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Open Access Research article

Expression sequence tag library derived from peripheral blood mononuclear cells of the chlorocebus sabaeus

Nicolas Tchitchek1, Béatrice Jacquelin2, Patrick Wincker3, Carole Dossat3, Corinne Da Silva3, Jean Weissenbach3, Antoine Blancher4, Michaela Müller-Trutwin2* and Arndt Benecke15*

Author Affiliations

1 Institut des Hautes Études Scientifiques - Centre National de la Recherche Scientifique, Bures-sur-Yvette, France

2 Institut Pasteur, Unité de Régulation des Infections Rétrovirales, Paris, France

3 CEA, Institut de Génomique, Genoscope, Evry, France

4 Laboratoire d’Immunologie, CHU Rangueil, Toulouse, France

5 Vaccine Research Institute, Institut Mondor de Recherche Biomédicale, INSERM U955, Créteil, France

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BMC Genomics 2012, 13:279  doi:10.1186/1471-2164-13-279

Published: 22 June 2012

Abstract

Background

African Green Monkeys (AGM) are amongst the most frequently used nonhuman primate models in clinical and biomedical research, nevertheless only few genomic resources exist for this species. Such information would be essential for the development of dedicated new generation technologies in fundamental and pre-clinical research using this model, and would deliver new insights into primate evolution.

Results

We have exhaustively sequenced an Expression Sequence Tag (EST) library made from a pool of Peripheral Blood Mononuclear Cells from sixteen Chlorocebus sabaeus monkeys. Twelve of them were infected with the Simian Immunodeficiency Virus. The mononuclear cells were or not stimulated in vitro with Concanavalin A, with lipopolysacharrides, or through mixed lymphocyte reaction in order to generate a representative and broad library of expressed sequences in immune cells. We report here 37,787 sequences, which were assembled into 14,410 contigs representing an estimated 12% of the C. sabaeus transcriptome. Using data from primate genome databases, 9,029 assembled sequences from C. sabaeus could be annotated. Sequences have been systematically aligned with ten cDNA references of primate species including Homo sapiens, Pan troglodytes, and Macaca mulatta to identify ortholog transcripts. For 506 transcripts, sequences were quasi-complete. In addition, 6,576 transcript fragments are potentially specific to the C. sabaeus or corresponding to not yet described primate genes.

Conclusions

The EST library we provide here will prove useful in gene annotation efforts for future sequencing of the African Green Monkey genomes. Furthermore, this library, which particularly well represents immunological and hematological gene expression, will be an important resource for the comparative analysis of gene expression in clinically relevant nonhuman primate and human research.