Development of an Apple F1 Segregating Population Genetic Linkage Map Using Genotyping-By-Sequencing

Seung Hyun Ban; Cheol Choi

doi:10.9787/PBB.2018.6.4.434

https://doi.org/10.9787/PBB.2018.6.4.434

Development of an Apple F₁ Segregating Population Genetic Linkage Map Using Genotyping-By-Sequencing

Plant Breed. Biotech. 2018;6:434-443

Published online December 1, 2018

Seung Hyun Ban, Cheol Choi^*

College of Agriculture and Life Science, Kyungpook National University, Daegu 41566, Korea

Correspondence to: Cheol Choi, cc31@knu.ac.kr, Tel: +82-53-950-5724, Fax: +82-53-950-5722

Received October 26, 2018; Revised November 15, 2018; Accepted November 15, 2018.

This is an Open-Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

Abstract: Genotyping-by-sequencing (GBS) has been used as a viable single nucleotide polymorphism (SNP) validation method that provides reduced representation sequencing by using restriction endonucleases. Although GBS makes it possible to perform marker discovery and genotyping simultaneously with reasonable costs and a simple molecular biology workflow, the standard TASSEL-GBS pipeline was designed for homozygous groups, and genotyping of heterozygous groups is more complicated. To addresses this problem, we developed a GBS pipeline for heterozygous groups that called KNU-GBS pipeline, specifically for apple (Malus domestica). Using KNU-GBS pipeline, we constructed a genetic linkage map consisting of 1,053 SNP markers distributed over 17 linkage groups encompassing a total of 1350.1 cM. The novel GBS pipeline for heterozygous groups will be useful for marker-assisted breeding programs, and diverse heterozygous genome analyses.; Keywords : Malus domestica, Apple, Genotyping-by-sequencing, Bioinformatics, Linkage map