Food adulteration is a current socioeconomic crisis all over the world. Therefore, the current study aimed to use the molecular sequencing of 12S rRNA to detect food fraud in the most consumed meat cuts in the Egyptian markets. After sequences' trimming, the fragments' lengths were 389-395 bp for B. bubalis, B. taurus O. aries, and C. hircus. The results detected species substitution in the analyzed meat cuts. Particularly, buffalo and goat samples were replaced by cattle and buffalo. Finally, molecular methods are accurate and sensitive for the authentication of meat and are crucial in establishing the quality and authenticity of meat‐based food products.