Dissection of the barley 2L1.0 region carrying the 'Laevigatum' quantitative resistance gene to leaf rust using near-isogenic lines (NIL) and subNIL

Molecular Plant-Microbe Interactions

Volumn 20, Issue 12, 2007, Pages 1604-1615

  Marcel, Thierry C ^a   Aghnoum, Reza ^a   Durand, Jérôme ^b   Varshney, Rajeev K ^c,d   Niks, Rients E ^a  

^a WAGENINGEN UNIVERSITY   (Netherlands)

^b UNIVERSITÉ DE PICARDIE JULES VERNE   (France)

^c LEIBNIZ INSTITUTE OF PLANT GENETICS AND CROP PLANT RESEARCH IPK   (Germany)

^d INTERNATIONAL CROPS RESEARCH INSTITUTE FOR THE SEMI ARID TROPICS ICRISAT   (India)

Author keywords

Blumeria graminis f. sp. hordei; Comparative mapping; Hordeum vulgare L.; Substitution mapping

Indexed keywords

ARTICLE; BARLEY; BASIDIOMYCETES; CHROMOSOME MAP; GENE; GENETIC MARKER; GENETICS; INNATE IMMUNITY; MICROBIOLOGY; MOLECULAR CLONING; PHYSIOLOGY; PLANT DISEASE; QUANTITATIVE TRAIT LOCUS; SYNTENY;

BASIDIOMYCOTA; CHROMOSOME MAPPING; CLONING, MOLECULAR; GENES, PLANT; GENETIC MARKERS; HORDEUM; IMMUNITY, NATURAL; PLANT DISEASES; QUANTITATIVE TRAIT LOCI; SYNTENY;

BLUMERIA GRAMINIS F. SP. HORDEI; HORDEUM; HORDEUM VULGARE SUBSP. VULGARE; PUCCINIA HORDEI;

EID: 36248956075     PISSN: 08940282     EISSN: None     Source Type: Journal    
DOI: 10.1094/MPMI-20-12-1604     Document Type: Article

References (61)

1. Alonso-Blanco, C., and Koornneef, M. 2000. Naturally occurring variation in Arabidopsis: An underexploited resource for plant genetics. Trends Plant Sci. 5:22-29.
2. Arru, L., Niks, R. E., Lindhout, P., Valé, G., Francia, E., and Pecchioni, N. 2002. Genomic regions determining resistance to leaf stripe (Pyrenophora graminea) in barley. Genome 45:460-466.
3. Asai, T., Tena, G., Plotnikova, J., Willmann, M. R., Chiu, W.-L., Gomez-Gomez, L., Boller, T., Ausubel, F. M., and Sheen, J. 2002. MAP kinase signalling cascade in Arabidopsis innate immunity. Nature 415:977-983.
4. Bai, Y., Feng, X., van der Hulst, R., and Lindhout, P. 2004. A set of simple PCR markers converted from sequence specific RFLP markers on tomato chromosomes 9 to 12. Mol. Breed. 13:281-287.
5. Brueggeman, R., Rostoks, N., Kudrna, D., Kilian, A., Han, F., Chen, J., Druka, A., Steffenson, B., and Kleinhofs, A. 2002. The barley stem rust-resistance gene Rpg1 is a novel disease-resistance gene with homology to receptor kinases. Proc. Natl. Acad. Sci. U.S.A. 99:9328-9333.
6. Brugmans, B., van der Hulst, R., Visser, R. G. F., Lindhout, P., and van Eck, H. J. 2003. A new and versatile method for the successful conversion of AFLP markers into simple single locus markers. Nucleic Acids Res. 31:1-9.
7. Brunner, S., Keller, B., and Feuillet, C. 2003. A large rearrangement involving genes and low-copy DNA interrupts the microcollinearity between rice and barley at the Rph7 locus. Genetics 164:673-683.
8. Devos, G. 2005. Updating the 'Crop Circle'. Curr. Opin. Plant Biol. 8:155-162.
9. Dilbirligi, M., Erayman, M., and Gill, K. S. 2005. Analysis of recombination and gene distribution in the 2L1.0 region of wheat (Triticum aestivum L.) and barley (Hordeum vulgare L.). Genomics 86:47-54.
10. Dros, J. 1957. The creation and maintenance of two spring barley varieties. Euphytica 6:45-48.
11. Faris, J. D., Li, W. L., Liu, D. J., Chen, P. D., and Gill, B. S. 1999. Candidate gene analysis of quantitative disease resistance in wheat. Theor. Appl. Genet. 98:219-225.
12. Franckowiak, J. D., Jin, Y., and Steffenson, B. J. 1997. Recommended allele symbols for leaf rust resistance genes in barley. Barley Genet. Newsl. 27:36-44.
13. Giese, H., Holm-Jensen, A. G., Jensen, H. P., and Jensen, J. 1993. Localization of the Laevigatum powdery mildew resistance gene to barley chromosome 2 by the use of RFLP markers. Theor. Appl. Genet. 85:897-900.
14. Graner, A., Jahoor, A., Schondelmaier, J., Siedler, H., Pollen, K., Fischbeck, G., Wenzel, G., and Herrmann, R. G. 1991. Construction of an RFLP map of barley. Theor. Appl. Genet. 83:250-256.
15. Han, F., Kleinhofs, A., Ullrich, S. E., Kilian, A., Yano, M., and Sasaki, T. 1998. Synteny with rice: Analysis of barley malting quality QTLs and rpg4 chromosome regions. Genome 41:373-380.
16. Hori, K., Sato, K., Nankaku, N., and Takeda, K. 2005. QTL analysis in recombinant chromosome substitution lines derived from a cross between Hordeum vulgare ssp. vulgare and Hordeum vulgare ssp. spontaneum. Mol. Breed. 16:295-311.
17. Isidore, E., Scherrer, B., Bellec, A., Budin, K., Faivre-Rampant, P., Waugh, R., Keller, B., Caboche, M., Feuillet, C., and Chalhoub, B. 2005. Direct targeting and rapid isolation of BAC clones spanning a defined chromosome region. Funct. Integr. Genomics 5:97-103.
18. Jafary, H., Szabo, L. J., and Niks, R. E. 2006. Innate nonhost immunity in barley to different heterologous rust fungi is controlled by sets of resistance genes with different and overlapping specificities. Mol. Plant-Microbe Interact. 19:1270-1279.
19. Jander, G., Norris, S. R., Rounsley, S. D., Bush, D. F., Levin, I. M., and Last, R. L. 2002. Arabidopsis map-based cloning in the post-genome era. Plant Physiol. 129:440-450.
20. Jensen, H. P., and Jørgensen, J. H. 1992. Genetics of 'Laevigatum' resistance and virulence in barley and powdery mildew. Barley Genet. Newsl. 21:34-37.
21. Karakousis, A., Gustafson, J. P., Chalmers, K. J., Barr, A. R., and Langridge, P. 2003. A consensus map of barley integrating SSR, RFLP, and AFLP markers. Aust. J. Agric. Res. 54:1173-1185.
22. Kikuchi, S., Satoh, K., Nagata, T., Kawagashira, N., Doi, K., Kishimoto, N., Yazaki, J., Ishikawa, M., Yamada, H., Ooka, H., Hotta, I., Kojima, K., Namiki, T., Ohneda, E., Yahagi, W., Suzuki, K., Li, C. J., Ohtsuki, K., Shishiki, T., Otomo, Y., Murakami, K., Iida, Y., Sugano, S., Fujimura, T., Suzuki, Y., Tsunoda, Y., Kurosaki, T., Kodama, T., Masuda, H., Kobayashi, M., Xie, Q., Lu, M., Narikawa, R., Sugiyama, A., Mizuno, K., Yokomizo, S., Niikura, J., Ikeda, R., Ishibiki, J., Kawamata, M., Yoshimura, A., Miura, J., Kusumegi, T., Oka, M., Ryu, R., Ueda, M., Matsubara, K., Kawai, J., Carninci, P., Adachi, J., Aizawa, K., Arakawa, T., Fukuda, S., Hara, A., Hashidume, W., Hayatsu, N., Imotani, K., Ishii, Y., Itoh, M., Kagawa, I., Kondo, S., Konno, H., Miyazaki, A., Osato, N., Ota, Y., Saito, R., Sasaki, D., Sato, K., Shibata, K., Shinagawa, A., Shiraki, T., Yoshino, M., and Hayashizaki, Y. 2003. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science 301:376-379.
23. Kleinhofs, A., Kilian, A., Saghai Maroof, M. A., Biyashev, R. M., Hayes, P., Chen, F. Q., Lapitan, N., Fenwick, A., Blake, T. K., Kanazin, V., Ananiev, E., Dahleen, L., Kudrna, D., Bollinger, J., Knapp, S. J., Liu, B., Sorrells, M., Heun, M., Franckowiak, J. D., Hoffman, D., Skadsen, R., and Steffenson, B. J. 1993. A molecular, isozyme and morphological map of the barley (Hordeum vulgare) genome. Theor. Appl. Genet. 86:705-712.
24. Kraakman, A. T. W., Martínez, F., Mussiraliev, B., van Eeuwijk, F. A., and Niks, R. E.. 2006. Linkage disequilibrium mapping of morphological, resistance, and other agronomically relevant traits in modern spring barley cultivars. Mol. Breed. 17:41-58.
25. Künzel, G., Korzun, L., and Meister, A. 2000. Cytologically integrated physical restriction fragment length polymorphism maps for the barley genome based on translocation breakpoints. Genetics 154:397-412.
26. Langridge, P., Karakousis, A., Collins, N., Kretschmer, J., and Manning, S. 1995. A consensus linkage map of barley. Mol. Breed. 1:389-395.
27. Li, Z.-K., Luo, L. J., Mei, H. W., Paterson, A. H., Zhao, X. H., Zhong, D. B., Wang, Y. P., Yu, X. Q., Zhu, L., Tabien, R., Stansel, J. W., and Ying, C. S. 1999. A "defeated" rice resistance gene acts as a QTL against a virulent strain of Xanthomonas oryzae pv. oryzae. Mol. Gen. Genet. 261:58-63.
28. Liu, S., Zhang, X., Pumphrey, M. O., Stack, R. W., Gill, B. S., and Anderson, J. A. 2006. Complex microcolinearity among wheat, rice, and barley revealed by fine mapping of the genomic region harboring a major QTL for resistance to Fusarium head blight in wheat. Funct. Integr. Genomics 6:83-89.
29. Mains, E. B., and Dietz, S. M. 1930. Physiologic forms of barley mildew, Erysiphe graminis hordei Marchal. Phytopathology 20:229-239.
30. Mammadov, J. A., Steffenson, B. J., and Saghai Maroof, M. A. 2005. High-resolution mapping of the barley leaf rust resistance gene Rph5 using barley expressed sequence tags (ESTs) and synteny with rice. Theor. Appl. Genet. 111:1651-1660.
31. Marcel, T. C., Varshney, R. K., Barbieri, M., Jafary, H., de Kock, M. J. D., Graner, A., and Niks, R. E. 2007. A high-density consensus map of barley to compare the distribution of QTLs for partial resistance to Puccinia hordei and of defence gene homologues. Theor. Appl. Genet. 114:487-500.
32. Mohler, V., and Jahoor, A. 1996. Allele-specific amplification of polymorphic sites for the detection of powdery mildew resistance loci in cereals. Theor. Appl. Genet. 93:1078-1082.
33. Moore, G., Devos, K. M., Wang, Z., and Gale, M. D. 1995. Grasses, line up and form a circle. Curr. Biol. 5:737-739.
34. Neervoort, W. J., and Parlevliet, J. E. 1978. Partial resistance of barley to leaf rust, Puccinia hordei. V. Analysis of the components of partial resistance in eight barley cultivars. Euphytica 27:33-39.
35. Niks, R. E. 1982. Early abortion of colonies of leaf rust, Puccinia hordei, in partially resistant barley seedlings. Can. J. Bot. 60:714-723.
36. Niks, R. E. 1983. Haustorium formation by Puccinia hordei in leaves of hypersensitive, partially resistant, and nonhost plant genotypes. Phytopathology 73:64-66.
37. Niks, R. E. 1986. Failure of haustorial development as a factor in slow growth and development of Puccinia hordei in partially resistant barley seedlings. Physiol. Mol. Plant P. 28:309-322.
38. Niks, R. E., Habekuß, A., Bekele, B., and Ordon, F. 2004. A novel major gene on chromosome 6H for resistance of barley against the barley yellow dwarf virus. Theor. Appl. Genet. 109:1536-1543.
39. Parlevliet, J. E. 1975. Partial resistance of barley to leaf rust, Puccinia hordei. I. effect of cultivar and development stage on latent period. Euphytica 24:21-27.
40. Paterson, A. H., DeVerna, J. W., Lanini, B., and Tanksley, S. D. 1990. Fine Mapping of quantitative trait loci using selected overlapping recombinant chromosomes, in an interspecies cross of tomato. Genetics 124:735-742.
41. Perovic, D., Stein, N., Zhang, H., Drescher, A., Prasad, M., Kota, R., Kopahnke, D., and Graner, A. 2004. An integrated approach for comparative mapping in rice and barley with special reference to the Rph16 resistance locus. Funct. Integr. Genomics 4:74-83.
42. Pickering, R. A., Malyshev, S., Künzel, G., Johnston, P. A., Korzun, V., Menke, M., and Schubert, I. 2000. Locating introgressions of Hordeum bulbosum chromatin within the H. vulgare genome. Theor. Appl. Genet. 100:27-31.
43. Price, A. H. 2006. Believe it or not, QTLs are accurate! Trends Plant Sci. 11:213-216.
44. Qi, X., Stam, P., and Lindhout, P. 1996. Comparison and integration of four barley genetic maps. Genome 39:379-394.
45. Qi, X., Stam, P., and Lindhout, P. 1998a. Use of locus-specific AFLP markers to construct a high-density molecular map in barley. Theor. Appl. Genet. 96:376-384.
46. Qi, X., Niks, R.E., Stam, P., and Lindhout, P. 1998b. Identification of QTLs for partial resistance to leaf rust (Puccinia hordei) in barley. Theor. Appl. Genet. 96:1205-1215.
47. Ramalingam, J., Vera Cruz, C. M., Kukreja, K., Chittoor, J. M., Wu, J.-L., Lee, S. W., Baraoidan, M., George, M. L., Cohen, M. B., Hulbert, S. H., Leach, J. E., and Leung, H. 2003. Candidate defense genes from rice, barley, and maize and their association with qualitative and quantitative resistance in rice. Mol. Plant-Microbe Interact. 16:14-24.
48. Remington, D. L., Ungerer, M. C., and Purugganan, M. D. 2001. Map-based cloning of quantitative trait loci: Progress and prospects. Genet. Res. 78:213-218.
49. Rohringer, R., Kim, W. K., Samborski, D. J., and Howes, N. K. 1977. Calcofluor: An optical brightener for fluorescence microscopy of fungal plant parasites in leaves. Phytopathology 67:808-810.
50. Salvi, S., and Tuberosa, R. 2005. To clone or not to clone plant QTLs: Present and future challenges. Trends Plant Sci. 10:298-304.
51. Schmierer, D., Drader, T., Horsley, R., and Kleinhofs, A. 2003. Saturation mapping of a major Fusarium head blight QTL on barley chromosome 2H. Pages 36-39 in: National Fusarium Head Blight Forum Proceeding. S. M. Canty, J. Lewis, and R. W. Ward, eds. Michigan State University, East Lansing, MI, U.S.A.
52. See, D. R., Brooks, S., Nelson, J. C., Brown-Guedira, G., Friebe, B., and Gill, B. S. 2006. Gene evolution at the ends of wheat chromosomes. Proc. Natl. Acad. Sci. U.S.A. 103:4162-4167.
53. Stephens, J. L., Brown, S. E., Lapitan, N. L. V., and Knudson, D. L. 2004. Physical mapping of barley genes using an ultrasensitive fluorescence in situ hybridization technique. Genome 47:179-189.
54. Thomsen, S. B., Jensen, H. P., Jensen, J., Skou, J. P., and Jørgensen, J. H. 1997. Localization of a resistance gene and identification of sources of resistance to barley leaf stripe. Plant Breed. 116:455-459.
55. Van Berloo, R., Aalbers, H., Werkman, A., and Niks, R. E. 2001. Resistance QTL confirmed through development of QTL-NILs for barley leaf rust resistance. Mol. Breed. 8:187-195.
56. Van Ooijen, J. W. 2004. MapQTL 5, Software for the Mapping of Quantitative Trait Loci in Experimental Populations. Kyazma B.V., Wageningen, The Netherlands.
57. Van Ooijen, J. W., and Voorrips, R. E. 2001. JoinMap Version 3.0, Software for the Calculation of Genetic Linkage Maps. Plant Research International, Wageningen, The Netherlands.
58. Varshney, R. K., Marcel, T. C., Ramsay, L., Russell, J., Röder, M., Stein, N., Waugh, R., Langridge, P., Niks, R. E., and Graner, A. 2007. A high density barley microsatellite consensus map with 775 SSR loci. Theor. Appl. Genet. 114:1091-1103.
59. Wang, H., Qi, M., and Cutler, A. J. 1993. A simple method of preparing plant samples for PCR. Nucleic Acid Res. 21:4153-4154.
60. Xu, Y., McCouch, S. R., and Zhang, Q. 2005. How can we use genomics to improve cereals with rice as a reference genome? Plant Mol. Biol. 59:7-26.
61. Yu, Y., Tomkins, J. P., Waugh, R., Frisch, D. A., Kudrna, D., Kleinhofs, A., Brueggeman, R. S., Muehlbauer, G. J., Wise, R. P., and Wing, R. A. 2000. A bacterial artificial chromosome library for barley (Hordeum vulgare L.) and the identification of clones containing putative resistance genes. Theor. Appl. Genet. 101:1093-1099.