3.6 Gene family identification
Gene family analysis identified a total of 71,331 gene families among five kinds of shellfish (Supporting Information Table S8), and we discovered 23,063 gene families clustered by 38,841 protein-coding genes in the Asian Clam genome. We compared the C. fluminea genome to those of C. gigas , L. gigantea , B. platifrons , andC. virginica and discovered that 16,170 gene families were specific to C. fluminea (Figure 4A). Additionally, we statistically analyzed several gene features, including single-copy orthologs, multiple copy orthologs, other orthologs, and unique genes (Figure 4B). The five shellfish shared 146 single-copy orthologs, and the Asian Clam genome contained 25,878 unique genes (Supporting Information Table S9).