In contrast to the global countries, ectomycorrhizae members are not common in Egypt, however, they are very important in the afforestation of poor lands. Their occurrence in Pinus sp., Clerodendrum sp., and Eucalyptus sp. may help to explain why these trees are the most extensively dominant around the world, especially in Egypt. The identification and characterization of numerous ectomycorrhizal fungi often involve large morphological descriptions of sporocarps alone, which consequently, in some instances, raise arguments about the accuracy of these studies. The present work was achieved to isolate, identify, and characterize three ectomycorrhizal fungi from sporocarps combining morphological and molecular techniques. The morphological characteristics of tested species were assessed and compared to standard taxonomic literature. ITS-rDNA was utilized for molecular analysis using the universal fungal primers ITS1. Identification of these species was confirmed by comparing the sequences of amplified genomes of these species with respective species sequences in GenBank, followed by blast analysis.