DNA Marker Validation Update

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DNA Marker Validation Update

• Dick Quaas
• Cornell University

Beef improvement Federation Annual Meeting,
Billings MT, 7-9 July 2005
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Overview

• Merial
• SNPs in validation pipeline
• Currently genotyping
• Bovigen
• Several SNPs analyzed
• 1 more coming
• Todays topic

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Bovigen Genotypes/Tests

• Tenderness Warner-Bratzler Shear Force
• Calpastatin (CAST) Australia
• Calpain 316 (CAPN316) MARC
• GeneStar Tenderness 2 CAST CALP316 (0-4)
• Quality Marbling Score
• TG5 original GeneStar Marbling
• M2 new anonymous marker
• M3 new anonymous marker
• Feedlot Quality TG5M2M3 (scored 0-6)
• GeneStar Quality Test TG5M2 (scored 0-4)

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Data Cattle

• Continental
• 387-424 Charolaissired CMP cattle
• with a few exceptions, ... black Angus females
  Robert Williams
• British
• 285-324 Herefordsired CMP cattle
• majority of the ... dams were Hereford or
  Hereford x Red Angus crosses Craig Huffines
• Indicus-influenced
• 393-404 purebred Santa Gertrudis cattle from King
  Ranch testing in progress

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Tenderness Analyses

• Models
• Y CG Marker Effect Sire e
• Marker Effect
• b x (CAST CAPN316)
• b effect of average tenderness star
• b1 x CAST b2 x CAPN316
• b1 effect of CAST star
• b2 effect of CAPN316 star
• SAS Proc-Mix

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Value of a Tenderness Star
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TendernessTaurus Data
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Conclusions GeneStar Tenderness

• Combined Taurus data
• CAST, CAPN316 GeneStar Tenderness 2 effects
• all statistically significant
• all biologically important
• CAPN316 star bigger than CAST star

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Marbling Analyses

• Traits
• Marbling Score
• Choice Small00
• Model
• Y CG Marker Effect Sire e
• Marker Effect
• b x GSQT GSQT TG5 M2
• b1 x TG5 b2 x M2
• SAS Proc-Mix

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TG5 M2 Allele Frequencies
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Marbling Score Analyses
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Choice Analyses
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Conclusions GeneStar Quality

• Hereford data
• Very low favorable allele frequencies
• No power to detect effect of markers

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Conclusions GeneStar Quality

• Charolais-Angus Data
• Marbling Score
• Non-significant estimate
• In direction of documentation provided by Bovigen
• Choice
• GSQT star 6.2, plt.06
• TG5 star gt M2 star