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    The genome of the vervet ( Chlorocebus aethiops sabaeus )

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    License
    Attribution-NonCommercial 4.0 International
    Date Issued
    2015-12
    Publisher Version
    10.1101/gr.192922.115
    Author(s)
    Warren, Wesley C.
    Jasinska, Anna J.
    García-Pérez, Raquel
    Svardal, Hannes
    Tomlinson, Chad
    Rocchi, Mariano
    Archidiacono, Nicoletta
    Capozzi, Oronzo
    Minx, Patrick
    Montague, Michael J.
    Kyung, Kim
    Hillier, LaDeana W.
    Kremitzki, Milinn
    Graves, Tina
    Chiang, Colby
    Hughes, Jennifer
    Tran, Nam
    Huang, Yu
    Ramensky, Vasily
    Choi, Oi-wa
    Jung, Yoon J.
    Schmitt, Christopher A.
    Juretic, Nikoleta
    Wasserscheid, Jessica
    Turner, Trudy R.
    Wiseman, Roger W.
    Tuscher, Jennifer J.
    Karl, Julie A.
    Schmitz, Jörn E.
    Zahn, Roland
    O'Connor, David H.
    Redmond, Eugene
    Nisbett, Alex
    Jacquelin, Béatrice
    Müller-Trutwin, Michaela C.
    Brenchley, Jason M.
    Dione, Michel
    Antonio, Martin
    Schroth, Gary P.
    Kaplan, Jay R.
    Jorgensen, Matthew J.
    Thomas, Gregg W.C.
    Hahn, Matthew W.
    Raney, Brian J.
    Aken, Bronwen
    Nag, Rishi
    Schmitz, Juergen
    Churakov, Gennady
    Noll, Angela
    Stanyon, Roscoe
    Webb, David
    Thibaud-Nissen, Francoise
    Nordborg, Magnus
    Marques-Bonet, Tomas
    Dewar, Ken
    Weinstock, George M.
    Wilson, Richard K.
    Freimer, Nelson B.
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    Permanent Link
    https://hdl.handle.net/2144/21324
    Citation (published version)
    Wesley C Warren, Anna J Jasinska, Raquel García-Pérez, Hannes Svardal, Chad Tomlinson, Mariano Rocchi, Nicoletta Archidiacono, Oronzo Capozzi, Patrick Minx, Michael J Montague, Kim Kyung, LaDeana W Hillier, Milinn Kremitzki, Tina Graves, Colby Chiang, Jennifer Hughes, Nam Tran, Yu Huang, Vasily Ramensky, Oi-wa Choi, Yoon J Jung, Christopher A Schmitt, Nikoleta Juretic, Jessica Wasserscheid, Trudy R Turner, Roger W Wiseman, Jennifer J Tuscher, Julie A Karl, Jörn E Schmitz, Roland Zahn, David H O'Connor, Eugene Redmond, Alex Nisbett, Béatrice Jacquelin, Michaela C Müller-Trutwin, Jason M Brenchley, Michel Dione, Martin Antonio, Gary P Schroth, Jay R Kaplan, Matthew J Jorgensen, Gregg WC Thomas, Matthew W Hahn, Brian J Raney, Bronwen Aken, Rishi Nag, Juergen Schmitz, Gennady Churakov, Angela Noll, Roscoe Stanyon, David Webb, Francoise Thibaud-Nissen, Magnus Nordborg, Tomas Marques-Bonet, Ken Dewar, George M Weinstock, Richard K Wilson, Nelson B Freimer. 2015. "The genome of the vervet ( Chlorocebus aethiops sabaeus )." Genome Research, Volume 25, Issue 12, pp. 1921 - 1933.
    Abstract
    We describe a genome reference of the African green monkey or vervet (Chlorocebus aethiops). This member of the Old World monkey (OWM) superfamily is uniquely valuable for genetic investigations of simian immunodeficiency virus (SIV), for which it is the most abundant natural host species, and of a wide range of health-related phenotypes assessed in Caribbean vervets (C. a. sabaeus), whose numbers have expanded dramatically since Europeans introduced small numbers of their ancestors from West Africa during the colonial era. We use the reference to characterize the genomic relationship between vervets and other primates, the intra-generic phylogeny of vervet subspecies, and genome-wide structural variations of a pedigreed C. a. sabaeus population. Through comparative analyseswith human and rhesus macaque, we characterize at high resolution the unique chromosomal fission events that differentiate the vervets and their close relatives from most other catarrhine primates, in whom karyotype is highly conserved. We also provide a summary of transposable elements and contrast these with the rhesus macaque and human. Analysis of sequenced genomes representing each of the main vervet subspecies supports previously hypothesized relationships between these populations, which range across most of sub-Saharan Africa, while uncovering high levels of genetic diversity within each. Sequence-based analyses of major histocompatibility complex (MHC) polymorphisms reveal extremely low diversity in Caribbean C. a. sabaeus vervets, compared to vervets from putatively ancestral West African regions. In the C. a. sabaeus research population, we discover the first structural variations that are, in some cases, predicted to have a deleterious effect; future studies will determine the phenotypic impact of these variations.
    Rights
    Attribution-NonCommercial 4.0 International
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    • BU Open Access Articles [3664]


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