Seasonal sediment samples were collected at sites on Ship Shoal, Louisiana to assess the microphytobenthic biomass and composition using photopigment analysis. A total of 29 photopigments including chlorophyll a and accessory pigments were evaluated from each of the sediment samples. Conductivity/temperature/depth (CTD) casts were performed for water quality assessment. A sensor suite on the CTD collected bottom water salinity, temperature, and dissolved oxygen for each cast at each site. Sediment organic matter samples were collected from the top 1 cm of sediment.