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Carbon accumulation in forests is an important step towards achieving better climate mitigation levels. The current research aims at uncovering the link between the NATURA 2000 habitats in Borino Municipality, Southern Bulgaria and the expected carbon sequestration from natural forest regrowth for the period 2020-2050. ; The case study area currently is of a predominantly mountainous character with a number of forests - a prerequisite for enlargement of the carbon pools. Nevertheless, there are also grassland habitats, which participate in this process as well. ; The results of the research show that the southern parts of the municipality possess a larger potential for carbon accumulation with levels. The promising outcomes may be used as an example of an investigation of climate mitigation and may serve as a basis for broadening the geographical range in other municipalities in the region.