Aquaculture systems are of increasing concern as an important source of atmospheric methane (CH4) and nitrous oxide (N2O). However, the role of animals in regulating CH4 and N2O emissions from aquaculture systems remains unclear. Here, we established mesocosm trials to investigate impacts of bioturbation of different aquaculture species (i.e., clam, shrimp, and crab) on CH4 and N2O fluxes in a mariculture pond. Across the initial, middle, and final culturing stages, mean CH4 flux in mesocosm without animals was 4.81 ± 0.09 µg CH4 m‒2 h‒1, while the existence of clam, shrimp, and crab significantly increased CH4 flux by 35.3 %, 80.6 %, and 138 %, respectively. Bioturbation significantly decreased dissolved oxygen (DO) concentration by 5.19‒44.8 % but increased porewater CH4 concentration by 14.1‒59.9 %, indicating that lowered DO caused by animal respiration promoted CH4 production in sediment. Moreover, bioturbation of animals significantly increased ebullitive CH4 fluxes by 41.0‒216 %, contributing 57.4‒77.2 % of the increased CH4 emission in mesocosms with animals. However, shrimp and crab significantly reduced N2O flux by 30.3 % and 42.5 %, respectively, primarily due to lowered DO conditions suppressing nitrification and limiting NO3‒ supply for denitrification. By contrast, clam significantly increased N2O emission by 181 % because its filter-feeding behavior excreted more NH4+ and NO3‒ into overlying water and thereby facilitating N2O production. The N2O concentration in overlying water was 1.72‒2.83-fold of that in porewater, and the calculated diffusive N2O flux was 1.80‒37.5 % greater than chamber-measured N2O efflux. This implied that N2O might be primarily produced in overlying water rather than sediments, and the produced N2O can either evade as water-air fluxes or diffuse downwards into sediments to be consumed. Overall, our study advocates that aquaculture-related climate mitigation strategies should place more attention on the divergent impacts of animal bioturbation on CH4 and N2O emissions.
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