TY  - JOUR
A1  - Warren, Wesley C.
A1  - Jasinska, Anna J.
A1  - García-Pérez, Raquel
A1  - Svardal, Hannes
A1  - Tomlinson, Chad
A1  - Rocchi, Mariano
A1  - Archidiacono, Nicoletta
A1  - Capozzi, Oronzo
A1  - Minx, Patrick
A1  - Montague, Michael J.
A1  - Kyung, Kim
A1  - Hillier, LaDeana W.
A1  - Kremitzki, Milinn
A1  - Graves, Tina
A1  - Chiang, Colby
A1  - Hughes, Jennifer
A1  - Tran, Nam
A1  - Huang, Yu
A1  - Ramensky, Vasily
A1  - Choi, Oi-wa
A1  - Jung, Yoon J.
A1  - Schmitt, Christopher A.
A1  - Juretic, Nikoleta
A1  - Wasserscheid, Jessica
A1  - Turner, Trudy R.
A1  - Wiseman, Roger W.
A1  - Tuscher, Jennifer J.
A1  - Karl, Julie A.
A1  - Schmitz, Jörn E.
A1  - Zahn, Roland
A1  - O'Connor, David H.
A1  - Redmond, Eugene
A1  - Nisbett, Alex
A1  - Jacquelin, Béatrice
A1  - Müller-Trutwin, Michaela C.
A1  - Brenchley, Jason M.
A1  - Dione, Michel
A1  - Antonio, Martin
A1  - Schroth, Gary P.
A1  - Kaplan, Jay R.
A1  - Jorgensen, Matthew J.
A1  - Thomas, Gregg W.C.
A1  - Hahn, Matthew W.
A1  - Raney, Brian J.
A1  - Aken, Bronwen
A1  - Nag, Rishi
A1  - Schmitz, Juergen
A1  - Churakov, Gennady
A1  - Noll, Angela
A1  - Stanyon, Roscoe
A1  - Webb, David
A1  - Thibaud-Nissen, Francoise
A1  - Nordborg, Magnus
A1  - Marques-Bonet, Tomas
A1  - Dewar, Ken
A1  - Weinstock, George M.
A1  - Wilson, Richard K.
A1  - Freimer, Nelson B.
T1  - The genome of the vervet (Chlorocebus aethiops sabaeus)
Y1  - 2015/12/01 
JF  - Genome Research 
JO  - Genome Research 
SP  - 1921 
EP  - 1933 
DO  - 10.1101/gr.192922.115 
VL  - 25 
IS  - 12 
UR  - http://genome.cshlp.org/content/25/12/1921.abstract 
N2  - 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 analyses with 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. 
ER  -