Can you believe those genomic evaluations for young bulls?

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Presentation transcript:

Can you believe those genomic evaluations for young bulls?

Proven Bulls or Young Bulls?

Genotyped Animals (n=6,005) In North America as of April 2008

Genotyped Animals (n=19,464) In North America as of December 2008

Genotyped Animals (n=29,313) In North America as of June 2009

Reliability Test Holstein, Jersey, and Brown Swiss breeds BSW Predictor: Bulls born <2000 4,422 1,149 472 Cows with data 947 212 40 Total 5,369 1,361 512 Predicted: Bulls born >2000 2,035 388 150 Data from 2004 used to predict independent data from 2009

Reliability Gain1 by Breed Yield traits and NM$ of young bulls HO JE BS Net merit 24 8 9 Milk 26 6 17 Fat 32 11 10 Protein 2 14 Fat % 50 36 Protein % 38 29 1Gain above parent average reliability ~35%

Reliability Gain by Breed Health and type traits of young bulls HO JE BS Productive life 32 7 12 Somatic cell score 23 3 17 Dtr pregnancy rate 28 18 Final score 20 2 5 Udder depth 37 8 Foot angle 25 11 -1 Trait average 29

Adoption of Genomic Testing US young bulls with NAAB codes, Apr 2009 Birth Year Bulls Sampled Bulls Tested Genomic Tested % 2008* 649 615 95 2007* 1548 1172 76 2006 1726 1118 65 2005 1677 1217 73 2004 1655 991 60 * 2007-2008 counts are incomplete

Genomic Tested Bulls Available Apr 2009 Age (yrs) Reliability Net Merit Freddie 4 74 905 Twist 1 68 874 Cassino 69 871 Al 866 ManOMan 5 83 779

Young vs. Old Bull Test Genomic PTAs computed from Nov 2004 data Select top 20 young and old bulls for genomic or traditional NM$ Predict Jan 2009 daughter merit Remove direct contribution of PA (similar to DYD) Compare regressions and bias (adjusting for 2005 base change)

Net Merit of Top 20 Bulls from 2009 data based on selection in 2004 young Parent average $395 Genomic $516 proven Traditional $381 $463

Changes in Net Merit means for top 20 bulls (2009 – 2004) Selection Change young Parent average -$278 Genomic -$130 proven Traditional -$96 -$30

Net Merit regressions Predict 2009 from 2004 data, expected = 1.00 Bulls Selection Regression young Parent average 0.63 Genomic 0.74 proven Traditional 0.91 1.10

Average regressions across all traits Predict 2009 from 2004 data, expected = 1.00 Bulls Selection Regression young Parent average 0.85 Genomic 0.92 proven Traditional 1.03 1.05

Genomic vs. Traditional Examine traditional and genomic trends for two traits: Net Merit Protein Data from February 2009

Genomic vs. traditional – protein PTA

Genomic vs. traditional – net merit

Genomic vs. trad. – protein reliability

Genomic vs. trad. – net merit reliability

Reliability frequency

Conclusions Almost all new bulls and majority of in-waiting bulls are genotyped Genomic PTAs have Less bias than parent averages Regressions closer to 1.0 Higher correlations with later data Higher Net Merit for top 20 young bulls than proven bulls from 2004

Acknowledgments Genotyping and DNA extraction: Computing: Funding: USDA Bovine Functional Genomics Lab, U. Missouri, U. Alberta, GeneSeek, Genetics & IVF Institute, Genetic Visions, and Illumina Computing: AIPL staff (Leigh Walton, Jay Megonigal) Funding: National Research Initiative grants 2006-35205-16888, 2006-35205-16701 Agriculture Research Service Holstein, Jersey and Brown Swiss breed associations Contributors to Cooperative Dairy DNA Repository (CDDR)

CDDR Contributors National Association of Animal Breeders (NAAB, Columbia, MO) ABS Global (DeForest, WI) Accelerated Genetics (Baraboo, WI) Alta (Balzac, AB, Canada) Genex (Shawano, WI) New Generation Genetics (Fort Atkinson, WI) Select Sires (Plain City, OH) Semex Alliance (Guelph, ON, Canada) Taurus-Service (Mehoopany, PA)