The invention aims at providing a whole-
genome-selection-based method for breeding improved 
disease-resistant fish varieties, thereby overcoming defects in the traditional breeding technology, providing a 
molecular breeding method for cultivation of improved 
disease-resistant high-yield fish varieties, solving a problem of lack of a whole-
genome selection method in the existing fish breeding industry, providing a technical means for improved 
disease-resistant fish variety breeding of the fish breeding industry, realizing upgrading of the fish breeding technique, and promoting rapid development of the fish breeding industry. The disease-resistant fish 
offspring obtained by using the method provided by the invention has the enhanced disease-resistant capability. An experiment result demonstrates that the 
survival rate from infection and breeding 
survival rate of a disease-resistant fish 
offspring that is bred based on the whole 
genome selection method are higher than those of the control group by 20% to 30%. Using the method provided by the invention, the improved disease-resistant fish 
breed can be bred rapidly and efficiently; and the disease-resistant capability and breeding 
survival rate of fish can be enhanced. Therefore, the method provided by the invention has the great application value and broad promotion prospects in the fish breeding industry.