Abstract
Bacterial blight of rice, caused by Xanthomonas oryzae pv. oryzae (Xoo) (Ishyama) Dye, is one of the serious diseases prevalent throughout Asia. In a previous study, a resistance (R) locus was transferred from the tetraploid wild rice Oryza minuta to the cultivated rice species, Oryza sativa L. Here, we report the fine genetic mapping of the R locus, tentatively designated as Xa27(t). We performed disease evaluation with an Xa27(t) near-isogenic line, IRBB27, testing 35 Xoo strains collected from 11 countries. The Xa27(t) locus conferred a high level of resistance to 27 strains and moderate resistance to three strains. Resistance of the Xa27(t) gene was developmentally regulated in IRBB27 and showed semi-dominant or a dosage effect in the cv. CO39 genetic background. As a prelude to cloning Xa27(t), a molecular mapping strategy was employed with a large mapping population consisting of 3,875 gametes. Three molecular markers, M336, M1081, and M1059, closely linked to Xa27(t), were identified to facilitate the mapping of Xa27(t) to the long arm of chromosome 6. The Xa27(t) locus was confirmed by chromosome landing of M1081 and M1095 markers on the rice genome. Markers derived from the genomic sequence of O. sativa cv. Nipponbare were used to further saturate the Xa27(t) genomic region. Xa27(t) was finally located within a genetic interval of 0.052 cM, flanked by markers M964 and M1197, and co-segregated with markers M631, M1230, and M449.
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Amante-Bordeos A, Sitch LA, Nelson R, Dalmacio RD, Oliva NP, Aswidinnoor H, Leung H (1992) Transfer of bacterial blight and blast resistance from the tetraploid wild rice Oryza minuta to cultivated rice, Oryza sativa. Theor Appl Genet 84:345–354
Blair MW, Garris AJ, Iyer AS, Chapman B, Kresovich S, McCouch SR (2003) High resolution genetic mapping and candidate gene identification at the xa5 locus for bacterial blight resistance in rice (Oryza sativa L.). Theor Appl Genet 107:62–73
Brar DS, Khush GS (1997) Alien introgression in rice. Plant Mol Biol 35:35–47
Chen H, Wang S, Zhang Q (2002) A new gene for bacterial blight resistance in rice located on chromosome 12 identified from Minghui 63, an elite restorer line. Phytopathology 92:750–754
Dangl J, Jones JDG (2001) Plant pathogens and integrated defence responses to infection. Nature 411:826–833
Flor HH (1971) Current status of the gene-for-gene concept. Annu Rev Phytopathol 9:275–96
Gao DY, Xu ZG, Chen ZY, Sun LH, Sun QM, Lu F, Hu BS, Liu YF, Tang LH (2001) Identification of a new gene for resistance to bacterial blight in a somaclonal mutant HX-3 (indica). Rice Genet Newsl 18:66–68
Gnanamanickam SS, Pryiyadarasani V, Narayanan NN, Vasudevan P, Kavitha (1999) An overview of bacterial blight disease of rice and strategies for management. Curr Sci 77:1435–1444
Harushima Y, Yano M, Shomura A, Sato M, Shimano T, Kuboki Y, Yamamoto T, Lin SY, Antonio BA, Parco A, Kajiya H, Huang N, Yamamoto K, Nagamura Y, Kurata N, Khush GS, Sasaki T (1998) A high-density rice genetic linkage map with 2,275 markers using a single F2 population. Genetics 148:479–494
Huang N, McCouch S, Mew T, Parco A, Guiderdoni E (1994) Development of an RFLP map from a doubled haploid population in rice. Rice Genet Newsl 11:134–137
Hulbert SH, Webb CA, Smith SM, Sun Q (2001) Resistance gene complexes: evolution and utilization. Annu Rev Phytopathol 39:285–312
Inukai T, Mackill DJ, Bonman JM, Sarkarung S, Zeigler R, Nelson R, Takamure I, Kinoshita T (1992) Blast resistance genes Pi2(t) and Pi-z may be allelic. Rice Genet Newsl 9:90–92
Kaku H, Ogawa T (2000) The relationship between browning reaction and bacterial blight resistance gene Xa3 in rice. Rice Genet Newsl 17:76–77
Kauffman HE, Reddy APK, Hsieh SPY, Merca SD (1973) An improved technique for evaluating resistance to rice varieties of Xanthomonas oryzae. Plant Dis Rep 57:537–541
Khush GS, Angeles ER (1999) A new gene for resistance to race 6 of bacterial blight in rice, Oryza sativa L. Rice Genet Newsl 16:92-93
Kinoshita T (1995) Report of committee on gene symbolization, nomenclature and linkage groups. Rice Genet Newsl 12:9–115
Lander ES, Green P, Abrahamson J, Barlow A, Daly MJ. Lincoln SE, Newburg L (1987) MAPMAKER: an interactive computer package for constructing primary genetic linkage maps of experimental and natural populations. Genomics 1:174–181
Lin XH, Zhang DP, Xie YF, Gao HP, Zhang Q (1996) identification and mapping of a new gene for bacterial blight resistance in rice based on RFLP markers. Phytopathology 86:1156–1159
Liu G, Lu G, Zeng L, Wang GL (2002) Two broad-spectrum blast resistance genes, Pi9(t) and Pi2(t), are physically linked on rice chromosome 6. Mol Genet Genomics 267:472–480
Liu YG, Mitsukawa N, Oosumi T, Whittier RF (1995) Efficient isolation and mapping of Arabidopsis thaliana T-DNA insert junction by thermal asymmetric interlaced PCR. Plant J 8:457–463
McCouch SR, Temnykh S, Lukashova A, Coburn J, DelClerkck G, Cartinhour S, Harrinton S, Thomson M, Septiningsih E, Semon M, Moncada P, Li J (2001) Microsatellite markers in rice: abundance, diversity, and applications. In: Khush GS, Brar DS, Hardy B (eds) Rice Genetics IV. Science Publishers, Enfield, N.H., pp 117–135
Michelmore RW, Paran I, Kesseli RV (1991) Identification of markers linked to disease-resistance genes by bulked segregant analysis: rapid method to detect markers in specific genomic regions by using segregating population. Proc Natl Acad Sci USA 88:9828–9832
Nagato Y, Yoshimura A (1998) Report of the committee on gene symbolization, nomenclature and linkage groups. Rice Genet Newsl 15:13–74
Parniske M, Hammond-Kosack KE, Golstein C, Thomas CM, Jones DA, Harrison K, Wulff BBH, Jones JDG (1997) Novel disease resistance specificities result from sequence exchange between tandemly repeated genes at the Cf-4/9 locus of tomato. Cell 91:821–932
Sanchez AC, Ilag LL, Yang D, Brar DS, Ausubel F, Khush GS, Yano M, Sasaki T, Li Z, Huang N (1999) Genetic and physical mapping of xa13, a recessive bacterial blight resistance gene in rice. Theor Appl Genet 98:1022–1028
Sidhu GS, Khush GS (1978) Dominance reversal of a bacterial blight resistance gene in some rice cultivars. Phytopathology 68:461–463
Song WY, Wang GL, Chen LL, Kim HS, Pi LY, Holsten T, Gardner J, Wang B, Zhai WX, Zhu LH, Fauquet C, Ronald P (1995) A receptor kinase-like protein encoded by the rice disease resistance gene, Xa21. Science 270:1804–1806
Sun X, Yang Z, Wang S, Zhang Q (2003) Identification of a 47-kb DNA fragment containing Xa4, a locus for bacterial blight resistance in rice Theor Appl Genet 106:683–687
Thomas CM, Jones DA, Parniske M, Harrison K, Balint-Kurti PJ, Hatzixanthis K, Jones JDG (1997) Characterization of the tomato Cf-4 gene for resistance to Cladosporium fulvum identifies sequences that determine recognitional specificity in Cf-4 and Cf-9. Plant Cell 9:2209–2224
Vos P, Hogers R, Bleeker M, Reijans M, van de Lee T, Hornes M, Freijters A, Peleman J, Kuiper M, Zabeau M (1995) AFLP: a new technique for DNA fingerprinting. Nucleic Acids Res 23:4407–4414
Wang GL, Song WY, Ruan DL, Sideris S, Ronald PC (1996) The cloned gene Xa21, confers resistance to multiple Xanthomonas oryzae pv. oryzae isolates in transgenic plants. Mol Plant-Microbe Interact 9:850–855
Wang W, Zhai W, Luo M, Jiang G, Chen X, Li X, Wing RA, Zhu L (2001) Chromosome landing at the bacterial blight resistance gene Xa4 locus using a deep coverage rice BAC library. Mol Genet Genomics 265:118–125
Wei F, Gobelman-Werner K, Morroll SM, Kurth J, Mao L, Wing R, Leister D, Schulze-Lefert P, Wise RP (1999) The Mla (powdery mildew) resistance cluster is associated with three NBS-LRR gene families and suppressed recombination within a 240-kb DNA interval on chromosome 5S (1HS) of barley. Genetics 153:1929–1948
Williams JG, Kubelik AR, Livak KJ, Rafalski JA, Tingey SV (1990) DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucleic Acids Res 18:6531–6535
Yang D, Sanchez A, Khush GS, Zhu Y, Huang N (1998) Construction of a BAC contig containing the xa5 locus in rice. Theor Appl Genet 97:1120–1124
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
Yoshimura S, Yamanouchi U, Katayose Y, Toki S, Wang ZX, Kono I, Kurata N, Yano M, Iwata N, Sasaki T (1998) Expression of Xa1, a bacterial blight-resistance gene in rice, is induced by bacterial inoculation. Proc Natl Acad Sci USA 95:1663–1668
Zhang Q, Lin SC, Zhao CL, Wang CL, Yang WC, Zhou YL, Li DY, Chen CB, Zhu LH (1998) Identification and tagging a new gene for resistance to bacterial blight (Xanthomonas oryzae pv oryzae) from O. rufipogon. Rice Genet Newsl 15:138–142
Zhang Q, Wang CL, Zhao KJ, Zhao YL, Caslana VC, Zhu XD, Li DY, Jiang QX (2001) The effectiveness of advanced rice lines with new resistance gene Xa23 to rice bacterial blight. Rice Genet Newsl 18:71–72
Acknowledgements
The authors would like to thank N. Naqvi, Y. Hong, and W.-C. Yang for critical reading of the manuscript; G. Khush, H. Leung, and R. Nelson for providing the rice cultivars; N. Huang for providing the DH mapping population; and Q. Zhang and J. Leach for providing Xoo strains. Our research was supported by Temasek Life Sciences Laboratory.
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Communicated by D.J. Mackill
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Gu, K., Tian, D., Yang, F. et al. High-resolution genetic mapping of Xa27(t), a new bacterial blight resistance gene in rice, Oryza sativa L.. Theor Appl Genet 108, 800–807 (2004). https://doi.org/10.1007/s00122-003-1491-x
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DOI: https://doi.org/10.1007/s00122-003-1491-x