@article{Warren01122015,
author = {Warren, Wesley C. and Jasinska, Anna J. and García-Pérez, Raquel and Svardal, Hannes and Tomlinson, Chad and Rocchi, Mariano and Archidiacono, Nicoletta and Capozzi, Oronzo and Minx, Patrick and Montague, Michael J. and Kyung, Kim and Hillier, LaDeana W. and Kremitzki, Milinn and Graves, Tina and Chiang, Colby and Hughes, Jennifer and Tran, Nam and Huang, Yu and Ramensky, Vasily and Choi, Oi-wa and Jung, Yoon J. and Schmitt, Christopher A. and Juretic, Nikoleta and Wasserscheid, Jessica and Turner, Trudy R. and Wiseman, Roger W. and Tuscher, Jennifer J. and Karl, Julie A. and Schmitz, Jörn E. and Zahn, Roland and O'Connor, David H. and Redmond, Eugene and Nisbett, Alex and Jacquelin, Béatrice and Müller-Trutwin, Michaela C. and Brenchley, Jason M. and Dione, Michel and Antonio, Martin and Schroth, Gary P. and Kaplan, Jay R. and Jorgensen, Matthew J. and Thomas, Gregg W.C. and Hahn, Matthew W. and Raney, Brian J. and Aken, Bronwen and Nag, Rishi and Schmitz, Juergen and Churakov, Gennady and Noll, Angela and Stanyon, Roscoe and Webb, David and Thibaud-Nissen, Francoise and Nordborg, Magnus and Marques-Bonet, Tomas and Dewar, Ken and Weinstock, George M. and Wilson, Richard K. and Freimer, Nelson B.}, 
title = {The genome of the vervet (Chlorocebus aethiops sabaeus)},
volume = {25}, 
number = {12}, 
pages = {1921-1933}, 
year = {2015}, 
doi = {10.1101/gr.192922.115}, 
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 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.}, 
URL = {http://genome.cshlp.org/content/25/12/1921.abstract}, 
eprint = {http://genome.cshlp.org/content/25/12/1921.full.pdf+html}, 
journal = {Genome Research} 
}