Wheat breeders and academics alike use Single Nucleotide Polymorphisms (SNPs) as molecular markers to characterise regions of interest within the hexaploid wheat genome. A number of SNP-based genotyping platforms are available and their utility depends upon factors such as the available technologies, number of data points required, budgets and the technical expertise required. Unfortunately, markers can rarely be exchanged between existing and newly developed platforms, meaning that previously generated data cannot be compared, or combined, with more recently generated datasets. We predict that genotyping by sequencing will become the predominant genotyping technology within the next five to ten years. With this in mind, to ensure that data generated from current genotyping platforms continues to be of use, we have designed and utilised SNP-based capture probes from several thousand existing and publicly available probes from Axiom® and KASP™ genotyping platforms. We have validated our capture probes in a targeted genotyping by sequencing protocol using thirty one previously genotyped UK elite hexaploid wheat accessions. Data comparisons between targeted genotyping by sequencing, Axiom® array genotyping and KASP™ genotyping assays, identified a set of 3,256 probes which reliably bring together targeted genotyping by sequencing data with the previously available marker dataset. As such these probes are likely to be of considerable value to the wheat community. The probe details, full probe sequences and a custom built analysis pipeline may be freely downloaded from the CerealsDB. This article is protected by copyright. All rights reserved.
Home » Conversion of array-based single nucleotide polymorphic markers for use in targeted genotyping by sequencing in hexaploid wheat (Triticum aestivum)
Publications
Conversion of array-based single nucleotide polymorphic markers for use in targeted genotyping by sequencing in hexaploid wheat (Triticum aestivum)
myBaits
Daicel Arbor Biosciences
5840 Interface Dr. Suite 101,
Ann Arbor, MI 48103
1.734.998.0751Ann Arbor, MI 48103
©2024 Biodiscovery LLC
(d/b/a Daicel Arbor Biosciences)
All Rights Reserved.
(d/b/a Daicel Arbor Biosciences)
All Rights Reserved.
Design and development by Raincastle Communications.