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Genotyping-by-Sequencing and Its Application to Oat Genomic Research

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Part of the book series: Methods in Molecular Biology ((MIMB,volume 1536))

Abstract

Genotyping-by-sequencing (GBS) has emerged as a useful genomic approach for sampling genome-wide genetic variation, performing genome-wide association mapping, and conducting genomic selection. It is a combined one-step process of SNP marker discovery and genotyping through genome reduction with restriction enzymes and SNP calling with or without a sequenced genome. This approach has the advantage of being rapid, high throughput, cost effective, and applicable to organisms without sequenced genomes. It has been increasingly applied to generate SNP genotype data for plant genetic and genomic studies. To facilitate a wider GBS application, particularly in oat genetic and genomic research, we describe the GBS approach, review the current applications of GBS in plant species, and highlight some applications of GBS to oat research. We also discuss issues in various applications of GBS and provide some perspectives in GBS research. Recent developments of bioinformatics pipelines in high-quality SNP discovery for polyploid crops will enhance the application of GBS to oat genetic and genomic research.

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Acknowledgment

We would like to thank Gregory Peterson, Yifang Tan, Sateesh Kagale, and Nicholas Tinker for their helpful comments on the early version of the manuscript. This work was supported by an A-Base research project of Agriculture and Agri-Food Canada to Y.B.F. and National Natural Science Foundation of China (Grant No. 31200481) and the China Scholarship Council Postdoctoral Abroad Grant to M.-H.Y.

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  1. Plant Gene Resources of Canada, Saskatoon Research and Development Centre, Agriculture and Agri-Food Canada, 107 Science Place, Saskatoon, SK, Canada, S7N 0X2

    Yong-Bi Fu & Mo-Hua Yang

  2. College of Forestry, Central South University of Forestry and Technology, Changsha, Hunan, China

    Mo-Hua Yang

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  1. Yong-Bi Fu
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Correspondence to Yong-Bi Fu .

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  1. Department of Functional Genomics, Plant Breeding & Acclimatization Inst. National Research Institute, Blonie, Poland

    Sebastian Gasparis

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Fu, YB., Yang, MH. (2017). Genotyping-by-Sequencing and Its Application to Oat Genomic Research. In: Gasparis, S. (eds) Oat. Methods in Molecular Biology, vol 1536. Humana Press, New York, NY. https://doi.org/10.1007/978-1-4939-6682-0_13

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  • DOI: https://doi.org/10.1007/978-1-4939-6682-0_13

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