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The genetic basis for bivalves’ adaptation and evolution is not well understood. Even few studies have focused onthe mechanism of molluscan molecular evolution between the coastal intertidal zone and deep-sea environment.In our studies, we first conducted the transcritpome assembly of Modiolus modiolus mussels living in coastalintertidal zones. Also, we conducted transcriptome comparison analyses between M. modiolus andBathymodiolus platifrons living in hydrothermal vents and cold methane/sulfide-hydrocarbon seeps. De novoassemblies of the clean reads yielded a total of 182476 and 156261 transcripts with N50 values of 1769 and 1545in M. modiolus and B. platifrons. A total of 27868 and 23588 unigenes were identified, which also displayed thesimilar GO representation patts. Among the 10245 pairs of putative orthologs, we identified 26 protein-codinggenes under strong positive selection (Ka/Ks>1) and 12 genes showing moderate positive selection (0.5
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