QTLs for resistance to the false brome rust Puccinia brachypodii in the model grass Brachypodium distachyon L.

Genome

Volumn 55, Issue 2, 2012, Pages 152-163

  Barbieri, Mirko ^a   Marcel, Thierry C ^b,d   Niks, Rients E ^b   Francia, Enrico ^a   Pasquariello, Marianna ^a   Mazzamurro, Valentina ^a   Garvin, David F ^c   Pecchioni, Nicola ^a  

^a UNIVERSITY OF MODENA AND REGGIO EMILIA   (Italy)

^b WAGENINGEN UNIVERSITY   (Netherlands)

^c UNIVERSITY OF MINNESOTA   (United States)

^d INRA Institut National de la Recherche Agronomique   (France)

Author keywords

AFLP; Brachypodium distachyon; False brome rust; Linkage map; QTL; Quantitative resistance

Indexed keywords

MICROSATELLITE DNA;

AMPLIFIED FRAGMENT LENGTH POLYMORPHISM; ARTICLE; BASIDIOMYCETES; BRACHYPODIUM; CHROMOSOME MAP; CROSS BREEDING; DISEASE RESISTANCE; GENETICS; MICROBIOLOGY; PLANT DISEASE; QUANTITATIVE TRAIT LOCUS; SINGLE NUCLEOTIDE POLYMORPHISM;

AMPLIFIED FRAGMENT LENGTH POLYMORPHISM ANALYSIS; BASIDIOMYCOTA; BRACHYPODIUM; CHROMOSOME MAPPING; CROSSES, GENETIC; DISEASE RESISTANCE; MICROSATELLITE REPEATS; PLANT DISEASES; POLYMORPHISM, SINGLE NUCLEOTIDE; QUANTITATIVE TRAIT LOCI;

EID: 84857202356     PISSN: 08312796     EISSN: None     Source Type: Journal    
DOI: 10.1139/g2012-001     Document Type: Article

References (60)

1. Aghnoum R. Marcel T.C. Johrde A. Pecchioni N. Schweizer P. Niks R.E. 2010. Basal host resistance of barley to powdery mildew: connecting quantitative trait loci and candidate genes. Mol. Plant Microbe Interact. 23 (1): 91-102. 10.1094/MPMI-23-1-0091 19958142
2. Aghnoum R. Niks R.E. 2011. Transgressive segregation for very low and high levels of basal resistance to powdery mildew in barley. J. Plant Physiol. 168 (1): 45-50. 10.1016/j.jplph.2010.09.005 20956027
3. Alonso-Blanco C. Peeters A.J.M. Koornneef M. Lister C. Dean C. van den Bosch N. et al. 1998. Development of an AFLP based linkage map of Ler, Col and Cvi Arabidopsis thaliana ecotypes and construction of a Ler/Cvi recombinant inbred line population. Plant J. 14 (2): 259-271. 10.1046/j.1365-313X.1998. 00115.x 9628021 (Pubitemid 28236016)
4. Assunção A.G.L. Pieper B. Vromans J. Lindhout P. Aarts M.G.M. Schat H. 2006. Construction of a genetic linkage map of Thlaspi caerulescens and quantitative trait loci analysis of zinc accumulation. New Phytol. 170 (1): 21-32. 10.1111/j.1469-8137.2005.01631.x 16539600 (Pubitemid 43327214)
5. Backes G. Madsen L.H. Jaiser H. Stougaard J. Herz M. Mohler V. Jahoor A. 2003. Localization of genes for resistance against Blumeria graminis f. sp. hordei and Puccinia graminis in a cross between a barley cultivar and a wild barley (Hordeum vulgare ssp. spontaneum) line. Theor. Appl. Genet. 106 (2): 353-362. 12582863 (Pubitemid 36599894)
6. Barbieri M. Marcel T.C. Niks R.E. 2011. Host status of false brome grass to the leaf rust fungus Puccinia brachypodii and the stripe rust fungus P. striiformis. Plant Dis. 95 (11): 1339-1345. 10.1094/PDIS-11-10-0825
7. Bevan M.W. Garvin D.F. Vogel J.P. 2010. Brachypodium distachyon genomics for sustainable food and fuel production. Curr. Opin. Biotechnol. 21 (2): 211-217. 10.1016/j.copbio.2010.03.006 20362425
8. Bossolini E. Wicker T. Knobel P.A. Keller B. 2007. Comparison of orthologous loci from small grass genomes Brachypodium and rice: implications for wheat genomics and grass genome annotation. Plant J. 49 (4): 704-717. 10.1111/j.1365-313X.2006.02991.x 17270010 (Pubitemid 46233087)
9. Buckler E.S. Holland J.B. Bradbury P.J. Acharya C.B. Brown P.J. Browne C. et al. 2009. The genetic architecture of maize flowering time. Science, 325 (5941): 714-718. 10.1126/science.1174276 19661422
10. Catalán P. Kellogg E.A. Olmstead R.G. 1997. Phylogeny of Poaceae subfamily Pooideae based on chloroplast ndhF gene sequences. Mol. Phylogenet. Evol. 8 (2): 150-166. 10.1006/mpev.1997.0416 9299221 (Pubitemid 127350732)
11. Demircan T. Akkaya M.S. 2010. Virus induced gene silencing in Brachypodium distachyon, a model organism for cereals. Plant Cell Tissue Organ Cult. 100 (1): 91-96. 10.1007/s11240-009-9623-x
12. Drader T. Kleinhofs A. 2010. A synteny map and disease resistance gene comparison between barley and the model monocot Brachypodium distachyon. Genome, 53 (5): 406-417. 10.1139/G10-014 20616871
13. Draper J. Mur L.A. Jenkins G. Ghosh-Biswas G.C. Bablak P. Hasterok R. Routledge A.P. 2001. Brachypodium distachyon. A new model system for functional genomics in grasses. Plant Physiol. 127 (4): 1539-1555. 10.1104/pp.010196 11743099 (Pubitemid 34050024)
14. Febrer M. Goicoechea J.L. Wright J. McKenzie N. Song X. Lin J. et al. 2010. An integrated physical, genetic and cytogenetic map of Brachypodium distachyon, a model system for grass research. PLoS ONE, 5 (10): e13461. 10.1371/journal.pone.0013461 20976139
15. Garvin D.F. Gu Y.Q. Hasterok R. Hazen S.P. Jenkins G. Mockler T.C. et al. 2008. Development of genetic and genomic research resources for Brachypodium distachyon, a new model system for grass crop research. Crop Sci. 48 (Suppl 1): 69-84. 10.2135/cropsci2007.06.0332tpg (Pubitemid 351569253)
16. Garvin D.F. McKenzie N. Vogel J.P. Mockler T.C. Blankenheim Z.J. Wright J. et al. 2010. An SSR-based genetic linkage map of the model grass Brachypodium distachyon. Genome, 53 (1): 1-13. 10.1139/G09-079 20130744
17. Hooker A.L. 1967. The genetics and expression of resistance in plants to rusts of the genus Puccinia. Annu. Rev. Phytopathol. 5 (1): 163-178. 10.1146/annurev.py.05.090167.001115
18. Hovmøller M.S. Walter S. Fejer Justesen A. 2010. Escalating threat of wheat rusts. Science, 329 (5990): 369. 10.1126/science.1194925 20651122
19. Huo N. Garvin D.F. You F.M. McMahon S. Luo M.C. Gu Y.G. et al. 2011. Comparison of a high-density genetic linkage map to genome features in the model grass Brachypodium distachyon. Theor. Appl. Genet. 123 (3): 455-464. 10.1007/s00122-011-1598-4 21597976
20. International Brachypodium Initiative. 2010. Genome sequencing and analysis of the model grass Brachypodium distachyon. Nature, 463 (7282): 763-768. 10.1038/nature08747 20148030
21. Jafary H. Szabo L.J. 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 (11): 1270-1279. 10.1094/MPMI-19-1270 17073309 (Pubitemid 44607338)
22. Jafary H. Albertazzi G. Marcel T.C. Niks R.E. 2008. High diversity of genes for nonhost resistance of barley to heterologous rust fungi. Genetics, 178 (4): 2327-2339. 10.1534/genetics.107.077552 18430953
23. Jansen R.C. Stam P. 1994. High resolution of quantitative traits into multiple loci via interval mapping. Genetics, 136 (4): 1447-1455. 8013917 (Pubitemid 24097871)
24. Keller B. Feuillet C. 2000. Colinearity and gene density in grass genomes. Trends Plant Sci. 5 (6): 246-251. 10.1016/S1360-1385(00)01629-0 10838615 (Pubitemid 30347750)
25. Kellogg E.A. 2001. Evolutionary history of the grasses. Plant Physiol. 125 (3): 1198-1205. 10.1104/pp.125.3.1198 11244101 (Pubitemid 32224610)
26. Kicherer S. Backes G. Walther U. Jahoor A. 2000. Localising QTLs for leaf rust resistance and agronomic traits in barley (Hordeum vulgare L.). Theor. Appl. Genet. 100 (6): 881-888. 10.1007/s001220051365 (Pubitemid 30263883)
27. Kreike C.M. de Koning J.R.A. Vinke J.H. van Ooijen J.W. Stiekema W.J. 1994. Quantitatively-inherited resistance to Globodera pallida is dominated by one major locus in Solanum spegazzinii. Theor. Appl. Genet. 88 (6-7): 764-769. 10.1007/BF01253983 (Pubitemid 2133391)
28. Luo S. Peng J. Li K. Wang M. Kuang H. 2011. Contrasting evolutionary patterns of the Rp1 resistance gene family in different species of Poaceae. Mol. Biol. Evol. 28 (1): 313-325. 10.1093/molbev/msq216 20713469
29. Marcel T.C. Varshney R.K. Barbieri M. Jafary H. de Kock M.J.D. Graner A. Niks R.E. 2007. A high-density consensus map of barley to compare the distribution of QTL for partial resistance to Puccinia hordei and of defence gene homologues. Theor. Appl. Genet. 114 (3): 487-500. 10.1007/s00122-006-0448-2 17115126 (Pubitemid 46211995)
30. Marcel T.C. Gorguet B. Ta M.T. Kohutova Z. Vels A. Niks R.E. 2008. Isolate-specificity of quantitative trait loci for partial resistance of barley to Puccinia hordei confirmed in mapping populations and near-isogenic lines. New Phytol. 177 (3): 743-755. 10.1111/j.1469-8137.2007.02298.x 18069952
31. Matthews D.E. Carollo V.L. Lazo G.R. Anderson O.D. 2003. GrainGenes, the genome database for small-grain crops. Nucleic Acids Res. 31 (1): 183-186. 10.1093/nar/gkg058 12519977 (Pubitemid 36150360)
32. Mayer K.F. Martis M. Hedley P.E. Simková H. Liu H. Morris J.A. et al. 2011. Unlocking the barley genome by chromosomal and comparative genomics. Plant Cell, 23 (4): 1249-1263. 10.1105/tpc.110.082537 21467582
33. Messmer M.M. Seyfarth R. Keller M. Schachermayr G. Winzeler M. Zanetti S. et al. 2000. Genetic analysis of durable leaf rust resistance in winter wheat. Theor. Appl. Genet. 100 (3-4): 419-431. 10.1007/s001220050055 (Pubitemid 30146856)
34. Niks, R.E., Parlevliet, J.E., Lindhout, P., and Bai, Y.L. 2011. Breeding crops with resistance to diseases and pests. Wageningen Academic Publishers, Wageningen, the Netherlands.
35. Pǎcurar D.I. Thordal-Christensen H. Nielsen K.K. Lenk I. 2008. A high-throughput Agrobacterium-mediated transformation system for the grass model species Brachypodium distachyon L. Transgenic Res. 17 (5): 965-975. 10.1007/s11248-007-9159-y 18064538
36. Pecchioni N. Faccioli P. Toubia-Rahme H. Valè G. Terzi V. 1996. Quantitative resistance to barley leaf stripe (Pyrenophora graminea) is dominated by one major locus. Theor. Appl. Genet. 93 (1-2): 97-101. 10.1007/BF00225733 (Pubitemid 26354984)
37. Peraldi A. Beccari G. Steed A. Nicholson P. 2011. Brachypodium distachyon: a new pathosystem to study Fusarium head blight and other Fusarium diseases of wheat. BMC Plant Biol. 11: 100. 10.1186/1471-2229-11-100 21639892
38. Qi L. Friebe B. Wu J. Gu Y. Qian C. Gill B.S. 2010. The compact Brachypodium genome conserves centromeric regions of a common ancestor with wheat and rice. Funct. Integr. Genomics, 10 (4): 477-492. 10.1007/s10142-010- 0190-3 20842403
39. Qi X. Lindhout P. 1997. Development of AFLP markers in barley. Mol. Gen. Genet. 254 (3): 330-336. 9150268
40. Qi X. Niks R.E. Stam P. Lindhout P. 1998. Identification of QTLs for partial resistance to leaf rust (Puccinia hordei) in barley. Theor. Appl. Genet. 96 (8): 1205-1215. 10.1007/s001220050858 (Pubitemid 28329581)
41. Qi X. Jiang G. Chen W. Niks R.E. Stam P. Lindhout P. 1999. Isolate-specific QTL for partial resistance to Puccinia hordei in barley. Theor. Appl. Genet. 99 (5): 877-884. 10.1007/s001220051308 (Pubitemid 29464036)
42. Qi X. Fufa F. Sijtsma D. Niks R.E. Lindhout P. Stam P. 2000. The evidence for abundance of QTL for partial resistance to Puccinia hordei on the barley genome. Mol. Breed. 6 (1): 1-9. 10.1023/A:1009649903383 (Pubitemid 30118781)
43. Rouppe van der Voort J. van der Vossen E. Bakker E. Overmars H. van Zandvoort P. Hutten R. et al. 2000. Two additive QTLs conferring broad-spectrum resistance in potato to Globodera pallida are localized on resistance gene clusters. Theor. Appl. Genet. 101 (7): 1122-1130. 10.1007/s001220051588
44. Routledge A.P.M. Shelley G. Smith J.V. Talbot N.J. Draper J. Mur L.A.J. 2004. Magnaporthe grisea interactions with the model grass Brachypodium distachyon closely resemble those with rice (Oryza sativa). Mol. Plant Pathol. 5 (4): 253-265. 10.1111/j.1364-3703.2004.00224.x 20565594 (Pubitemid 38940763)
45. Steward C.N. Via L.E. 1993. A rapid CTAB DNA isolation technique useful for RAPD fingerprinting and other PCR application. Biotechniques, 14 (5): 748-750. 8512694
46. Thole V. Worland B. Wright J. Bevan M.W. Vain P. 2010. Distribution and characterization of more than 1000 T-DNA tags in the genome of Brachypodium distachyon community standard line Bd21. Plant Biotechnol. J. 8 (6): 734-747. 10.1111/j.1467-7652.2010.00518.x 20374523
47. Vain P. Worland B. Thole V. McKenzie N. Alves S.C. Opanowicz M. et al. 2008. Agrobacterium-mediated transformation of the temperate grass Brachypodium distachyon (genotype Bd21) for T-DNA insertional mutagenesis. Plant Biotechnol. J. 6 (3): 236-245. 10.1111/j.1467-7652.2007.00308.x 18004984 (Pubitemid 351342689)
48. Van Ooijen, J.W. 2004. MapQTL Version 5, software for the mapping of quantitative trait loci in experimental populations. Kyazma BV, Wageningen, the Netherlands.
49. Van Ooijen, J.W. 2006. JoinMap 4, software for the calculation of genetic linkage maps in experimental population. Kyazma BV, Wageningen, the Netherlands.
50. Vogel, J., and Bragg, J. 2009. Brachypodium distachyon, a new model for the Triticeae. In Genetics and Genomics of the Triticeae. Edited by C. Feuillet and G.J. Muehlbauer. Springer, Heidelberg Germany. pp. 427-449.
51. Vogel J.P. Garvin D.F. Leong O.M. Hayden D.M. 2006 a. Agrobacterium-mediated transformation and inbred line development in the model grass Brachypodium distachyon. Plant Cell Tissue Organ Cult. 84 (2): 199-211. 10.1007/s11240-005-9023-9 (Pubitemid 43288196)
52. Vogel J.P. Gu Y.Q. Twigg P. Lazo G.R. Laudencia-Chingcuanco D. Hayden D.M. et al. 2006 b. EST sequencing and phylogenetic analysis of the model grass Brachypodium distachyon. Theor. Appl. Genet. 113 (2): 186-195. 10.1007/s00122-006-0285-3 16791686 (Pubitemid 43961551)
53. Vogel J.P. Hill T. 2008. High-efficiency Agrobacterium-mediated transformation of Brachypodium distachyon inbred line Bd21-3. Plant Cell Rep. 27 (3): 471-478. 10.1007/s00299-007-0472-y 17999063
54. Vogel J.P. Tuna M. Budak H. Huo N. Gu Y.Q. Steinwand M.A. 2009. Development of SSR markers and analysis of diversity in Turkish populations of Brachypodium distachyon. BMC Plant Biol. 9: 88. 10.1186/1471-2229-9-88 19594938
55. Voorrips R.E. 2002. MapChart: software for the graphical presentation of linkage maps and QTLs. J. Hered. 93 (1): 77-78. 10.1093/jhered/93.1.77 12011185 (Pubitemid 34496540)
56. Vos P. Hogers R. Bleeker M. Reijans M. van de Lee T. Hornes M. et al. 1995. AFLP: a new technique for DNA fingerprinting. Nucleic Acids Res. 23 (21): 4407-4414. 10.1093/nar/23.21.4407 7501463
57. Wang L. Wang Y. Wang Z. Marcel T.C. Niks R.E. Qi X. 2010. The phenotypic expression of QTLs for partial resistance to barley leaf rust during plant development. Theor. Appl. Genet. 121 (5): 857-864. 10.1007/s00122-010-1355-0 20490444
58. William H.M. Singh R.P. Huerta-Espino J. Palacios G. Suenaga K. 2006. Characterization of genetic loci conferring adult plant resistance to leaf rust and stripe rust in spring wheat. Genome, 49 (8): 977-990. 10.1139/G06-052 17036073 (Pubitemid 44902218)
59. Xu X.Y. Bai G.H. Carver B.F. Shaner G.E. Hunger R.M. 2005. Mapping of QTLs prolonging the latent period of Puccinia triticina infection in wheat. Theor. Appl. Genet. 110 (2): 244-251. 10.1007/s00122-004-1819-1 15672257 (Pubitemid 40181221)
60. Young N.D. 1996. QTL mapping and quantitative disease resistance in plants. Annu. Rev. Phytopathol. 34 (1): 479-501. 10.1146/annurev.phyto.34.1.479 15012553 (Pubitemid 26368812)