Development and Mapping of Markers Linked to the Rice Bacterial Blight Resistance Gene Xa7

Markers were generated that are linked to the rice bacterial blight resistance gene Xa7. Amplified restriction fragment length polymorphism (AFLP) analysis of a segregating, near-isogenic F 3 population of IR24 × IRBB7 revealed one polymorphic fragment, M1, which was mapped to position 107.3 centimorgans (cM) on the Rice Genome Research Program (RGP) map. Sequence comparisons of resistant and susceptible lines near Ml were used to develop additional markers. A sequence tagged site (STS) named M2 was mapped proximal to Ml and farther from Xa7, indicating that Xa7 lies distal to Ml. On the distal side of M1, two simple sequence repeats (SSRs), M3 and M4, were mapped 0.5 and 1.8 cM, respectively, from Xa7. The pattern of recombinants was consistent with the order of M1-Xa7-M3-M4, and the map distances indicated that Xa7 is located in the region corresponding to the ends of the physically mapped Clemson University Genomics Institute (CUGI) bacterial artificial chromosome (BAC) cantigs 96 and 143. A complex repeat was identified in the DNA sequence from rice (Oryza sativa L.) cultivars 93-11 and Nipponbare that matched the end of contig 96 and a previously mapped expressed sequence tag (EST) marker (C51865S). Amplification of the repeat and flanking sequences revealed the presence and absence of the repeat in IR24 and IRBB7, respectively. No recombinants were identified between Xa7 and the polymorphic repeat, which was named M5, in 277 F 3 susceptible progeny of the IR24 x IRBB7 cross. Comparison of the physical and genetic maps of rice in this region indicates that Xa7 could lie within 40 kilobases (kb) of M5, a distance suitable for gene pyramiding efforts and Xa7 cloning strategies.

[1]  Huanming Yang,et al.  A Draft Sequence of the Rice Genome (Oryza sativa L. ssp. indica) , 2002, Science.

[2]  B. Williams,et al.  An Integrated Physical and Genetic Map of the Rice Genome , 2002, The Plant Cell Online.

[3]  T. Sasaki,et al.  A physical map with yeast artificial chromosome (YAC) clones covering 63% of the 12 rice chromosomes. , 2001, Genome.

[4]  H. Leung,et al.  Predicting durability of a disease resistance gene based on an assessment of the fitness loss and epidemiological consequences of avirulence gene mutation. , 2000, Proceedings of the National Academy of Sciences of the United States of America.

[5]  H. Leung,et al.  Xanthomonas oryzae pv. oryzae avirulence genes contribute differently and specifically to pathogen aggressiveness. , 2000, Molecular plant-microbe interactions : MPMI.

[6]  R. Tarchini,et al.  A Single Amino Acid Difference Distinguishes Resistant and Susceptible Alleles of the Rice Blast Resistance Gene Pi-ta , 2000, Plant Cell.

[7]  W. Zhu,et al.  The virulence factor AvrXa7 of Xanthomonas oryzae pv. oryzae is a type III secretion pathway-dependent nuclear-localized double-stranded DNA-binding protein. , 2000, Proceedings of the National Academy of Sciences of the United States of America.

[8]  F. White,et al.  Prospects for understanding avirulence gene function. , 2000, Current opinion in plant biology.

[9]  M. Ganal,et al.  High-resolution genetic mapping of the pepper resistancelocus Bs3 governing recognition of the Xanthomonascampestris pv vesicatora AvrBs3 protein , 2000, Theoretical and Applied Genetics.

[10]  M. Yano,et al.  The Pib gene for rice blast resistance belongs to the nucleotide binding and leucine-rich repeat class of plant disease resistance genes. , 1999, The Plant journal : for cell and molecular biology.

[11]  W. Zhu,et al.  AvrXa10 contains an acidic transcriptional activation domain in the functionally conserved C terminus. , 1998, Molecular plant-microbe interactions : MPMI.

[12]  M. Yano,et al.  Expression of Xa1, a bacterial blight-resistance gene in rice, is induced by bacterial inoculation. , 1998, Proceedings of the National Academy of Sciences of the United States of America.

[13]  Li-li Chen,et al.  A Receptor Kinase-Like Protein Encoded by the Rice Disease Resistance Gene, Xa21 , 1995, Science.

[14]  M. Yano,et al.  Conservation of Duplicated Segments between Rice Chromosome 11 and 12 , 1995 .

[15]  D. Gabriel,et al.  Intragenic recombination of a single plant pathogen gene provides a mechanism for the evolution of new host specificities , 1995, Journal of bacteriology.

[16]  S. Lin,et al.  A 300 kilobase interval genetic map of rice including 883 expressed sequences , 1994, Nature Genetics.

[17]  J. Leach,et al.  Identification of a family of avirulence genes from Xanthomonas oryzae pv. oryzae. , 1992, Molecular plant-microbe interactions : MPMI.

[18]  U. Bonas,et al.  Race-specificity of plant resistance to bacterial spot disease determined by repetitive motifs in a bacterial avirulence protein , 1992, Nature.

[19]  G. Khush,et al.  Breeding of near-isogenic lines of rice with single genes for resistance to bacterial blight pathogen (Xanthomonas campestris pv. oryzae) , 1991 .

[20]  U. Bonas,et al.  Genetic and structural characterization of the avirulence gene avrBs3 from Xanthomonas campestris pv. vesicatoria , 1989, Molecular and General Genetics MGG.

[21]  M. Daly,et al.  MAPMAKER: an interactive computer package for constructing primary genetic linkage maps of experimental and natural populations. , 1987, Genomics.

[22]  W. F. Thompson,et al.  Rapid isolation of high molecular weight plant DNA. , 1980, Nucleic acids research.

[23]  G. Khush,et al.  Genetic analysis of bacterial blight resistance in seventy-four cultivars of rice, Oryza sativa L. , 1978, Theoretical and Applied Genetics.

[24]  Q. Sun,et al.  Resistance gene complexes: evolution and utilization. , 2001, Annual review of phytopathology.

[25]  S. Lin,et al.  A high-density rice genetic linkage map with 2275 markers using a single F2 population. , 1998, Genetics.

[26]  J. Leach,et al.  Bacterial avirulence genes. , 1996, Annual review of phytopathology.

[27]  P. Vos,et al.  AFLP: a new technique for DNA fingerprinting. , 1995, Nucleic acids research.

[28]  D. Gabriel,et al.  Host-specific symptoms and increased release of Xanthomonas citri and X.campestris pv. malvacearum from leaves are determined by the 102-bp tandem repeats of pthA and avrb6, respectively , 1994 .

[29]  J. Leach,et al.  Race-specific resistance to Xanthomonas oryzae pv. oryzae conferred by bacterial blight resistance gene Xa-10 in rice (Oryza sativa) involves accumulation of a lignin-like substance in host tissues , 1991 .

[30]  D. D. Kosambi.  The estimation of map distances from recombination values. , 1943 .