This is the renewal of a project that is developing an integrated genetic and genomic resource for investigations of the vervet monkey (Chlorocebus aethiops), also known as the African Green Monkey. The vervet is one of the important non human primate (NHP) biomedical models, particularly for investigations of the central nervous system (CNS), metabolism, and immunity. Its value to immunologists derives largely from its status as the most abundant natural host of simian immunodeficiency virus (SIV). It is hoped that identifying the host genetic factors that protect the vervet from developing immunodeficiency disease upon infection with SIV will provide important clues for the prevention and treatment of HIV. Progress in the current award included the completion of a vervet genetic map consisting of microsatellite markers, the identification of large numbers of single nucleotide polymorphisms (SNPs) in targeted genome regions, the generation of an initial resource for vervet gene expression studies, and creating a website to provide online data access to the scientific community. The vervet genome sequencing project (VGSP) is now underway and will provide, in addition to a reference sequence, a reference vervet transcriptome for several brain tissues and immune cells, and genomewide information on common variation across the major C. aethiops subspecies. The renewal will use this information to verify genomic rearrangements, and generate a genomewide SNP array. By assembling and then genotyping using this array, a large sample of wild-caught vervet monkeys, we will carry out proof-of- concept genomewide association studies of several heritable traits. We will also extend the transcriptome resource through evaluation, in the same tissues, of inter-individual variation in expression. All of the information generated through this project will be made available to the scientific community through an integrated, regularly updated website that will also provide links to VGSP data and to other vervet and NHP projects.

Public Health Relevance

This project will develop research tools which will facilitate a wide range of different investigations that could advance our understanding of a number of devastating common diseases. Notable examples include HIV/AIDS, mental disorders, and diabetes. These tools will allow researchers to uncover specific alterations in the genome - the sum of genetic material - that predispose towards or protect against such diseases.

Agency
National Institute of Health (NIH)
Institute
Office of The Director, National Institutes of Health (OD)
Type
Research Project (R01)
Project #
8R01OD010980-10
Application #
8258726
Study Section
Genomics, Computational Biology and Technology Study Section (GCAT)
Program Officer
O'Neill, Raymond R
Project Start
2001-07-01
Project End
2014-04-30
Budget Start
2012-05-01
Budget End
2014-04-30
Support Year
10
Fiscal Year
2012
Total Cost
$741,227
Indirect Cost
$219,995
Name
University of California Los Angeles
Department
None
Type
Schools of Medicine
DUNS #
092530369
City
Los Angeles
State
CA
Country
United States
Zip Code
90095
Turner, Trudy R; Cramer, Jennifer Danzy; Nisbett, Alexis et al. (2016) A comparison of adult body size between captive and wild vervet monkeys (Chlorocebus aethiops sabaeus) on the island of St. Kitts. Primates 57:211-20
Senghore, Madikay; Bayliss, Sion C; Kwambana-Adams, Brenda A et al. (2016) Transmission of Staphylococcus aureus from Humans to Green Monkeys in The Gambia as Revealed by Whole-Genome Sequencing. Appl Environ Microbiol 82:5910-7
Bailey, Adam L; Lauck, Michael; Sibley, Samuel D et al. (2015) Zoonotic Potential of Simian Arteriviruses. J Virol 90:630-5
Villar, Diego; Berthelot, Camille; Aldridge, Sarah et al. (2015) Enhancer evolution across 20 mammalian species. Cell 160:554-66
Huang, Yu S; Ramensky, Vasily; Service, Susan K et al. (2015) Sequencing strategies and characterization of 721 vervet monkey genomes for future genetic analyses of medically relevant traits. BMC Biol 13:41
Warren, Wesley C; Jasinska, Anna J; García-Pérez, Raquel et al. (2015) The genome of the vervet (Chlorocebus aethiops sabaeus). Genome Res 25:1921-33
Kapusinszky, Beatrix; Mulvaney, Usha; Jasinska, Anna J et al. (2015) Local Virus Extinctions following a Host Population Bottleneck. J Virol 89:8152-61
Rodríguez, Rafael L; Cramer, Jennifer Danzy; Schmitt, Christopher A et al. (2015) The static allometry of sexual and non-sexual traits in vervet monkeys. Biol J Linn Soc Lond 114:527-537
Ma, Dongzhu; Jasinska, Anna J; Feyertag, Felix et al. (2014) Factors associated with siman immunodeficiency virus transmission in a natural African nonhuman primate host in the wild. J Virol 88:5687-705
Ma, Dongzhu; Jasinska, Anna; Kristoff, Jan et al. (2013) SIVagm infection in wild African green monkeys from South Africa: epidemiology, natural history, and evolutionary considerations. PLoS Pathog 9:e1003011

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