Abstract # 121:

Scheduled for Friday, June 21, 2013 11:50 AM-12:05 PM: Session 14 (San Geronimo Ballroom C) Oral Presentation


SNP DISCOVERY IN AFRICAN GREEN MONKEY (CHLOROCEBUS AETHIOPS) THROUGH WHOLE GENOME SEQUENCING

A. J. Jasinska1,9, Y. Huang1, C. Schmitt1, Y. Jung1, H. Svardal2, J. Wasserscheid3, N. Juretic3, K. Dewar3, P. Grobler4, B. Jacquelin5, M. Muller-Trutwin5, M. Dione6, M. Antonio6, R. Wilson7, W. Warren7, G. Weinstock7, T. Turner8, M. Nordborg2 and N. Freimer1
1Center for Behavioral Genetics, Semel Institute for Neuroscience and Human Behavior, Los Angeles, CA 90095, USA, 2Gregor Mendel Institute, Austrian Academy of Sciences, Vienna, Austria, 3McGill University and Genome Quebec Innovation Centre, Montréal, Canada, 4Department of Genetics, University of the Free State, Bloemfontein, South Africa, 5Virology Department, Institut Pasteur, Paris, France, 6Medical Research Council, Fajara, The Gambia, 7The Genome Institute at Washington University in St. Louis, St. Louis, 8Department of Anthropology, University of Wisconsin-Milwaukee, Milwaukee, WI, 9Institute of Bioorganic Chemistry, Polish Academy of Science, Poznan, Poland
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     African green monkey (AGM) also known as vervet (Chlorocebus aethiops) is a Non-Human Primate (NHP) species broadly used in biomedical research, in particular in areas of neurobehavioral biology, cardiometabolic and infectious diseases. We employed a whole genome sequencing (WGS) approach to characterize genome wide genetic variation in both captive and wild AGMs. The WGS characterization of 130 AGMs from wild populations of African subspecies and founder Caribbean populations, led to the discovery of 50 million single nucleotide polymorphisms (SNP). The pattern of genomic variation mostly reproduces the geographic distribution of populations from major AGM subspecies in Africa, and indicated that the founder Caribbean populations are most closely phylogenetically related to West African Ch. a. sabaeus. Investigations of traits relevant to human disorders in AGMs are greatly facilitated by a large multigenerational pedigree of Caribbean-origin AGMs (the Vervet Research Colony, VRC) that was characterized longitudinally with respect to phenotypic data relevant to brain and behavior, growth and metabolism, and stress. To facilitate genetic trait mapping in the VRC, we conducted WGS sequencing in 724 pedigreed monkeys. From millions of discovered SNPs segregating in the pedigree, we created a set of common polymorphic variants that were pruned based on linkage disequilibrium information. We have used this SNP Mapping Set to map numerous quantitative trait loci (QTL).