Dynamics of Solid Waste, Water Quality and Associated Microbial Community in a Recirculating Aquaculture System for Mandarin Fish (Siniperca chuatsi)

This study investigated the temporal variation and removal efficiency of solid waste, together with the dynamics of water quality parameters and microbial community structure, in a recirculating aquaculture system (RAS) for mandarin fish (Siniperca chuatsi) fed a formulated diet. The average fish weight was 384.62 ± 12.13 g, and the stocking density was 25 kg/m3. The results showed that: (1) the contents of the stomach and intestine exhibited a bimodal pattern, characterized by an initial increase followed by a decrease, and a subsequent secondary increase and decline. In the culture tanks, the total suspended solid (TSS) concentration at the main discharge outlet of the dual-channel bottom drainage system was highest immediately after feeding (0 h), reached its lowest level at 5 h post-feeding, and displayed a double-peak pattern during the 6–24 h post-feeding period. The temporal variations of in-tank TSS and chemical oxygen demand (COD) generally followed the same trend as the TSS concentration at the main discharge outlet. (2) Total ammonia nitrogen (TAN) reached its maximum at 6 h, whereas nitrite nitrogen (NO2−-N) peaked at 9 h. (3) The solid–liquid separation efficiencies of the dual-drain system, vertical flow clarifier, and Rotating drum microfilter were 30.40–58.33%, 51.30–76.61%, and 37.04–68.26%, respectively, with the highest removal efficiencies observed at 0 h post-feeding. (4) In the nitrifying biofilter, the TAN concentrations ranged from 0.22–0.99 mg/L at the inlet to 0.15–0.36 mg/L at the outlet. In contrast, NO2−-N concentrations exhibited negligible differences between the inlet and outlet at the corresponding sampling times. At the phylum level, Pseudomonadota, Bacteroidota, and the superphylum Patescibacteria dominated the biofilter microbial communities. At the genus level, Sediminibacterium and Limnohabitans were predominant in BF_1, whereas taxa affiliated with norank_f__Hyphomicrobiales_ and unclassified_o__Saccharimonadales dominated BF_2. Overall, the results indicated that increasing water circulation and tank flow rate at 0 h and during the 7–14 h post-feeding period may facilitate the timely removal of solid waste, and that the installation of a foam fractionator could contribute to the removal of dissolved and fine organic matter.