The purposes of this study were to compare the differences on fitness among local residents, aboriginals, elite ball athletes, and martial art athletes, and to assess the polymorphisms that occur in the variations of the fitness related gene among the above four groups. There were 182 local citizens, aboriginals and elite athletes were recruited as subject (average age were 21 years). The fitness tests that included body mass index (BMI), grip strength (muscular strength), sit-ups (muscular endurance) and one mile run (aerobic endurance) were administered. Additionally, blood samples were collected and gene-mapping performed by PCR. The genotypes of the ADRB2, ADRB3, NOS3, iNOS and CETP genes were determined and analyzed. The collected data were analyzed by ANOVA and Chi-square. The conclusions of this study were as follows: 1. The physical fitness performances included sit-ups, grip strength, one mile walk and run of martial art athletes were significantly better than that of other 3 groups (p <.05). There was no significant difference in BMI among 4 groups. 2. Genotypes of the ADRB3 gene revealed a significantly higher frequency of the Trp/Arg genotype(p <.05)than the Trp/Trp genotype in aboriginals. This result indicated the ADRB3 gene was related to the BMI of aboriginals. 3. Martial art athletes had significantly better performances in muscular strength and endurance than that of the other 3 groups ( p <.05) and had higher distributions of Gln/Glu genotypes. Meanwhile, the other 3 groups had more frequency of Gln/Gln genotypes than martial art athletes. The results seemed to show the close relationship of the Gln/Glu genotype of the ADRB2 gene with muscular strength and endurance. 4. The distribution of G/G and G/T genotypes of the iNOS gene polymorphism were located significantly in both martial art and ball athletes groups(p <.05). It seemed that the T/T genotype of NOS3 was closely related to aerobic exercise. 5. The distribution of the CT genotype of the NOS3 gene polymorphism in martial art athletes was significantly different from other 3 groups, indicating the martial art athletes may obtain more frequency of CT genotype. 6. The ADRB2 was consisted of 3 polymorphisms of the other groups except aboriginals who didn’t have the Glu/Glu genotype. This study found that athletes had higher distributions of Gln/Gln polymorphism in ADRB2 gene and CT genotype in NOS3 could provide the bases for further research related to sport science and genetic selection.