Phrynocephalus helioscopus species complex have been thoroughly studied during recent years, but several lineages remained unassigned. Based on the morphological differences and divergence in COI (mtDNA) gene sequences, two new subspecies are described in the present article within the Phrynocephalus helioscopus species complex: Ph. helioscopus karatauensis ssp. nov. from the environs of Karatau Ridge in Kazakhstan and Ph. saidalievi orlovae ssp. nov.