Molecular markers, genomics, and genetic engineering in wheat

Genetic Resources, Chromosome Engineering, and Crop Improvement

Volumn 2, Issue , 2006, Pages 99-114

  Lapitan, Nora ^a   Jauhar, Prem P ^b  

^a Veterinary Dentistry and Oral Surgery   (United States)

^b AGRICULTURAL RESEARCH SERVICE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 33749514917     PISSN: None     EISSN: None     Source Type: Book    
DOI: 10.1201/9780203489260     Document Type: Chapter

References (112)

1. Abebe, T., Guenzi, A.C., Martin, B., et al. 2003. Tolerance of mannitol-accumulating transgenic wheat to water stress and salinity. Plant Physiol. 131: 1748–1755.
2. Ahn, S., Anderson, J.A., Sorrells, M.E., et al. 1993. Homoeologous relationships of rice, wheat and maize chromosomes. Mol. Gen. Genet. 241: 483.
3. Akhunov, E.D., Akhunova, A.R., Linkiewicz, A.M., et al. 2003a. Synteny perturbations between wheat homoeologous chromosomes caused by locus duplications and deletions correlate with recombination rates. Proc. Natl. Acad. Sci. U.S.A. 100: 10836–10841.
4. Akhunov, E.D., Goodyear, A.W., Geng, S., et al. 2003b. The organization and rate of evolution of wheat genomes are correlated with recombination rates along chromosome arms. Genome Res. 13: 753–763.
5. Altpeter, F., Diaz, I., McAuslane, H., et al. 1999. Increased insect resistance in transgenic wheat stably expressing trypsin inhibitor CME. Mol. Breed. 5: 53–63.
6. Altpeter, F., Vasil, V., Srivastava, V., et al. 1996. Expression of a novel high-molecular-weight glutenin subunit 1Ax1 gene into wheat. Nat. Biotechnol. 14: 1155–1159.
7. Anand, A., Zhou, T., Trick, H.N., et al. 2003. Greenhouse and field testing of transgenic wheat plants stably expressing genes for thaumatin-like protein, chitinase and glucanase against Fusarium graminearum. J. Exp. Bot. 54: 1101–1111.
8. Anderson, G.A., Papa, D., Peng, J.H., et al. 2003. Genetic mapping of Dn7, a rye gene conferring resistance to the Russian wheat aphid in wheat. Theor. Appl. Genet. 107: 1297–1303.
9. Anderson, J.A. 1998. Marker-assisted selection of disease resistance genes in wheat. In Application of Biotechnologies to Wheat Breeding, M.M. Kohli and M. Francis, Eds. CIMMYT, La Esuanzuela, Uruguay, pp. 71–84.
10. The Arabidopsis Genome Sequencing Initiative. 2000. Analysis of the genome sequence of the flowering plant Arabidopsis thaliana. Nature 408: 796–815.
11. Becker, D., Brettschneider, R., and Lorz, H. 1994. Fertile transgenic wheat from microprojectile bombardment of scutellar tissue. Plant. J. 5: 299–307.
12. Blattner, F.R., Plunkett, G., Bloch, C.A., et al. 1997. The complete genome sequence of Escherichia coli K- 12. Science 277: 1453–1462.
13. Blechl, A.E. and Anderson, O.D. 1996. Expression of a novel high-molecular-weight glutenin subunit gene in transgenic wheat. Nat. Biotechnol. 14: 875–879.
14. Bliffeld, M., Mundy, J., Potrykus, I., et al. 1999. Genetic engineering of wheat for increased resistance to powdery mildew disease. Theor. Appl. Genet. 98: 1079–1086.
15. Bommineni, V.R. and Jauhar, P.P. 1996. Regeneration of plantlets through isolated scutellum culture of durum wheat. Plant Sci. 116: 197–203.
16. Bommineni, V.R., Jauhar, P.P., and Peterson, T.S. 1997. Transgenic durum wheat by microprojectile bombardment of isolated scutella. J. Hered. 88: 475–481.
17. Borlaug, N.E. 1998. Feeding a world of 10 billion people: the miracle ahead. Plant Tiss. Cult. Biotechnol. 3: 119–127.
18. Borner, A., Schumann, E., Furste, A., et al. 2002. Mapping of quantitative trait loci determining agronomically important characters in hexaploid wheat (Triticum aestivum L.). Theor. Appl. Genet. 105: 921–936.
19. Boyko, E.V., Gill, K.S., Mickelson-Young, L., et al. 1999. A high-density genetic linkage map of Aegilops tauschii, the D-genome progenitor of bread wheat. Theor. Appl. Genet. 99: 16–26.
20. Bryan, G.J., Collins, A.J., Stephenson, P., Orry, A., Smith, J.B., and Gale, M.D. 1997. Isolation and characterisation of microsatellites from hexaploid bread wheat. Theor. Appl. Genet. 94: 557–563.
21. The Caenorhabitis elegans Consortium. 1998. Genome sequence of the nematode C. elegans: a platform for investigating biology. Science 282: 2012–2018.
22. Cenci, A., Chantret, N., Kong, X., et al. 2003. Construction and characterization of a half million BAC library of durum wheat (Triticum turgidum ssp. durum). Theor. Appl. Genet. 107: 931–939.
23. Chen, W.P., Chen, P.D., Liu, D.J., et al. 1999. Development of wheat scab symptoms is delayed in transgenic wheat plants that constitutively express a rice thaumatin-like protein gene. Theor. Appl. Genet. 99: 755–760.
24. Cheng, M., Fry, J.E., Pang, S., Zhou, H., Hironaka, C.M., Duncan, D.R., Conner, T.W., and Wan, Y. 1997. Genetic transformation of wheat mediated by Agrobacterium tumefaciens. Plant Physiol. 115: 971–980.
25. Cloutier, S., Beimcik, E., Gusdal, D., et al. 2002. A Canadian wheat EST initiative. In Plant and Animal Genome X. Scherago International, San Diego, p. 90.
26. Dahleen, L.S., Okubara, P.A., and Blechl, A.E. 2001. Transgenic approaches to combat Fusarium head blight in wheat and barley. Crop. Sci. 41: 628–637.
27. Delaney, D.E., Nasuda, S., Endo, T.R., et al. 1995. Cytologically based physical maps of the group-2 chromosomes of wheat. Theor. Appl. Genet. 91: 568–573.
28. Distelfeld, A., Uauy, C., Olmos, S., et al. 2004. Microcolinearity between a 2-cM region encompassing the grain protein content locus Gpc-6B1 on wheat chromosome 6B and a 350-kb region on rice chromosome 2. Funct. Integr. Genomics 4: 59–66.
29. Dubcovsky, J. 2002. A Critical Look at Genomics: Will It Really Be Useful to Crop Breeding? Crop Science Society of America, USDA/CSREES, CSSA Div. C-1, Div. C-7, Indianapolis, Indiana.
30. Dubcovsky, J., Tranquilli, G., Lijavetzky, D., et al. 1998. Advances in molecular markers for bread making quality. In Application of Biotechnologies to Wheat Breeding, M.M. Kohli and M. Francis, Eds. CIMMYT, La Esuanzuela, Uruguay, pp. 57–70.
31. Dvořák, J. 1998. Genome analysis in the Triticum-Aegilops alliance. In The 9th International Wheat Genetics Symposium, University of Saskatchewan, Saskatoon, Canada, pp. 8–11.
32. Dweikat, I., Zhang, W., and Ohm, H. 2002. Development of STS markers linked to Hessian fly resistance gene H6 in wheat. Theor. Appl. Genet. 105: 766–770.
33. Eagles, H.A., Bariana, H.S., Ogbonnaya, F.C., et al. 2001. Implementation of markers in Australian wheat breeding. Austr. J. Agric. Res. 52: 1349–1356.
34. FAO 2001. FAOSTAT agricultural database. Food and Agriculture Organization of the United Nations (FAO). Available at http://fao.org/.
35. Faris, J.D., Fellers, J.P., Brooks, S.A., et al. 2003. A bacterial artificial chromosome contig spanning the major domestication locus Q in wheat and identification of a candidate gene. Genetics 164: 311–321.
36. Feuillet, C., Travella, S., Stein, N., et al. 2003. Map-based isolation of the leaf rust disease resistance gene Lr10 from the hexaploid wheat (Triticum aestivum L.) genome. Proc. Natl. Acad. Sci. U.S.A. 100: 15253–15258.
37. Gale, M.D. and Devos, K.M. 1998. Plant comparative genetics after 10 years. Science 282: 656–659.
38. Garg, A.K., Kim, J.K., Owens, T.G., et al. 2002. Trehalose accumulation in rice plants confers high tolerance levels to different abiotic stresses. Proc. Natl. Acad. Sci. U.S.A. 99: 15898–15903.
39. Gaut, B.S. 2002. Evolutionary dynamics of grass genomes. New Phytol. 154: 15–28.
40. Gelvin, S.B. 2003. Agrobacteroium-mediated plant transformation: the biology behind the “gene-jockeying” tool. Microbiol. Mol. Biol. Rev. 67: 16–37.
41. Gill, K.S., Lubbers, E.L., Gill, B.S., et al. 1991. A genetic linkage map of Triticum tauschii (DD) and its relationship to the D genome of bread wheat (AABBDD). Genome 34: 362–374.
42. Goff, S.A., Ricke, D., Lan, T.-H., et al. 2002. A draft sequence of the rice genome (Oryza sativa L. ssp. japonica). Science 296: 92–100.
43. Gupta, P.K., Varshney, R.K., Sharma, P.C., et al. 1999. Molecular markers and their applications in wheat breeding. Plant Breed. 118: 369–390.
44. Harker, N., Rampling, L.R., Shariflou, M.R., et al. 2001. Microsatellites as markers for Australian wheat improvement. Austr. J. Agric. Res. 52: 1121–1130.
45. Harris, T. 2000. Genetics, genomics, and drug discovery. Med. Res. Rev. 20: 203–211.
46. He, G.Y., Rooke, L., Steele, S., et al. 1999. Transformation of pasta wheat (Triticum turgidum L. var. durum) with high-molecular-weight glutenin subunit genes and modification of dough functionality. Mol. Breed. 5: 377–386.
47. Hu, T., Metz, S., Chay, C., Zhou, H.P., Biest, N., Chen, G., Cheng, M., Feng, X., Radipnenko, M., Lu, F., and Fry, J. 2003. Agrobacterium-mediated large-scale transformation of wheat (Triticum aestivum L.) using glyphosate selection. Plant Cell Rep. 21: 1010–1019.
48. Hu, J. and Vick, B. 2003. Target region amplification polymorphism: a novel marker technique for plant genotyping. Plant Mol. Bio. Rep. 21: 289–294.
49. Huang, L., Brooks, S.A., Li, W., et al. 2003. Map-based cloning of leaf rust resistance gene Lr21 from the large and polyploid genome of bread wheat. Genetics 164: 655–664.
50. Huang, S., Sirikhachornkit, A., Su, X., et al. 2002. Genes encoding plastid acetyl-CoA-carboxylase and 3- phosphoglycerate kinase of the Triticum/Aegilops complex and the evolutionary history of polyploid wheat. Proc. Natl. Acad. Sci. U.S.A. 99: 8133–8138.
51. Janakiraman, V., Steinau, M., McCoy, S.B., et al. 2002. Recent advances in wheat transformation. In Vitro Cell. Dev. Biol. Plant 38: 404–414.
52. Janda, J., Bartos, J., Safar, J., et al. 2004. Construction of a subgenomic BAC library specific for chromosomes 1D, 4D, and 6D of hexaploid wheat. Theor. Appl. Genet., 109: 1337–1345.
53. Jauhar, P.P. 2003a. Formation of 2n gametes in durum wheat haploids: sexual polyploidization. Euphytica 133: 81–94.
54. Jauhar, P.P. 2003b. Genetics of crop improvement: chromosome engineering. In Encyclopedia of Applied Plant Sciences, B. Thomas, D.J. Murphy, and B. Murray, Eds. Academic Press, London, U.K. pp. 167–179.
55. Jauhar, P.P. and Chibbar, R.N. 1999. Chromosome-mediated and direct gene transfers in wheat. Genome 42: 570–583.
56. Jauhar, P.P. and Khush, G.S. 2002. Importance of biotechnology in global food security. In Food Security and Environment Quality: A Global Perspective, R. Lal, D.O. Hansen, N. Uphoff, and S. Slack, Eds. CRC Press, Boca Raton, FL, pp. 107–128.
57. Jauhar, P.P. and Peterson, T.S. 2000. Progress in producing scab-resistant germplasm of durum wheat. In Proceedings of the International Symposium on Wheat Improvement for Scab Resistance, Suzhou and Nanjing, China, pp. 77–81.
58. Jauhar, P.P. and Peterson, T.S. 2001. Hybrids between durum wheat and Thinopyrum junceiforme: prospects for breeding for scab resistance. Euphytica 118: 127–136.
59. Jauhar, P.P., Riera-Lizarazu, O., Dewey, W.G., et al. 1991. Chromosome pairing relationships among the A, B, and D genomes of bread wheat. Theor. Appl. Genet. 82: 441–449.
60. Kantety, R.V., La Rota, M., Matthews, D.E., and Sorrells, M. 2002. Data mining for simple sequence repeats in expressed sequence tags from barley, maize, rice, sorghum and wheat. Plant Mol. Biol. 48: 501–510.
61. Kornberg, T.B. and Krasnow, M.A. 2000. The Drosophila genome sequence: implications for biology and medicine. Science 287: 2218–2220.
62. Lagudah, E.S., Moullet, O., and Appels, R. 1997. Map-based cloning of a gene sequence encoding a nucleotidebinding domain and a leucine-rich region at the Cre3 nematode resistance locus of wheat. Genome 40: 659–665.
63. Lazo, G.R., Chao, S., Hummel, D., et al. 2004. Development of an expressed sequence tag (EST) resource for wheat (Triticum aestivum L.): EST generation, unigene analysis, probe selection, and bioinformatics for a 16,000-locus bin-delineated map. Genetics, 168: 585–593.
64. Li, C., Ni, P., Francki, M., et al. 2004. Genes controlling seed dormancy and pre-harvest sprouting in a ricewheat- barley comparison. Funct. Integr. Genomics 4: 84–93.
65. Li, W.L. and Gill, B.S. 2002. The colinearity of the Sh2/A1 orthologous region in rice, sorghum, and maize is interrupted and accompanied by genome expansion in the Triticeae. Genetics 160: 1153–1162.
66. Lijavetzky, D., Muzzi, G., Wicker, T., et al. 1999. Construction and characterization of a bacterial artificial chromosome (BAC) library for the A genome of wheat. Genome 42: 1176–1182.
67. Ling, H.Q., Zhu, Y., and Keller, B. 2003. High-resolution mapping of the leaf rust disease resistance gene Lr1 in wheat and characterization of BAC clones from the Lr1 locus. Theor. Appl. Genet. 106: 875–882.
68. Liu, S. and Anderson, J.A. 2003. Targeted molecular mapping of a major wheat QTL for Fusarium head blight resistance using wheat ESTs and synteny with rice. Genome 46: 817–823.
69. Lukowitz, W., Gillmor, C.S., and Scheible, W.R. 2000. Positional cloning in Arabidopsis. Why it feels good to have a genome initiative working for you. Plant Physiol. 123: 795–805.
70. Ma, Z., Weining, S., Sharp, P.J., et al. 2000. Non-gridded library: a new approach for BAC (bacterial artificial chromosome) exploitation in hexaploid wheat (Triticum aestivum). Nucleic Acids Res. 28: E106.
71. Ma, Z.Q., Saidi, A., Quick, J.S., et al. 1998. Genetic mapping of Russian wheat aphid resistance genes Dn2 and Dn4 in wheat. Genome 41: 303–306.
72. Mochida, K., Yamazaki, Y., and Ogihara, Y. 2003. Discrimination of homoeologous gene expression in the hexaploid wheat by SNPs analysis of contigs grouped from a large number of expressed sequence tags. Mol. Genet. Genomics 270: 371–377.
73. Moullet, O., Zhang, H.-B., and Lagudah, E.S. 1999. Construction and characterization of a large DNA insert library from the D genome of wheat. Theor. Appl. Genet. 99: 303–313.
74. Nagaoka, T. and Ogihara, Y. 1997. Applicability of inter-simple sequence repeat polymorphisms in wheat for use as DNA markers in comparison to RFLP and RAPD markers. Theor. Appl. Genet. 94: 597–602.
75. Nehra, N., Chibbar, R., Leung, N., et al. 1994. Self-fertile transgenic wheat plants regenerated from isolated scutellar tissues following microprojectile bombardment with two distinct gene constructs. Plant J. 5: 285–297.
76. Nelson, J.C., Sorrells, M.E., Van Deynze, A.E., et al. 1995. Molecular mapping of wheat: major genes and rearrangements in homoeologous groups 4, 5, and 7. Genetics 141: 721–731.
77. Nicot, N., Chiquet, V., Gandon, B., et al. 2004. Study of simple sequence repeat (SSR) markers from wheat expressed sequence tags (ESTs). Theor. Appl. Genet. 109: 800–805.
78. Nilmalgoda, S.D., Cloutier, S., and Walichnowski, A.Z. 2003. Construction and characterization of a bacterial artificial chromosome (BAC) library of hexaploid wheat (Triticum aestivum L.) and validation of genome coverage using locus-specific primers. Genome 46: 870–878.
79. Pellegrineschi, A., Brito, R.M., Velazquez, L., et al. 2002. The effect of pretreatment with mild heat and drought stresses on the explant and biolistic transformation frequency of three durum wheat cultivars. Plant Cell. Rep. 20: 955–960.
80. Peng, J., Korol, A.B., Fahima, T., et al. 2000. Molecular genetic maps in wild emmer wheat, Triticum dicoccoides: genome-wide coverage, massive negative interference, and putative quasi-linkage. Genome Res. 10: 1509–1531.
81. Peng, J. and Lapitan, N.L.V. 2005. Characterization of EST-derived microsatellites in the wheat genome and development of eSSR markers. Funct. Integr. Genomics, 5: 80–96.
82. Peng, J., Ronin, Y., Fahima, T., et al. 2003. Domestication quantitative trait loci in Triticum dicoccoides, the progenitor of wheat. Proc. Natl. Acad. Sci. U.S.A. 100: 2489–2494.
83. Pingali, P.L. and Rajaram, S. 1999. Global wheat research in a changing world: options for sustaining growth in wheat productivity. In Global Wheat Research in a Changing World: Challenges and Achievements, Pingali, P.L., Ed. CIMMYT, Mexico, pp. 1–18.
84. Qi, L., Echalier, B., Chao, S., et al. 2004. A chromosome bin map of 16,000 expressed sequence tag loci and distribution of genes among the three genomes of polyploid wheat. Genetics 168: 701–712.
85. Repellin, A., Båga, M., Jauhar, P.P., et al. 2001. Genetic enrichment of cereal crops via alien gene transfer: new challenges. Plant Cell. Tiss. Org. Cult. 64: 159–183.
86. Roder, M.S., Korzun, V., Wendehake, K., et al. 1998. A microsatellite map of wheat. Genetics 149: 2007–2023.
87. Safar, J., Bartos, J., Janda, J., et al. 2004. Dissecting large and complex genomes: flow sorting and BAC cloning of individual chromosomes from bread wheat. Plant J. 2004: 960–968.
88. Sandhu, D., Champoux, J.A., Bondareva, S.N., et al. 2001. Identification and physical localization of useful genes and markers to a major gene-rich region on wheat group 1S chromosomes. Genetics 157: 1735–1747.
89. Shewry, P.R., Halford, N.G., and Tatham, A.S. 1989. The high molecular weight subunits of wheat, barley and rye: genetics, molecular biology, chemistry and role in wheat gluten structure and functionality. In Oxford Surveys of Plant Molecular and Cell Biology, B.J. Miflin, Ed. Oxford University Press, Oxford, pp. 163–219.
90. Shewry, P.R., Tantham, A.S., Barro, F., et al. 1995. Biotechnology of breadmaking: unraveling and manipulating the multi-protein gluten complex. Biotechnology 13: 1185–1190.
91. Söderman, E.M., Brocard, I.M., Lynch, T.J., et al. 2000. Regulation and function of the Arabidopsis ABAinsensitive4 gene in seed and abscisic acid response signaling networks. Plant Physiol. 124: 1752–1765.
92. Somers, D.J., Isaac, P., and Edwards, K. 2004. A high-density microsatellite consensus map for bread wheat (Triticum aestivum L.). Theor. Appl. Genet. 109: 1105–1114.
93. Somers, D.J., Kirkpatrick, K.R., Moniwa, M., et al. 2003. Mining single-nucleotide polymorphisms from hexaploid wheat ESTs. Genome 46: 431–437.
94. Sorrells, M.E., La Rota, M., Bermudez-Kandianis, C.E., et al. 2003. Comparative DNA sequence analysis of wheat and rice genomes. Genome Res. 13: 1818–1827.
95. Stein, N., Feuillet, C., Wicker, T., et al. 2000. Subgenome chromosome walking in wheat: a 450-kb physical contig in Triticum monococcum L. spans the Lr10 resistance locus in hexaploid wheat (Triticum aestivum L.). Proc. Natl. Acad. Sci. U.S.A. 97: 13436–13441.
96. Steiner, B., Lemmens, M., Griesser, M., et al. 2004. Molecular mapping of resistance to Fusarium head blight in the spring wheat cultivar Frontana. Theor. Appl. Genet. 109: 215–224.
97. Tanksley, S.D. 1983. Molecular markers in plant breeding. Plant Mol. Biol. Rep. 1: 3–8.
98. The Human Genome Sequencing Consortium. 2001. Initial sequencing and analysis of the human genome. Nature 409: 860–921.
99. Trethowan, R.M., Crossa, J., van Ginkel, M., et al. 2001. Relationships among bread wheat international yield testing locations in dry areas. Crop Sci. 41: 1461–1469.
100. Useche, F.J., Gao, G., Hanafrey, M., et al. 2001. High-throughput identification, database storage and analysis of SNPs in EST sequences. Genome Informatics 12: 194–203.
101. Vasil, I.K. and Anderson, O.D. 1997. Genetic engineering of wheat gluten. Trends Plant Sci. 2: 292–297.
102. Vasil, V., Castillo, A.M., Fromm, M.E., et al. 1992. Herbicide resistant fertile transgenic wheat plants obtained by microprojectile bombardment of regenerable embryogenic callus. Bio/Technology 10: 667–674.
103. Venter, J.C., Adams, M.D., Myers, E.W., et al. 2001. The sequence of the human genome. Science 291: 1304–1351.
104. Weeks, J.T., Anderson, O.D., and Blechl, A.E. 1993. Rapid production of multiple independent lines of fertile transgenic wheat (Triticum aestivum). Plant Physiol. 102: 1077–1084.
105. Xu, S.S., Hu, J., and Faris, J.D. 2003. Molecular characterization of the Langdon durum-Triticum dicoccoides chromosome substitution lines using TRAP (target region amplification polymorphism) markers. In 10th International Wheat Genetics Symposium, Paestum, Italy, pp. 91–94.
106. Yahiaoui, N., Srichumpa, P., Dudler, R., et al. 2004. Genome analysis at different ploidy levels allows cloning of the powdery mildew resistance gene Pm3b from hexaploid wheat. Plant J. 37: 528–538.
107. Yan, L., Loukoianov, A., Blechl, A., et al. 2004. The wheat Vrn2 gene is a flowering repressor down-regulated by vernalization. Science 303: 1607–1644.
108. Yan, L., Loukoianov, A., Tranquilli, G., et al. 2003. Positional cloning of the wheat vernalization gene Vrn1. Proc. Natl. Acad. Sci. U.S.A. 100: 6263–6268.
109. Yu, J., Hu, S., Wang, J., et al. 2002. A draft sequence of the rice genome (Oryza sativa L. ssp. indica). Science 296: 79–92.
110. Yu, J.K., La Rota, M., Kantety, R.V., et al. 2004. EST derived SSR markers for comparative mapping in wheat and rice. Mol. Genet. Genomics 271: 742–751.
111. Zhang, D., Choi, D.W., Wanamaker, S., et al. 2004. Construction and evaluation of cDNA libraries for largescale EST sequencing in wheat (Triticum aestivum L.). Genetics, 168: 595–608.
112. Zhu, L.C., Smith, C.M., Fritz, A., et al. 2004. Genetic analysis and molecular mapping of a wheat gene conferring tolerance to the greenbug (Schizapis graminum Rondani). Theor. Appl. Genet. 109: 289–293.