title: Technical note: High fidelity of whole-genome amplified sheep (Ovis aries) deoxyribonucleic acid using a high-density single nucleotide polymorphism array-based genotyping platform.
abstract: Advances in high-throughput genotyping technologies have afforded researchers the opportunity to study ever-increasing numbers of SNP in animal genomes. However, many studies encounter difficulties in obtaining sufficient quantities of high-quality DNA for such analyses, particularly when the source biological material is limited or degraded. The recent development of in vitro whole-genome amplification approaches has permitted researchers to circumvent these challenges by increasing the amount of usable DNA in normally small-quantity samples. Here, we assess the performance of whole-genome amplification products generated from ovine genomic DNA using a high-throughput SNP genotyping platform, the newly developed Illumina ovineSNP50 BeadChip. Our results demonstrate a high genotype call rate for conventional genomic DNA and whole-genome amplified genomic DNA. The data also reveal an exceptionally high concordance rate ( > or = 99%) between the genotypes generated from whole-genome amplified products and their conventional genomic DNA counterparts. This study supports the use of whole-genome amplification as a viable solution for the analysis of high-density SNP genotypic data using compromised or limited starting material.
authors.affiliation: Animal Genomics Laboratory, UCD School of Agriculture, Food Science and Veterinary Medicine, College of Life Sciences, University College Dublin, Belfield, Dublin 4, Ireland.
authors.forename: D A
authors.initials: DA
authors.lastname: Magee
authors.forename: S D E
authors.initials: SD
authors.lastname: Park
authors.forename: E
authors.initials: E
authors.lastname: Scraggs
authors.forename: A M
authors.initials: AM
authors.lastname: Murphy
authors.forename: M L
authors.initials: ML
authors.lastname: Doherty
authors.forename: J W
authors.initials: JW
authors.lastname: Kijas
authors.forename: D E
authors.initials: DE
authors.lastname: MacHugh
mesh_terms: D000818:Animals; D004247:DNA / Q000235:genetics; D005260:Female; D016678:Genome / Q000235:genetics*; D005838:Genotype; D008297:Male; D021141:Nucleic Acid Amplification Techniques / Q000662:veterinary*; D020411:Oligonucleotide Array Sequence Analysis / Q000662:veterinary*; D020641:Polymorphism, Single Nucleotide / Q000235:genetics*; D034561:Sheep, Domestic / Q000235:genetics*
chemical_list: D004247:DNA