Future Research in Genomics Curt Van Tassell AIPL Centennial Celebration November 28, 2008 USDA Genomics Blueprint Science to Practice Genome-enabled animal selection Build a Better Black Box Phenotype?? Genotype!! New and Improved!
1952 Animal Count Historic Bulls Reliability Gain by Breed Trait HO JE BS Net merit Milk Fat Protein Fat %
Protein % 23 23 33 22 43 34 9 11 15 4 41 29 3
0 5 1 10 5 Science to Practice Genome-enabled animal selection Precision mating systems Embryonic selection Non-additive genetic effects Cow data Precision Management Systems Merial, Pfizer??
Animal identity and traceability Low density-SNP project Low Density-SNP Project Collaboration with Illumina 384 SNP assay using pooling ~96 dedicated to pedigree verification/traceability 378 for genetic prediction Stages of development Alpha test of multiplex Beta 1-3 Groups Genotyping ~20K samples Commercialization ~300K+/yr Implications Obviate need for pedigree
Increase heritability of phenotypes?! Discovery Science Gene discovery Deleterious recessives Causative mutations Deleterious Recessives Deleterious Recessives: Strategy Identify affected and closely related unaffected: case control population Identify region as narrowly as possible Obtain DNA for these animals Fragment and label DNA
Recover for specific region in genome DNA sequence using next-generation instrument Total cost ~ $10,000 for DNA work Proof of concept Build infrastructure Next time more rapid` Causative Mutations 12 Discovery Science Gene discovery Deleterious recessives Causative mutations Functional genomics
Ongoing e.g., gene atlas, microarrays Next-generation sequencing Host-Pathogen interaction Mastitis Rumen microbes Meta-genomics Systems biology The big picture Gene Atlas Vitals 7.2 million tag types ~85% of all tags map to genome 6.5 % of the tag types map to within gene boundaries 61 % of the tags that map within gene
boundaries map to a single gene Majority of genes show evidence of alternative splicing Tissue Specificity Only in fetal adrenal Only in liver Of juvenile BGA Gbrowse Views Infrastructure Genomic tools Selection tools Inbreeding management
Databases and bioinformatics Build large federated databases Share information Animal resource populations Large centralized populations Falconer flock model, NPB Education and training Critical!! Acknowledgements BARC MARC
Tad Sonstegard Tim Smith Lakshmi MatukumalliMark Allan Paul VanRaden Renee Godtel Jeff OConnell Linda Flathman George Wiggans Kevin Tennill John Cole Kevin Beavers Steven Schroeder Bob Lee Larry Shade Steve Simcox Dan Null Tara McDaneld
Alicia Bertles Illumina Missouri Jerry Taylor Marylinn Munson Bob Schnabel Cindy Taylor Lawley Stephanie McKay Christian Haudenschild Jae Woo Kim Matt McClure Megan Rolf Jared Decker USDA/CSREES/NRI
2006-35616-16697 2006-35205-16888 2006-35205-16701 USDA/ARS 1265-31000-081D 1265-31000-090-00D 5438-31000-073D AIPL Laboratories Paul Van Raden George Wiggans Merial, Ltd Stewart Bauck
Bull Studs/NAAB ABS Global Accelerated Genetics Alta Genetics CRI/Genex Select Sires Semex Alliance Taurus Service 19
Fountain-Fort Carson D8Background . Considered to be Urban living. 17 miles from Colorado Springs. Government resources are housed in C/S. Select resources are housed in Fountain certain days of the week.
Water moderates the effects of temperature changes (continued) It takes a lot of energy to evaporate water The heat of vaporization is the amount of heat needed to cause a substance such as water to evaporate (to change from a...
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Figure 4.8The spectrum of electromagnetic energy This spectrum ranges from gamma rays as short as the diameter of an atom to radio waves over a mile long. The narrow band of wavelengths visible to the human eye (shown enlarged) extends...
Joan Jett was a popular musical icon of the 1980's. She is widely recognized for her hit "I love Rock n' Roll" , her punk rock appearance, and attitude. Our group picked Joan Jett as our topic because there has...
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Ibrams and Gregory (1981) The gap of 5 days between the V's last 'provocative act' and the killing meant that the Ds had time to consider revenge against him. This was not a defence at the time and would certainly...
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