Benthic foraminifera and sediment texture were studied on a total of 37 samples, collected from two brackish-water coastal basins: Fogliano Lake and Lungo Lake (central Italy). The research was performed as a preliminary low-cost survey to highlight the degree of the environmental stress and to recognize a possible anthropogenic disturbance. The sedimentological and foraminiferal data were processed by bivariate and multivariate statistical analysis. Three distinct assemblages, referable to different environments were recognized for the Fogliano Lake: inner, intermediate and outer lagoon. Only the outer lagoon assemblage was found in the Lungo Lake. The distribution of foraminifera in the Fogliano Lake suggests a natural environmental stress probably due to the ecological instability typical of marginal environments, while the absence of the inner and intermediate lagoon assemblages in the Lungo Lake suggests an environmental disturbance possibly related to human activities. An interdisciplinary survey including geochemical analyses is recommended in order to deduce the nature and degree of pollution in the Lungo Lake.