In order to effectively solve the problem of copyright protection of materials genome engineering data, this paper proposes a method for copyright protection of materials genome engineering data based on zero-watermarking technology. First, the important attribute values are selected from the materials genome engineering database; then, use the method of remainder to group the selected attribute values and extract eigenvalues; then, the eigenvalues sequence is obtained by the majority election method; finally, XOR the sequence with the actual copyright information to obtain the watermarking information and store it in the third-party authentication center. When a copyright dispute requires copyright authentication for the database to be detected. First, the zerowatermarking construction algorithm is used to obtain an eigenvalues sequence; then, this sequence is XORed with the watermarking information stored in the third-party authentication center to obtain copyright information to-be-detected. Finally, the ownership is determined by calculating the similarity between copyright information to-be-detected and copyright information that has practical significance. The experimental result shows that the zero-watermarking method proposed in this paper can effectively resist various common attacks, and can well achieve the copyright protection of material genome engineering database.