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Fig. 1 | Retrovirology

Fig. 1

From: Molecular clock of HIV-1 envelope genes under early immune selection

Fig. 1

HIV-1 diversity dynamics of 15 subjects. a Diversity increase as a function of time for the first 150 days since the first sample for 15 HIV-1 infected individuals, CAP045, CH040, CH042, CH058, CH077, CH131, CH159, CH162, CH164, CH185, CH198, CH256, CH505, SUMA0874 and WEAU0578. A total of 1587 HIV-1 full envelope gene sequences were obtained from references [27, 3032]. The population dynamics showed a statistically significant linear diversification rate of 2.69 (±0.29) × 10−5 per site per day (p < 0.0001). The solid line represents the fit of the mixed effects model and the dotted line represents the neutral diversification rate, \(2.16 \times 10^{ - 5}\) per site per day [3335]. b Diversity dynamics over 2 years since the first sample of the 15 subjects. The solid curve denotes the best-fit of the mixed effects model to these overall dynamics. Over the 2 year time frame, the envelope gene sequence population diversifies linearly at a rate of \(2.30 \times 10^{ - 5}\) per site per day (p < 0.0001) and quadratically at a rate of \(- 0.00122 \times 10^{ - 5}\) per site per day2 (p = 0.028). The dotted line again represents the neutral diversification rate, \(2.16 \times 10^{ - 5}\) per site per day

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