Use of the Illumina GoldenGate assay for single nucleotide polymorphism (SNP) genotyping in cereal crops.
Highly parallel genotyping assays, such as the GoldenGate assay developed by Illumina, capable of interrogating up to 3,072 single nucleotide polymorphisms (SNPs) simultaneously, have greatly facilitated genome-wide studies, particularly for crops with large and complex genome structures. In this report, we provide detailed information and guidelines regarding genomic DNA preparation, SNP assay design, SNP assay protocols, and genotype calling using Illumina's GenomeStudio software.
USDA-ARS, Biosciences Research Lab, 1605 Albrecht Blvd N, Fargo, ND, 58102, USA, shiaoman.chao@ars.usda.gov.
Shiaoman
S
Chao
Cindy
C
Lawley
D018556:Crops, Agricultural / Q000235:genetics*; D018744:DNA, Plant / Q000302:isolation & purification; D002523:Edible Grain / Q000235:genetics*; D005612:Freeze Drying; D005838:Genotype; D060005:Genotyping Techniques / Q000379:methods*; D006720:Homozygote; D020641:Polymorphism, Single Nucleotide / Q000235:genetics*; D012984:Software
D018744:DNA, Plant