Abstract
Map-based cloning methods have been applied for isolation of Xa-1, one of the bacterial blight resistance genes in rice.Xa-1 was previously mapped on chromosome 4 using molecular markers. For positional cloning of Xa-1, a high-resolution genetic map was made for theXa-1 region using an F2 population of 402 plants and additional molecular markers. Three restriction fragment length polymorphism (RFLP) markers, XNpb235, XNpb264 and C600 were found to be linked tightly to Xa-1, with no recombinants, and U08 750 was mapped 1.5 cM from Xa-1. The screening of a yeast artificial chromosome (YAC) library using theseXa-1-linked RFLP markers resulted in the identification of ten contiguous YAC clones. Among these, one YAC clone, designated Y5212, with an insert of 340 kb, hybridized with all three tightly linked markers. This YAC was confirmed to possess the Xa-1 allele by mapping the Xa-1 gene between both end clones of this YAC (Y5212R and Y5212L).
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Dellaporta SL, Wood J, Hicks JB (1983) A plant DNA minipreparation: version II. Plant Mol Biol Rep 1:19–21
Jones DA, Thomas CM, Hammond-Kosack KE, Balint-Kurti PJ, Jones JD (1994) Isolation of the tomato Cf-9 gene for resistance to Cladosporium fulvum by transposon tagging. Science 266:789–793
Kauffman HE, Reddy APK, Hsieh SPY, Merca SD (1973) An improved technique for evaluating resistance of rice varieties to Xanthomonas oryzae. Plant Dis Rep 57:537–541
KinoshitaT (1991) Report of the committee on gene symbolization, nomenclature and linkage groups. Rice Genet Newsl 8:2–37
Kosambi DD (1944) The estimation of map distances from recombination values. Ann Eugen 12:172–175
Kurata N, Nagamura Y, Yamamoto K, Harushima Y, Sue N, Wu J, Antonio BA, Shomura A, Shimizu T, Lin SY, Inoue T, Fukuda A, Shimano T, Kuboki Y, Toyama T, Miyamoto Y, Kirihara T, Hayasaka K, Miyao A, Monna L, Zhong HS, Tamura Y, Wang ZX, Momma T, Umehara Y, Yano M, Sasaki T, Minobe Y (1994) A 300 kilobase interval genetic map of rice including 883 expressed sequences. Nat Genet 8:365–372
Lander E, Green P, Abrahamson J, Barlow A, Daley M, Lincoln S, Newburg L (1987) MAPMAKER: an interactive computer package for constructing primary genetic linkage maps of experimental and natural populations. Genomics 1: 174–181
Leach JE, Roberts PD, Guo A, Barton-Willis P (1989) Multiplication of Xanthomonas campestris pv. oryzae in rice leaves. In: Bacterial blight of rice. International Rice Research Institute, Manila, Philippines, pp 43–53
Lincoln S, Lander E (1992) Systematic detection of errors in genetic linkage data. Genomics 14:604–610
Martin GB, Brommonschenkel SH, Chunwonges J, Frary A, Ganal MW, Spivey R, Wu T, Earle ED, Tanksley SD (1993) Map-based cloning of a protein kinase gene conferring disease resistance in tomato. Science 262:1432–1436
Mindrinos M, Katagiri F, Yu GL, Ausubel FM (1994) The A. thaliana disease resistance gene RPS2 encodes a protein containing a nucleotide-binding site and leucine-rich repeats. Cell 78: 1089–1099
Ogawa T, Khush GS (1989) Major genes for resistance to bacterial blight in rice. In: Bacterial blight of rice. International Rice Research Institute, Manila, Philippines, pp 177–192
Ogawa T, Yamamoto T, Khush GS, Mew TW, Kaku H (1988) Nearisogenic lines as international differentials for resistance to bacterial blight of rice. Rice Genet Newsl 5:106–107
Ogawa T, Yamamoto T, Khush GS, Mew TW (1991) Breeding of near-isogenic lines of rice with single genes for resistance to bacterial blight pathogen (Xanthomonas campestris pv. oryzae). Jpn J Breed 41:523–529
Ou SH (1972) Rice diseases. Commonwealth Mycology Institute, Kew, England
Saito A, Yano M, Kishimoto N, Nakagahra M, Yoshimura A, Saito K, Kuhara S, Ukai Y, Kawase M, Nagamine T, Yoshimura S, Ide-ta O, Ohsawa R, Hayano Y, Iwata N, Sugiura M (1991) Linkage map of restriction fragment length polymorphism loci in rice. Jpn J Breed 41:665–670
Sakaguchi S (1967) Linkage studies on the resistance to bacterial leaf blight, Xanthomonas oryzae (Uyeda et Ishiyama) DOWSON, in rice (in Japanese with English summary). Bull Natl Inst Agric Sci Ser D 16:1–18
Tsunematsu H, Hasegawa H, Yoshimura S, Yoshimura A, Iwata N (1993) Construction of an RFLP/RAPD linkage map by using recombinant inbred lines. Rice Genet Newsl 10:89–90
Umehara Y, Inagaki A, Tanou H, Yasukochi Y, Nagamura Y, Saji S, Otsuki Y, Fujimura T, Kurata N, Minobe Y (1995) Construction and characterization of rice YAC libraries for physical mapping. Mol Breed 1:79–89
Whitham S, Dinesh-Kumar SP, Choi D, Hehl R, Corr C, Baker B (1994) The product of the tobacco mosaic virus resistance gene N: similarity to Toll and Interleukin-1 receptor. Cell 78: 1101–1115
Yoshimura S (1993) Genetic analysis of bacterial blight resistance genes in rice by using molecular markers. Bull Inst Trop Agric Kyushu Univ 16:1–63
Yoshimura S, Yoshimura A, Nelson RJ, Mew TW, Iwata N (1995) Tagging Xa-1, the bacterial blight resistance gene in rice, by using RAPD markers. Jpn J Breed 45:81–85
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Communicated by J. W. Snape
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Yoshimura, S., Umehara, Y., Kurata, N. et al. Identification of a YAC clone carrying the Xa-1 allele, a bacterial blight resistance gene in rice. Theoret. Appl. Genetics 93, 117–122 (1996). https://doi.org/10.1007/BF00225736
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DOI: https://doi.org/10.1007/BF00225736