illumina® OvineSNP50 Genotyping BeadChip v2
52,152 SNP coverage of the Ovine genome including scrapie

Weatherbys Scientific have collaborated with illumina® to validate and release the new illumina® OvineSNP50 Genotyping BeadChip v2. This new SNP chip has been validated using 17 different sheep breeds from 456 animals. Scrapie Genotyping is now possible on this SNP chip via a subset of 4 specific scrapie probes that have demonstrated 100% concordance with control samples.
Compatible with your existing Ovine SNP data sets
Adopting the illumina® OvineSNP50 Genotyping BeadChip v2 is risk free. Our analysis has demonstrated backward compatibility to the illumina OvineSNP50 v1 chip, with genotype concordance of >99.9% between versions. Furthermore a reproducibility rate of >99.9% across all 52,152 SNPs ensures consistent integrity of genotypes generated when using illumina® OvineSNP50 Genotyping BeadChip v2.
Fast and Efficient
illumina® OvineSNP50 Genotyping BeadChip v2, routinely 10 workings days. The chip utilizes illumina XT chemistry which is processed within a robust proprietary workflow which we have used to deliver over 2 million high quality genotypes in 5 years. We have the capacity and expertise to support your SNP genotyping project providing rapid genotype delivery and additional values adds including parental verification, breed composition and genetic traits all delivered within 5 days of genotypes, to answer all your questions and drive precision breeding.
Technical Specifications
Species: | Ovine |
Manufacturer: | illumina / Co-validated with Weatherbys Scientific |
Chemistry: | XT |
Chip Format: | 96 sample format |
Illumina Based SNP Content: | 52,152 |
Content Overlap – Ovine v1 and Ovine v2: | 52,135 |
Minor Allele Frequency (MAF) across breeds:
MAF was determined using 456 animals across 17 different breeds, with sample numbers per breed ranging from 2 to 66 (Table 1).
Table 1: Minor allele frequencies across a total of 17 Ovine breeds for 52,152 SNP content. Number of SNPs with a minor allele frequency greater than a0.05 and b0.25 respectively.
Breed | Samples | Average MAF | MAF >0.05a | MAF >0.25b |
Belclare | 58 | 0.2491 | 44977 | 27169 |
Beltex | 51 | 0.2365 | 42764 | 25059 |
Charollais | 31 | 0.2617 | 46153 | 28358 |
NZ Suffolk | 38 | 0.2416 | 44142 | 26407 |
NZ Texel | 44 | 0.2532 | 45247 | 27685 |
Border Leicester | 8 | 0.1567 | 31658 | 18102 |
Easy Care | 8 | 0.2238 | 42942 | 26318 |
Hampshire Down | 6 | 0.2315 | 42758 | 28278 |
Highlander | 6 | 0.2524 | 44898 | 31377 |
Mayo Connemara | 5 | 0.2562 | 44960 | 28136 |
Primera | 4 | 0.2202 | 39191 | 28550 |
Shropshire | 2 | 0.1984 | 30706 | 30706 |
Suffolk | 66 | 0.2277 | 41960 | 24249 |
Swaledale | 11 | 0.2361 | 41911 | 25198 |
Texel | 26 | 0.2425 | 44192 | 26699 |
Vendeen | 46 | 0.2345 | 42821 | 25306 |
Merino | 46 | 0.2735 | 47776 | 30580 |
Overall/Average | 456 | 0.2350 | 42297 | 26952 |

Chromosomal Coverage of 52,152 SNPs
