We measured the concentration and the stable isotope ratios of dissolved oxygen in the water column in the Estuary and Gulf of St. Lawrence to determine the relative importance of pelagic and benthic dissolved oxygen respiration to the development of hypoxic deep waters. The progressive landward decrease of dissolved oxygen in the bottom waters along the axis of the Laurentian Channel (LC) is accompanied by an increase in the 18 O : 16 O ratio, as would be expected from O-isotope fractionation associated with bacterial oxygen respiration. The apparent O-isotope effect, e O-app , of 10.8% reveals that community O-isotope fractionation is significantly smaller than if bacterial respiration occurred solely in the water column. Our observation can best be explained by a contribution of benthic O 2 consumption occurring with a strongly reduced O-isotope effect at the scale of sediment-water exchange (e O-sed , 7%). The value for e O-sed was estimated from benthic O 2 exchange simulations using a one-dimensional diffusion-reaction O-isotope model. Adopting this e O-sed value, and given the observed community O-isotope fractionation, we calculate that approximately two thirds of the ecosystem respiration occurs within the sediment, in reasonable agreement with direct respiration measurements. Based on the difference between dissolved oxygen concentrations in the deep waters of the Lower St. Lawrence Estuary and in the water that enters the LC at Cabot Strait, we estimate an average respiration rate of 5500 mmol O 2 m 22 yr 21 for the 100-m-thick layer of bottom water along the LC, 3540 mmol O 2 m 22 yr 21 of which is attributed to bacterial benthic respiration.The Laurentian Channel (LC) is a 1200-km-long and more than 300-m-deep submarine valley that originates on the Atlantic continental shelf off Nova Scotia and ends near the mouth of the Saguenay Fjord (Fig. 1). The deep and slow landward flow in the deep waters brings oxygenrich water from the Atlantic Ocean into the Gulf of St. Lawrence (Gilbert et al. 2005). The deep water is separated from the oxygenated surface and the cold intermediate subsurface layer (Gilbert and Pettigrew 1997) by a strong density gradient that inhibits vertical mixing of oxygen-rich surface waters with oxygen-poor bottom water (Fig. 2). Even during winter, water-column convection does not reach beyond 150 m in depth (Galbraith 2006). Thus, isolated from the atmosphere, the bottom water loses oxygen gradually through organic matter respiration as it flows landward along the LC.The bottom water in the Lower St. Lawrence Estuary (LSLE) at the western end of the LC is hypoxic, with dissolved oxygen (O 2 ) concentrations as low as 55 mmol L 21 (Gilbert et al. 2005). The O 2 concentration in the LSLE bottom water has decreased by 50% since 1930 (Gilbert et al. 2005), corresponding to an average depletion of approximately 1 mmol L 21 yr 21 . Gilbert et al. (2005) attributed one half to two thirds of the oxygen depletion to changes in the properties of the deep-water mass that enters the ...