DNA Marker Validation Update Dick Quaas Cornell University

Overview Merial SNPs in validation pipeline Currently genotyping Bovigen Several SNPs analyzed 1 more

Bovigen Genotypes/Tests Tenderness = Warner-Bratzler Shear Force Calpastatin (CAST) Australia Calpain 316 (CAPN 316)

Data: Cattle Continental 387 -424 Charolais–sired CMP cattle “with a few exceptions, . .

Tenderness Analyses Models Y = CG + Marker Effect + Sire + e Marker

Conclusions: Gene. Star Tenderness Combined Taurus data CAST, CAPN 316 & Gene. Star Tenderness

Marbling Analyses Traits Marbling Score “% Choice” = % ≥ Small 00 Model Y

Conclusions: Gene. Star Quality Hereford data Very low favorable allele frequencies No power to

Conclusions: Gene. Star Quality Charolais-Angus Data Marbling Score Non-significant estimate In direction of documentation

Slides: 17

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DNA Marker Validation Update Dick Quaas Cornell University Beef improvement Federation Annual Meeting, Billings MT, 7 -9 July 2005

Overview Merial SNPs in validation pipeline Currently genotyping Bovigen Several SNPs analyzed 1 more coming Today’s topic

Bovigen Genotypes/Tests Tenderness = Warner-Bratzler Shear Force Calpastatin (CAST) Australia Calpain 316 (CAPN 316) MARC Gene. Star Tenderness 2 = CAST + CALP 316 (0 -4) Quality = Marbling Score TG 5: original Gene. Star Marbling M 2: new anonymous marker M 3: new anonymous marker Feedlot Quality = TG 5+M 2+M 3 (scored 0 -6) Gene. Star Quality Test = TG 5+M 2 (scored 0 -4)

Data: Cattle Continental 387 -424 Charolais–sired CMP cattle “with a few exceptions, . . . black Angus females ” Robert Williams British 285 -324 Hereford–sired 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

Tenderness Analyses Models Y = CG + Marker Effect + Sire + e Marker Effect 1. b x (CAST + CAPN 316) b = effect of average tenderness star 2. b 1 x CAST + b 2 x CAPN 316 b 1 =effect of CAST star b 2 = effect of CAPN 316 star SAS Proc-Mix

Value of a Tenderness Star

Tenderness Taurus Data

Conclusions: Gene. Star Tenderness Combined Taurus data CAST, CAPN 316 & Gene. Star Tenderness 2 effects 1. all statistically significant 2. all biologically important 3. CAPN 316 star bigger than CAST star

Marbling Analyses Traits Marbling Score “% Choice” = % ≥ Small 00 Model Y = CG + Marker Effect + Sire + e Marker Effect 1. b x GSQT = TG 5 + M 2 2. b 1 x TG 5 + b 2 x M 2 SAS Proc-Mix

TG 5 & M 2 Allele Frequencies

Marbling Score Analyses

% Choice Analyses

Conclusions: Gene. Star Quality Hereford data Very low favorable allele frequencies No power to detect effect of markers

Conclusions: Gene. Star Quality Charolais-Angus Data Marbling Score Non-significant estimate In direction of documentation provided by Bovigen % Choice GSQT star = 6. 2%, p<. 06 TG 5 star > M 2 star