Polycyclic aromatic hydrocarbons (PAHs) are characterized with high KOW values, which lead to their recalcitrant nature, bioaccumulation, and biotoxicity, adversely affects the environment. Passive samplers (PS) have proven effective in measuring bioavailable PAH concentrations for toxicity assessments. In this study, we used low-density polyethylene (LDPE) to measure freely dissolved PAH concentrations (Cfree) in Kentucky Lake (KL) and Ohio River (OH), USA. PAHs toxicity potential in sediment was assessed using equilibrium partitioning sediment benchmarks toxic units (ESBTUs) and the interstitial water toxic units (IWTUs) that were derived from OC-normalized concentration (COC) and Cfree, respectively. The Cfree in April and June were 127 and 97 times higher in OH than in KL, respectively. Moreover, ESBTUs were higher in both the KL and OH compared to the IWTUs, suggesting that ESBTUs overestimate the toxicity potential to organisms. These results indicate that PS provides a reliable method for assessing the toxicity potential in sediments.