DSEC October 2009.

Slides:

Advertisements

Similar presentations

Genomic imputation and evaluation using 1074 high density Holstein genotypes P. M. VanRaden 1, D. J. Null 1 *, G.R. Wiggans 1, T.S. Sonstegard 2, E.E.

Advertisements

John B. Cole* and Paul M. VanRaden Animal Genomics and Improvement Laboratory Agricultural Research Service, USDA Beltsville, MD

John B. Cole Animal Genomics and Improvement Laboratory Agricultural Research Service, USDA Beltsville, MD

George R. Wiggans Animal Improvement Programs Laboratory Agricultural Research Service, USDA, Beltsville, MD 2008 Genetic trends.

George R. Wiggans Animal Improvement Programs Laboratory Agricultural Research Service, USDA, Beltsville, MD Select Sires’

2007 Paul VanRaden and Jeff O’Connell Animal Improvement Programs Lab, Beltsville, MD U MD College of Medicine, Baltimore, MD

G.R. Wiggans Animal Improvement Programs Laboratory Agricultural Research Service, USDA Beltsville, MD G.R. WiggansAlta Genetics.

2007 Paul VanRaden, George Wiggans, Jeff O’Connell, John Cole, Animal Improvement Programs Laboratory Tad Sonstegard, and Curt Van Tassell Bovine Functional.

Wiggans, 2013RL meeting, Aug. 15 (1) Dr. George R. Wiggans, Acting Research Leader Bldg. 005, Room 306, BARC-West (main office);

How Genomics is changing Business and Services of Associations Dr. Josef Pott, Weser-Ems-Union eG, Germany.

2007 Paul VanRaden 1, Curt Van Tassell 2, George Wiggans 1, Tad Sonstegard 2, Jeff O’Connell 1, Bob Schnabel 3, Jerry Taylor 3, and Flavio Schenkel 4,

Mating Programs Including Genomic Relationships and Dominance Effects Chuanyu Sun 1, Paul M. VanRaden 2, Jeff R. O'Connell 3 1 National Association of.

2007 Paul VanRaden 1, George Wiggans 1, Curt Van Tassell 2, Tad Sonstegard 2, Jeff O’Connell 1, Bob Schnabel 3, Jerry Taylor 3, and Flavio Schenkel 4,

Changes in the use of young bulls K. M. Olson* 1, J. L. Hutchison 2, P. M. VanRaden 2, and H. D. Norman 2 1 National Association of Animal Breeders, Columbia,

2007 Paul VanRaden Animal Improvement Programs Lab, Beltsville, MD 2011 Avoiding bias from genomic pre- selection in converting.

WiggansANSC UMD(1) 2013 George R. Wiggans Animal Improvement Programs Laboratory Agricultural Research Service, USDA Beltsville, MD , USA

2007 Paul VanRaden, Curt Van Tassell, George Wiggans, Tad Sonstegard, and Jeff O’Connell Animal Improvement Programs Laboratory and Bovine Functional Genomics.

Wiggans, th WCGALP (1) G.R. Wiggans*, T.A. Cooper, D.J. Null, and P.M. VanRaden Animal Genomics and Improvement Laboratory Agricultural Research.

John B. Cole* and Paul M. VanRaden Animal Genomics and Improvement Laboratory Agricultural Research Service, USDA Beltsville, MD

Bovine Genomics The Technology and its Applications Gerrit Kistemaker Chief Geneticist, Canadian Dairy Network (CDN) Many slides were created by.

2007 Paul VanRaden and Mel Tooker Animal Improvement Programs Laboratory, USDA Agricultural Research Service, Beltsville, MD, USA

WiggansBritish Cattle Conference 2015 (1) Dr. George R. Wiggans Animal Genomics and Improvement Laboratory Agricultural Research Service, USDA Beltsville,

Genomics. Finding True Genetic Merit 2 Dam EPD Sire EPD Pedigree Estimate EPD TRUE Progeny Difference Mendelian Sampling Effect Adapted from Dr. Bob Weaber.

2007 Paul VanRaden, George Wiggans, Jeff O’Connell, John Cole, Animal Improvement Programs Laboratory Tad Sonstegard, and Curt Van Tassell Bovine Functional.

2007 Paul VanRaden Animal Improvement Programs Lab, USDA, Beltsville, MD, USA 2009 Mixing Different SNP Densities Mixing Different.

2007 Paul VanRaden, George Wiggans, Jeff O’Connell, John Cole, Animal Improvement Programs Laboratory Tad Sonstegard, and Curt Van Tassell Bovine Functional.

Cooper, 2014CDCB Meeting Aug. 5(1) T.A. Cooper, G.R. Wiggans and P.M. VanRaden Animal Genomics and Improvement Laboratory, Agricultural Research Service,

2007 Paul VanRaden Animal Improvement Programs Lab, USDA, Beltsville, MD, USA 2009 Future Animal Improvement Programs Applied.

Jeff O’ConnellInterbull annual meeting, Orlando, FL, July 2015 (1) J. R. O’Connell 1 and P. M. VanRaden 2 1 University of Maryland School of Medicine,

2007 Paul VanRaden Animal Improvement Programs Lab, USDA, Beltsville, MD, USA Pete Sullivan Canadian Dairy Network, Guelph, ON, Canada

J. B. Cole * and P. M. VanRaden Animal Improvement Programs Laboratory Agricultural Research Service, USDA Beltsville, MD

2007 Melvin Tooker Animal Improvement Programs Laboratory USDA Agricultural Research Service, Beltsville, MD, USA

G.R. Wiggans* and P.M. VanRaden Animal Improvement Programs Laboratory Agricultural Research Service, USDA Beltsville, MD

2006 H. Duane Norman Animal Improvement Programs Laboratory Agricultural Research Service, USDA, Beltsville, MD

2007 Paul VanRaden Animal Improvement Programs Laboratory USDA Agricultural Research Service, Beltsville, MD, USA

Paul VanRaden and John Cole Animal Improvement Programs Laboratory Beltsville, MD, USA 2004 Planned Changes to Models and Trait Definitions.

George R. Wiggans Animal Improvement Programs Laboratory Agricultural Research Service, USDA, Beltsville, MD Select Sires’

April 2010 (1) Prediction of Breed Composition & Multibreed Genomic Evaluations K. M. Olson and P. M. VanRaden.

2007 Paul VanRaden and Melvin Tooker* Animal Improvement Programs Laboratory 2010 Gains in reliability from combining subsets.

2007 Paul VanRaden 1, Jeff O’Connell 2, George Wiggans 1, Kent Weigel 3 1 Animal Improvement Programs Lab, USDA, Beltsville, MD, USA 2 University of Maryland.

2007 Paul VanRaden 1, Jeff O’Connell 2, George Wiggans 1, Kent Weigel 3 1 Animal Improvement Programs Lab, USDA, Beltsville, MD, USA 2 University of Maryland.

John B. Cole Animal Genomics and Improvement Laboratory Agricultural Research Service, USDA Beltsville, MD What.

Paul VanRaden Animal Improvement Programs Laboratory Beltsville, MD, USA 2004 NAAB Update : Base Change, Udder Health, Longevity,

Multi-trait, multi-breed conception rate evaluations P. M. VanRaden 1, J. R. Wright 1 *, C. Sun 2, J. L. Hutchison 1 and M. E. Tooker 1 1 Animal Genomics.

G.R. Wiggans Animal Improvement Programs Laboratory Agricultural Research Service, USDA Beltsville, MD G.R. WiggansSelect Sire.

2007 Paul VanRaden, George Wiggans, Jeff O’Connell, John Cole, Animal Improvement Programs Laboratory Tad Sonstegard, and Curt Van Tassell Bovine Functional.

2007 John Cole, Paul VanRaden, George Wiggans, and Melvin Kuhn Animal Improvement Programs Laboratory USDA Agricultural Research Service, Beltsville, MD,

G.R. Wiggans Animal Improvement Programs Laboratory Agricultural Research Service, USDA Beltsville, MD G.R. WiggansADSA 18.

2007 Paul VanRaden, George Wiggans, Jeff O’Connell, John Cole, Animal Improvement Programs Laboratory Tad Sonstegard, and Curt Van Tassell Bovine Functional.

2007 Paul VanRaden Animal Improvement Programs Laboratory, USDA Agricultural Research Service, Beltsville, MD, USA 2008 New.

Multibreed Genomic Evaluations in Purebred Dairy Cattle K. M. Olson 1 and P. M. VanRaden 2 1 National Association of Animal Breeders 2 AIPL, ARS, USDA.

G.R. Wiggans Animal Improvement Programs Laboratory Agricultural Research Service, USDA Beltsville, MD Select Sires‘ Holstein.

G.R. Wiggans Animal Improvement Programs Laboratory Agricultural Research Service, USDA Beltsville, MD 2011 National Breeders.

John B. Cole Animal Improvement Programs Laboratory Agricultural Research Service, USDA Beltsville, MD Biological Insights.

G.R. Wiggans, T. A. Cooper* and P.M. VanRaden Animal Improvement Programs Laboratory Agricultural Research Service, USDA Beltsville, MD

2007 Paul VanRaden 1, Curt Van Tassell 2, George Wiggans 1, Tad Sonstegard 2, Bob Schnabel 3, Jerry Taylor 3, and Flavio Schenkel 4, Paul VanRaden 1, Curt.

G.R. Wiggans Animal Improvement Programs Laboratory Agricultural Research Service, USDA Beltsville, MD 2011 G.R. Wiggans DNA.

Paul VanRaden Animal Improvement Programs Laboratory Agricultural Research Service, USDA Beltsville, MD 2014 Paul VanRaden Advancing.

G.R. Wiggans Animal Improvement Programs Laboratory Agricultural Research Service, USDA Beltsville, MD G.R. WiggansCouncil.

My vision for dairy genomics

Distribution and Location of Genetic Effects for Dairy Traits

Methods to compute reliabilities for genomic predictions of feed intake Paul VanRaden, Jana Hutchison, Bingjie Li, Erin Connor, and John Cole USDA, Agricultural.

Genomic Evaluations.

Genomic Selection in Dairy Cattle

Validation of genomic predictions and genomic reliability

Can you believe those genomic evaluations for young bulls?

Increased reliability of genetic evaluations for dairy cattle in the United States from use of genomic information Abstr.

Using Haplotypes in Breeding Programs

Economics of Reproduction: the Quality of the Pregnancy

Principles of Dairy Cattle Breeding

Presentation transcript:

DSEC October 2009

Percent correctly called genotypes, linkages, and paternity by breed and group.

Haplotype probability with 100 markers per chromosome

Haplotype probability with 12 markers per chromosome

Gains from tracing true or estimated parent haplotypes using 12 markers per chromosome as compared to genotyping progeny for 1000 markers per chromosome.

Benefits of Haplotyping Gains in reliability above PA with haplotyping and 384 markers: 80% of the 50K gains if genotypes of both parents are available Nearly as good for all traits and breeds Without haplotyping: 30-40% of gain for Net Merit Less for other traits and breeds

Regressions and squared correlations (x100) using August 2006 data to predict August 2009, and observed reliability gains as compared to November 2004 cutoff. Parent Avg Genomic prediction REL Gain Trait REL R2 Bias Regression Nov 2004 Aug 2006 Net merit 35 14 27 -25 .81 59 21 23 Milk 39 18 41 -54 .89 70 32 Fat 16 42 -4 .91 75 36 Protein 19 -1 .86 67 20 28 Fat % 62 .00 .96 92 47 54 Protein % 58 80 37 PL 33 31 -1.0 1.08 66 SCS 15 30 -.01 .80 61 25 DPR -.1 1.07 53

Lower and Higher Density Chips 384 marker low-cost assay 96 parentage + 288 selected for Net Merit $ Available in fall 2009 600,000 marker chip Expected to be available in 2010 3 billion full sequence of individual Blackstar (most related to HO breed) Already done by USDA Bovine Functional Genomics Lab

Best Chromosome 1 Co-Op Boliver Lisha

Best Chromosome 2 Kellercrest Earnit Hank

Best Chromosome 3 Wesselcrest Sidney Aric

Best Chromosomes 1-30 Genomics Extraordinaire, +3148 Net Merit $

Embryo Selection In vitro embryos from heifers before puberty Further reduce generation interval Frozen, genotyped embryo market Cost of genotyping < cost of ET Could replace AI if accuracy high Very rapid generation turnover Velogenetics not yet feasible