Genotyping by Multiplexed Sequencing (GMS) Using SNP Markers

Travis M Ruff; Karol Marlowe; Marcus A Hooker; Yan Liu; Deven R See

doi:10.1007/978-1-0716-3024-2_2

Genotyping by Multiplexed Sequencing (GMS) Using SNP Markers

Methods Mol Biol. 2023:2638:9-21. doi: 10.1007/978-1-0716-3024-2_2.

Authors

Travis M Ruff¹, Karol Marlowe¹, Marcus A Hooker², Yan Liu², Deven R See^{3

4}

Affiliations

¹ USDA-ARS Wheat Health, Genetics and Quality Research Unit, Pullman, WA, USA.
² Department of Plant Pathology, Washington State University, Pullman, WA, USA.
³ USDA-ARS Wheat Health, Genetics and Quality Research Unit, Pullman, WA, USA. deven.see@usda.gov.
⁴ Department of Plant Pathology, Washington State University, Pullman, WA, USA. deven.see@usda.gov.

PMID: 36781632
DOI: 10.1007/978-1-0716-3024-2_2

Abstract

SNP-based genotyping has become the most effective approach to generate target-specific data for use in genetic studies. In this chapter, we will describe a high-throughput genotyping method that multiplexes hundreds to thousands of SNP markers in a two-step PCR protocol that can be customized to fit the specific needs of a study.

Keywords: Amplicon sequencing; Genotyping; Genotyping by multiplexed sequencing; Next-generation sequencing (NGS); Single nucleotide polymorphism (SNP).

Publication types

Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

Genotype
Genotyping Techniques* / methods
High-Throughput Nucleotide Sequencing* / methods
Polymerase Chain Reaction
Polymorphism, Single Nucleotide