Fusarium oxysporum f. sp. radicis-lycopersici (FORL) causes Fusarium crown and root-rot diseases and Tomato yellow leaf curling virus (TYLCV, Israel, Mild, Sardinian strains) infection leads to low yield and poor quality fruits, which causes important economic losses in tomato growing areas. In this study, previously developed molecular markers for FORL and TYLCV were used with 418 tomato genotypes which have characteristics of high yield, quality fruit and resistance to abiotic stresses. 62 tomato lines were obtained from Cukurova University (CU), 196 and 160 of tomato lines were generated from Western Mediterranean Agricultural Research Institute (BATEM) and private sector, respectively. All genotypes were tested with classical and molecular methods where species specific resistance RAPD and SCAR(Frl) primers for FORL, CAPS and Co-dominant SCAR primers for TYLCV resistance were used. Analyses revealed that 102 tomato genotype are resistant to FORL, 46 and 35 of plant genotypes contain TY3 and T Y1 loci respectively. Three genotypes from BATEM and 4 genotypes from private sector contained the 3 target genes (FORL+TY1+TY3), however, none of the tested CU tomato genotype was resistant to the 3 target genes. Furthermore, yield and some fruit quality characteristics of 7 tomato lines which were resistant to both diseases were determined in molecular and classical tests.