Eighteen commercial taxa in genera Liriope and Ophiopogon were evaluated genetically and morphologically. Three hundred and forty-four Amplified Fragment Length Polymorphism (AFLP) markers were identified and used in the analysis. Relatedness among taxa was estimated by analyzing the AFLP data using the Dice coefficient of similarity and UPGMA methods. The molecular analysis revealed relatively no genetic differentiation among the taxa ascribed to their respective genera, Liriope and Ophiopogon, based on morphological assessment of floral structure. Greater than 95% of the total genetic variability present was attributed to within group effects using various grouping strategies among the taxa. Among group effects were correspondingly low and not significant (P ≤ 0.05). Results suggest an indistinguishable genetic relationship may exist in the tribe Ophiopogonae between what is currently ascribed as two distinct genera.