Molecular phylogenetic investigations have also demonstrated Gomphidiaceae are nested well within Boletales, being more closely related to Suillaceae than to Boletaceae, a finding that is supported by chemotaxonomic investigation of these groups.
Research into molecular phylogeny suggests that Gomphidiaceae are closely associated with Suillaceae within the Boletales family, while being less related to Boletaceae. Chemotaxonomic studies provide further evidence supporting these relationships among the groups.