, barley, and maize and their association with qualitative and quantitative resistance in rice. Mol Plant Microbe Interact 16:14–24

  41. Renganayaki K, Fritz AK, Sadasivam S, Pammi S, Harrington SE, McCouch SR, Kumar SM, Reddy AS (2002) Mapping and progress toward map-based cloning of brown planthopper biotype-4 resistance gene introgressed from Oryza officinalis into cultivated rice, O. sativa. Crop Sci 42:2112–2117

  42. Richter TE, Ronald PC (2000) The evolution of disease resistance genes. Plant Mol Biol 42:195–204

  43. Ronald PC (1997) The molecular basis of disease resistance in rice. Plant Mol Biol 35:179–186

  44. Ronald PC (1998) Resistance gene evolution. Curr Opin Plant Biol 1:294–298

  45. Schuler GD (1998) Electronic PCR: bridging the gap between genome mapping and genome sequencing. Trends Biotechnol 16:456–459

  46. Sharma PN, Ketipearachchi Y, Murata K, Torii A, Takumi S, Mori N, Nakamura C (2002) RFLP/AFLP mapping of a brown planthopper (Nilaparvata lugens Stål) resistance gene Bph1 in rice. Euphytica 129:109–117

  47. Sogawa K (1982) The rice brown planthopper: feeding physiology and host plant interactions. Annu Rev Entomol 27:49–73

  48. Sogawa K, Liu GJ, Shen JH (2003) A review on the hyper-susceptibility of Chinese hybrid rice to insect pests. Chin J Rice Sci 17:23–30

  49. Sudupak MA, Bennetzen JL, Hulbert SH (1993) Unequal exchange and meiotic instability of the Rp1 region disease resistance genes in maize. Genetics 133:119–125

  50. Temnykh S, Park WD, Ayres N, Cartinhour S, Hauck N, Lipovich L, Cho YG, Ishii T, McCouch SR (2000) Mapping and genome organization of microsatellite sequences in rice (Oryza sativa L.). Theor Appl Genet 100:697–712

  51. Vos P, Simons G, Jesse T, Wijbrandi J, Heinen L, Hogers R, Frijters A, Groenendijk J, Diergaarde P, Reijans M, Fierens-Onstenk J, Both MD, Peleman J, Liharska T, Hontelez J, Zabeau M (1998) The tomato Mi-1 gene confers resistance to both root-knot nematodes and potato aphids. Nat Biotechnol 16:1365–1369

  52. Wang GL, Mackill DJ, Bonman JM, McCouch SR, Champoux MC, Nelson RJ (1994) RFLP mapping of genes conferring complete and partial resistance to blast in a durably resistant rice cultivar. Genetics 136:1421–1434

  53. Wang GR, Lai FX, Fu Q, Zhang ZT, Guo LF (1999) Virulent shift in populations of Nilaparvata lugens (Homptera: Delphacidae) (in Chinese). Chin J Rice Sci 13:229–232

  54. Walling LL (2000) The myriad plant responses to herbivores. J Plant Growth Regul 19:195–216

  55. Xu XF, Mei HW, Luo LJ, Cheng XN, Li ZK (2002) RFLP-facilitated investigation of the quantitative resistance of rice to brown planthopper (Nilaparvata lugens). Theor Appl Genet 104:248–253

  56. Yang HY, Ren X, Weng QM, Zhu LL, He GC (2002) Molecular mapping and genetic analysis of a rice brown planthopper (Nilaparvata lugens Stål) resistance gene. Hereditas 136:39–43

  57. Yang Z, Sun X, Wang S, Zhang Q (2003) Genetic and physical mapping of a new gene for bacterial blight resistance in rice. Theor Appl Genet 106:1467–1472

  58. Yang HY, You AQ, Yang ZF, Zhang FT, He RF, Zhu LL, He GC (2004) High-resolution genetic mapping at the Bph15 locus for brown planthopper resistance in rice (Oryza sativa L.). Theor Appl Genet 110:182–191

  59. Zhu ML, Wang L, Pan QH (2004a) Identification and characterization of a new blast resistance gene located on rice chromosome 1 through linkage and differential analyses. Phytopathology 94:515–519

  60. Zhu LL, Zhu CL, Weng QM, Huang Z, He GC (2004b) Research progress on brown planthopper resistance genes in rice (in Chinese). Hubei Agric Sci 1:19–24

Download references


We are grateful to F.-K. Huang at Guangxi Academy of Agricultural Sciences, China, for kindly providing the insect source and advice on BPH bioassay, and R.-Y. He for critical reading of the manuscript. This research was supported by grants from the National Basic Research Program of China (2006CB100200-G), the National Special Program for Functional Genomics and Biologic Chips (2002AA2E1002), the Guangdong Provincial Natural Science Foundation (000575; 039254), and the Special Project for the Distinguished University Professor from the Department of Education of Guangdong Province, China.

Author information

Correspondence to Q. H. Pan.

Additional information

Communicated by R. Hagemann

Rights and permissions

Reprints and Permissions

About this article

Cite this article

Chen, J.W., Wang, L., Pang, X.F. et al. Genetic analysis and fine mapping of a rice brown planthopper (Nilaparvata lugens Stål) resistance gene bph19(t). Mol Genet Genomics 275, 321–329 (2006).

Download citation


  • Rice brown planthopper (BPH)
  • Resistance gene
  • Genetic map
  • Physical map
  • Sequence information