Abstract # 4317 Event # 123:

Scheduled for Friday, June 22, 2012 03:00 PM-03:15 PM: Session 19 (3rd Floor All Space) Oral Presentation


GENOMIC VARIATION IN MACACA FASCICULARIS: GEOGRAPHIC PATTERNS OF POLYMORPHISM.

J. Satkoski Trask1,2, W. T. Garnica1,2, P. Houghton3, S. Kanthaswamy1,4 and D. G. Smith1,2
1California National Primate Research Center, One Shields Avenue, Davis, CA 95616, USA, 2Department of Anthropology, University of California-Davis, 3Primate Products, Inc., 4Department of Environmental Toxicology, University of California-Davis
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     Although less commonly used as an animal model than the closely related rhesus macaque (Macaca mulatta), the cynomolgus macaque (Macaca fascicularis) is frequently included in transplantation research and studies of drug toxicity. Individuals of M. fascicularis sampled from different geographic locations show phenotypic differences in body size, pelage color patterns, and tail length, but the genetic variation underlying these differences has not been fully explored. Previous studies have primarily concentrated fine-scale analyses on pharmacologically important genes. In this study, we used DNA extracted from 25 M. fascicularis individuals sampled from each of four geographic regions: Vietnam, Mauritius, the southern Philippines and southern Sumatra to create four regionally-specific pools. We then created reduced representation libraries by digesting each pooled sample with the restriction enzyme HinfI, extracting fragments between 200-500 bp, and sequencing the fragments on the Illumina GAII platform using a paired-end protocol. The resulting sequences were aligned to a draft sequence of the Mauritian-origin M. fascicularis genome. This method allows simultaneous localization of polymorphisms and estimation of allele frequency in the pooled sample. We identified approximately 3,000 novel polymorphisms in M. fascicularis, and while some of these SNPs were population-specific, the vast majority of polymorphisms were shared among all geographic populations. Analysis of paired-end fragment matching statistics identified a high degree of genomic structural conservation both within and between samples.