Genotyping-by-Sequencing Technology in Plant Taxonomy and Phylogeny

Félicien Favre; Cyril Jourda; Pascale Besse; Carine Charron

doi:10.1007/978-1-0716-0997-2_10

Genotyping-by-Sequencing Technology in Plant Taxonomy and Phylogeny

Methods Mol Biol. 2021:2222:167-178. doi: 10.1007/978-1-0716-0997-2_10.

Authors

Félicien Favre¹, Cyril Jourda², Pascale Besse³, Carine Charron⁴

Affiliations

¹ Université de La Réunion, UMR PVBMT, St Pierre, La Réunion, France.
² CIRAD, UMR PVBMT, St Pierre, La Réunion, France.
³ UMR PVBMT, Universite de la Reunion, St Pierre, Réunion, France.
⁴ CIRAD, UMR PVBMT, St Pierre, La Réunion, France. carine.charron@cirad.fr.

PMID: 33301094
DOI: 10.1007/978-1-0716-0997-2_10

Abstract

Genotyping-by-sequencing (GBS) is a method to discover and genotype simultaneous genome-wide high-throughput single nucleotide polymorphisms (SNPs). GBS is based on reducing genome complexity with restriction enzymes. Here we describe a method developed by Elshire et al. for constructing simplified GBS libraries and recent bioinformatic approaches developed to analyze the large volume of polymorphism data generated by this method. GBS approach is suitable for population studies, taxonomic and phylogenic studies, germplasm characterization, and breeding and trait mapping for a wide range of organisms, including plants with complex genomes.

Keywords: Genotyping-by-sequencing (GBS ); High-throughput single nucleotide polymorphism (SNP ); Next-generation sequencing (NGS ); Plant diversity markers.

MeSH terms

Biodiversity
Computational Biology / methods
DNA Barcoding, Taxonomic*
Genotyping Techniques*
High-Throughput Nucleotide Sequencing*
Phylogeny*
Plants / classification*
Plants / genetics*
Polymorphism, Single Nucleotide
Sequence Analysis, DNA
Workflow