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Genotyping by Sequencing (GBS) for Genome-Wide SNP Identification in Plants

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Plant Genotyping

Part of the book series: Methods in Molecular Biology ((MIMB,volume 2638))

Abstract

Marker-assisted selection has played a pivotal role in developing several elite varieties in the past two decades. Molecular markers employed in plant breeding programs have recently shifted from microsatellites or simple sequence repeats (SSRs) to single nucleotide polymorphisms (SNPs) due to the ubiquity of SNP markers in the genome and the availability of various high-throughput SNP genotyping platforms. Rapid advances in sequencing technologies and the reduction in sequencing cost have facilitated SNP discovery in several plant species including non-model organisms with little or no genomic resources. Despite the lower cost of sequencing, genome complexity reduction approaches are still useful for SNP identification because many applications do not require every base of the genome to be sequenced. Genotyping-by-sequencing (GBS) is a quick and affordable reduced representation method that can simultaneously identify and genotype a large number of SNPs that has been successfully applied to a wide range of plant species. This chapter describes a robust two-enzyme GBS method for SNP discovery and genotyping that has been verified in non-model plant species.

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Authors and Affiliations

  1. National Omics Center, National Science and Technology Development Agency (NSTDA), Pathum Thani, Thailand

    Wirulda Pootakham

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  1. Wirulda Pootakham
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Correspondence to Wirulda Pootakham .

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Editors and Affiliations

  1. College of Science and Engineering, Biological Sciences, Flinders University, Adelaide, SA, Australia

    Yuri Shavrukov

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© 2023 The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature

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Pootakham, W. (2023). Genotyping by Sequencing (GBS) for Genome-Wide SNP Identification in Plants. In: Shavrukov, Y. (eds) Plant Genotyping. Methods in Molecular Biology, vol 2638. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-3024-2_1

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  • DOI: https://doi.org/10.1007/978-1-0716-3024-2_1

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  • Publisher Name: Humana, New York, NY

  • Print ISBN: 978-1-0716-3023-5

  • Online ISBN: 978-1-0716-3024-2

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