Screening of the Dominant Rice Blast Resistance Genes with PCR-based SNP and CAPS Marker in Aromatic Rice Germplasm |
Kim, Jeong-Soon
(Organic Agriculture Division, National Academy of Agricultural Science, Rural Development Administration)
Ahn, Sang-Nag (Depatment of Agronomy, Chungnam National University) Hong, Sung-Jun (Organic Agriculture Division, National Academy of Agricultural Science, Rural Development Administration) Kwon, Jin-Hyeuk (Gyeongsangnam-do Agricultural Research and Extension Services) Kim, Yeong-Ki (Organic Agriculture Division, National Academy of Agricultural Science, Rural Development Administration) Jee, Hyeong-Jin (Organic Agriculture Division, National Academy of Agricultural Science, Rural Development Administration) Shim, Chang-Ki (Organic Agriculture Division, National Academy of Agricultural Science, Rural Development Administration) |
1 | Dean R. A., Talbot N. J., Ebbole D. J., Farman M. L., Mitchell T. K., Orbach M. J., Thon M., Kulkarni R., Xu J. R., Pan H., Read N. D., Lee Y. H., Carbone I., Brown D., Oh Y. Y., Donofrio N., Jeong J. S., Soanes D. M., Djonovic S., Kolomiets E., Rehmeyer C., Li W., Harding M., Kim S., Lebrun M. H., Bohnert H., Coughlan C., Butler J., Calvo S., Ma L. J., Nicol R., Purcell S., Nusbaum C., Galagan J. E., Birren B. W. 2005. The genome sequence of the rice blast fungus Magnaporthe grisea. Nature 434, 980-986. DOI ScienceOn |
2 | Basavaraja S. H., Singh V. K., Singh A., Singh A., Singh A., Anand D., Yadav S., Elur R. K., Singh D., Krishnan S. G., Nagarajan M., Mohapatra T., Prabhu K. V., Singh A. K. 2010. Marker-assisted improvement of bacterial blight resistance in parental lines of Pusa RH10, a superfine grain aromatic rice hybrid. Mol. Breeding DOI 10.1007/s11032-010-9407-3. |
3 | Berruyer R., Adreit H., Milazzo J., Gaillard S., Berger A., Dioh W., Lebrun M. H., Tharreau D. 2003. Identification and fine mapping of Pi33, the rice resistance gene corresponding to the Magnaporthe grisea avirulence gene ACE1. Theor Appl Genet. 107, 1139-1147. DOI ScienceOn |
4 | Bonman J. M., Vergel de Dios T. I., Khim M. M. 1986. Physiologic specialization of Pyricularia oryzae in the Philippines. Plant Disease 70, 767-769. DOI |
5 | Suh H. S., Heu M. H., Nuque F. L. 1987. Pyramiding resistance genes to leaf blast in rice through F1 hybrid. Korean J. Crop Sci. 32, 462-465. |
6 | Tabien R. E., Li Z., Paterson A. H., Marchetti M. A., Stansel J. W., Pinson S. R. M. 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, 1215-1225. DOI ScienceOn |
7 | Tabien R. E., Li Z., Paterson A. H., Marchetti M. A., Stansel J. W., Pinson S. R. M. 2002. Mapping QTLs for field resistance to rice blast pathogen and evaluating their individual and combined utility in improved varieties. Theor. Appl. Genet. 105, 313-324. DOI ScienceOn |
8 | Tacconi G., Baldassarre V., Lanznova C., Faivre-Rampant O., Cavigiolo S., Urso S., Lupotto E., Valè G. 2010. Polymorphism analysis of genomic regions associated with broadspectrum effective blast resistance genes for marker development in rice. Mol. Breeding, DOI 10.1007/s11032-010-9394-4. |
9 | Teng P. S., Klein-debbinck H. W., Pinnschmidt H. 1991. An analysis of the blast pathosystem to guide modeling and foresting In: Rice blast Modeling and Foresting, pp. 2-5. IRRI. |
10 | Valent B. 1990. Rice blast as a model system for plant pathology. Phytopathology 80, 33-36. DOI |
11 | Valent B., Chumley F. G. 1994. A virulence genes and mechanism of genetic instability in the rice blast fungus. In: Zeigler R. S., Leong S. A., Teng P. S. (eds). Rice blast disease. CAB International, Wallingford, pp 111-134. |
12 | Wang G. L., Mackill D. J., Bonman J. M., McCouch S. R., Champoux M. C., Nelson R. J. 1994. RFLP mapping of genes conferring complete and partial resistance to blast in a durably resistant rice cultivar. Genetics, 136, 1421-1434. |
13 | Miyamoto M., Ando I., Rybka K., Kodama O., Kawasaki S. 1996. High resolution mapping of the indica-derived rice blast resistance genes. I. Pi-b, Molecular Plant-Microbe Interactions 9, 6-13. DOI |
14 | Dilday R. H., Yan W. G., Moldenhauer K. A., Gibbons J. W., Lee F. N., Bryant R. J. 2001. Chinese and other foreign germplasm evaluation. In: Norman RJ, Meullenet JF, Wells BR (ed.) Rice Research Studies 2000. Univ. of Arkansas Agric. Exp. Stn. Res. Ser. 485, 1-12. |
15 | Goto I., Jaw Y. L., Baluch A. A. 1981. Genetic studies on resistance of rice plant to blast fungus. IV. Linkage analysis of four genes. Pi-a, Pi-k, Pi-z, and Pi-i. Annals of the Phytopathological Society of Japan 47, 252-254. DOI |
16 | Bonman J. M. 1992. Blast. p. 14-17. In Webster RK, Gunnell PS (ed.) Compendium of rice diseases. APS Press, St. Paul, MN. |
17 | Arif M., Kousar S., Bajwa M. A., Arif A., Zafar Y. 2005. Genetic diversity among rice genotypes of Pakistan through random amplified polymorphic DNA (RAPD) analysis. Pakistan Journal of Botany 37, 585-592. |
18 | Wang Z. X., 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, 55-64. DOI ScienceOn |
19 | Xia J. Q., Correll J. C., Lee F. N., Marchetti M. A., Rhoads D. D. 1993. DNA fingerprinting to examine microgeographic variation in the Magnaporhe grisea (Pyricularia grisea) population in two rice fields in Arkansas. Phytopathology. 83, 1029-1035. DOI ScienceOn |
20 | Yaegashi H. 1994. Use of resistant varieties and disease control for paddy rice. Agric. Hortic. 69, 149-154. |
21 | Mohan M., Nair S., Bhagwat A., Krishna T. G., Tano M., Bhatia C. R., Sasaki T. 1997. Genome mapping, molecular markers and marker-assisted selection in crop plants. Mol. Breed. 3, 87-103. DOI ScienceOn |
22 | Monosi B., Wisser R. J., Pennill L., Hulbert S. H. 2004. Fullgenome analysis of resistance gene homologues in rice. Theor. Appl. Genet. 109, 1423-1447. |
23 | Moon H. P., Jung K. K., Choi Y. G., Lee J. H., Hwang H. G., Kim M. K., Yang S. J., Hwang K. H., Song M. T., Hong H. C., Shin Y. S., Kim H. Y., Ryu H. Y., Choi H. C., Chung M. N. 2003. A new aromatic and glutinous rice cultivar "Seolhyangchalbyeo". Korean J. Breed. 35, 241-242. |
24 | Murray M. G., Thompson W. F. 1980. Rapid isolation of highmolecular-weight plant DNA. Nucleic acids Res 8, 4321-4325. DOI ScienceOn |
25 | Pan Q. H., Wang L., Tanisaka T. 1999. A new blast resistance gene identified in the Indian native rice cultivar Aus373 through allelism and linkage tests. Plant Pathol. 48, 288-293. DOI ScienceOn |
26 | Qu S., Liu G., Zhou B., Bellizzi M., Zeng L., Dai L., Han B., Wang G.L. 2006. The broad spectrum blast resistance gene Pi9 encodes a nucleotide-binding site-leucine-rich repeat protein and is a member of a multi-gene family in rice. Genetics 172, 1901-1914. |
27 | Rybka K., Miyamoto M., Ando I., Saito A., Kawasaki S. 1997. High Resolution Mapping of the Indica-Derived Rice Blast Resistance Genes II. Pi-ta2 and Pi-ta and a consideration of their origin. Mol. Plant Microbe Interact. 10, 517-524 DOI ScienceOn |
28 | Choi J. E., Park J. S., Park N. K. 1989. Resistance of varieties to rice blast in Korea, I. Japonica type of rice varieties. J. Agri. Sci. Chungnam Nat'l Univ. 16,1-18 (in Korean, English summary). |
29 | Choi Y. G., Kim M. K., Jung K. H., Cho S. Y., Moon H. P., Jun B. T., Choi H. C., Park N. G., Kim G. W., Hwang K. H., Kim Y. S., Park R. K. Cho J. Y. 1995. An aromatic semi-dwarf lodging resistant rice variety "Hyangmibyeo1ho". Agricultural Science Reports of RDA, Korea. 37, 67-74. |
30 | Bonman J. M., Mackill D. J. 1988. Durable resistance to rice blast disease. Oryza 25, 103-110. |
31 | Sallaud C., Lorieux M., Roumen E., Tharreau D., Berruyer R., Svestasrani P., Garsmeur O., Ghesquiere A., Notteghem J.L. 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, 794-803. |
32 | Shin I. C., Lim Y. T., Ahn C. B., Lee S. B. 2001. An earlymaturing, aromatic pigmented and glutinous rice variety "Heugseongchal". Korean J. Breed. 32, 135-136. |
33 | Shinoda H., Toriyama K., Yunoki T., Ezuka A., Sakurai Y. 1971. Studies on the varietal resistance of rice to blast, 6. Linkage relationship of blast resistance genes. Bull. Chugoku Agric. Exp. Stn. Ser. A 20, 1-25. (in Japanese, with English summaries) |
34 | Kwon S. W., Cho Y. C., Kim Y. G., Suh J. P., Jeung J. U., Roh J. H., Lee S. K., Jeon J. S., Yang S. J., Lee Y. T 2008. Development of Near-isogenic Japonica rice lines with enhanced resistance to Magnaporthe grisea. Mol. Cells 25, 407-416. |
35 | Lee F. N. 1994. Rice breeding programs, blast epidemics and blast management in the United States. P 489-500. In Ziegler RS et al. (cd.) Rice blast disease. C.A.B. International Wallingford, U.K. |
36 | Lee F. N., Yan W. G., Gibbons J. W., Emerson, M. J., Clark S.D. 2003. Rice blast and sheath blight evaluation results for newly introduced rice germplasm. In Norman RJ, Meullenet JF, Wells BR (ed.). Rice Research Studies 2002. Univ. of Arkansas Agric. Exp. Stn. Res. Ser. 504, 85-92. |
37 | Li Y. B., Wu C. J., Jiang G. H., Wang L. Q., He Y. Q. 2007. Dynamic analyses of rice blast resistance for the assessment of genetic and environmental effects. Plant Breeding 126, 541-547. DOI ScienceOn |
38 | Lin F., Chen S., Que Z., Wang L., Liu X., Pan Q. 2007. The blast resistance gene Pi37 encodes a nucleotide binding site-leucine-rich repeat protein and is a member of a resistance gene cluster on rice chromosome 1. Genetics 177, 1871-1880. DOI ScienceOn |
39 | Causse M. A., Fulton T. M., Cho Y. G., Ahn S. N., Chun W. J., Wu K., Xiao J., Yu Z., Ronald P. C., Harrington S. E., Second G., McCouch S. R., Tanksley S. D. 1994. Saturated molecular map of the rice genome based on interspecific backcross population. Genetics 138, 1251-1274. |
40 | Bryan G. T., Wu K. S., Farrall L., Jia Y. L., Hershey H. P., McAdams S. A., Faulk K. N., Donaldson G. K., 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, 2033-2045. DOI |
41 | Chauhan S., Farman M. L., Zhang H. B., Leong A. 2002. Genetic and physical mapping of a rice blast resistance locus, PiCO39(t), that corresponds to the avirulence gene AVR1-CO39 of Magnaporthe grisea. Mol. Genet. Genomics 267, 603-612. DOI ScienceOn |
42 | Chen D. H., Zeigler R. S., Ahn S. W., Nelson R. J. 1996. Phenotypic characterization of the rice blast resistance gene Pi2(t). Plant Dis. 80, 52-56. DOI |
43 | Chen X., Temnykh S., Xu Y., Cho G., McCouch S. R. 1997. Development of microsate -llite framework map providing genome-wide coverage in rice (Oryza sativa L.). Theor. Appl. Genet. 95, 553-567. DOI ScienceOn |
44 | Chen X., Shang J., Chen D., Lei C., Zou Y., Zhai W., Liu G., Xu J., Ling Z., Cao G., Ma B., Wang Y., Zhao X., Li S., Zhu L. 2006. A B-lectin receptor kinase gene conferring rice blast resistance. Plant J. 46, 794-804. |
45 | Cho Y. C., Choi I. S., Baek M. K., Suh J. P., Hong H. C., Kim Y. G., Koizumi S., Jena K. K., Choi H. C., Hwang H. G. 2003. Resistant genes and their effects to rice blast in isogenic lines of genetic background of Chucheongbyeo and Suweon345. Rice Genetics Newsletter. 20, 101-104. |
46 | Cho Y. C., Kwon S. W., Choi I. S., Lee S. K., Jeon J. S., Oh M. K., Roh J. H., Hwang H. G., Yang S. J., Kim Y. G. 2007. Identification of major blast resistance genes in Korean rice varieties (Oryza sativa L.) using molecular markers. J. Crop Sci. Biotech. 10, 265-276. |
47 | Mackill D. J., Bonman J. M. 1992. Inheritance of blast resistance in near-isogenic lines of rice. Phytopathology 82, 746-749. DOI |
48 | Liu B., Zhang S. H., Zhu X. Y., Yang Q. Y., Wu S. Z., Mei M. T., Mauleon R., Leach J., Mew T., Leung H. 2004. Cadidate defense genes as predictors of quantitative blast resistance in rice. Mol. Plant Microbe. Interact. 17, 1146-1152. DOI ScienceOn |
49 | Liu G., Lu G., Zeng L., Wang G. L. 2002. Two broadspectrum blast resistance genes, Pi9(t) and Pi2(t) are physically linked on rice chromosome 6. Mol. Genet. Genomics 267, 472-480. DOI ScienceOn |
50 | Liu X. Q., Wang L., Chen S., Lin F., Pan Q. H. 2005. Genetic and physical mapping of Pi36(t), a novel rice blast resistance gene located on rice chromosome 8. Mol. Genet. Genomics DOI10.1007/s0048-005-0032-5. |
51 | McClung A. M., Marchetti M. A., Webb B. D., Bollich C. N. 1997. Registation of 'Jefferson' rice. Crop Sci. 37, 629-630. DOI |
52 | McCouch S. R., Kochert G., Yu Z. H., Wang Z. Y., Khush G. S., Coffman R. W., Tanksley S. D. 1988. Molecular mapping of rice chromosomes. Theor. Appl. Genet. 76, 815-829. DOI ScienceOn |
53 | Melchinger A. E. 1990. Use of molecular markers in breeding for oligogenic disease resistance. Plant Breed. 104, 1-19. DOI |
54 | Kiyosawa S., Mackill D. J., Bonman J. M., Tanaka Y., Ling Z. Z. 1986. An attempt of classification of world's rice varieties based on reaction pattern to blast fungus strains. Bull. Natl. Inst. Agrobiol. Resour. 2, 13-39 |
55 | Kwon J. O., Lee S. G. 2002. Real-time micro-weather factors of growing field to the epidemics of rice blast. Res. Plant Dis. 8, 199-206. (in Korean, English abstract). DOI |
56 | Kim J. S., Ahn S. N., Kang H. K., Cho Y. H., Gwag J. G., Lee S. Y. 2008b. Estimation of Physico-chemical Characteristics of domestic aroma rice and foreign aroma rice. Korean J. Crop Sci. 53, 203-216. |
57 | Kim J. S., Ahn S. N., Kim C. K., Shim C. K. 2010. Screening of rice blast resistance genes from aromatic rice germplasms with SNP markers. Plant Patholo. J. 26, 70-79. DOI |
58 | Hittalmani S., Parco A., Mew T. V., Zeigler R. S., Huang N. 2000. Fine mapping and DNA marker-assisted pyramiding of the three major genes for blast resistance in rice. Theor Appl. Genet. 100, 1121-1128. DOI ScienceOn |
59 | Inukai T., Nelson R. J., Zeigler R. S., Sarkarung S., Mackill D. J., Bobman J. M., Takamure I., Kinoshita T. 1994. Allelism of blast resistance genes in near-isogenic lines of rice. Phytopathology 84, 1278-1283. DOI ScienceOn |
60 | Gu K., Yang B., Tian D., Wu L., Wang D., Sreekala C., Yang F., Chu Z., Wang G. L., White F. F., Yin Z. 2005. R gene expression induced by type-III effecter triggers disease resistance in rice. Nature 435, 1122-1125. DOI ScienceOn |
61 | Koide Y., Kobayashi N., Xu D., Fukuta Y. 2009. Resistance genes and selection DNA markers for blast disease in rice (Oryza sativa L.). JARQ 43, 255-280. DOI ScienceOn |
62 | Jia Y., Bryan G. T., Farrall L., Valent B. 2003. Natural variation at the Pi-ta rice blast resistance locus. Phytopathology 93, 1452-1459. DOI |
63 | Ise K. 1993. A close linkage between the rice blast resistance gene Pi-ta2 and a marker on chromosome 12 in japonica rice. International Rice Research Note 18, 14. |
64 | Jena K. K., Mackill D. J. 2008. Molecular Markers and Their Use in Marker-Assisted Selection in Rice. Crop Sci. 48, 1266-1276. DOI |
65 | Jeon J. S., Chen D., Yi G. H., Wang G. L., Ronald P. C. 2003. Genetic and physical mapping of Pi5(t), a locus associated with broad spectrum resistance to rice blast. Mol. Genet. Genomics 269, 280-289. |
66 | Jin X. J., Lee E. J., Choi J. E. 2007. Classification of Korean rice cultivars based on reaction pattern to Japanese isolates of blast pathogen. J. Crop Sci. Biotech. 10, 5-9. |
67 | Ha K. Y., Kim Y. D., Lee J. K., Shin H. T., Noh T. H., Choung J. I., Shin M. S., Ko J. K., Kim B. K., Lee Y. T., Lee S. Y., Kim H. S., Kang H. J., Lee K. S., Lee S. Y. 2003. A new aromatic and high-yielding Japonica rice cultivar "Mihyangbyeo". Korean J. Breed. 35, 251-252. |
68 | Ha K. Y., Lee J. K., Shin H. T., Lee S. Y., Yang B. G., Kim B. K., Joung J. I., Kim Y. D., Shin M. S., Ko J. K., Lee K. S., Kim C. H., Cho S. Y. 2006. A new aromatic and good grain quality Japonica rice verity "Hyangnambyeo". Agricultural Science Reports of RDA, Korea. 38, 54-60. |
69 | Hayashi K., Yoshida H., Ashikawa I. 2006. Development of PCR-based allele specific and InDel marker sets for nine rice blast resistance genes. Theor. Appl. Genet. 113, 251-260. DOI ScienceOn |
70 | Jia Y., Wang Z., Singh P. 2002. Development of dominant rice blast Pi-ta resistance gene markers. Crop Sci. 42, 2145-2149. DOI |
71 | Kim J. S., Ahn S. N., Cho Y. H., Gwag J. G., Kim T. S., Lee J. R., Lee S. Y. 2008a. Estimation of agronomic characteristics of domestic aromatic rice germplasm and foreign aromatic rice germplasm in RDA Genebank, Korea. Korean J. Crop Sci. 53, 261-272. |
72 | Zhou B., Qu S., Liu G., Dolan M., Sakai H., Lu G., Bellizzi M., Wang G. L. 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, 1216-1228. DOI ScienceOn |
73 | Yan W. G., Rutger J. N., Bryant R. J., Lee F. N., Gibbons J. W. 2003. Characteristics of newly-introduced accessions in the USDA-ARS rice quarantine program In Norman R.J., Meullenet J.F., Wells B.R. (ed.) Rice Research Studies 2002. Univ. of Arkansas Agric. Exp. Stn. Res. Ser. 504, 112-124. |
74 | Yang J. Y., Chen S., Zeng L. X., Li Y. L., Chen Z., Li C. Y., Zhu X. Y. 2009. Race Specificity of Major Rice Blast Resistance Genes to Magnaporthe grisea Isolates Collected from indica Rice in Guangdong, China. Rice Science DOI: CNKI:SUN:SDKE.0.2008-04-011. |
75 | Zhou B., Dolan M., Sakai H., Wang G. L. 2007. The genomic dynamics and evolutionary mechanism of the Pi2/9 locus in rice. Mol. Plant Microbe Interact. 20, 63-71. DOI ScienceOn |
76 | Zhu M. L., Wang L., Pan Q. H. 2004. Idnetification and characterization of a new blast resistance gene located on rice chromosome 1 through linkage and differential analysis. Phytopathology 94, 515-519. DOI ScienceOn |
77 | Zenbayashi-Sawata K., Fukuoka S., Katagiri S., Fujisawa M., Matsumoto T., Ashizawa T., Koizumi S. 2007. Genetic and Physical Mapping of the Partial Resistance Gene, Pi34, to Blast in Rice. Phytopathology 97, 598-602. DOI |
78 | Yan W. G., Lee F. N., Rutger J. N., Moldenhauer K. A. K., Gibbons J. W. 2002. Chinese germplasm evaluation for yield and disease resistance. In Norman RJ, Meullenet JF, Wells BR (ed.) Rice Research Studies 2001. Univ. of Arkansas Agric. Exp. Stn. Res. Ser. 495, 349-358. |