A study has been led from September 2016 to February 2017 in the great barrier reef of Toliara and the complex reef of Sarodrano. It concerns about assessing the density of Zooxanthellae in Acropora sp during the hot season in two different sites. The sample of healthy Acropora sp was collected in two gradients of depth (0-5m) and (5-10m) every two months. For the first two months, the density of zooxanthellae in Grande Vasque was respectively about 1,4*106 cells.cm-² and 1,54*106 cells.cm-² in (0-5m) depth and (5-10m). In Arakaivo, there is no significant difference in terms of density between the gradient of depths. In November and December we have observed a significant value between depth either in Grande Vasque or Arakaivo. And a significant difference was noted between the two sites in terms of density. The zooxanthellae dwells the most in the apical part of coral. There is a significant difference either between apical and middle or apical and basal part of coral. The Zooxanthellae set up likely the most on the top of Acropora sp so that it conquered the daily light. And about the carbon sequestration, the basal part of coral has a higher amount of CO2 than the middle or apical part of coral. This result is very important to diagnose the state of coral reef ecosystem before, during and after one event. Keys words : Acropora sp, Zooxanthellae, Density, CO2, GRT, Sarodrano

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