Molecular characterisation and genetic mapping of candidate genes for qualitative disease resistance in perennial ryegrass (Lolium perenne L.)

BMC Plant Biology

Volumn 9, Issue , 2009, Pages

  Dracatos, Peter M ^a,b,d   Cogan, Noel Oi ^a,d   Sawbridge, Timothy I ^a,d   Gendall, Anthony R ^b   Smith, Kevin F ^c,d   Spangenberg, German C ^a,d   Forster, John W ^a,d  

^a LA TROBE UNIVERSITY   (Australia)

^b LA TROBE UNIVERSITY   (Australia)

^c DEPARTMENT OF PRIMARY INDUSTRIES   (Australia)

^d Department of Civil and Environmental Engineering   (Australia)

Author keywords

[No Author keywords available]

Indexed keywords

LOLIUM; LOLIUM PERENNE;

PLANT DNA;

ARTICLE; BIOLOGY; CHROMOSOME MAP; EXPRESSED SEQUENCE TAG; GENETIC DATABASE; GENETIC LINKAGE; GENETICS; GENOMICS; IMMUNOLOGY; INNATE IMMUNITY; LOLIUM; PHYLOGENY; PLANT DISEASE; PLANT GENE; PLANT GENOME; QUANTITATIVE TRAIT LOCUS; SEQUENCE ALIGNMENT;

CHROMOSOME MAPPING; COMPUTATIONAL BIOLOGY; DATABASES, GENETIC; DNA, PLANT; EXPRESSED SEQUENCE TAGS; GENES, PLANT; GENOME, PLANT; GENOMICS; IMMUNITY, INNATE; LINKAGE (GENETICS); LOLIUM; PHYLOGENY; PLANT DISEASES; QUANTITATIVE TRAIT LOCI; SEQUENCE ALIGNMENT;

EID: 67649130031     PISSN: None     EISSN: 14712229     Source Type: Journal    
DOI: 10.1186/1471-2229-9-62     Document Type: Article

References (76)

1. Variation in the response of Lolium genotypes to defoliation. WJ Fulkerson K Slack KF Lowe, Aus J Agric Res 1994 45 1309 1317 10.1071/AR9941309 (Pubitemid 2105779)
2. The digestibility of the leaves and stems of perennial ryegrass, cocksfoot, timothy, tall fescue, lucerne and sainfoin, as measured by an in vitro procedure. RA Terry JMA Tilley, J Brit Grassland Soc 1964 19 363 372
3. Some effects of crown rust (Puccinia coronata Corda) on the growth of two ryegrass varieties in New Zealand. JA Lancashire GCM Latch, NZ J Agric Res 1966 9 628 640
4. Ryegrass rust in Victoria. T Price, Plant Protect Quart 1987 2 189
5. Genetic basis of crown rust resistance in perennial ryegrass, breeding strategies, and genetic variation among pathogen populations: a review. CA Kimbeng, Aus J Exp Agric 1999 39 361 378 10.1071/EA98111
6. Rust-enhanced allelopathy of perennial ryegrass against white clover. SW Mattner DG Parbery, Agronomy J 2001 93 54 59 (Pubitemid 32116797)
7. Development and characterization of EST-SSR markers for the crown rust pathogen of ryegrass (Puccinia coronata f.sp lolii). PM Dracatos JL Dumsday RS Olle NOI Cogan MP Dobrowolski M Fujimori H Roderick AV Stewart KF Smith JW Forster, Genome 2006 49 572 583 10.1139/G06-006 16936837
8. The effect of infection by crown rust on the thousand-seed weight of annual ryegrass. B Cagas, Rostlinna Vyroba 1986 32 873 880
9. Gray leaf spot of perennial ryegrass turf in Pennsylvania. PJ Landschoot BF Hoyland, Plant Dis 1972 76 1280 1282
10. Self-incompatibility in ryegrass. I. genetic control in diploid Lolium perenne L. MA Cornish MD Hayward MJ Lawrence, Heredity 1992 43 95 106 10.1038/hdy.1979.63
11. Evaluation of resistance to five isolates of Puccinia coronata f. sp. lolii in 19 perennial ryegrass cultivars. RG Clarke ON Villata G Hepworth, Aus J Agric Res 1997 48 191 198 10.1071/A95036 (Pubitemid 27158740)
12. AFLP analysis of genetic diversity within and between populations of perennial ryegrass (Lolium perenne L.). KM Guthridge MP Dupal R Kölliker ES Jones KF Smith JW Forster, Euphytica 2001 122 191 201 10.1023/A:1012658315290
13. Genetic diversity in perennial ryegrass and white clover among old Dutch grasslands as compared to cultivars and nature reserves. R van Treuren N Bas PJ Goossens J Jansen LJM van Soest, Mol Ecol 2005 14 39 52 10.1111/j.1365-294X. 2004.02391.x 15643949
14. SSR-based genetic linkage analysis of resistance to crown rust (Puccinia coronata f. sp lolii) in perennial ryegrass (Lolium perenne). JL Dumsday KF Smith JW Forster ES Jones, Plant Path 2003 52 628 637 10.1046/j.1365-3059.2003. 00884.x
15. Introgression of crown rust (Puccinia coronata) resistance from meadow fescue (Festuca pratensis) into Italian ryegrass (Lolium multiflorum): genetic mapping and identification of associated molecular markers. IP Armstead JA Harper LB Turner L Skøt IP King MO Humphreys WG Morgan HM Thomas HW Roderick, Plant Path 2006 55 62 67 10.1111/j.1365-3059.2005.01308.x
16. Identification of molecular markers linked with crown rust (Puccinia coronata f. sp. lolii) resistance in perennial ryegrass (Lolium perenne) using AFLP markers and a bulked segregant approach. H Muylle J Baert E Van Bockstaele B Moerkerke E Goetghebeur I Roldan-Ruiz, Euphytica 2005 143 135 144 10.1007/s10681-005-3058-1
17. Four QTLs determine crown rust (Puccinia coronata f. sp. lolii) resistance in a perennial ryegrass (Lolium perenne) population. H Muylle J Baert E Van Bockstaele J Pertijs I Roldan-Ruiz, Heredity 2005 95 348 357 10.1038/sj.hdy.6800729 16118663
18. Consistent detection of QTLs for crown rust resistance in Italian ryegrass (Lolium multiflorum Lam.) across environments and phenotyping methods. B Studer B Boller E Bauer U Posselt F Widmer R Kölliker, Theor Appl Genet 2007 115 9 17 10.1007/s00122-007-0535-z 17426957
19. QTL analysis of crown rust resistance in perennial ryegrass under conditions of natural and artificial infection. B Schejbel LB Jensen Y Xing T Lübberstedt, Plant Breed 2007 126 347 352 10.1111/j.1439-0523.2007.01385.x
20. Mapping and comparative analysis of QTL for crown rust resistance in an Italian × perennial ryegrass population. S Sim K Diesburg M Casler G Jung, Phytopathol 2007 97 767 776 10.1094/PHYTO-97-6-0767
21. Discovery and genetic mapping of single nucleotide polymorphisms in candidate genes for pathogen defence response in perennial ryegrass (Lolium perenne L.). PM Dracatos NOI Cogan MP Dobrowolski TI Sawbridge GC Spangenberg KF Smith JW Forster, Theor Appl Genet 2008 117 203 219 10.1007/s00122-008-0766-7 18446316
22. QTL mapping of resistance to grey leaf spot in ryegrass: consistency of QTL between two mapping populations. J Curley N Chakraborty S Chang G Jung, J Korean Turfgrass Sci 2008 22 85 100
23. Genetic mapping reveals a single major QTL for bacterial wilt resistance in Italian ryegrass (Lolium multiflorum Lam.). B Studer B Boller D Herrmann E Bauer UK Posselt F Widmer R Kölliker, Theoretical Appl Genet 2006 113 661 671 10.1007/s00122-006-0330-2
24. Mapping QTL for resistance to powdery mildew and resistance gene analogues in perennial ryegrass. B Schejbel LB Jensen T Asp Y Xing T Lübberstedt, Plant Breed 2008 127 368 375 10.1111/j.1439-0523.2007.01477.x
25. QTL mapping of resistance to grey leaf spot in ryegrass (Lolium perenne L.). J Curley SC Sim S Warnke SB Leong G Jung, Theor Appl Genet 2005 111 1107 1117 10.1007/s00122-005-0036-x 16133316
26. Genetic diversity in Australasian populations of the crown rust pathogen of ryegrasses (Puccinia coronata f.sp. lolii). PM Dracatos JL Dumsday A Stewart MP Dobrowolski NOI Cogan KF Smith JW Forster, Molecular Breeding of Forage and Turf: The Proceedings of the 5th International Symposium on the Molecular Breeding of Forage and Turf Springer, New York, USA, Yamada T, Spangenberg GC, 2008 275 285
27. Evidence of pathotypes among Australian isolates of crown rust infecting perennial ryegrass. R Aldaoud MW Anderson KFM Reed KF Smith, Plant Breed 2004 123 395 397 10.1111/j.1439-0523.2004.00951.x
28. Genetic analysis and evolution of plant disease resistance genes. PN Dodds G Lawrence T Pryor J Ellis, Molecular Plant Pathology Sheffield Academic Press., Sheffield, UK, Dickinson M, Beynon J, 2000 88 107
29. Piece de Resistance: Novel class of plant disease resistance genes. JL Dangl, Cell 1995 80 363 366 10.1016/0092-8674(95)90485-9 7859277
30. Genome-wide analysis of NBS-LRR-encoding genes in Arabidopsis. BC Meyers A Kozik A Griego H Kuang RW Michelmore, Plant Cell 2003 15 809 834 12671079 10.1105/tpc.009308
31. Genome-wide identification of NBS genes in japonica rice reveals significant expansion of divergent non-TIR NBS-LRR genes. T Zhou Y Wang JQ Chen H Araki Z Jing K Jiang J Shen D Tian, Mol Genet Genom 2004 271 402 414 10.1007/s00438-004-0990-z
32. Identification and characterisation of regions of the rice genome associated with broad-spectrum, quantitative disease resistance. RJ Wisser Q Sun SH Hulbert S Kresovich RJ Nelson, Genetics 2005 169 2277 2203 15716503 10.1534/genetics.104.036327
33. Barley disease resistance gene analogs of the NBS-LRR class: identification and mapping. LH Madsen NC Collins M Rakwalska G Backes N Sandal L Krusell J Jensen EH Waterman A Jahoor M Ayliffe AJ Pryor P Langridge P Schulze-Lefert J Stougaard, Mol Genet Genomics 2003 269 1 150 161 12715163 (Pubitemid 36560689)
34. Isolation and characterisation of resistance gene analogues (RGAs) in sorghum. J Cho, Ph.D. Thesis Texas A&M University, USA 2005
35. Genome-wide isolation of resistance gene analogs in maize (Zea mays L.). X Wenkai X Mingliang Z Jiuren W Fengge L Jiansheng D Jingrui, Theor Appl Genet 2006 113 63 72 10.1007/s00122-006-0272-8 16607513
36. Full-genome analysis of resistance gene homologues in rice. B Monosi RJ Wisser L Pennill SH Hulbert, Theor Appl Genet 2004 109 1434 1447 10.1007/s00122-004-1758-x 15309302
37. Isolation and mapping of resistance gene analogs from the Avena strigosa genome. ML Irigoyen Y Loarce A Fominaya E Ferrer, Theor Appl Genet 2004 109 713 724 10.1007/s00122-004-1679-8 15258739
38. Isolation, characterisation and evolutionary analysis of resistance gene analogs in annual ryegrass, perennial ryegrass and their hybrid. J Li Y Xu S Fei L Li, Physiologia Plantarium 2006 126 627 638 (Pubitemid 43785876)
39. Isolation of disease resistance gene analogues from Italian ryegrass (Lolium multiflorum Lam.). S Ikeda, Grasslands Sci 2005 51 63 70 10.1111/j.1744-697X.2005.00010.x (Pubitemid 40605920)
40. High gene density is conserved at syntenic loci of small and large grass genomes. C Feuillet B Keller, Proc Natl Acad Sci USA 1999 96 8265 8270 10393983 10.1073/pnas.96.14.8265
41. Genetic and physical mapping of Lrk10-like receptor kinase sequences in hexaploid oat (Avena sativa L.). DW Cheng KC Armstrong N Tinker CP Wight S He A Lybaert G Fedak SJ Molnar, Genome 2003 45 100 109 10.1139/g01-135
42. Functionally-associated molecular genetic markers for temperate pasture plant improvement. JW Forster NOI Cogan MP Dobrowolski MG Francki GC Spangenberg KF Smith, Plant Genotyping II: SNP Technology CABI Press, Wallingford, Oxford, UK, Henry RJ, 2008 154 187
43. Molecular cloning of a new receptor-like kinase gene encoded at the Lr10 resistance locus of wheat. C Feuillet G Schachmayr B Keller, Plant J 1997 11 45 52 10.1046/j.1365-313X.1997.11010045.x 9025301
44. Phylogenetics and character evolution in the grass family (Poaceae): Simultaneous analysis of morphological and chloroplast DNA restriction site character sets. RJ Soreng JI Davis, Botanical Rev 1998 64 1 85 10.1007/BF02868851 (Pubitemid 128437160)
45. An enhanced molecular marker based genetic map of perennial ryegrass (Lolium perenne) reveals comparative relationships with other Poaceae genomes. ES Jones NL Mahoney MD Hayward I Armstead J Gilbert Jones MO Humphreys IP King T Kishida T Yamada F Balfourier G Charmet JW Forster, Genome 2002 45 282 295 10.1139/g01-144 11962626
46. Generation and analysis of expressed sequence tags in perennial ryegrass (Lolium perenne L.). T Sawbridge E Ong C Binnion M Emmerling R McInnes K Meath N Nguyen K Nunan M O'Neill F O'Toole C Rhodes J Simmonds P Tian K Wearne T Webster A Winkworth G Spangenberg, Plant Sci 2003 165 1089 1100 10.1016/S0168-9452(03)00304-2
47. BASC: an integrated bioinformatics system for Brassica research. TA Erwin EG Jewell CG Love GAC Lim X Li R Chapman J Batley JE Stajich E Mongin ER Stupka G Spangenberg D Edwards, Nucleic Acids Res 2007 35 870 873 10.1093/nar/gkl998
48. Gene-associated single nucleotide polymorphism discovery in perennial ryegrass (Lolium perenne L.). NOI Cogan RC Ponting AC Vecchies MC Drayton J George PM Dracatos MP Dobrowolski T Sawbridge KF Smith G Spangenberg JW Forster, Mol Genet Genom 2006 276 101 112 10.1007/s00438-006-0126-8
49. A PCR-based approach for isolating pathogen resistance genes from potato with potential for wide application in plants. D Leister A Ballvora F Salamini C Gebhardt, Nat Genet 1996 14 421 429 10.1038/ng1296-421 8944022
50. Functionally associated molecular genetic marker map construction in perennial ryegrass (Lolium perenne L.). MJ Faville AC Vecchies M Schreiber MC Drayton LJ Hughes ES Jones KM Guthridge KF Smith T Sawbridge GC Spangenberg GT Bryan JW Forster, Theor Appl Genet 2004 110 12 32 10.1007/s00122-004-1785-7 15526086
51. The Pfam protein families database. A Bateman E Birney L Cerruti R Durbin L Etwiller SR Eddy S Griffiths-Jones KL Howe M Marshall ELL Sonnhammer, Nucleic Acids Res 2002 30 276 280 11752314 10.1093/nar/30.1.276 (Pubitemid 34679563)
52. Pfam: clans, web tools and services. RD Finn J Mistry B Scuster-Bockler S Griffiths-Jones V Hollich T Lassmann S Moxon M Marshall A Khanna R Durbin SR Eddy LL Sonnhammer A Bateman, Nucleic Acids Res 2006 34 D247 D251 16381856 10.1093/nar/gkj149
53. The value of prior knowledge in discovering motifs with MEME. TL Bailey C Elkan, Proc Int Conf Intell Syst Mol Biol 1995 3 21 29 7584439
54. The ClustalX windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. JD Thompson TJ Gibson F Plewniak F Jeanmougin DG Higgins, Nucleic Acids Res 1997 24 4876 4882 10.1093/nar/25.24. 4876
55. Confidence limits on phylogenies: an approach using the bootstrap. J Felsenstein, Evolution 1985 39 783 791 10.2307/2408678
56. An SSR-based genetic linkage map for perennial ryegrass (Lolium perenne L.). ES Jones MP Dupal JL Dumsday LJ Hughes JW Forster, Theor Appl Genet 2002 105 577 584 10.1007/s00122-002-0907-3 12582507
57. Microprep protocol for extraction of DNA from tomato and other herbaceous plants. TM Fulton J Chunwongse SD Tanksley, Plant Mol Biol Rep 1995 13 207 209 10.1007/BF02670897
58. Physical and genetic mapping of wheat kinase analogs and NBS-LRR resistance gene analogs. L Maleki JD Faris RL Bowden BS Gill JP Fellers, Crop Sci 2003 43 660 670 (Pubitemid 36345584)
59. Comparative mapping of the two wheat leaf rust resistance loci Lr1 and Lr10 in rice and barley. F Gallego C Feuillet M Messmer A Penger A Graner M Yano T Sasaki B Keller, Genome 1998 41 328 336 10.1139/gen-41-3-328 9729767 (Pubitemid 28443775)
60. Death don't have no mercy: cell death programs in plant-microbe interactions. JL Dangl RA Dietrich MH Richberg, Plant Cell 1996 8 10 1793 1807 12239362 10.1105/tpc.8.10.1793
61. La Dolce Vita: a molecular feast in plant-pathogen interactions. JL Dangl E Holub, Cell 1997 91 17 24 10.1016/S0092-8674(01)80005-2 9335331
62. Advances in the molecular genetic analysis of the flax-flax rust interaction. J Ellis G Lawrence M Ayliffe P Anderson N Collins J Finnegan D Frost J Luck T Pryor, Ann Rev Phytopathol 1997 35 271 291 10.1146/annurev.phyto. 35.1.271
63. Structure, function and evolution of plant disease resistance genes. J Ellis P Dodds T Pryor, Curr Op Plant Biol 2000 3 278 284 10.1016/S1369-5266(00) 00080-7
64. Plant pathogens and integrated defence responses to infection. JL Dangl JD Jones, Nature 2001 411 826 833 10.1038/35081161 11459065
65. Diversity in nucleotide binding site-leucine-rich repeat genes in cereals. J Bai LA Pennill J Ning SW Lee J Ramalingam CA Webb B Zhao Q Sun JC Nelson JE Leach SH Hulbert, Genet Res 2002 12 1871 1884 10.1101/gr.454902
66. Plant disease resistance genes encode members of an ancient and diverse protein family within the nucleotide-binding site family. BC Meyers AW Dickerman RW Michelmore S Sivaramakrishnan BW Sobral ND Young, Plant J 1999 20 317 332 10.1046/j.1365-313X.1999.t01-1-00606.x 10571892 (Pubitemid 129515914)
67. Evolving disease resistance genes. BC Meyers S Kaushik RS Nandety, Curr Op Plant Biol 2005 8 129 134 10.1016/j.pbi.2005.01.002
68. Rapid reorganisation of resistance gene homologues in cereal genomes. D Leister DA Kurth DA Laurie M Yano T Sasaki KM Devos A Graner P Schulze-Lefert, Proc Natl Acad Sci USA 1998 95 370 375 9419382 10.1073/pnas.95.1.370
69. Nucleotide diversity and linkage disequilibrium in 11 expressed resistance genes in Lolium perenne. Y Xing U Frei B Schejbel T Asp T Lübberstedt, BMC Plant Biol 2007 7 43 17683574 10.1186/1471-2229-7-43
70. Candidate gene analysis of quantitative disease resistance in wheat. JD Faris WL Li DJ Liu PD Chen BS Gill, Theor Appl Genet 1999 98 219 225 10.1007/s001220051061
71. Genomic mapping of defense response genes in wheat. WL Li JD Faris JM Chittoor JE Leach SH Hulbert DJ Liu PD Chen BS Gill, Theor Appl Genet 1999 98 226 233 10.1007/s001220051062
72. Increased resistance to crown rust disease in transgenic Italian ryegrass (Lolium multiflorum Lam.) expressing the rice chitinase gene. W Takahashi M Fujimori Y Miura T Komatsu Y Nishizawa T Hibi T Takamizo, Plant Cell Reps 2004 23 811 818 10.1007/s00299-004-0900-1 (Pubitemid 40473781)
73. SNP discovery, validation, haplotype structure and linkage disequilibrium in full-length herbage nutritive quality genes of perennial ryegrass (Lolium perenne L.). RC Ponting MC Drayton NOI Cogan MP Dobrowolski KF Smith GC Spangenberg JW Forster, Mol Genet Genom 2007 278 585 597 10.1007/s00438-007- 0275-4
74. Development of genetically homogenised populations of the crown rust pathogen (Puccinia coronata f.sp. lolii) for disease trait dissection in perennial ryegrass (Lolium perenne L.). PM Dracatos MP Dobrowolski J Lamb R Olle AR Gendall NOI Cogan KF Smith JW Forster, Australasian Plant Path 2009 38 55 62 10.1071/AP08077
75. Linkage disequilibrium-based association mapping in forage species. MP Dobrowolski JW Forster, Association Mapping in Plants Springer, New York, USA, Oraguzie NC, Rikkerink E, Gardiner SE, De Silva NH, 2007 Chapter 9 97 209
76. Mapping of EST-derived CAPS markers in Italian ryegrass (Lolium multiflorum Lam.). Y Miura M Hirata M Fujimori, Plant Breed 2007 126 353 360 10.1111/j.1439-0523.2007.01386.x