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Weatherbys Scientific Bovine VersaSNP 50K

The Versatile SNP chip for Beef and Dairy genotyping

The new Weatherbys Scientific Bovine VersaSNP 50K is the result of our experience developing and running high capacity Bovine Genotyping for more than 8 years. The content and density of this highly versatile SNP chip has been optimised to contain markers of most economic interest for both Dairy and Beef breeders. The versatility goes beyond genetic markers, the Bovine VersaSNP 50K is integral to Weatherbys Scientific Parental Verification algorithm, delivering the most accurate and precise Parental Verification available. Changing to Weatherbys Scientific Bovine VersaSNP 50K is simple. The data is reverse compatible with other 50K SNP chips, including the IDBv3 and Illumina 50K SNP chips.

Version 1.2 released,  35 new trails are available with this new release.
Beneficial SLICK 39136558
Beneficial SLICK 39263696
Beneficial SLICK 39339348
Coat Colour Telstar
Colour Dun Dexter
Lethal Cardiomyopathy and Woolly Hair Syndrome
Lethal Holstein Cholesterol Deficiency
Lethal-Embryo Braunvieh Haplotype 2
Lethal-Embryo Holstein Haplotype 6
Lethal-Embryo Holstein Haplotype 7
Milk A2 Corporation A1/A2 Test
Milk Beta Casein Sub Variant X14711_6690
Milk Beta Casein Sub Variant X14711_8101
Milk Beta Casein Sub Variant X14711_8178
Milk Beta Casein Sub Variant X14711_8219
Milk Beta Casein Sub Variant X14711_8267
Milk Beta Casein Sub Variant X14711_8356
Milk Kappa Casein Sub Variant AY380228_12951
Milk Kappa Casein Sub Variant AY380228_12971
Milk Kappa Casein Sub Variant AY380228_13065
Milk Kappa Casein Sub Variant AY380228_13068
Milk Kappa Casein Sub Variant AY380228_13104
Milk Kappa Casein Sub Variant AY380228_13111
Milk Kappa Casein Sub Variant AY380228_13124
Milk Kappa Casein Sub Variant AY380228_13165
Unwanted Alpha Mannosidosis_961
Unwanted Cardiomyopathy Dilated
Unwanted Dystrophic Epidermolysis Bullosa
Unwanted Mulefoot G907R
Unwanted Pompes GSD  E7
Unwanted Pompes GSD E13
Unwanted Pompes GSD E18
Unwanted Pulmonary Hypoplasia with Anasarca 1
Unwanted Spinal Muscular Atrophy
Unwanted Xanthinuria Tyrolean Grey
Compatible with your existing SNP data assets

Moving to the Weatherbys Scientific Bovine VersaSNP 50K has many advantages and the data is also reverse compatible with data you may already have.

SNP chip Number of SNPs in common Compatibility
IDBv3 44,818 Fully reverse compatible
Illumina 54K 42,606 Direct compatible high accuracy imputation to the full 54K
Illumina 8K LD2 7,898 Reverse compatible and meets CDCB minimum requirements for evaluations
Illumina 777K HD 46,091 Allows data generated by the research community to be used
Parental Verification

Weatherbys Scientific Bovine VersaSNP 50K is different; We designed the content of the chip to use over 45,000 data points in Parental Verification far exceeding the ISAG standard of 100 SNPs and the proposed additional 100 SNPs (that increases the panel to 200 SNPs) or the ICAR recommendation of 554 SNPs required for parentage discovery. Parental Verification is performed using proprietary algorithms on dedicated computing hardware.

Weatherbys Scientific has ICAR Parentage Analysis Accreditation for DNA Data Interpretation Centres.  Accreditation verifies that Weatherbys Scientific can proficiently perform SNP based Parentage Verification using ICAR’s recommended 200 SNP verification panel.

Parental Discovery

Weatherbys Scientific Bovine VersaSNP 50K offers new possibilities such as Sire or Dam discovery for parental assignment. By searching our database, we can discover the parents, removing the guesswork of nominating Sires or Dams and producing a high accurate result beyond dispute.

Fast and Efficient

Weatherbys Scientific Bovine VersaSNP 50K offers fast turnaround times, 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.

Genetic Diseases and Traits of Importance

Weatherbys Scientific Bovine VersaSNP 50K contains specifically designed probes to accurately genotype 100 genetic markers of economic importance.  Trait categories cover; beneficial, colour, lethal, lethal-embryo, unwanted and specific beef and milk related traits. To help breeders select the markets of interest we have mapped all validated traits to 41 cattle breeds.
In addition to the 100 validated genetic traits on Version 1, further traits are scheduled for release, providing additional value to choosing Weatherbys Scientific Bovine VersaSNP 50K.

Precision Breeding and integration with Genomic Evaluation Centres

Improve the profitability, replacement indexes, carbon efficiency and speed of advancement of your herd.  Weatherbys Scientific collaborates with leading genomic evaluators including CDCB, EGENES, Breedplan, ICBF, and we are constantly working to expand the list of Evaluators.   Using 50K genotypes generated we can make nominations to these evaluators.  Results can be sent directly to you or we can consolidate evaluations with parental verification and genetic trait analysis into single reports.

  • Decide which stock to keep for breeding
  • Predict herd and individual performance
  • Identify elite bulls and females for breeding and AI
Bos Indicus content

Weatherbys Scientific Bovine VersaSNP 50K contains over 10,000 Bos Indicus SNPs that have been shown to be highly informative within a number of Bos Indicus breeds.

Future proof your investment in SNP genotyping

Performing SNP based genotyping is more than just answering immediate questions, it is a valuable asset acting as a long-term investment for your breeding program. When we designed the Weatherbys Scientific Bovine VersaSNP 50K it was with one eye to the future, based on trends and what our customers have told us.

The Weatherbys Scientific Bovine VersaSNP 50K has available space for nearly 5000 SNPs that can be used for customer specific content on future chip versions and for new Weatherbys Scientific developed content as new SNPs of importance are discovered.

Choose the Weatherbys Scientific Bovine VersaSNP 50K with confidence that it will grow and adapt to your needs for many years.

Technical Specifications

 

Product description
Chip Name: Weatherbys Scientific Bovine VersaSNP 50K ™
Product Code: GXL018801
Chip Version: 1.0
Species: Bovine
Manufacturer: Weatherbys Scientific
Technology Platform: Illumina
Chemistry: XT
Chip Format: 96
Base Reporting Content (Illumina SNPs): 49,629  (SNP map available on request)
Average spacing between SNPs: ~53.4kb
Recommended ISAG 200 SNPs on VersaSNP 50K: 200
Recommended ICAR 554 SNPs on VersaSNP 50K: 554
Recommended Microsatellite Imputation 980 SNPs: 966
Validated Diagnostic Test Designs: 133
Applications: Genomic Evaluations, GWAS studies, Parentage Verification (Weatherbys Scientific Parentage Verification, ISAG and ICAR SNPs), Microsatellite Imputation, Breed Assignment, Sex Determination.
Content Overlap Across Range of Bovine SNP Chips

 

Common Illumina SNP Content Across a Selection of Bovine Chips
  Illumina LD2 Illumina 54K Illumina HD Versa Chip 50K IDBv3
Illumina LD2 7931 6900 7757 7916 7729
Illumina 54K 54609 49345 42779 40865
Illumina HD 777962 46225 41529
Versa Chip 50K 50345 44969
IDBv3 45080
Chromosomal SNP Coverage: 29 Autosomal, X, Y and MT
Validated Diagnostic Tests
Beneficial Polled Celtic Meat Myostatin nt419
Beneficial Polled Friesian_1909396D2 Meat Myostatin nt748_78
Beneficial Polled Friesian_51D Meat Myostatin nt821DEL11
Beneficial Polled Friesian_C1655463T Meat Myostatin Q204X
Beneficial Polled Friesian_G1654405A Meat Myostatin S105C
Beneficial SLICK 39136558 Milk A2 Corporation A1/A2 Test
Beneficial SLICK 39263696 Milk ABCG2
Beneficial SLICK 39339348 Milk AcylCoA:Diacylglycerol Acyltransferase
Coat Colour Telstar Milk Beta Casein Sub Variant X14711_6690
Colour Coat colour Black gene E, extension Milk Beta Casein Sub Variant X14711_8101
Colour Coat colour Red factor e Milk Beta Casein Sub Variant X14711_8178
Colour Dominant_red Milk Beta Casein Sub Variant X14711_8219
Colour Dun Dexter Milk Beta Casein Sub Variant X14711_8267
Colour PMEL17_1835C_A Milk Beta Casein Sub Variant X14711_8356
Colour PMEL17_delTTC Milk Growth Hormone Receptor F279Y
Colour Silver Char Dilutor_1 Milk Growth Hormone_2141
Colour White Heifer Disease/Roan_coat_colour Milk Growth Hormone_2291
Disease Bovine Spinal Dysmyelination Milk Kappa Casein Sub Variant AY380228_12951
Lethal Alpha Mannosidosis_662 Milk Kappa Casein Sub Variant AY380228_12971
Lethal Arachnomelia Syndrome_MOCS1 Milk Kappa Casein Sub Variant AY380228_13065
Lethal Arachnomelia Syndrome_SUOX Milk Kappa Casein Sub Variant AY380228_13068
Lethal Arthrogryposis with Cleft Palate Milk Kappa Casein Sub Variant AY380228_13104
Lethal Cardiomyopathy and Woolly Hair Syndrome Milk Kappa Casein Sub Variant AY380228_13111
Lethal Citrullinaemia Milk Kappa Casein Sub Variant AY380228_13124
Lethal Congenital Muscular Dystonia 1 Milk Kappa Casein Sub Variant AY380228_13165
Lethal Congenital Muscular Dystonia 2 Milk Yellow milk fat
Lethal Holstein Cholesterol Deficiency Unwanted Alpha Mannosidosis_961
Lethal Idiopathic Epilepsy Unwanted Axonopathy
Lethal Maple Syrup Urine Disease_Hereford Unwanted Bovine Hereditary Zinc Deficiency
Lethal Maple Syrup Urine Disease_Shorthorn Unwanted Bovine Leukocyte Adhesion Deficiency
Lethal Neuronal ceroid lipofuscinosis Unwanted Cardiomyopathy Dilated
Lethal Paunch Calf Syndrome Unwanted Chediak_Higashi syndrome
Lethal Perinatal weak calf syndrome Unwanted Congenital Myoclonus
Lethal Ptosis, intellectual disability, retarded growth and mortality Unwanted Crooked Tail Syndrome delAG
Lethal Tibial Hemimelia_Improver Unwanted Developmental_Duplication
Lethal-Embryo Brachyspina Unwanted Dwarfism, Belgian Blue
Lethal-Embryo Braunvieh Haplotype 2 Unwanted Dystrophic Epidermolysis Bullosa
Lethal-Embryo Bulldog Dwarfism 1 Unwanted Ehlers Danlos Syndrome-Holstein Variant
Lethal-Embryo Complex Vertebral Malformation Unwanted Factor XI deficiency Wagyu
Lethal-Embryo Deficiency of Uridine Monophosphate Synthase Unwanted Hypotrichosis Streaked_ERCC6L
Lethal-Embryo Fleckvieh Haplotype 4 (embryonic loss), Unwanted Hypotrichosis Streaked_TSR2
Lethal-Embryo Holstein Haplotype 1 Unwanted Hypotrichosis_HEPHL1
Lethal-Embryo Holstein Haplotype 3 Unwanted Hypotrichosis_KRT71
Lethal-Embryo Holstein Haplotype 4 Unwanted Idiopathic Male subfertility
Lethal-Embryo Holstein Haplotype 5 Unwanted Mulefoot G1199S
Lethal-Embryo Holstein Haplotype 6 Unwanted Mulefoot G907R
Lethal-Embryo Holstein Haplotype 7 Unwanted Mulefoot NG1621KC
Lethal-Embryo Jersey Haplotype 1 Unwanted Pompes GSD  E7
Lethal-Embryo Montbeliarde Haplotype 2 Unwanted Pompes GSD E13
Lethal-Embryo Neuropathic hydrocephalus Unwanted Pompes GSD E18
Lethal-Embryo RNASEH2B_del Unwanted Protoporphyria
Meat Calpain1 316 Unwanted Pseudomyotonia_c491G>A
Meat Calpain1 4751 Unwanted Pseudomyotonia_c632G>T
Meat Calpain1 530 Unwanted Pseudomyotonia_c857G>T
Meat Calpastain 282 Unwanted Pulmonary Hypoplasia with Anasarca 1
Meat Calpastain 2870 Unwanted Spherocytosis
Meat Calpastain 2959 Unwanted Spinal Muscular Atrophy
Meat Myostatin C313Y Unwanted STAT1
Meat Myostatin D182N Unwanted STAT3_19069
Meat Myostatin E226X Unwanted STAT3_25402
Meat Myostatin E291X Unwanted STAT5_13244
Meat Myostatin F94L Unwanted STAT5_13319
Meat Myostatin L64P Unwanted STAT5_13516
Meat Myostatin nt267 Unwanted Thrombopathia
Meat Myostatin nt324 Unwanted Xanthinuria Tyrolean Grey
Meat Myostatin nt414 Unwanted/Milk Trimethylaminuria