Mandovi estuary has a prolific population of heterotrophic bacteria due to the influx of nutrients including nitrate and organic hydrocarbons. Seasonal sampling at various locations along the estuary was carried out to isolate nitrate reducing and denitrifying bacteria capable of hexadecane utilization. Total viable counts of nitrate utilizing bacteria showed variations with seasonal changes. It ranged from 10³-10⁶ cfu/mL on nitrate reduction medium and 10¹-10⁵ cfu/ml on minimal media containing hexadecane as the sole carbon source. Highest bacterial counts were obtained during the monsoons. 22% of bacteria capable of hexadecane utilization were nitrate reducing and 12% were denitrifying. 29% of the hexadecane utilizing cultures isolated during the monsoons exhibited nitrate reducing activity. However, seasonal variations did not affect the frequency of the denitrifying hexadecane utilizers.