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SNP Genotyping: The KASP Assay

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Crop Breeding

Part of the book series: Methods in Molecular Biology ((MIMB,volume 1145))

Abstract

The KASP genotyping assay utilizes a unique form of competitive allele-specific PCR combined with a novel, homogeneous, fluorescence-based reporting system for the identification and measurement of genetic variation occurring at the nucleotide level to detect single nucleotide polymorphisms (SNPs) or inserts and deletions (InDels). The KASP technology is suitable for use on a variety of equipment platforms and provides flexibility in terms of the number of SNPs and the number of samples able to be analyzed. The KASP chemistry functions equally well in 96-, 384-, and 1,536-well microtiter plate formats and has been utilized over many years in large and small laboratories by users across the fields of human, animal, and plant genetics.

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References

  1. Perkel J (2008) SNP genotyping: six technologies that keyed a revolution. Nat Methods 5:447–453

    Article  CAS  Google Scholar 

  2. Ragoussis J (2006) Genotyping technologies for all. Drug Discov Today Tech 3:115–122

    Article  Google Scholar 

  3. Jenkins S, Gibson N (2002) High-throughput SNP genotyping. Comp Funct Genom 3:57–66

    Article  CAS  Google Scholar 

  4. Ribaut J-M, de Vicente MC, Delannay X (2010) Molecular breeding in developing countries: challenges and perspectives. Curr Opin Plant Biol 13:1–6

    Article  Google Scholar 

  5. Delannay X, McLaren G, Ribaut JM (2012) Fostering molecular breeding in developing countries. Mol Breed 29:857–873

    Article  CAS  Google Scholar 

  6. 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

    Article  PubMed Central  PubMed  Google Scholar 

  7. Zhao Z, Boerwinkle E (2002) Neighboring-nucleotide effects on single nucleotide polymorphisms: a study of 2.6 million polymorphisms across the human genome. Genome Res 12:1679–1686

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  8. Zhang Z, Gerstein M (2003) Patterns of nucleotide substitution, insertion and deletion in the human genome inferred from pseudogenes. Nucleic Acids Res 31:5338–5348

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  9. Robinson P, Ganske F (2012) High speed FRET based SNP Genotyping Measurement on the PHERAstar, http://www.bmglabtech.com/application-notes/fret/snp-genotyping-fret-Kbioscience-160.cfm. Accessed 4 March 2014

  10. Livak KJ, Flood SJ, Marmaro J, Giusti W, Deetz K (1995) Oligonucleotide with fluorescent dyes at opposite ends provide a quenched probe system useful for detecting PCR product and nucleic acid hybridization. Genome Res 4:357–362

    Article  CAS  Google Scholar 

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Acknowledgments

We would like to thank Dr. Xavier Delannay from the Generation Challenge Program (GCP), c/o CIMMYT for reviewing the chapter and providing the valuable suggestions.

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Correspondence to Chunlin He .

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© 2014 Springer Science+Business Media New York

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He, C., Holme, J., Anthony, J. (2014). SNP Genotyping: The KASP Assay. In: Fleury, D., Whitford, R. (eds) Crop Breeding. Methods in Molecular Biology, vol 1145. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-0446-4_7

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  • DOI: https://doi.org/10.1007/978-1-4939-0446-4_7

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  • Publisher Name: Humana Press, New York, NY

  • Print ISBN: 978-1-4939-0445-7

  • Online ISBN: 978-1-4939-0446-4

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