Figure 7

Phylogenetic analysis of partial SIVmus-09OlGab81 env sequences. a) Phylogenetic relationships of the newly derived SIVmus-09GabOI81 sequences in partial env sequence to representatives of the other SIV lineages. Only sequences of interest are showed. Reference sequences used were as follow: SIVtal00CM266_AY655744, SIVtal01CM8023_AM182197, SIVmon99CMCML1_AY340701, SIVgsn99CM166_AF468659, SIVgsn99CM71_AF468658, SIVsykKE51_AY523867, SIVsyk173_L06042, SIVmus-1 01CM1085_AY340700, SIVmus-1.01CMCM1239_EF070330, SIVmus-2 01CM2500_EF070331, SIVmus-02 01CM1246_EF070329, SIVdeb99CMCM40_AY523865, SIVdeb99CMCM5_AY523866, SIVdenCD1_AJ580407, SIVcpzPts_AF447763, SIVcpzPtt_AF103818. The newly identified SIVmus strain in this study is highlighted in grey rectangle and in bold text, and reference strains are in black except for SIVmus from Cameroon that is in a grey rectangle. The rooted trees were inferred from 1900 nucleotides. The analyses were performed using discrete gamma distribution and GTR model. The starting tree was obtained by using phyML. One thousand bootstrap replications were performed to assess confidence in topology (only values ≥ 80% are shown and represented by an asterisk). Scale bar represents the number of nucleotide substitution per site. b) Similarity plots of SIVmus partial env nucleic acids sequence showing similarities between SIVmus-09GabOI81 versus other SIVs representative for the SIVmus/mon/gsn lineages, obtained with a sliding window of 160 nucleic acids (na) moved in steps of 10 na . The vertical axis shows the percentage of similarities and the horizontal axis shows the nucleic acid positions.