3175
Swine

The swine workshop will highlight updates on the genome assembly, applications of transcriptional and genome-wide association analyses in identification of markers linked to important production traits in swine. Speakers will present their results using new genomic technologies and bioinformatic pipelines.
Date: Saturday, January 9, 2016
Time: 1:30 PM-6:10 PM
Room: Royal Palm Salon 1-2
Organizers:
Catherine W. Ernst and Kiho Lee
1:30 PM
Global CpG Methylation Patterns of Pigs Shows High Similarity to Other Mammals Including Humans
Min-Kyeung Choi, Department of Animal Biotechnology, Konkuk University; Chankyu Park, Department of Animal Biotechnology, Konkuk University

2:30 PM
Analysis of the Boar Sperm Transcriptome Reveals RNAs Related to Spermatogenesis and Highlights Transcripts Related to Sperm’s Loss of Viability
Marta GÚdia, Center for Research in Agricultural Genomics, Universitat AutÚnoma de Barcelona; Fabiana Mayer, Center for Research in Agricultural Genomics, Universitat AutÚnoma de Barcelona; Julieta Nafissi, Center for Research in Agricultural Genomics, Universitat AutÚnoma de Barcelona; Anna Esteve-Codina, Centro Nacional de AnŠlisis Genůmico (CNAG); Sam Balasch, Grup GEPORK; Joan E. RodrŪguez-Gil, Unit of Animal Reproduction, Department of Animal Medicine and Surgery, Universitat AutÚnoma de Barcelona; Alex Clop, Center for Research in Agricultural Genomics, Universitat AutÚnoma de Barcelona; Armand Sanchez, Center for Research in Agricultural Genomics, Universitat AutÚnoma de Barcelona

2:45 PM
Quality Assessment of the Current Pig Genome for Variant Discovery; and High Quality Re-assembly Using 3rd Generation Sequencing
Amanda Warr, The Roslin Institute and R(D)SVS, University of Edinburgh; Christelle Robert, The Roslin Institute and R(D)SVS, University of Edinburgh; David A. Hume, The Roslin Institute and R(D)SVS, University of Edinburgh; Alan L. Archibald, The Roslin Institute and R(D)SVS, University of Edinburgh; Joseph (Nader) Deeb, Genus plc; Mick Watson, The Roslin Institute and R(D)SVS, University of Edinburgh

3:00 PM
Jorgenson Pig Travel Award Winner


3:05 PM
Administrator and Coordinator Reports


3:15 PM
Discussion of Community Needs and Resources


3:30 PM
Break


3:45 PM
What Factors Jeopardize Whole Transcriptome Analysis using Next Generation Sequencing Approaches?
Zhihua Jiang, Washington State University; Xiang Zhou, Washington State University; Jennifer J. Michal, Washington State University; Rui Li, Washington State University; Richard M. Harland, University of California Berkeley

4:00 PM
Probing Porcine Reproductive and Respiratory Syndrome Virus (PRRSV) Infection Control Mechanisms using Differential Gene Expression
Joan K. Lunney, APDL, BARC, ARS, USDA; Igseo Choi, APDL BARC ARS USDA; Hua Bao, Department of Agricultural, Food and Nutritional Science; Arun Kommadath, Department of Agricultural, Food and Nutritional Science; Le Luo Guan, Department of Agricultural, Food and Nutritional Science, University of Alberta; Graham S Plastow, University of Alberta; Raymond R. R. Rowland, Department of Diagnostic Medicine/Pathobiology, College of Veterinary Medicine, Kansas State University; Sam M. Abrams, APDL, BARC, ARS, USDA; James M. Reecy, Iowa State University; Eric Fritz-Waters, Department of Animal Science, Iowa State University; Christopher K. Tuggle, Iowa State University; Jack C.M. Dekkers, Iowa State University; Paul Stothard, Department of Agricultural, Food and Nutritional Science, University of Alberta

4:15 PM
Do you really know where this SNP goes?
Gary A. Rohrer, USDA, ARS, USMARC; Dan Nonneman, USDA, ARS, USMARC; Steven G. Schroeder, Animal Genomics and Improvement Laboratory, USDA-ARS; Jason Chin, Pacific Biosciences; Sergey Koren, National Human Genome Research Institute; Adam Phillippy, National Human Genome Research Institute; Richard Green, University of California, Santa Cruz; Nicholas Putnam, Dovetail Genomics; Timothy P.L. Smith, USDA, ARS, USMARC

4:30 PM
Molecular Cloning of WAS Protein Family, Member 1 (WAVE1) in Porcine Oocytes
Kiho Lee, Virginia Tech; Luke Dillard, Virginia Tech; Junghyun Ryu, Virginia Tech

4:45 PM
Identification of Runs of Homozygosity in Large White and Landrace Sows Associated with Decreased Number of Piglets Born
Christian Maltecca, NCSU; Jeremy Howard, NCSU; Kent Gray, Smithfield Premium Genetics; Francesco Tiezzi, NCSU; YiJIan Huang, Smithfield Premium Genetics

5:00 PM
Genomic Differences Between Pre-weaning Survival and Mortality of Piglets Following PEDv Outbreaks
Francesca Bertolini, Iowa State University; John Harding, University of Saskatchewan; Benny Mote, University of Nebraska-Lincoln; Graham S Plastow, University of Alberta; Max F. Rothschild, Iowa State University

5:15 PM
UIUC Research Update
Jonathan E. Beever, Department of Animal Sciences, University of Illinois at Urbana-Champaign

5:30 PM
Development of Resources and Tools for Mapping Genetic Sources of Phenotypic Variation
Daniel C. Ciobanu, University of Nebraska - Lincoln; Emily Tosky, University of Nebraska - Lincoln; Sean Olson, University of Nebraska - Lincoln; Melanie Trenhaile, University of Nebraska - Lincoln; Clay A Lents, USDA, ARS, USMARC; Timothy P.L. Smith, USDA, ARS, USMARC; Dan Nonneman, USDA, ARS, USMARC; Gary A. Rohrer, USDA, ARS, USMARC; Jason Chin, Pacific Biosciences; Phillip S. Miller, University of Nebraska - Lincoln; Thomas Burkey, University of Nebraska - Lincoln; Matt L. Spangler, University of Nebraska - Lincoln; Jean-Jack Riethoven, University of Nebraska - Lincoln; Graham S Plastow, University of Alberta; Stephen D. Kachman, University of Nebraska - Lincoln

5:45 PM
Post-Weaning Blood Transcriptomic Differences Between Yorkshire Pigs Divergently Selected for Residual Feed Intake
Haibo Liu, Bioinformatics and Computational Biology Program, Department of Animal Science, Iowa State University; Nguyen T. Yet, Department of Statistics, Iowa State University; Dan Nettleton, Department of Statistics, Iowa State University; Jack C.M. Dekkers, Department of Animal Science, Iowa State University; Christopher K. Tuggle, Department of Animal Science, Iowa State University

5:55 PM
A Preliminary Analysis of Longissimus Muscle microRNA Expression Profiles in the Michigan State University F2 Duroc X Pietrain Pig Resource Population
Catherine W. Ernst, Department of Animal Science, Michigan State University; Kaitlyn Perry, Department of Animal Science, Michigan State University; Juan P. Steibel, Department of Animal Science, Michigan State University; Deborah Velez-Irizarry, Department of Animal Science, Michigan State University; Scott A. Funkhouser, Genetics Program, Michigan State University; Sebastian Casiro, Department of Animal Science, Michigan State University; Nancy E. Raney, Department of Animal Science, Michigan State University; Ronald O. Bates, Department of Animal Science, Michigan State University

6:05 PM
Election of Officers and Other Business


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