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To shed light on primate foamy virus (FV) evolution, we determined the complete nucleotide sequence of the gorilla simian foamy virus (SFVgor). Starting from a conserved region in the integrase (IN) domain of the pol gene we cloned the viral genome to the 5′ and 3′ LTR into plasmid vectors and elucidated its nucleotide sequence. The sequences of both LTRs were determined by nucleotide sequencing of separate PCR products from the primer-binding site or the bel region and LTRs. All protein motifs conserved among the primate FV were identified in SFVgor. Using phylogenetic analysis of the Gag, Pol and Env amino acid sequences, we demonstrate that SFVgor consistently clusters in accordance with a scenario of virus–host co-divergence.
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Journal of General Virology vol. 92 , part 3, pp. 582 - 586
Supplementary Methods
Supplementary Table S1. Overview of the length (nt) of LTR and ORF nucleotide sequences
Supplementary Table S2. Amino acid similarities (in per cent) of SFVgor with different FV
Supplementary Table S3. Nucleotide similarities (in per cent) of SFVgor with different FV
Supplementary Fig. S1. Relative divergence times for host and viral phylogenies [Single PDF file](113 KB)