Advertisement

Theoretical and Applied Genetics

, Volume 118, Issue 6, pp 1027–1034 | Cite as

Identification and mapping of Pi41, a major gene conferring resistance to rice blast in the Oryza sativa subsp. indica reference cultivar, 93-11

  • Qinzhong Yang
  • Fei Lin
  • Ling Wang
  • Qinghua PanEmail author
Original Paper

Abstract

The Oryza sativa subsp. indica reference cultivar (cv.), 93-11 is completely resistant to many Chinese isolates of the rice blast fungus. Resistance segregated in a 3:1 (resistance/susceptible) ratio in an F2 population from the cross between 93-11 and the japonica reference cv. Nipponbare, when challenged with two independent blast isolates. The chromosomal location of this monogenic resistance was mapped to a region of the long arm of chromosome 12 by bulk segregant analysis, using 180 evenly distributed SSR markers. Five additional SSR loci and nine newly developed PCR-based markers allowed the target region to be reduced to ca. 1.8 cM, equivalent in Nipponbare to about 800 kb. In the reference sequence of Nipponbare, this region includes an NBS-LRR cluster of four genes. The known blast resistance gene Pi-GD-3 also maps in this region, but the 93-11 resistance was distinguishable from Pi-GD-3 on the basis of race specificity. We have therefore named the 93-11 resistance Pi41. Seven markers completely linked to Pi41 will facilitate both marker-assisted breeding and gene isolation cloning.

Keywords

Blast Resistance Bulk Segregant Analysis Blast Resistance Gene InDel Polymorphism Pathogen Avirulence 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

Notes

Acknowledgments

We thank Professors X.B. Zheng (Nanjing Agricultural University) and X.L. Guo (Jilin Academy of Agricultural Sciences) for the provision of blast isolates. This research was supported by grants from the National 973 project (2006CB/1002006), the National 863 project (2006AA100101; 2006AA10A103), the National Industry Science Research Project (200803008).

References

  1. Ahn SN, Kim YK, Hong HC, Han SS, Kwon SJ, Choi HC, Moon HP, McCouch SR (2000) Molecular mapping of a new gene for resistance to rice blast (Pyricularia grisea Sacc.). Euphytica 116:17–22CrossRefGoogle Scholar
  2. Arabidopsis Genome initiative (2000) Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 408:796–815CrossRefGoogle Scholar
  3. Bryan GT, Wu KS, Farrall L, Jia YL, Hershey HP, McAdams SA, Faulk KN, Donaldson GK, Tarchini R, Valent B (2000) A single amino acid difference distinguishes resistant and susceptible alleles of the rice blast resistance gene Pi-ta. Plant Cell 12:2033–2045PubMedCrossRefGoogle Scholar
  4. Chauhan RS, Farman ML, Zhang HB, Leong SA (2002) Genetic and physical mapping of a new blast resistance locus, Pi-CO39(t), that corresponds to the avirulence gene AVR1-CO39 of Magnaporthe grisea. Mol Genet Genomics 267:603–612PubMedCrossRefGoogle Scholar
  5. Chen M, Presting G, Barbazuk WB (2002) An integrated physical and genetic map of the rice genome. Plant Cell 14:537–545PubMedCrossRefGoogle Scholar
  6. 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 111:1563–1570PubMedCrossRefGoogle Scholar
  7. Chen XW, Shang JJ, Chen DX, Lei CL, Zou Y, Zhai WX, Liu GZ, Xu JC, Ling ZZ, Cao G, Ma BT, Wang YP, Zhao XF, Li SG, Zhu LH (2006) A B-lectin receptor kinase gene conferring rice blast resistance. Plant J 46:794–804PubMedCrossRefGoogle Scholar
  8. Chisholm ST, Coaker G, Day B, Staskawicz BJ (2006) Host-Microbe interactions: shaping the evolution of the plant immune response. Cell 124:803–814PubMedCrossRefGoogle Scholar
  9. Couch BC, Hohn LM (2002) A multilocus gene genealogy concordant with host preference indicates segregation of a new species, Magnaporthe oryzae, from M. grisea. Mycologia 94:683–693CrossRefGoogle Scholar
  10. Dai ZY, Zhao BH, Liu XJ, Xia GH, Tan CL, Zhang BQ, Zhang HX (1997) A new middle-mature indica rice variety Yangdao 6 with high yielding, high quality and multiple disease resistance (in Chinese). Jiangsu Agric Sci 4:13–14Google Scholar
  11. Deng YW, Zhu XD, Shen Y, He ZH (2006) Genetic characterization and fine mapping of the blast resistance locus Pigm(t) tightly linked to Pi2 and Pi9 in a broad-spectrum resistant Chinese variety. Theor Appl Genet 113:705–713PubMedCrossRefGoogle Scholar
  12. Dooner HK, Martinez-Ferez IM (1997) Recombination occurs uniformly with the bronze gene, a meiotic recombination hotspot in the maize genome. Plant Cell 9:1633–1646PubMedCrossRefGoogle Scholar
  13. Elli JG, Lawrence GJ, Dodds PN (2007) Further analysis of gene-for-gene disease resistance specificity in flax. Mol Plant Pathol 8:103–109CrossRefGoogle Scholar
  14. Gowda M, Barman-Roy S, Chattoo BB (2006) Molecular mapping of a novel blast resistance gene Pi38 in rice using SSLP and AFLP markers. Plant Breed 125:596–599CrossRefGoogle Scholar
  15. Gu K, Tian D, Yang F, Wu L, Sreekala C, Wang D, Wang G, Yin Z (2004) High-resolution genetic mapping of Xa27(t), a new bacterial blight resistance gene in rice, Oryza sativa L. Theor Appl Genet 108:800–807PubMedCrossRefGoogle Scholar
  16. Hayashi N, Ando I, Imbe T (1998) Identification of a new resistance gene to a Chinese blast fungus isolate in the Japanese rice cultivar Aichi Asahi. Phytopathology 88:822–827PubMedCrossRefGoogle Scholar
  17. Hittalmani S, Parco A, Mew TV, Zeigler RS, Huang N (2000) Fine mapping and DNA marker-assisted pyramiding of the three major genes for blast resistance in rice. Theor Appl Genet 100:1121–1128CrossRefGoogle Scholar
  18. International Rice Genome Sequencing Project (2005) The map-based sequence of the rice genome. Nature 436:793–800CrossRefGoogle Scholar
  19. Inukai T, Sako A, Hirano H, Sano Y (2000) Analysis of intragenic recombination at wx in rice: Correlation between the molecular and genetic maps with the locus. Genome 43:589–596PubMedCrossRefGoogle Scholar
  20. Jia YL, McAdams SA, Bryan GT, Hershey HP, Valent B (2000) Direct interaction of resistance gene and avirulence gene products confers rice blast resistance. EMBO J 19:4004–4014PubMedCrossRefGoogle Scholar
  21. Liu B, Zhang SH, Zhu XY, Yang QY, Wu SZ, Mei MT, Mauleon R, Leach J, Mew T, Leung H (2004) Candidate defense genes as predictors of quantitative blast resistance in rice. Mol Plant Microbe Interact 17:1146–1152PubMedCrossRefGoogle Scholar
  22. 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 Genet Genomics 274:394–401PubMedCrossRefGoogle Scholar
  23. Liu XQ, Lin F,Wang L, Pan QH (2007) The in silico map-based cloning of Pi36, a rice CC-NBS-LRR gene which confers race-specific resistance to the blast fungus. Genetics 176:2541–2549PubMedCrossRefGoogle Scholar
  24. Martin GB, Bogdanove AJ, Sessa G (2003) Understanding the functions of plant disease resistance proteins. Annu Rev Plant Biol 54:23–61PubMedCrossRefGoogle Scholar
  25. 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 9:199–207PubMedCrossRefGoogle Scholar
  26. Michelmore RW, Meyers BC (1998) Clusters of resistance genes in plants evolve by divergent selection and a birth-and death process. Genome Res 8:1113–1130PubMedGoogle Scholar
  27. 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 88:9828–9832PubMedCrossRefGoogle Scholar
  28. Monosi B, Wisser RJ, Pennill L, Hulbert SH (2004) Full-genome analysis of resistance gene homologues in rice. Theor Appl Genet 109:1434–1447PubMedCrossRefGoogle Scholar
  29. Murray MG, Thompson WK (1980) Rapid isolation of high molecular-weight plant DNA. Nucleic Acids Res 8:4321–4325PubMedCrossRefGoogle Scholar
  30. Naqvi NI, Chattoo BB (1996) Molecular genetic analysis and sequence characterized amplified region-assisted selection of blast resistance in rice. In: Khush GS (ed) Rice genetics III. IRRI, Manila, pp 570–576Google Scholar
  31. Nguyen TTT, Koizumi S, La TN, Zenbayashi KS, Ashizaka T, Yasuda N, Imazaki I, Miyasaka A (2006) Pi35(t), a new gene conferring partial resistance to leaf blast in the rice cultivar Hokkai 188. Theor Appl Genet 113:697–704PubMedCrossRefGoogle Scholar
  32. Ou SH (1985) Rice diseases, 2nd edn. Commonwealth Mycological Institute, Kew, pp 109–201Google Scholar
  33. Pan QH, Hu ZD, Tanisaka T, Wang L (2003) Fine mapping of the blast resistance gene Pi15, linked to Pii, on rice chromosome 9. Acta Bot Sin 45:871–877Google Scholar
  34. Qu S, Liu G, Zhou B, Bellizzi M, Zeng L, Dai L, Han B, Wang GL (2006) The broad-spectrum blast resistance gene Pi9 encodes a nucleotide-binding site-leucine-rich repeat protein and is a member of a multigene family in rice. Genetics 172:1901–1914PubMedCrossRefGoogle Scholar
  35. Rybka K, Miyamoto M, Ando I, Saito A, Kawasaki S (1997) High resolution mapping of the indica-derived rice resistance genes II. Pita 2 and Pita and a consideration of their origin. Mol Plant Microbe Interact 10:517–524CrossRefGoogle Scholar
  36. Sakaki T, Matsumoto T, Antonio BA, Nagamura Y (2005) From mapping to sequencing, post-sequencing and beyond. Plant Cell Physiol 46:3–13CrossRefGoogle Scholar
  37. Sallaud C, Lorieux M, Roumen E, Tharreau D, Berruyer R, Svestasrani P, Garsmeur O, Ghesquiere A, Notteghem JL (2003) Identification of five new blast resistance genes in the highly blast-resistant rice variety IR64 using a QTL mapping strategy. Theor Appl Genet 106:794–803PubMedGoogle Scholar
  38. Silué D, Notteghem JL, Tharreau D (1992) Evidence of a gene for-gene relationship in the Oryza sativa-Magnaporthe grisea pathosystem. Phytopathology 82:577–580CrossRefGoogle Scholar
  39. Tabien RE, Li Z, Paterson AH, Marchetti MA, Stansel JW, Pinson SRM (2000) Mapping of four major rice blast resistance genes from ‘Lemont’ and ‘Teqing’ and evaluation of their combinatorial effect for field resistance. Theor Appl Genet 101:1215–1225CrossRefGoogle Scholar
  40. The Rice Chromosomes 11 and 12 Sequencing Consortia (2005) The sequence of rice chromosomes 11 and 12, rich in disease resistance genes and recent gene duplications. BMC Biol 3:20CrossRefGoogle Scholar
  41. Valent B (1990) Rice blast as a model system for plant pathology. Phytopathology 80:33–36CrossRefGoogle Scholar
  42. Wang ZX, Yano M, Yamanouchi U, Iwamoto M, Monna L, Hayasaka H, Katayose Y, Sasaki T (1999) The Pib gene for rice blast resistance belongs to the nucleotide binding and leucine-rich repeat class of plant disease resistance genes. Plant J 19:55–64PubMedCrossRefGoogle Scholar
  43. Wu KS, Tanksley SD (1993) PFGE analysis of the rice genome: estimation of the fragment sizes, organization of the repetitive sequences and relationships between genetic and physical distances. Plant Mol Biol 23:243–254PubMedCrossRefGoogle Scholar
  44. Wu JZ, Mizuno H, Hayshi-Tsugane M, Ito Y, Chiden Y, Fujisawa M, Katagiri S, Saji S, Yoshiki S, Karasawa W, Yoshihara R, Hayashi A, Hobayashi H, Ito K, Hamada M, Okamoto M, Ikeno M, Ichikawa Y, Katayose Y, Yano M, Matsumoto T, Sasaki T (2003) Physical maps and recombination frequence of six rice chromosomes. Plant J 36:720–730PubMedCrossRefGoogle Scholar
  45. Wulff BBH, Thomas CM, Parniske M, Jones JDG (2004) Genetic variation at the tomato Cf–4/Cf–9 locus induced by EMS mutagenesis and intralocus recombination. Genetics 167:459–470PubMedCrossRefGoogle Scholar
  46. Xu YB, McCouch SR, Zhang QF (2005) How can we use genomics to improve cereals with rice as a reference genome? Plant Mol Biol 59:7–26PubMedCrossRefGoogle Scholar
  47. Yao H, Zhou Q, Li J, Smith H, Yandeau M, Nikolau BJ, Schnable PS (2002) Molecular characterization of meiotic recombination across the 140-kb multigenic a1-sh2 interval of maize. Proc Natl Acad Sci USA 99:6157–6162PubMedCrossRefGoogle Scholar
  48. Yu ZH, Mackill DJ, Bonman JM, Tanksley SD (1991) Tagging genes for blast resistance in rice via linkage to RFLP markers. Theor Appl Genet 81:471–476CrossRefGoogle Scholar
  49. Yu ZH, Mackill DJ, Bonman JM, McCouch SR, Guiderdoni E, Notteghem JL, Tanksley SD (1996) Molecular mapping of genes for resistance to rice blast (Pyricularia grisea Sacc.). Theor Appl Genet 93:859–863CrossRefGoogle Scholar
  50. Yu J, Hu SN, Wang J et al (2002) A draft sequence of the rice genome (Oryza sativa L. ssp. indica). Science 296:79–92PubMedCrossRefGoogle Scholar
  51. Zheng KL, Zhuang JY, Lu J, Qian HR, Lin HX (1996) Identification of DNA markers tightly linked to blast resistance genes in rice. In: Khush GS (ed) Rice genetics III. IRRI, Manila, pp 565–569Google Scholar
  52. Zhou B, Qu S, Liu G, Dolan M, Sakai H, Lu G, Bellizzi M, Wang GL (2006) The eight amino-acid differences within three leucine-rich repeats between Pi2 and Piz-t resistance proteins determine the resistance specificity to Magnaporthe grisea. Mol Plant Microbe Interact 19:1216–1228PubMedCrossRefGoogle Scholar
  53. Zhu ML, Wang L, Pan QH (2004) Identification and characterization of a new blast resistance gene located on rice chromosome 1 through linkage and differential analyses. Phytopathology 94:515–519PubMedCrossRefGoogle Scholar
  54. Zhuang JY, Ma WB, Wu JL, Chai RY, Lu J, Fan YY, Jin MZ, Leung H, Zheng KL (2002) Mapping of leaf and neck blast resistance genes with resistance gene analog, RAPD and RFLP in rice. Euphytica 128:363–370CrossRefGoogle Scholar

Copyright information

© Springer-Verlag 2009

Authors and Affiliations

  • Qinzhong Yang
    • 1
    • 2
  • Fei Lin
    • 1
  • Ling Wang
    • 1
  • Qinghua Pan
    • 1
    Email author
  1. 1.Laboratory of Plant Resistance and Genetics, College of Resources and Environmental SciencesSouth China Agricultural UniversityGuangzhouChina
  2. 2.Agricultural Environmental and Resources Research InstituteYuannan Academy of Agricultural SciencesKunmingChina

Personalised recommendations