Mediterranean Temporary Ponds (MTPs) are shallow water bodies which are characterized from a short wet period and their small size (Zacharias et al., 2007). MTPs of Europe have are under an effective protection status, as a result of their identification as a priority habitat (Annex I code 3170*) in the EU Directive 92/43/EEC (Habitats' Directive). These ponds are very delicate ecosystems regarding their hydrological and geochemical characteristics. Due to their small size, they are open to random destruction or other unpredictable dangers. Although small in size, MTPs are complex ecosystems where topography, soil, water and hydrological conditions and microorganisms are closely connected (Zacharias et al., 2007; Stamatakis et al., 2015). The conservation and restoration of such ecosystems is very difficult because of their unique characteristics. The most common threats for MTPs include destruction of the hosting area through human and animal pressures, hydrological disturbance, fire and generally changes in ecological conditions resulting in an increase of competitive plants, nutrition influx, toxic contaminants and wastes, sedimentary deposit filling, exotic-invasive fauna and flora and negative effects from domesticated or hunted fauna (Dimitriou et al., 2006).