Genome to Phenome:
  An USDA Blueprint for Improving Animal Production

This workshop is an effort to update the previous report developed by the animal genomics community under the leadership of Dr. Ronnie Green (USDA-ARS) and Dr. Muquarrab Qureshi (USDA-NIFA) titled “Blueprint for USDA Efforts in Agricultural Animal Genomics 2008 – 2017”.  Over the last decade the vision outlined in this document has served to guide intra- and extramural research programs at USDA and in the broader international community.  This workshop will revisit the progress made and develop meaningful and tangible goals for the next decade in developing the second generation blueprint for the animal genomics community.

• About the Genome to Phenome Meeting
• Dates
  November 15-16, 2017
• Venue
  USDA National Agricultural Library Beltsville, Maryland
• Program
  Updated program is available
• Hotels
  A meeting rate has been negotiated at a near-by hotel. Hotel/booking information will be provided upon your registration
• Contact
  Click to send feedbacks.
• Outcome
  • NEWS: The USDA Announces New Vision for Animal Genomics. (by Sandra Avant, May 16, 2019)
  • PAPER: Genome to Phenome: Improving Animal Health, Production, and Well-Being – A New USDA Blueprint for Animal Genome Research 2018–2027. (by Caird Rexroad et al., Front Genet. 2019; 10: 327)
  • EXSUM: Genome to Phenome: Executive Summary for a New USDA Blueprint for Animal Genome Research 2018–2027. (from Lakshmi Kumar, July 22, 2019)
  • SLIDES: A set of slides summarizing the effords putting together the USDA Blueprint for Animal Production (2018-2027). (by Angelica Van Goor, Added July 22, 2019)

November 15, 2017 (Wednesday)
08:30 AM	Registration Open
09:00 AM	Welcome Dr. Caird Rexroad (USDA-ARS), Dr. Jeff Vallet (USDA-ARS) and Dr. Adele Turzillo (USDA-NIFA), Dr. Lakshmi Matukumalli (USDA-NIFA)
09:05 AM	Logistics Dr. Caird Rexroad (USDA-ARS)
09:10 AM	The 2008 Blueprint for USDA Efforts in Agricultural Animal Genomics Dr. Ronnie Green (Chancellor, University of Nebraska)
10:20 AM	Implementing Blueprint at the USDA Dr. Jeffrey Silverstein (USDA-ARS)   Dr. Parag Chitnis (USDA-NIFA)
10:40 AM	Implementing the Blueprint with Federal and International Partners (Introductions) Dr. Jennifer Weller (DBI, NSF) Dr. Neelakanta Ravindranath (NICHD) and Dr. Dan Gilchrist (NHGRI, NIH) Dr. Ramana Madupu (DOE) Dr. Lindsay Parish (USAID) Dr. Tim Kurt (FFAR) Dr. Jean-Charles Cavitte (European Commission) Dr. David Bailey (Genome Canada)
09:50 AM	Developing a Next Generation Blueprint Dr. Caird Rexroad (USDA-ARS)
10:00 AM	Livestock High-Throughput Phenotyping and Big Data Analytics Dr. James Reecy (Iowa State University)
10:40 AM	Livestock Industry Perspectives American Horse Council American Paint Horse Association American Quarter Horse Association Angus Genetics, Inc Arabian Horse Association Aviagen Group Genesus Hendrix Genetics Joe Jurgielewicz and Son LTD Select Sires S’Klallam Tribe, Sequim, WA Superior Farms The Jockey Club Transova U.S. Trotting Association Welsh Pony and Cob Society of America
11:30 AM	Discussion Session I: Science to Practice Breakout groups: Precision Selection 1 Precision Selection 2 Precision Management Systems 1 Precision Management Systems 2
12:00 PM	Working Lunch
01:00 PM	Thoughts on Components of an Agricultural Data Ecosystem Dr. Sean Davis (NIH)
01:40 PM	Long Reads and the Future of Vertebrate Genome Sequencing Dr. Adam Phillippy (NIH)
02:20 PM	Discussion Session II: Discovery Science Breakout groups: Genomic and Functional Biology Host Pathogen Interactions Phenotyping Microbiome and Metagenomics
04:30 PM	Panel Discussion – Federal and International Partners
05:00 PM	Adjourn
November 16, 2017 (Thursday)
08:30 AM	Registration Open
09:00 AM	Writing Genomes Dr. Jef Boeke (New York Medical Center)
09:40 AM	Using Networks to Understand the Genotype-Phenotype Connection Dr. John Quackenbush (Harvard T.H. Chan School of Public Health)
10:20 AM	Discussion Session III: Infrastructure Breakout groups: Genomic Tools and Resources Education and Training Bioinformatics and Computational Biology Genome Modification Animal Populations / Germplasm Preservation
12:00 PM	Working Lunch Presentation from the National Agricultural Library Dr. Cynthia Parr (NAL, USDA)
01:00 PM	Writing Teams I (See Pre-Workshop Draft) Breakout groups: Genomic and Functional Biology Host-Pathogen Interactions Microbiome Genome Modification Bioinformatics and Computational Biology
01:00 PM	Writing Teams II (See Pre-Workshop Draft) Breakout groups: Phenotyping Genomic Tools and Resources Education and Training Precision Selection Precision Management Systems Animal Populations / Germplasm Preservation
04:00 PM	Discussion Sessions I, II, and III Report Out   Writing Teams Report Out
05:00 PM	Conclude Genome to Phenome: A USDA Blueprint for Animal Production by Dr. Caird Rexroad and Dr. James Reecy at the Plant & Animal Genomes XXVI Conference, January 13-17, 2018. Town & Country Convention Center, San Diego, CA.