Molecular markers: Implementation in crop plant breeding for identification, introgression and gene pyramiding

Russian Journal of Genetics: Applied Research

Volumn 3, Issue 6, 2013, Pages 464-473

  Leonova, I N ^a  

^a INSTITUTE OF CYTOLOGY AND GENETICS   (Russian Federation)

Author keywords

marker assisted selection; molecular markers; validation

Indexed keywords

ARTICLE; CROP PRODUCTION; CULTIVAR; DNA MARKER; GENOMIC FRAGMENT; GENOMICS; GERMPLASM; INTROGRESSION; MOLECULAR GENETICS; PLANT BREEDING; PLANT GENETICS; PRIORITY JOURNAL; QUANTITATIVE TRAIT LOCUS;

EID: 84891141558     PISSN: 20790597     EISSN: 20790600     Source Type: Journal    
DOI: 10.1134/S2079059713060051     Document Type: Article

References (70)

1. Basu, S. K., Datta, M., Sharma, M., and Kumar, A., Haploid production technology in wheat and some selected higher plants, Austr. J. Crop Sci., 2011, vol. 5, pp. 1087-1093.
2. van den Berg, J. H., Chasalow, S. D., and Waugh, R., RFLP mapping of plant nuclear genomes: planning of experiments, linkage map construction, and QTL mapping, in Plant Molecular Biology-a Laboratory Manual, Berlin: Springer-Verlag, 1997, pp. 334-396.
3. Bespalova, L. A., Vasilyev, A. V., Ablova, I. B., et al., The use of molecular markers in wheat breeding at the Lukyanenko Agricultural Research Institute, Russ. J. Genet.: Appl. Res., 2012, vol. 2, no. 4, pp. 286-290.
4. Blaszczyk, L., Chelkowski, J., Korzun, V., et al., Verification of STS markers for leaf rust resistance genes of wheat by seven European laboratories, Cell Mol. Biol. Lett., 2004, vol. 9, pp. 805-817.
5. Blaszczyk, L., Kramer, I., Ordon, I., et al., Validity of selected DNA markers for breeding leaf rust resistant wheat, Cereal Res. Commun., 2008, vol. 36, pp. 201-213.
6. Brennan, J. P. and Martin, P. J., Returns to investment in new breeding technologies, Euphytica, 2007, vol. 157, pp. 337-349.
7. Cakir, M., Drake-Brockman, R., Ma, J., et al., Application and challenges of marker-assisted selection in the Western Australian Wheat Breeding Program, 2008. http://ses. library. usyd. au/bitstream/2123/3338/l/P279. pdf.
8. Canaran, P., Buckler, E. S., and Glaubitz, J. C., Panzea: an update on new content and features, Nucleic Acids Res., 2008, vol. 36(Database issue), pp. D1041-D1043.
9. Chelkowski, J. and Stepien, L., Application of STS markers for leaf rust resistance genes in near-isogenic lines of spring wheat cv. Thatcher, J. Appl. Genet., 2003, vol. 44, pp. 323-338.
10. Chhuneja, P., Kaur, S., and Garg, T., Mapping of adult plant stripe rust resistance genes in diploid a genome wheat species and their transfer to bread wheat, Theor. Appl. Genet., 2008, vol. 116, pp. 313-324.
11. Collard, B. C. Y. and Mackill, D. J., Marker assisted selection: an approach for precision plant breeding in the twenty-first century, Philos. Trans. R. Soc. B, 2008, vol. 363, pp. 557-572.
12. Delannay, X., McLaren, G., and Ribaut, J-M., Fostering molecular breeding in developing countries, Mol. Breed., 2012, vol. 29, pp. 857-873.
13. Eathington, S. R., Crosbie, T. M., Edwards, M. D., et al., Molecular markers in a commercial breeding program, Crop Sci., 2007, vol. 47, pp. 154-S163.
14. Exner, V., Hirsch-Hoffmann, M., Gruissem, W., and Hennig, L., Plant DB-a versatile database for managing plant research, Plant Methods, 2008, vol. 4, p. 1.
15. Falke, K. C., Susic, Z., Hackauf, B., et al., Establishment of introgression libraries in hybrid rye (Secale cereale L.) from an Iranian primitive accession as a new tool for rye breeding and genomics, Theor. Appl. Genet., 2008, vol. 117, pp. 641-652.
16. Falke, K. C. and Frisch, M., Selection strategies for the development of rye introgression libraries, Theor. Appl. Genet., 2009, vol. 119, pp. 595-603.
17. Falke, K. C. and Frisch, M., Power and false positive rate in QTL detection with near-isogenic line libraries, Heredity, 2011, vol. 106, pp. 576-584.
18. Frisch, M., Bohn, M., and Melchinger, A. E., Comparison of selection strategies for marker assisted backcrossing of a gene, Crop Sci., 1999, vol. 39, pp. 1295-1301.
19. Frisch, M. and Melchinger, A. E., Selection theory for marker-assisted backcrossing, Genetics, 2005, vol. 170, pp. 909-917.
20. Gainullin, N. R., Lapochkina, I. F., Zhemchuzhina, A. I., et al., Phytopathological and molecular genetic identification of brown rust resistance genes in common wheat accessions with alien genetic material, Russ. J. Genet., 2007, vol. 43, pp. 1058-1064.
21. Ganal, M. W. and Röder, M. S., Microsatellite and SNP markers in wheat breeding, in Genomics-Assisted Crop Improvement, Varshney, R. K. and Tuberosa, R., Eds., New York: Springer, 2007, pp. 1-24.
22. Gupta, P. K., Langridge, P., and Mir, R. R., Marker-assisted wheat breeding: present status and future possibilities, Mol. Breed., 2010, vol. 26, pp. 145-161.
23. Hayden, M. J., Kuchel, H., and Chalmers, K. J., Sequence tagged microsatellites for the Xgwm533 locus provide new diagnostic markers to select for the presence of stem rust resistance gene Sr2 in bread wheat (Triticum aestivum L.), Theor. Appl. Genet., 2004, vol. 109, pp. 1641-1647.
24. Herzog, E. and Frisch, M., Selection strategies for markerassisted backcrossing with high-throughput marker systems, Theor. Appl. Genet., 2011, vol. 123, pp. 251-260.
25. Hospital, F., Marker-assisted backcross breeding: a case-study in genotype building theory, in Quantitative Genetics, Genomics, and Plant Breeding, Kang, M. S., Ed., Wallingford, UK: CABI Publ., 2002, pp. 135-142.
26. Huang, X. Q., Borner, A., Roder, M. S., and Ganal, M. W., Assessing genetic diversity of wheat (Triticum aestivum L.) germplasm using microsatellite markers, Theor. Appl. Genet., 2002, vol. 105, pp. 699-707.
27. Khlestkina, E. A., Molecular methods for analyzing the structure-function organization of genes and genomes in higher plants, Russ. J. Genet.: Appl. Res., 2012, vol. 2, no. 3, pp. 243-251.
28. Kolmer, J. A., Singh, R. P., Garvin, D. F., et al., Analysis of the Lr34/Yr18 rust resistance region in wheat germplasm, Crop Sci., 2008, vol. 48, pp. 1841-1852.
29. Kuchel, H., Fox, R., Hollamby, G., et al., The challenges of integrating new technologies into a wheat breeding programme, 2008. http://ses. library. usyd. edu. au/bitstream/2123/3400/1/O54. pdf.
30. Kuchel, H., Fox, R., Reinheimer, J., et al., The successful application of a marker-assisted wheat breeding strategy, Mol. Breed., 2007, vol. 20, pp. 295-308.
31. Landjeva, S., Korzun, V., and Borner, A., Molecular markers: actual and potential contributions to wheat genome characterization and breeding, Euphitica, 2007, vol. 156, pp. 271-296.
32. Li, Y., Zhou, R., Wang, J., et al., Novel and favorable QTL allele clusters for end-use quality revealed by introgression lines derived from synthetic wheat, Mol. Breed., 2012, vol. 29, pp. 627-643.
33. Liu, S., Yu, L-Xi., Singh, R. P., et al., Diagnostic and co-dominant PCR markers for wheat stem rust resistance genes Sr25 and Sr26, Theor. Appl. Genet., 2010, vol. 120, pp. 691-697.
34. Liu, Y., He, Z., Appels, R., and Xia, X., Functional markers in wheat: current status and future prospects, Theor. Appl. Genet., 2012, vol. 125, pp. 1-10.
35. Marone, D., Laido, G., Gadaleta, A., et al., A high-density consensus map of A and B wheat genomes, Theor. Appl. Genet., 2012, vol. 125, pp. 1619-1638.
36. McIntosh, R. A., Yamazaki, Y., Dubcovsky, J., et al., Catalogue of Gene Symbols for Wheat, 2010. Supplement 2011, 2012. http://www. shigen. nig. ac. jp/wheat/komugi/genes/.
37. Milc, J., Sala, A., Bergamaschi, S., and Pecchioni, N., A genotypic and phenotypic information source for marker-assisted selection of cereals: the CEREALAB database, Database, 2011. Article ID baq038, doi: 10. 1093/database/baq038.
38. Mohler, V. and Schwarz, G., Genotyping tools in plant breeding: from restriction fragment length polymorphisms to single nucleotide polymorphisms, in Molecular Marker Systems in Plant Breeding and Crop Improvement, Lortz, H. and Wenzel, G., Eds., 2005, vol. 55, pp. 23-38.
39. Narain, P., Quantitative genetics: past and present, Mol. Breed., 2010, vol. 26, pp. 135-143.
40. Neu, C. and Stein, N., Genetic mapping of the Lr20-Pm1 resistance locus reveals suppressed recombination on chromosome arm 7AL in hexaploid wheat, Genome, 2002, vol. 45, pp. 737-744.
41. Nocente, F., Gazza, L., and Pasquini, M., Evaluation of leaf rust resistance genes Lr1, Lr9, Lr24, Lr47 and their introgression into common wheat cultivars by marker-assisted selection, Euphytica, 2007, vol. 155, pp. 329-336.
42. Pardey, P. G., A strategic look at global wheat production, productivity and R and D developments, Czech. J. Genet. Plant Breed., 2011, vol. 47, pp. S9-S19.
43. Prigge, V., Melchinger, A. E., Dhillon, B. S., and Frisch, M., Efficiency gain of marker-assisted backcrossing by sequentially increasing marker densities over generations, Theor. Appl. Genet., 2009, vol. 119, pp. 23-32.
44. Randhawa, H. S., Mutti, J. S., Kidwell, K., et al., Rapid and targeted introgression of genes into popular wheat cultivars using marker-assisted background selection, PLoS One, 2009, vol. 4, p. e5752.
45. Salameh, A., Buerstmayr, M., Steiner, B., et al., Effects of introgression of two QTL for Fusarium head blight resistance from Asian spring wheat by marker-assisted backcrossing into European winter wheat on Fusarium head blight resistance, yield and quality traits, Mol. Breed., 2011, vol. 28, pp. 485-194.
46. Salina, E., Dobrovolskaya, O., Efremova, T., et al., Micro-satellite monitoring of recombination around the Vrn-B1 locus of wheat during early backcross breeding, Plant Breed., 2003, vol. 122, pp. 116-119.
47. Salina, E. A., Leonova, I. N., and Roder, M. S., Wheat genome structure: translocations during the course of polyploidization, Func. Integr. Genomics, 2006, vol. 6, pp. 71-80.
48. Schmierer, D. A., Kandemir, N., Kudrna, D. A., et al., Molecular marker-assisted selection for enhanced yield in malting barley, Mol. Breed., 2004, vol. 14, pp. 463-173.
49. Serfling, A., Kramer, I., Lind, V., et al., Diagnostic value of molecular markers for Lr genes and characterization of leaf rust resistance of German winter wheat cultivars with regard to the stability of vertical resistance, Eur. J. Plant Pathol., 2011, vol. 130, pp. 559-575.
50. Singh, S., Sidhu, J. S., Huang, N., et al., Pyramiding three bacterial blight resistance genes (xa5, xa13 and xa21) using marker-assisted selection into indica rice cultivar PR106, Theor. Appl. Genet., 2001, vol. 102, pp. 1011-1015.
51. Sivasamy, M., Vinod, Tiwari, S., et al., Introgression of useful linked genes for resistance to stem rust, leaf rust and powdery mildew and their molecular validation in wheat (Triticum aestivum L.), Indian J. Genet., 2009, vol. 69, pp. 17-27.
52. Somers, D. J., Molecular marker systems and their evaluation for cereal genetics, in Cereal Genomics, Gupta, P. K. and Varshney, R. K., Eds., Netherlands: Kluwer Acad. Publ., 2004, pp. 19-34.
53. Sourdille, P., Singh, S., Cadalen, T., et al., Microsatellite-based deletion bin system for the establishment of genetic-physical map relationships in wheat (Triticum aestivum L.), Func. Integr. Genomics, 2004, vol. 4, pp. 12-25.
54. Spielmeyer, W., Sharp, P. J., and Lagudah, E. S., Identification and validation of markers linked to broad-spectrum stem rust resistance gene Sr2 in wheat (Triticum aestivum L.), Crop Sci., 2003, vol. 43, pp. 333-336.
55. Tester, M. and Langridge, P., Breeding technologies to increase crop production in a changing world, Science, 2010, vol. 237, pp. 818-822.
56. Timonova, E. M., Leonova, I. N., Roder, M. S., and Salina, E. A., Marker-assisted development and characterization of a set of Triticum aestivum lines carrying different introgressions from the T. timopheevii genome, Mol. Breed., 2013, vol. 31, pp. 123-136.
57. Torada, A., Koike, M., Ikeguchi, S., and Tsutsui, I., Mapping of a major locus controlling seed dormancy using backcrossed progenies in wheat (Triticum aestivum L.), Genome, 2008, vol. 51, pp. 426-132.
58. Tyryshkin, L. G., The presence of DNA markers as a criterion for postulating the presence of Lr genes of wheat Triticum aestivum L. resistance to leaf rust caused by Puccinia triticina Erikss: a critical view, S.-Kh. Biol., 2010, no. 3, pp. 76-81.
59. Urbanovich, O. Yu., Malyshev, S. V., Dolmatovich, T. V., and Kartel', N. A., Identification of leaf rust resistance genes in wheat (Triticum aestivum L.) cultivars using molecular markers, Russ. J. Genet., 2006, vol. 42, no. 5, pp. 546-554.
60. Varshney, R. K., Mahendar, T., Aggarwal, R. K., and Börner, A., Genetic molecular markers in plants: development and applications, in Genomics-Assisted Crop Improvement, Varshney, R. K. and Tuberosa, R., Eds., 2007, vol. 1, pp. 13-29.
61. Varshney, R. K., Graner, A., and Sorrells, M. E., Genomics-assisted breeding for crop improvement, Trends Plant Sci., 2005, vol. 10, pp. 621-630.
62. Vida, G., Gal, M., Uhrin, A., et al., Molecular markers for the identification of resistance genes and marker-assisted selection in breeding wheat for leaf rust resistance, Euphytica, 2009, vol. 170, pp. 67-76.
63. William, H. M., Trethowan, R., and Crosby-Galvan, E. M., Wheat breeding assisted by markers: Cimmyt's experience, Euphytica, 2007, vol. 157, pp. 307-319.
64. Xu, Y., Developing marker-assisted selection strategies for breeding hybrid rice, Plant Breed. Rev., 2003, vol. 23, pp. 73-174.
65. Xu, Y. and Crouch, J. H., Marker-assisted selection in plant breeding: from publication to practice, Crop Sci., 2008, vol. 48, pp. 391-407.
66. Xu, Y., Molecular Plant Breeding, Wallington, UK: CAB-International, 2010.
67. Xu, Y., Tu, Y., Xie, C., et al., Whole-genome strategies for marker-assisted plant breeding, Mol. Breed., 2012, vol. 29, pp. 833-854.
68. Yang T., Wang, W., Yang, W., and Wang, M., Marker-assisted selection for pyramiding the waxy and opaque-16 genes in maize using cross and backcross schemes, Mol. Breed., 2013, vol. 31, pp. 767-775.
69. Zhang, W., Lukaszewski, A. J., Kolmer, J., et al., Molecular characterization of durum and common wheat recombinant lines carrying leaf rust resistance (Lr19) and yellow pigment (Y) genes from Lophopyrum ponticum, Theor. Appl. Genet., 2005, vol. 111, pp. 573-582.
70. Zhao, W., Canaran, P., Jurkuta, R., et al., Panzea: a data-base and resource for molecular and functional diversity in the maize genome, Nucleic Acids Res., 2006, vol. 34 (Database issue), pp. D752-D757.