Development of COS-SNP and HRM markers for high-throughput and reliable haplotype-based detection of Lr14a in durum wheat (Triticum durum Desf.)

Theoretical and Applied Genetics

Volumn 126, Issue 4, 2013, Pages 1077-1101

  Terracciano, Irma ^a   Maccaferri, Marco ^a   Bassi, Filippo ^a,b   Mantovani, Paola ^a,c   Sanguineti, Maria C ^a   Salvi, Silvio ^a   Šimková, Hana ^d   Doležel, Jaroslav ^d   Massi, Andrea ^c   Ammar, Karim ^e   Kolmer, James ^f   Tuberosa, Roberto ^a  

^a UNIVERSITY OF BOLOGNA   (Italy)

^b NORTH DAKOTA STATE UNIVERSITY   (United States)

^c Societa Produttori Sementi Bologna   (Italy)

^d INSTITUTE OF EXPERIMENTAL BOTANY   (Czech Republic)

^e INTERNATIONAL MAIZE AND WHEAT IMPROVEMENT CENTER CIMMYT   (Mexico)

^f AGRICULTURAL RESEARCH SERVICE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

DNA SEQUENCES; ELECTROPHORESIS; MELTING;

AGAROSE GEL ELECTROPHORESIS; HIGH RESOLUTION; HIGH THROUGHPUT; LEAF RUST RESISTANCE; PUCCINIA TRITICINA; SIMPLE SEQUENCE-REPEAT MARKERS; SINGLE NUCLEOTIDE POLYMORPHISMS; TRITICUM DURUMS;

GENES;

BRACHYPODIUM; PUCCINIA TRITICINA; TRITICUM TURGIDUM SUBSP. DURUM;

EID: 84875413064     PISSN: 00405752     EISSN: None     Source Type: Journal    
DOI: 10.1007/s00122-012-2038-9     Document Type: Article

References (122)

1. Aguilar-Rincón VH, Singh RP, Castillo GF, Huerta-Espino J (2001) Genes de resistencia a la roya de la hoja en un trigo sintético hexaploide. Rev Fitotec Mex 24: 161-169.
2. Akbari M, Wenzl P, Caig V, Carling J, Xia L, Yang S, Uszynski G, Mohler V, Lehmensiek A, Kuchel H, Hayden M, Howes N, Sharp P, Vaughan P, Rathmell B, Huttner E, Kilian A (2006) Diversity arrays technology (DArT) for high-throughput profiling of the hexaploid wheat genome. Theor Appl Genet 113: 1409-1420.
3. Allen AM, Barker GL, Berry ST, Coghill JA, Gwilliam R, Kirby S, Robinson P, Brenchley RC, D'Amore R, McKenzie N, Waite D, Hall A, Bevan M, Hall N, Edwards KJ (2011) Transcript-specific, single nucleotide polymorphism discovery and linkage analysis in hexaploid bread wheat (Triticum aestivum L.). Plant Biotechnol J 9: 1086-1099.
4. Amaro LAM, Mir SGL, Huerta Hespino J, Mir EV (2007) Genetics of leaf rust resistance (Puccinia triticina E.) in elite durum wheat lines. Rev Fitotec Mex 30: 33-38.
5. Autrique E, Singh R, Tanksley SD, Sorrells ME (1995) Molecular markers for four leaf rust genes introgressed into wheat from wild relatives. Genome 38: 75-83.
6. Azhaguvel JC, Yaqin R, Ming-Cheng M, Weng LY (2012) Fine genetic mapping of greenbug aphid-resistance gene Gb3 in Aegilops tauschii Perumal. Theor Appl Genet 124: 555-564.
7. Badaeva D, Dedkova OS, Gay G, Pukhalskyi VA, Zelenin AV, Bernard S, Bernard M (2007) Chromosomal rearrangements in wheat: their types and distribution. Genome 50: 907-926.
8. Barabino SML, Hubner W, Jenny A, Minvielle-Sebastia L, Keller W (1997) The 30-kD subunit of mammalian clevage and polyadenylation specificity factor and its yeast homolog are RNA-binding zinc finger proteins. Genes Dev 11: 1703-1716.
9. Bolot S, Abrouk M, Masood-Quraishi U, Stein N, Messing J, Feuillet C, Salse J (2009) The 'inner circle' of the cereal genomes. Curr Opin Plant Biol 12: 1-7.
10. Bossolini E, Wicker T, Knobel PA, 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: 704-717.
11. Botticella E, Sestili F, Hernandez-Lopez A, Phillips A, La Fiandra D (2011) High resolution melting analysis for the detection of EMS induced mutations in wheat SbeIIa genes. BMC Plant Biol 11: 156.
12. Bozkurt O, Hakki EE, Akkaya MS (2007) Isolation and sequence analysis of wheat NBS-LRR type disease resistance gene analogs using degenerate PCR primers. Biochem Genet 4: 469-486.
13. Browder LE (1972) Designation of two genes for resistance to Puccinia recondita in Triticum aestivum. Crop Sci 12: 705-706.
14. Burt C, Hollins TW, Nicholson P (2011) Identification of a QTL conferring seedling and adult plant resistance to eyespot on chromosome 5A of Cappelle Desprez. Theor Appl Genet 122: 119-128.
15. Byers RL, Harker DB, Yourstone SM, Maughan PJ, Udall JA (2012) Development and mapping of SNP assays in allotetraploid cotton. Theor Appl Genet 124: 1201-1214.
16. Ceoloni C, Biagetti M, Ciaffi M, Forte P, Pasquini M (1996) Wheat chr. engineering at the 4× level: the potential of different alien gene transfers into durum wheat. Euphytica 89: 87-97.
17. De Givry S, Bouchez M, Chabrier P, Milan D, Schiex T (2005) Carthagene: multi population integrated genetic and radiated hybrid mapping. Bioinformatics 21: 1703-1704.
18. De Vita P, Nicosia OLD, Nigro F, Platani C, Riefolo C, Di Fonzo N, Cattivelli L (2007) Breeding progress in morpho-physiological, agronomical and qualitative traits of durum wheat cultivars released in Italy during the 20th century. Eur J Agron 26: 39-53.
19. De Vita P, Mastrangelo AM, Matteu L, Mazzucotelli E, Virzi N, Palumbo M, Lo Storto M, Rizza F, Cattivelli L (2010) Genetic improvement effects on yield stability in durum wheat genotypes grown in Italy. Fields Crops Res 119: 68-77.
20. Ding J, Zhang W, Jung Z, Chen JQ, Tian D (2007) Unique pattern of R0 gene variation within populations in Arabidopsis. Mol Genet Genomics 277: 619-629.
21. Dolezel J, Kubalakova M, Paux E, Bartos J, Feuillet C (2007) Chromosome-based genomics in cereals. Chromosome Res 15: 51-66.
22. Dong C, Vincent K, Sharp S (2009) Simultaneous mutation detection of three homoeologous genes in wheat by high resolution melting analysis and mutation surveyor. BMC Plant Biol 9: 143.
23. Driscoll CJ, Anderson LM (1967) Cytogenetic studies of Transec-a wheat-rye translocation line. Can J Genet Cytol 9: 375-380.
24. Dubcovsky J, Lukaszewski AJ, Echaide M, Antonelli EF, Porter DR (1998) Molecular characterization of two Triticum speltoides interstitial translocations carrying leaf rust and greenbug resistance genes. Crop Sci 38: 1655-1660.
25. Dvorak J, Akhunov ED, Akhunov AR, Deal KR, Luo MC (2006) Molecular characterization of a diagnostic DNA marker for domesticated tetraploid wheat provides evidence for gene flow from wild tetraploid wheat to hexaploid wheat. Mol Biol Evol 23: 1386-1396.
26. Dyck PL (1994) The transfer of leaf rust resistance from Triticum turgidum ssp. dicoccoides to hexaploid wheat. Plant Sci 74: 671-673.
27. Dyck PL, Kerber ER (1971) Chromosome location of three genes for leaf rust resistance in common wheat. Can J Genet Cytol 13: 480-483.
28. Dyck PL, Kerber ER (1977) Inheritance of leaf rust resistance in wheat cultivars Rafaela and EAP 26127 and chromosome location of gene Lr17. Can J Genet Cytol 19: 355-358.
29. Elouafi I, Nachit MM (2004) A genetic linkage map of the Durum × Triticum dicoccoides backcross population based on SSR and AFLP markers, and QTL analysis for milling traits. Theor Appl Genet 108: 401-413.
30. Estoup A, Cornuet JM (1999) Microsatellite evolution: inferences from population data. In: Goldstein DB, Schlötterer C (eds) Microsatellites: evolution and applications. Oxford University Press, Oxford, pp 49-64.
31. Eversole K (2009) Advancements toward sequencing the bread wheat genome: an update of the projects of the International Wheat Genome Sequencing Consortium. Annu Wheat Newsl 55: 11-16.
32. Feuillet C, Keller B (2002) Comparative genomics in the grass family: molecular characterization of grass genome structure and evolution. Ann Bot Lond 89: 3-10.
33. Feuillet C, Langridge P, Waugh R (2008) Cereal breeding takes a walk on the wild side. Trends Genet 24: 24-32.
34. Goldstein DB, Linares AR, Cavalli-Sforza LL, Feldman MW (1995) An evaluation of genetic distances for use with microsatellite loci. Genetics 7: 463-471.
35. Goyeau H, Ammar K, Berder J (2010) Virulence in Puccinia triticina for durum wheat cultivar Creso and other durum wheat cultivars carrying resistance gene Lr14a in France. Plant Dis 94: 1068.
36. Gupta PK, Langridge P, Mir RR (2010) Marker-assisted wheat breeding: present status and future possibilities. Mol Breed 26: 145-161.
37. Haggag MEA, Dyck PL (1973) The inheritance of leaf rust resistance in four common wheat varieties possessing genes at or near the Lr3 locus. Can J Genet Cytol 15: 127-134.
38. Han Y, Kang Y, Torres-Jerez I, Cheung F, Town CD, Zhao PX, Udvardi MK, Monteros MJ (2011) Genome-wide SNP discovery in tetraploid alfalfa using 454 sequencing and high resolution melting analysis. BMC Genomics 12: 350.
39. He XY, He ZH, Ma W, Appels R, Xia XC (2009) Allelic variants of phytoene synthase 1 (Psy1) genes in Chinese and CIMMYT wheat cultivars and development of functional markers for flour colour. Mol Breed 23: 553-563.
40. Helguera M, Khan IA, Dubcovsky J (2000) Development of PCR markers for the wheat leaf rust resistance gene Lr47. Theor Appl Genet 100: 1137-1143.
41. Herrera-Foessel SA, Singh RP, Huerta-Espino J, Yuen J, Djurle A (2005) New genes for leaf rust resistance in CIMMYT durum wheats. Plant Dis 89: 809-814.
42. Herrera-Foessel SA, Singh RP, Huerta-Espino J, Crossa J, Yuen J, Djurle A (2006) Effect of leaf rust on grain yield and yield traits of durum wheats with race-specific and slow-rusting resistance to leaf rust. Plant Dis 90: 1065-1072.
43. Herrera-Foessel SA, Singh RP, Huerta-Espino J, Crossa J, Djurle A, Yuen J (2007a) Evaluation of slow rusting resistance components to leaf rust in CIMMYT durum wheats. Euphytica 155: 361-369.
44. Herrera-Foessel SA, Singh RP, Huerta-Espino J, William HM, Rosewarne G, Djurle A, Yuen J (2007b) Identification and mapping of Lr3 and a linked leaf rust resistance gene in durum wheat. Crop Sci 47: 1459-1466.
45. Herrera-Foessel SA, Djurle A, Yuen J, Singh RP, William HM, Garcia V, Huerta-Espino J (2008a) Identification and molecular characterization of leaf rust resistance gene Lr14a in durum wheat. Plant Dis 92: 469-473.
46. Herrera-Foessel SA, Singh RP, Huerta-Espino J, William HM, Djurle A, Yuen J (2008b) Molecular mapping of a leaf rust resistance gene on the short arm of chromosome 6B of durum wheat. Plant Dis 92: 1650-1654.
47. Herrera-Foessel SA, Singh RP, Huerta-Espino J, William HM, Djurle A, Yuen J (2008c) Genetic analysis of slow-rusting resistance to leaf rust in durum wheat. Crop Sci 48: 2132-2140.
48. Higgins JA, Bailey PC, Laurie DA (2010) Comparative genomics of flowering time pathways using Brachypodium distachyon as a model for the temperate grasses. PLoS ONE 5: e10065.
49. Huerta-Espino J, Roelfs AP (1989) Physiological specialization of leaf rust on durum wheat. Phytopathol 79: 1218.
50. Huerta-Espino J, Roelfs AP (1992) Leaf rust on durum wheat. Vortr Pflanzenzuchtg 24: 100-102.
51. Huerta-Espino R, Singh P, Germán S, McCallum BD, Park RF, Chen WQ, Bhardwaj SC, Goyeau H (2011) Global status of wheat leaf rust caused by Puccinia triticina. Euphytica 179: 143-160.
52. Jun TH, Kang ST (2012) Genetic map of lps3: a new short petiole gene in soybeans. Genome 55: 140-146.
53. Kassem M, El-Ahmed A, Hakim MS, Al-Saleh A, El-Khalifeh M, Nachit M (2011) Identifying leaf rust resistance gene Lr19 in durum wheat using simple sequence repeat (SSR) marker. Afr J Biotechnol 44: 8716-8719.
54. Keller B, Feuillet C, Yahiaoui N (2005) Map-based isolation of disease resistance genes from bread wheat: cloning in a supersize genome. Genet Res 85: 93-100.
55. Koebner RMD, Summers RW (2003) 21st century wheat breeding: plot selection or plate detection. Trends Biotechnol 21: 59-63.
56. Kump KL, Bradbury PJ, Wisser RJ, Buckler ES, Belcher AR, Oropeza-Rosas MA, Zwonitzer JC, Kresovich S, McMullen MD, Ware D, Balint-Kurti PJ, Holland JB (2011) Genome-wide association study of quantitative resistance to southern leaf blight in the maize nested association mapping population. Nat Genet 43: 163-168.
57. La H, Li J, Ji Z, Cheng Y, Li X, Jiang S, Venkatesh PN, Ramachandran S (2006) Genome-wide analysis of cyclin family in rice (Oryza sativa L.). Mol Gen Genomics 275: 374-386.
58. Lin S, Zhou Y, Chen G, Zhang Y, Zhang Y, Ning W, Pan D (2010) Molecular responses to the fungal pathogen Gibberella fujikuroi in the leaves of chewing cane (Saccharum officinarum L.). Sugar Technol 12: 36-46.
59. Liu S, Zhang X, Pumphrey MO, Stack RW, Gill BS, Anderson JA (2006) Complex microcollinearity 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.
60. Liu H, Wang X, Zhang H, Yang Y, Ge X, Song F (2008) A rice serine carboxypeptidase-like gene OsBISCPL1 is involved in regulation of defense responses against biotic and oxidative stress. Gene 420: 57-65.
61. Long DL, Kolmer JA (1989) A North American system of nomenclature for Puccinia recondita f. sp. tritici. Phytopathology 79: 525-529.
62. Maccaferri M, Sanguineti MC, Xie C, Smith JSC, Tuberosa R (2007) Relationships among durum wheat accessions. II. A comparison of molecular and pedigree information. Genome 50: 385-399.
63. Maccaferri M, Mantovani P, Tuberosa R, Deambrogio E, Giuliani S, Demontis A, Massi A, Sanguineti MC (2008) A major QTL for durable leaf rust resistance widely exploited in durum wheat breeding programs maps on the distal region of chromosome arm 7BL. Theor Appl Genet 117: 1225-1240.
64. Maccaferri M, Sanguineti MC, Mantovani P, Demontis A, Massi A, Ammar K, Kolmer JA, Czembor JH, Ezrati S, Tuberosa R (2010) Association mapping of leaf rust response in durum wheat. Mol Breed 26: 189-228.
65. Maccaferri M, Sanguineti MC, Demontis A, El-Ahmed A, del Moral LG, Maalouf F, Nachit M, Nserallah N, Ouabbou H, Rhouma S, Royo C, Villegas D, Tuberosa R (2011) Association mapping in durum wheat grown across a broad range of water regimes. J Exp Bot 62: 409-438.
66. Maleki L, Faris JD, Bowden RL, Gill BS, Fellers JP (2003) Physical and genetic mapping of wheat kinase analogs and NBS-LRR resistance gene analog. Crop Sci 43: 660-670.
67. Mantovani P, Maccaferri M, Sanguineti MC, Tuberosa R, Catizone I, Wenzl P, Thomson B, Carling J, Huttner E, De Ambrogio E, Kilian A (2008) An integrated DArT-SSR linkage map of durum wheat. Mol Breed 22: 629-648.
68. Mantovani P, Maccaferri M, Tuberosa R, Kolmer JA (2010) Virulence phenotypes and molecular genotypes in collections of Puccinia triticina from Italy. Plant Dis 94: 420-424.
69. Marone D, Del Olmo AI, Laido G, Sillero JC, Emeran AA, Russo MA, Ferragonio P, Giovanniello V, Mazzucotelli E, De Leonardis AM, De Vita P, Blanco A, Cattivelli L, Rubiales D, Mastrangelo AM (2009) Genetic analysis of durable resistance against leaf rust in durum wheat. Mol Breed 24: 25-39.
70. Martinez F, Rubiales D (2002) Resistance to leaf rust in the durum wheat Creso. Cer Rus Pow Mil Bull 2002/1130.
71. Martinez F, Sillero JC, Rubiales D (2007) Resistance to leaf rust in cultivars of bread wheat and durum wheat grown in Spain. Plant Breed 126: 13-18.
72. McFadden ES (1930) A successful transfer of emmer characters to vulgare wheat. J Am Soc Agron 22: 1020-1034.
73. McHale L, Tan X, Khoel P, Michelmore RW (2006) Plant NBS-LRR proteins: adaptable guards. Genome Biol 7: 212.
74. McIntosh RA, Dick PL (1975) Cytogenetical studies in wheat VII. Gene Lr23 for reaction to Puccinia recondita in Gabo and related cultivars. Aust J Biol Sci 28: 201-211.
75. McIntosh RA, Hart GE, Devos KM, Gale MD, Rogers WJ (1998) Catalog of gene symbols for wheat. In: Proceedings of the 9th International Wheat Genet Symp, Saskatoon, pp 1-235.
76. McIntosh RA, Devos KM, Dubcovsky J, Rogers WJ, Morris CF, Appels R, Somers DJ, Anderson OA (2011) Catalogue of gene symbols for wheat: 2011 supplement. In: 11th International Wheat Genetics Symposium, Brisbane, Australia.
77. McNeal FH, Konzak CF, Smith EP, Tate WS, Russell TS (1971) A uniform system for recording and processing cereal research data. USDA, Agricultural Research Service, Washington, DC, pp 34-121.
78. Meuwissen TH, Goddard ME (2001) Prediction of identity by descent probabilities from marker-haplotypes. Genet Sel Evol 33: 605-634.
79. Meuwissen TH, Hayes BJ, Goddard ME (2001) Prediction of total genetic value using genome-wide dense marker maps. Genetics 157: 1819-1829.
80. Mucha A, Wierzbicki H (2012) Linear models for breeding values prediction in haplotype-assisted selection-an analysis of QTL-MAS Workshop 2011 Data. BMC Proc 6: S11.
81. Mugford ST, Qi X, Bakht S, Hill L, Wegel E, Hughes R, Papadopoulou K, Melton R, Philo M, Sainsbury F, Lomonossoff GP, Roy AD, Goss RJM, Osbourn A (2009) A serine carboxypeptidase-like acyltransferase is required for synthesis of antimicrobial compounds and disease resistance in oats. Plant Cell 21: 2473-2484.
82. Nijman IJ, Kuipers S, Verheul M, Guryev V, Cuppen E (2008) A genome-wide SNP panel for mapping and association studies in the rat. BMC Genomics 9: 95.
83. Ordoñez ME, Kolmer JA (2007) Simple sequence repeat diversity of a worldwide collection of Puccinia triticina from durum wheat. Phytopathol 97: 574-583.
84. Orrù L, Catillo G, Napolitano F, De Matteis G, Scatà MC, Signorelli F, Moioli B (2009) Characterization of a SNPs panel for meat traceability in six cattle breeds. Food Control 20: 856-860.
85. Ouyang S, Zhu W, Hamilton J, Lin H, Campbell M, Childs K, Thibaud-Nissen F, Malek RL, Lee Y, Zheng L, Orvis J, Haas B, Wortman J, Buell CR (2007) The TIGR Rice Genome Annotation Resource: improvements and new features. Nucleic Acids Res 35: D883-D887.
86. Paux E, Sourdille P, Salse J, Saintenac C, Choulet F, Leroy P, Korol A, Michalak M, Kianian S, Spielmeyer W, Lagudah E, Somers D, Kilian A, Alaux M, Vautrin S, Bergès H, Eversole K, Appels R, Safar J, Simkova H, Dolezel J, Bernard M, Feuillet C (2008) A physical map of the 1-gigabase bread wheat chromosome 3B. Science 322: 101-104.
87. Paux E, Sourdille P, Mackay I, Feuillet C (2011) Sequence-based marker development in wheat: advances and applications to breeding. Biotechnol Adv. doi: 10. 1016/j. biotechadv. 2011. 09. 015.
88. Pollock DD, Bergman A, Feldman MW, Goldstein DB (1998) Microsatellite behavior with range constraints: parameter estimation and improved distances for use in phylogenetic reconstruction. Theor Popul Biol 53: 256-271.
89. Qin B, Cao A, Wang H, Chen T, You FM, Liu Y, Ji J, Liu D, Chen P, Wang XE (2011) Collinearity-based marker mining for the fine mapping of Pm6, a powdery mildew resistance gene in wheat. Theor Appl Genet 123: 207-218.
90. Qin H, Feng S, Chen C, Guo Y, Knapp S, Culbreath A, He G, Wang ML, Zhang X, Holbrook CC, Ozias-Akins P, Guo B (2012) An integrated genetic linkage map of cultivated peanut (Arachis hypogaea L.) constructed from two RIL populations. Theor Appl Genet 124: 653-664.
91. Quarrie SA, Steed A, Calestani C, Semikhodskii A, Lebreton C, Chinoy C, Steele N, Pljevljakusic D, Waterman E, Weyen J, Schondelmaier J, Habash DZ, Farmer P, Saker L, Clarkson DT, Abugalieva A, Yessimbekova M, Turuspekov Y, Abugalieva S, Tuberosa R, Sanguineti MC, Hollington PA, Aragués R, Royo A, Dodig D (2005) A high-density genetic map of hexaploid wheat (Triticum aestivum L.) from the cross Chinese Spring × SQ1 and its use to compare QTLs for grain yield across a range of environments. Theor Appl Genet 110: 865-880.
92. Quraishi UM, Abrouk M, Bolot S, Pont C, Throude M, Guilhot N, Confolent C, Bortolini F, Praud S, Murigneux A, Gilles C, Salse G (2009) Genomics in cereals: from genome-wide conserved orthologous set (COS) sequences to candidate genes for trait dissection. Funct Integr Genomics 9: 473-484.
93. Quraishi UM, Murat F, Abrouk M, Pont C, Confolent C, Oury FX, Ward J, Boros D, Gebruers K, Delcour JA, Courtin CM, Bedo Z, Saulnier L, Guillon F, Balzergue S, Shewry PR, Feuillet C, Charmet G, Salse J (2011) Combined meta-genomics analyses unravel candidate genes for the grain dietary fiber content in bread wheat (Triticum aestivum L.). Funct Integr Genomics 11: 71-83.
94. Saintenac C, Jiang D, Akhunov E (2011) Targeted analysis of nucleotide and copy number variation by exon capture in allotetraploid wheat genome. Genome Biol 12: 88.
95. Schnurbusch T, Collins NC, Eastwood RF, Sutton T, Jefferies SP, Langridge P (2007) Fine mapping and targeted SNP survey using rice-wheat gene colinearity in the region of the Bo1 boron toxicity tolerance locus of bread wheat. Theor Appl Genet 115: 451-461.
96. Schuelke M (2000) An economic method for the fluorescent labeling of PCR fragments. Nat Biotechnol 18: 233-234.
97. Shynbolat R, Aralbek R (2010) Evaluation of leaf rust resistance genes in durum wheat varieties in Kazakhstan. Asian Australas J Plant Sci Biotechnol 4: 77-80.
98. Šimková H, Svensson JT, Condamine P, Hřibová E, Suchánková P, Bhat PR, Bartoš J, Šafář J, Close TJ, Doležel J (2008) Coupling amplified DNA from flow-sorted chromosomes to high-density SNP mapping in barley. BMC Genomics 9: 294.
99. Singh R, Dhaliwal HS, Gill KS (1992) Diversity for leaf rust resistance in Triticum durum germplasm. Cer Rus Pow Mil Bull 20: 62-67.
100. Singh RP, Huerta-Espino J, Pfeiffer W, Figueroa-Lopez P (2004) Occurrence and impact of a new leaf rust race on durum wheat in Northwestern Mexico from 2001 to 2003. Plant Dis 88: 703-708.
101. Singh B, Bansal UK, Forrest KL, Hayden MJ, Hare RA, Bariana HS (2010) Inheritance and chromosome location of leaf rust resistance in durum wheat cultivar Wollaroi 175: 351-355.
102. Sobrino B, Brióna M, Carracedoa A (2005) SNPs in forensic genetics: a review on SNP typing methodologies. Forensic Sci Int 154: 181-194.
103. Somers DJ, Isaac P, Edwards K (2004) A high-density wheat microsatellite consensus map of bread wheat (Triticum aestivum L.). Theor Appl Genet 109: 1105-1114.
104. Somyong S, Munkvold JD, Tanaka J, Benscher D, Sorrells ME (2011) Comparative genetic analysis of wheat seed dormancy QTL with rice and Brachypodium identifies candidate genes for ABA perception and calcium signaling. Funct Integr Genomics 11: 479-490.
105. Sorrells ME, La Rota M, Bermudez-Kandianis CE, Greene RA, Kantety R, Munkvold JD, Miftahudin Mahmoud A, Ma X, Gustafson PJ, Qi LL, Echalier B, Gill BS, Matthews DE, Lazo GR, Chao S, Anderson OD, Edwards H, Linkiewicz AM, Dubcovsky J, Akhunov ED, Dvorak J, Zhang D, Nguyen HT, Peng J, Lapitan NL, Gonzalez-Hernandez JL, Anderson JA, Hossain K, Kalavacharla V, Kianian SF, Choi DW, Close TJ, Dilbirligi M, Gill KS, Steber C, Walker-Simmons MK, McGuire PE, Qualset CO (2003) Comparative DNA sequence analysis of wheat and rice genomes. Genome Res 13: 1818-1827.
106. Spielmeyer W, Huang L, Bariana H, Laroche A, Gill BS, Lugudah ES (2000) NBS-LRR sequence family is associated with leaf and stripe rust resistance on the end of homoeologous chromosome group 1S of wheat. Theor Appl Genet 101: 1139-1144.
107. Temel A, Senturk-Afirat F, Ertugrul A, Yumurtaci A, Aydin Y, Talas-Ogras T, Gozukirmizi N, Bolat N, Yorgancilar O, Belen S, Yildirim M, Cakmak M, Ozdemir E, Cetin L, Mert Z, Sipahi H, Albustan S, Akan K, Dusunceli F, Uncuoglu AA (2008) Yr10 gene polymorphism in bread wheat varieties. African J Biotechnol 7: 2328-2332.
108. Terwilliger J (1995) A powerfull likelihood method for the analysis of linkage disequilibrium between trait loci and one or more polymorphic marker loci. Am J Hum Genet 56: 777-787.
109. The International Brachypodium Initiative (IBI) (2010) Genome sequencing and analysis of the model grass Brachypodium distachyon. Nature 463: 763-768.
110. Varshney RK, Tuberosa R (2007) Genomics-assisted crop improvement: an overview. In: Varshney RK, Tuberosa R (eds) Genomics assisted crop improvement, vol 1., Genomics approaches and platformsSpringer, Dordrecht, pp 1-12.
111. Vietmeyer N (2011) Our daily bread; the essential Norman Borlaug. Bracing Books, Lorton.
112. Vorrips RE (2002) MapChart: software for the graphical presentation of linkage maps and QTLs. J Hered 93: 77-78.
113. Wallace RB, Shaffer J, Murphy RF, Bonner J, Hirose T, Itakura K (1979) Hybridization of synthetic oligodeoxyribonucleotides to Phi-X 174 DNA: the effect of single base pair mismatch. Nucleic Acids Res 6: 3543-3558.
114. Weng J, Liu X, Wang Z, Wang J, Zhang L, Hao Z, Xie C, Li M, Zhang D, Bai L, Liu C, Zhang S, Li X (2012) Molecular mapping of the major resistance quantitative trait locus qHS2. 09 with simple sequence repeat and single nucleotide polymorphism markers in maize. Genet Resist 102: 692-699.
115. Wicker T, Yahiaoui N, Keller B (2007) Contrasting rates of evolution in Pm3 loci from three wheat species and rice. Genet 177: 1207-1216.
116. Winfield MO, Wilkinson PA, Allen AM, Barker GL, Coghill JA, Burridge A, Hall A, Brenchley RC, D'Amore R, Hall N, Bevan MW, Richmond T, Gerhardt DJ, Jeddeloh JA, Edwards KJ (2012) Targeted re-sequencing of the allohexaploid wheat exome. Plant Biotechnol J 10: 733-742.
117. Xue S, Zhang Z, Lin F, Kong Z, Cao Y, Li C, Yi H, Mei M, Zhu H, Wu J, Xu H, Zhao D, Tian D, Zhang C, Ma Z (2008) A high-density intervarietal map of the wheat genome enriched with markers derived from expressed sequence tags. Theor Appl Genet 117: 181-189.
118. Xue F, Wang C, Li C, Duan X, Zhou Y, Zhao N, Wang Y, Ji W (2012) Molecular mapping of a powdery mildew resistance gene in common wheat landrace Baihulu and its allelism with Pm24. Theor Appl Genet. doi: 10. 1007/s00122-012-1923-1926.
119. You FM, Huo N, Gu YQ, Lazo GR, Dvorak J, Anderson OD (2009) ConservedPrimers 2. 0: a high-throughput pipeline for comparative genome referenced intron-flanking PCR primer design and its application in wheat SNP discovery. BMC Bioinf 10: 331.
120. Zhang W, Dubcovsky J (2011) Association between allelic variation at the Phytoene synthase 1 gene and yellow pigment content in the wheat grain. Theor Appl Genet 116: 635-645.
121. Zhang W, Chao S, Manthey F, Chicaiza O, Brevis JC, Echenique V, Dubcovsky J (2008) QTL analysis of pasta quality using a composite microsatellite and SNP map of durum wheat. Theor Appl Genet 117: 1361-1377.
122. Zhang H, Guan H, Li J, Zhu J, Xie C, Zhou Y, Duan X, Yang T, Sun Q, Liu Z (2010) Genetic and comparative genomics mapping reveals that a powdery mildew resistance gene Ml3D232 originating from wild emmer co-segregates with an NBS-LRR analog in common wheat (Triticum aestivum L.). Theor Appl Genet 121: 1613-1621.