|
[1]
|
Kalia, R.K., et al. (2011) Microsatellite Markers: An Overview of the Recent Progress in Plants. Euphytica, 177, 309- 334.
http://dx.doi.org/10.1007/s10681-010-0286-9
|
|
[2]
|
Poland, J.A., et al. (2012) Development of High-Density Genetic Maps for Barley and Wheat Using a Novel Two- Enzyme Genotyping-by-Sequencing Approach. PloS One, 7, e32253.
http://dx.doi.org/10.1371/journal.pone.0032253
|
|
[3]
|
Mir, R.R., et al. (2013) Evolving Molecular Marker Technologies in Plants: From RFLPs to GBS. In: Lübberstedt, T. and Varshney, R.K., Eds., Diagnostics in Plant Breeding, Springer, Berlin, 229-247.
http://dx.doi.org/10.1007/978-94-007-5687-8_11
|
|
[4]
|
Xu, Y., et al. (2013) Marker-Assisted Selection in Cereals: Platforms, Strategies and Examples. In: Cereal Genomics II, Springer, Berlin, 375-411.
|
|
[5]
|
Conway, G.R. and Barbier, E.B. (2013) After the Green Revolution: Sustainable Agriculture for Development. Rout- ledge, London.
|
|
[6]
|
Gupta, P.K., Langridge, P. and Mir, R.R. (2010) Marker-Assisted Wheat Breeding: Present Status and Future Possibilities. Molecular Breeding, 26, 145-161.
http://dx.doi.org/10.1007/s11032-009-9359-7
|
|
[7]
|
Paux, E., et al. (2010) Insertion Site—Based Polymorphism Markers Open New Perspectives for Genome Saturation and Marker-Assisted Selection in Wheat. Plant Biotechnology Journal, 8, 196-210.
http://dx.doi.org/10.1111/j.1467-7652.2009.00477.x
|
|
[8]
|
Henry, R.J. (2012) Molecular Markers in Plants. Wiley.
http://dx.doi.org/10.1002/9781118473023
|
|
[9]
|
Paux, E., et al. (2012) Sequence-Based Marker Development in Wheat: Advances and Applications to Breeding. Biotechnology Advances, 30, 1071-1088.
http://dx.doi.org/10.1016/j.biotechadv.2011.09.015
|
|
[10]
|
Jones, N., et al. (2009) Markers and Mapping Revisited: Finding Your Gene. New Phytologist, 183, 935-966.
http://dx.doi.org/10.1111/j.1469-8137.2009.02933.x
|
|
[11]
|
Tanksley, S., et al. (1989) RFLP Mapping in Plant Breeding: New Tools for an Old Science. Nature Biotechnology, 7, 257-264.
http://dx.doi.org/10.1038/nbt0389-257
|
|
[12]
|
Cho, Y., et al. (1998) Integrated Map of AFLP, SSLP and RFLP Markers Using a Recombinant Inbred Population of Rice (Oryza sativa L.). Theoretical and Applied Genetics, 97, 370-380.
http://dx.doi.org/10.1007/s001220050907
|
|
[13]
|
Smith, O., et al. (1990) Similarities among a Group of Elite Maize Inbreds as Measured by Pedigree, F1 Grain Yield, Grain Yield, Heterosis, and RFLPs. Theoretical and Applied Genetics, 80, 833-840.
http://dx.doi.org/10.1007/BF00224201
|
|
[14]
|
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. Theoretical and Applied Genetics, 94, 597-602.
http://dx.doi.org/10.1007/s001220050456
|
|
[15]
|
Wong, L.-J.C. (2013) Next Generation Molecular Diagnosis of Mitochondrial Disorders. Mitochondrion, 13, 379-387.
http://dx.doi.org/10.1016/j.mito.2013.02.001
|
|
[16]
|
Edwards, J.D. and McCouch, S.R. (2007) Molecular Markers for Use in Plant Molecular Breeding and Germplasm Evaluation. Marker-Assisted Selection-Current Status and Future Perspectives in Crops, Livestock, Forestry and Fish, Food and Agriculture Organization of the United Nations (FAO), Rome, 29-49.
|
|
[17]
|
Edwards, D. and Batley, J. (2009) Plant Genome Sequencing: Applications for Crop Improvement. Plant Biotechnology Journal, 8, 2-9.
http://dx.doi.org/10.1111/j.1467-7652.2009.00459.x
|
|
[18]
|
Williams, J.G., et al. (1990) DNA Polymorphisms Amplified by Arbitrary Primers Are Useful as Genetic Markers. Nucleic Acids Research, 18, 6531-6535.
http://dx.doi.org/10.1093/nar/18.22.6531
|
|
[19]
|
Gupta, P.K. and Varshney, R.K. (2013) Cereal Genomics II. Springer-Verlag GmbH.
|
|
[20]
|
Gupta, P., et al. (1999) Molecular Markers and Their Applications in Wheat Breeding. Plant Breeding, 118, 369-390.
http://dx.doi.org/10.1046/j.1439-0523.1999.00401.x
|
|
[21]
|
Jiang, G.-L. (2013) Molecular Markers and Marker-Assisted Breeding in Plants. Plant Breeding from Laboratories to Fields.
|
|
[22]
|
Dunn, G., et al. (2005) Microsatellites versus Single-Nucleotide Polymorphisms in Linkage Analysis for Quantitative and Qualitative Measures. BMC Genetics, 6, S122.
http://dx.doi.org/10.1186/1471-2156-6-S1-S122
|
|
[23]
|
Ellegren, H. (2000) Microsatellite Mutations in the Germline: Implications for Evolutionary Inference. Trends in Genetics, 16, 551-558.
http://dx.doi.org/10.1016/S0168-9525(00)02139-9
|
|
[24]
|
Koelling, J., et al. (2012) Development of New Microsatellite Markers (SSRs) for Humulus Lupulus. Molecular Breed- ing, 30, 479-484.
http://dx.doi.org/10.1007/s11032-011-9637-z
|
|
[25]
|
Varshney, R.K., Graner, A. and Sorrells, M.E. (2005) Genic Microsatellite Markers in Plants: Features and Applications. Trends in Biotechnology, 23, 48-55.
http://dx.doi.org/10.1016/j.tibtech.2004.11.005
|
|
[26]
|
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 Research, 23, 4407-4414.
http://dx.doi.org/10.1093/nar/23.21.4407
|
|
[27]
|
Nicod, J.C. and Largiadèr, C.R. (2003) SNPs by AFLP (SBA): A Rapid SNP Isolation Strategy for Non-Model Organisms. Nucleic Acids Research, 31, e19.
http://dx.doi.org/10.1093/nar/gng019
|
|
[28]
|
Meudt, H.M. and Clarke, A.C. (2007) Almost Forgotten or Latest Practice? AFLP Applications, Analyses and Advances. Trends in Plant Science, 12, 106-117.
http://dx.doi.org/10.1016/j.tplants.2007.02.001
|
|
[29]
|
Colomba, M., Vischi, M. and Gregorini, A. (2012) Molecular Characterization and Comparative Analysis of Six Durum Wheat Accessions Including Graziella Ra. Plant Molecular Biology Reporter, 30, 168-175.
http://dx.doi.org/10.1007/s11105-011-0328-z
|
|
[30]
|
Xu, Y. (2010) Molecular Plant Breeding. CABI International, Wallingford, Oxfordshire.
|
|
[31]
|
Ganal, M.W., Altmann, T. and Roder, M.S. (2009) SNP Identification in Crop Plants. Current Opinion in Plant Biology, 12, 211-217.
http://dx.doi.org/10.1016/j.pbi.2008.12.009
|
|
[32]
|
Edwards, D., Forster, J.W., Chagné, D., Batley, J., et al. (2007) What Are SNPs? In: Oraguzie, N., et al., Eds., Association Mapping in Plants, Springer, New York, 41-52.
http://dx.doi.org/10.1007/978-0-387-36011-9_3
|
|
[33]
|
Syvanen, A.-C. (2005) Toward Genome-Wide SNP Genotyping. Nature Genetics, 37, S5-S10.
http://dx.doi.org/10.1038/ng1558
|
|
[34]
|
Gupta, P.K., Rustgi, S. and Mir, R.R. (2008) Array-Based High-Throughput DNA Markers for Crop Improvement. Heredity, 101, 5-18.
http://dx.doi.org/10.1038/hdy.2008.35
|
|
[35]
|
Weising, K., Nybom, H., Wolff, K. and Kahl, G. (2005) DNA Fingerprinting in Plants: Principles, Methods, and Applications. 2nd Edition, Taylor & Francis, UK.
http://dx.doi.org/10.1201/9781420040043
|
|
[36]
|
Thudi, M., Li, Y., Jackson, S.A., May, G.D. and Varshney, R.K. (2012) Current State-of-Art of Sequencing Technologies for Plant Genomics Research. Briefings in Functional Genomics, 11, 3-11.
http://dx.doi.org/10.1093/bfgp/elr045
|
|
[37]
|
Winfield, M.O., Wilkinson, P.A., Allen, A.M., Barker, G.L.A., Coghill, J.A., Burridge, A., et al. (2012) Targeted Re-Sequencing of the Allohexaploid Wheat Exome. Plant Biotechnology Journal, 10, 733-742.
http://dx.doi.org/10.1111/j.1467-7652.2012.00713.x
|
|
[38]
|
Edwards, D., Wilcox, S., Barrero, R.A., Fleury, D., Cavanagh, C.R., Forrest, K.L., et al. (2012) Bread Matters: A National Initiative to Profile the Genetic Diversity of Australian Wheat. Plant Biotechnology Journal, 10, 703-708.
http://dx.doi.org/10.1111/j.1467-7652.2012.00717.x
|
|
[39]
|
Allen, A.M., Barker, G.L.A., Berry, S.T., Coghill, J.A., Gwilliam, R., Kirby, S., et al. (2011) Transcript-Specific, Single-Nucleotide Polymorphism Discovery and Linkage Analysis in Hexaploid Bread Wheat (Triticum aestivum L.). Plant Biotechnology Journal, 9, 1086-1099.
http://dx.doi.org/10.1111/j.1467-7652.2011.00628.x
|
|
[40]
|
Lorenc, M.T., Hayashi, S., Stiller, J., Lee, H., Manoli, S., Ruperao, P., et al. (2012) Discovery of Single Nucleotide Polymorphisms in Complex Genomes Using SGSautoSNP. Biology, 1, 370-382.
http://dx.doi.org/10.3390/biology1020370
|
|
[41]
|
McCouch, S.R., Zhao, K.Y., Wright, M., Tung, C.-W., Ebana, K., Thomson, M., et al. (2010) Development of Genome-Wide SNP Assays for Rice. Breeding Science, 60, 524-535.
http://dx.doi.org/10.1270/jsbbs.60.524
|
|
[42]
|
LGC Genomics (2013) KASPtm Genotyping Chemistry User Guide and Manual.
http://www.lgcgenomics.com/genotyping/kasp-genotyping-reagents/?download_file
=22_1_kasp_manual.pdf&download_cat=downloads
|
|
[43]
|
Mammadov, J., Chen, W., Mingus, J., Thompson, S. and Kumpatla, S. (2012) Development of Versatile Gene-Based SNP Assays in Maize (Zea mays L.). Molecular Breeding, 29, 779-790.
http://dx.doi.org/10.1007/s11032-011-9589-3
|
|
[44]
|
Wheeler, D.A., Srinivasan, M., Egholm, M., Shen, Y.F., Chen, L., McGuire, A., et al. (2008) The Complete Genome of an Individual by Massively Parallel DNA Sequencing. Nature, 452, 872-876.
http://dx.doi.org/10.1038/nature06884
|
|
[45]
|
Kiani, S., Akhunova, A. and Akhunov, E. (2013) Application of Next-Generation Sequencing Technologies for Genetic Diversity Analysis in Cereals. In: Gupta, P.K. and Varshney, R.K., Eds., Cereal Genomics II, Springer, Dordrecht, 77-99.
|
|
[46]
|
van Oeveren, J., de Ruiter, M., Jesse, T., van der Poel, H., Tang, J., Yalcin, F., et al. (2011) Sequence-Based Physical Mapping of Complex Genomes by Whole Genome Profiling. Genome Research, 21, 618-625.
http://dx.doi.org/10.1101/gr.112094.110
|
|
[47]
|
Gupta, P.K., Kumar, J., Mir, R.R. and Kumar, A. (2010) Marker-Assisted Selection as a Component of Conventional Plant Breeding. Plant Breeding Reviews, 33, 145-217.
http://dx.doi.org/10.1002/9780470535486.ch4
|
|
[48]
|
Bonnett, D.G., Rebetzke, G.J. and Spielmeyer, W. (2005) Strategies for Efficient Implementation of Molecular Markers in Wheat Breeding. Molecular Breeding, 15, 75-85.
http://dx.doi.org/10.1007/s11032-004-2734-5
|
|
[49]
|
Rae, S.J., Macaulay, M., Ramsay, L., Leigh, F., Matthews, D., O’Sullivan, D.M., et al. (2007) Molecular Barley Breeding. Euphytica, 158, 295-303.
http://dx.doi.org/10.1007/s10681-006-9166-8
|
|
[50]
|
Gracia, M.P. and Casas, A.M. (2012) Barley Adaptation: Teachings from Landraces Will Help to Respond to Climate Change. In: Zhang, G.P., Li, C.D. and Liu, X., Eds., Advance in Barley Sciences: Proceedings of 11th International Barley Genetics Symposium, Springer, Dordrecht.
|
|
[51]
|
Werner, K., Friedt, W. and Ordon, F. (2005) Strategies for Pyramiding Resistance Genes against the Barley Yellow Mosaic Virus Complex (BaMMV, BaYMV, BaYMV-2). Molecular Breeding, 16, 45-55.
http://dx.doi.org/10.1007/s11032-005-3445-2
|
|
[52]
|
Wang, J.K., Chapman, S.C., Bonnett, D.G. and Rebetzke, G.J. (2009) Simultaneous Selection of Major and Minor Genes: Use of QTL to Increase Selection Efficiency of Coleoptile Length of Wheat (Triticum aestivum L.). Theoretical and Applied Genetics, 119, 65-74.
http://dx.doi.org/10.1007/s00122-009-1017-2
|
|
[53]
|
Crosbie, T.M., Eathington, S.R., Johnson, G.R., Edwards, M., Reiter, R., Stark, S., et al. (2006) Plant Breeding: Past, Present, and Future. In: Lamkey, K.R. and Lee, M., Eds., Plant Breeding: The Arnel R. Hallauer International Symposium, Wiley-Blackwell, Hoboken.
http://dx.doi.org/10.1002/9780470752708.ch1
|
|
[54]
|
Bernardo, R. and Charcosset, A. (2006) Usefulness of Gene Information in Marker-Assisted Recurrent Selection: A Simulation Appraisal. Crop Science, 46, 614-621.
http://dx.doi.org/10.2135/cropsci2005.05-0088
|