Plant communities guarantee the functionality of terrestrial ecosystems, but they, in turn, depend on the microorganisms with which they are associated, especially those living in soil and roots. They provide most of the nitrogen and phosphorus taken up by plants, in temperate and boreal forests (Van der Heijden et al., 2008). Conservative estimates indicate that about 20,000 species of plants are completely dependent on soil symbiotic microorganisms for growth and survival, indicating the importance of soil microbes as regulators of plant richness on Earth (Van der Heijden et al., 2008).Among the various types of symbioses, the ectomycorrhizas (ECMs), which affect mainly the forest formations of temperate areas, are usually produced by fungal species capable of forming fruiting bodies (FBs) (Vogt et al., 1992). In the past, the structure of ectomycorrhizal (ECM) fungal communities was studied by FB surveys; this was then replaced by or coupled with root tip morphological analyses (Pacioni et al., 2001;Ashkannejhad and Horton, 2006). Molecular tools have been introduced and perfected over the past decades (Gardes et al., 1991;Gardes and Bruns, 1993), allowing for the identification, at least as a DNA sequence, of cryptic or nonfruiting ECM taxa. Molecular identification of ECMs is becoming the most common approach to study ECM communities in simplex and complex ecological systems (Mühlmann et al., 2008, Urban et al., 2008. Molecular characterization of ECMs coupled with FB surveying was also applied in several cases to study ECM communities. This double approach, in primary successional settings, makes ECM assemblages simple and gives a good correspondence between above and below ground ECM fungal communities (Nara et al., 2003); the ECM community is, in fact, dominated by a limited set of species that, after initial colonization, readily form sporocarps to disperse their spores to surrounding areas to widen their distribution (Nara, 2008). In contrast, in mature natural stands, there is a pervasive disconnection between aboveand below-ground ECM fungal communities (Gardes and Bruns, 1996). Smith et al. (2007) suggest that, in order to reach a complete overlap between FB and ECM fungal