20 April 2006 Choctaw, MS

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Commercial DNA TestsNBCEC Validations

• Dick Quaas, Cornell University
• Mark Thallman, USMARC
• Alison Van Eenennaam, UC-Davis

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www.nbcec.org
validation
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Marker Assisted ???

• Marker Assisted Selection (MAS)
• Select Breeding Stock
• NBCEC validation is for MAS
• Marker Assisted Management (MAM)
• Sort cattle for management purposes, e.g.,
• Feedlot cattle ? optimal endpoint
• Feedlot cattle ? implant regime
• NBCEC does not validate MAM tools

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Bovigen Marker Validation Done

• GeneSTAR Quality Grade (reported _at_ 05 BIF)
• TG5 (original GeneSTAR Marbling) M2
• CMP Charolais only
• (CMP Herefords 991 M2 allele freq.)
• GeneSTAR Tenderness (reported _at_ 05 BIF)
• T1 CAST T2 CAPN1 316
• CMP Charolais Herefords

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Merial Marker Validation Done

• Igenity TenderGENE
• UoG-Cast1 CAPN1 316 CAPN1 4751
• CMP Charolais, Red Angus, Brangus Brahmans

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Bovigen Marker Validation Near Done

• GeneSTAR Tenderness
• T1 CAST T2 CAPN1 316
• T3 CAPN1 4751 Tx
• CMP Charolais Herefords LSU Brahmans
• CMP Brahmans
• Tx is almost fixed in (European) Taurus
• No association in Brahmans Bovigen will not
  include in GeneSTAR Tenderness

New
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Quality/Fatness Marker Summary

• Bovigen GeneSTAR Quality Grade
• Results
• Small, nonsignificant effect on marbling
• Significant effect on Choice or better
• Similar findings w/ TG5 in Simm-Angus
• Conclusion
• Modestly effective, primarily due to TG5, Stars
  arent equal TG5 gtgtgtM2

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Quality/Fatness Marker Summary

• Merial submitted 4 leptin SNP GHR
• UASM1, UASM2, exon2fb, A252T
• Traits analyzed Carcass wt, REA, Fat thick., YG,
  Marbling score
• Results
• Leptin SNP not associated with traits (A252T not
  polymorphic)
• GHR associated with REA YG but favorable allele
  rare

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Quality/Leanness Marker Summary

• Merial (leptin SNP)
• Not for seedstock selection for carcass traits
• Possibly for marker assisted management
• Results to be included under Ancillary Analyses
  on website
• Future leptin studies of other traits, e.g.
  female fertility

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Tenderness Marker Summary

• Bovigen Merial each market 3 tenderness SNP
• 2 identical calpain SNP CAPN1 316 4751 from
  MARC
• 1 calpastatin SNP
• Bovigen CAST-T1 (Genetic Solutions)
• Merial UoG-CAST1 (U. of Guelph)
• Current NBCEC Consensus
• 3-SNP Tenderness Panels are effective equally so

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Tenderness Marker Summary

• Calpastatin SNP (UoG-CAST1 or T1)
• Taurus 60-90 favorable alleles
• Brahmans 40-60 favorable
• Calpain 316 (T2)
• Taurus 20 favorable
• Brahmans 2 favorable
• Calpain 4751 (T3)
• Taurus 50 favorable
• Brahmans 5-10 favorable

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Tenderness Marker Summary

• Current NBCEC Consensus
• 3-SNP Tenderness Panels are effective equally
  so
• About 2.25 lbs difference between best
  worst genotypes
• Should expect .75-1.5 lb. by making herd
  homozygous depending on breed

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Current Test Conundrum

• Tenderness
• Phenotypes not available for EPDs
• Tests are effective
• Whats the economic return?
• Quality/Yield Grade
• Huge economic return
• Tests are modestly effective
• Ultrasound EPDs available and very effective

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www.nbcec.org (validation tab)