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Yale Deng
Aquaculture and Fisheries Group, Department of Animal Sciences, Wageningen University, 6708 WD Wageningen, The Netherlands

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Journal article
Published: 26 December 2019 in Water
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Integrated multi trophic aquaculture (IMTA) improves the production of aquatic animals by promoting nutrient utilization through different tropical levels. Microorganisms play an important role in elements cycling, energy flow and farmed-species health. The aim of this study was to evaluate how feed types, fresh frozen fish diet (FFD) or formulated diet (FD), influence the microbial community diversity and functionality in both water and sediment in a marine IMTA system. Preferable water quality, higher animal yields and higher cost efficiency were achieved in the FD pond. Feed types changed the pond bacterial community distribution, especially in the rearing water. The FFD pond was dominated with Cyanobacteria in the water, which played an important role in nitrogen fixation through photosynthesis due to the high nitrogen input of the frozen fish diet. The high carbohydrate composition in the formulated diet triggered higher metabolic pathways related to carbon and lipid metabolism in the water of the FD pond. Sediment had significantly higher microbial diversity than the rearing water. In sediment, the dominating genus, Sulfurovum and Desulfobulbus, were found to be positively correlated by network analysis, which had similar functionality in sulfur transformation. The relatively higher rates of antibiotic biosynthesis in the FFD sediment might be related to the pathogenic bacteria introduced by the trash fish diet. The difference in microbial community composition and metabolic pathways may be associated with the different pathways for nutrient cycling and animal growth performance. The formulated diet was determined to be more ecologically and economically sustainable than the frozen fish diet for marine IMTA pond systems.

ACS Style

Yale Deng; Fan Zhou; Yunjie Ruan; Bin Ma; Xueyan Ding; Xiaomei Yue; Wenjun Ma; Xuwang Yin; Ma. Feed Types Driven Differentiation of Microbial Community and Functionality in Marine Integrated Multitrophic Aquaculture System. Water 2019, 12, 95 .

AMA Style

Yale Deng, Fan Zhou, Yunjie Ruan, Bin Ma, Xueyan Ding, Xiaomei Yue, Wenjun Ma, Xuwang Yin, Ma. Feed Types Driven Differentiation of Microbial Community and Functionality in Marine Integrated Multitrophic Aquaculture System. Water. 2019; 12 (1):95.

Chicago/Turabian Style

Yale Deng; Fan Zhou; Yunjie Ruan; Bin Ma; Xueyan Ding; Xiaomei Yue; Wenjun Ma; Xuwang Yin; Ma. 2019. "Feed Types Driven Differentiation of Microbial Community and Functionality in Marine Integrated Multitrophic Aquaculture System." Water 12, no. 1: 95.

Journal article
Published: 01 October 2018 in Aquaculture
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Jiawei Li; Gang Liu; Changwei Li; Yale Deng; Musa Abubakar Tadda; Lihua Lan; Songming Zhu; Dezhao Liu. Effects of different solid carbon sources on water quality, biofloc quality and gut microbiota of Nile tilapia (Oreochromis niloticus) larvae. Aquaculture 2018, 495, 919 -931.

AMA Style

Jiawei Li, Gang Liu, Changwei Li, Yale Deng, Musa Abubakar Tadda, Lihua Lan, Songming Zhu, Dezhao Liu. Effects of different solid carbon sources on water quality, biofloc quality and gut microbiota of Nile tilapia (Oreochromis niloticus) larvae. Aquaculture. 2018; 495 ():919-931.

Chicago/Turabian Style

Jiawei Li; Gang Liu; Changwei Li; Yale Deng; Musa Abubakar Tadda; Lihua Lan; Songming Zhu; Dezhao Liu. 2018. "Effects of different solid carbon sources on water quality, biofloc quality and gut microbiota of Nile tilapia (Oreochromis niloticus) larvae." Aquaculture 495, no. : 919-931.

Journal article
Published: 21 September 2018 in Water
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An aerobic denitrifier was isolated from a long-term poly (3-hydroxybutyrate-co-3-hydroxyvalerate) PHBV-supported denitrification reactor that operated under alternate aerobic/anoxic conditions. The strain was identified as Marinobacter hydrocarbonoclasticus RAD-2 based on 16S rRNA-sequence phylogenetic analysis. Morphology was observed by scanning electron microscopy (SEM), and phylogenetic characteristics were analyzed with the API 20NE test. Strain RAD-2 showed efficient aerobic denitrification ability when using NO3−-N or NO2−-N as its only nitrogen source, while heterotrophic nitrification was not detected. The average NO3−-N and NO2−-N removal rates were 6.47 mg/(L·h)and 6.32 mg/(L·h), respectively. Single-factor experiments indicated that a 5:10 C/N ratio, 25–40 °C temperature, and 100–150 rpm rotation speed were the optimal conditions for aerobic denitrification. Furthermore, the denitrifying gene napA had the highest expression on a transcriptional level, followed by the denitrifying genes nirS and nosZ. The norB gene was found to have significantly low expression during the experiment. Overall, great aerobic denitrification ability makes the RAD-2 strain a potential alternative in enhancing nitrate management for marine recirculating aquaculture system (RAS) practices.

ACS Style

Dedong Kong; Wenbing Li; Yale Deng; Yunjie Ruan; Guangsuo Chen; Jianhai Yu; Fucheng Lin. Denitrification-Potential Evaluation and Nitrate-Removal-Pathway Analysis of Aerobic Denitrifier Strain Marinobacter hydrocarbonoclasticus RAD-2. Water 2018, 10, 1298 .

AMA Style

Dedong Kong, Wenbing Li, Yale Deng, Yunjie Ruan, Guangsuo Chen, Jianhai Yu, Fucheng Lin. Denitrification-Potential Evaluation and Nitrate-Removal-Pathway Analysis of Aerobic Denitrifier Strain Marinobacter hydrocarbonoclasticus RAD-2. Water. 2018; 10 (10):1298.

Chicago/Turabian Style

Dedong Kong; Wenbing Li; Yale Deng; Yunjie Ruan; Guangsuo Chen; Jianhai Yu; Fucheng Lin. 2018. "Denitrification-Potential Evaluation and Nitrate-Removal-Pathway Analysis of Aerobic Denitrifier Strain Marinobacter hydrocarbonoclasticus RAD-2." Water 10, no. 10: 1298.

Short communication
Published: 26 July 2018 in Fish & Shellfish Immunology
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A 120-day feeding trial was conducted to evaluate the effect of different stocking densities on growth, the non-specific immunities, antioxidant status and digestive enzyme activities of Oreochromis niloticus fingerlings under a zero-water exchange biofloc system. Tilapias (0.51 ± 0.05 g) were randomly distributed in twelve tanks, each with 300 L water. The experimental design was completely randomized using three replications with four treatments 166 orgs m−3 (LD, low density), 333 orgs m−3 (MD, middle density) and 600 orgs m−3 (HD, high density) with glucose added as biofloc groups, and a clear water group without glucose added as a control 333 orgs m−3. The fish cultured in LD and MD group showed higher final body weight. For the digestive enzymes, the lipase, trypsin, and amylase activities were all depressed in HD group and control group. Regarding the immune and antioxidant abilities, significantly lower values (P < 0.05) of the lysozyme, complement 3, and glutathione were observed for the fish that reared in the control group and HD group. The stress indicator, the cortisol, 5-hydroxytryptamine, and glucose concentrations were also depressed in HD group and control group, meanwhile the alanine aminotransferase, aspartate transaminase and alkaline phosphatase were all higher in HD group and control group. The significant higher survival was observed in the LD and MD group after Vibrio harveyi challenge test. The results of the experiment indicated that the biofloc in situ had the effects of anti-crowding stress.

ACS Style

Gang Liu; Zhangying Ye; Dezhao Liu; Jian Zhao; Elayaraja Sivaramasamy; Yale Deng; Songming Zhu. Influence of stocking density on growth, digestive enzyme activities, immune responses, antioxidant of Oreochromis niloticus fingerlings in biofloc systems. Fish & Shellfish Immunology 2018, 81, 416 -422.

AMA Style

Gang Liu, Zhangying Ye, Dezhao Liu, Jian Zhao, Elayaraja Sivaramasamy, Yale Deng, Songming Zhu. Influence of stocking density on growth, digestive enzyme activities, immune responses, antioxidant of Oreochromis niloticus fingerlings in biofloc systems. Fish & Shellfish Immunology. 2018; 81 ():416-422.

Chicago/Turabian Style

Gang Liu; Zhangying Ye; Dezhao Liu; Jian Zhao; Elayaraja Sivaramasamy; Yale Deng; Songming Zhu. 2018. "Influence of stocking density on growth, digestive enzyme activities, immune responses, antioxidant of Oreochromis niloticus fingerlings in biofloc systems." Fish & Shellfish Immunology 81, no. : 416-422.

Journal article
Published: 19 February 2018 in Scientific Reports
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In this study, Poly(butylene succinate)/bamboo powder (PBS/BP) was newly applied and tested for 8 months as the carbon source in two moving bed reactors for nitrate removal in real RAS wastewater (fresh/sea water), with the purposes of simultaneous reducing the cost of PBS packing and effluent DOC. Fast start-ups were obtained in both reactors, in which high denitrification rates were observed (0.68 ± 0.03 and 0.83 ± 0.11 kg $${{\bf{NO}}}_{{\bf{3}}}^{-}$$ -N m−3 d−1 for fresh and sea water, respectively) with no nitrite and low ammonia accumulation. Reduced DOC concentrations in the effluents were also observed compared to pure PBS. The freezing of PBS/BP showed a further slower release of DOC, which might be beneficial to the life of the PBS/BP for the denitrification process, however, microbial activity, especially in high salinity wastewater, was observed to have declined. Illumina sequencing revealed that the autotrophic genus arcobacter was discovered first time in solid-phase denitrification system with salinity. Redundancy analysis (RDA) was used to reveal the relationships between environmental factors and the microbial community. In overall, PBS/BP blends were proven to be an economically attractive carbon source for nitrate removal in RAS.

ACS Style

Dezhao Liu; Jiawei Li; Changwei Li; Yale Deng; Zeqing Zhang; Zhangying Ye; Songming Zhu. Poly(butylene succinate)/bamboo powder blends as solid-phase carbon source and biofilm carrier for denitrifying biofilters treating wastewater from recirculating aquaculture system. Scientific Reports 2018, 8, 1 -12.

AMA Style

Dezhao Liu, Jiawei Li, Changwei Li, Yale Deng, Zeqing Zhang, Zhangying Ye, Songming Zhu. Poly(butylene succinate)/bamboo powder blends as solid-phase carbon source and biofilm carrier for denitrifying biofilters treating wastewater from recirculating aquaculture system. Scientific Reports. 2018; 8 (1):1-12.

Chicago/Turabian Style

Dezhao Liu; Jiawei Li; Changwei Li; Yale Deng; Zeqing Zhang; Zhangying Ye; Songming Zhu. 2018. "Poly(butylene succinate)/bamboo powder blends as solid-phase carbon source and biofilm carrier for denitrifying biofilters treating wastewater from recirculating aquaculture system." Scientific Reports 8, no. 1: 1-12.

Journal article
Published: 22 December 2016 in Transactions of the ASABE
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Yunjie Ruan; Chan Lu; Xishan Guo; Yale Deng; Songming Zhu. Electrochemical Treatment of Recirculating Aquaculture Wastewater Using a Ti/RuO2-IrO2 Anode for Synergetic Total Ammonia Nitrogen and Nitrite Removal and Disinfection. Transactions of the ASABE 2016, 59, 1831 -1840.

AMA Style

Yunjie Ruan, Chan Lu, Xishan Guo, Yale Deng, Songming Zhu. Electrochemical Treatment of Recirculating Aquaculture Wastewater Using a Ti/RuO2-IrO2 Anode for Synergetic Total Ammonia Nitrogen and Nitrite Removal and Disinfection. Transactions of the ASABE. 2016; 59 (6):1831-1840.

Chicago/Turabian Style

Yunjie Ruan; Chan Lu; Xishan Guo; Yale Deng; Songming Zhu. 2016. "Electrochemical Treatment of Recirculating Aquaculture Wastewater Using a Ti/RuO2-IrO2 Anode for Synergetic Total Ammonia Nitrogen and Nitrite Removal and Disinfection." Transactions of the ASABE 59, no. 6: 1831-1840.

Journal article
Published: 01 September 2016 in Bioresource Technology
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In this study, an airlift inner-loop sequencing batch reactor using poly(butylene succinate) as the biofilm carrier and carbon source was operated under an alternant aerobic/anoxic strategy for nitrogen removal in recirculating aquaculture system. The average TAN and nitrate removal rates of 47.35±15.62gNH4-Nm(-3)d(-1) and 0.64±0.14kgNO3-Nm(-3)d(-1) were achieved with no obvious nitrite accumulation (0.70±0.76mg/L) and the dissolved organic carbon in effluents was maintained at 148.38±39.06mg/L. Besides, the activities of dissimilatory nitrate reduction to ammonium and sulfate reduction activities were successfully inhibited. The proteome KEGG analysis illustrated that ammonia might be removed through heterotrophic nitrification, while the activities of nitrate and nitrite reductases were enhanced through aeration treatment. The microbial community analysis revealed that denitrifiers of Azoarcus and Simplicispira occupied the dominate abundance which accounted for the high nitrate removal performance. Overall, this study broadened our understanding of simultaneous nitrification and denitrification using biodegradable material as biofilm carrier.

ACS Style

Yun-Jie Ruan; Ya-Le Deng; Xi-Shan Guo; Michael B. Timmons; Hui-Feng Lu; Zhi-Ying Han; Zhang-Ying Ye; Ming-Ming Shi; Song-Ming Zhu. Simultaneous ammonia and nitrate removal in an airlift reactor using poly(butylene succinate) as carbon source and biofilm carrier. Bioresource Technology 2016, 216, 1004 -1013.

AMA Style

Yun-Jie Ruan, Ya-Le Deng, Xi-Shan Guo, Michael B. Timmons, Hui-Feng Lu, Zhi-Ying Han, Zhang-Ying Ye, Ming-Ming Shi, Song-Ming Zhu. Simultaneous ammonia and nitrate removal in an airlift reactor using poly(butylene succinate) as carbon source and biofilm carrier. Bioresource Technology. 2016; 216 ():1004-1013.

Chicago/Turabian Style

Yun-Jie Ruan; Ya-Le Deng; Xi-Shan Guo; Michael B. Timmons; Hui-Feng Lu; Zhi-Ying Han; Zhang-Ying Ye; Ming-Ming Shi; Song-Ming Zhu. 2016. "Simultaneous ammonia and nitrate removal in an airlift reactor using poly(butylene succinate) as carbon source and biofilm carrier." Bioresource Technology 216, no. : 1004-1013.

Journal article
Published: 01 September 2016 in Aquacultural Engineering
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Highlights•Recirculating Biofloc Technology (RBFT) system, an ex-situ application, was established as a potential alternative to situ Biofloc Technology(BFT) system.•3-D simulation of tilapia rearing tank using computational fluid dynamics (CFD) reveals mesh types and turbulence models affect predicting accuracy.•Bubble size and Hydraulic Retention Time (HRT) are critical for floc holdup distribution in RBFT system.•The agreement between experimental predicting data and CFD simulations result was confirmed. AbstractBiofloc Technology (BFT) has been widely used in tilapia rearing. However, because of the biofloc sedimentation and accumulation, Total Suspended Solids (TSS) at the rearing tank bottom will be significantly high, especially, in the initial stages of larvae culture, which will have negative influence on the feeding enthusiasm, gill and even survival of cultured fishes. The Recirculating Biofloc Technology (RBFT) would be one of the potential solution for the above concerns. To achieve an accurate TSS regulation, the biofloc distribution should be as homogenous as possible. The aim of this work is to specify the optimal bubble size and Hydraulic Retention Time (HRT) to the uniformity of biofloc distribution in a RBFT system through Computational Fluid Dynamics (CFD) method. For this, a three-dimensional three-phase unsteady transient model was developed to simulate the hydrodynamics in a gas-liquid-solid tilapia rearing tank based on the commercial software Workbenching 15.0. Firstly, to achieve a more reliable prediction, the influence of the grid types and the computation turbulence model (Standard, Renormalization-Group (RNG), Realizable) to the simulation result were discussed by contrasting the simulations and experiments results of solid holdup at dimensionless radial position. Secondly, appropriate mesh size (181395 elements) and mixture standard k-e model were implemented to study the effect of bubble size and HRT on solid distribution uniformity. Simulations were performed by using three different mean bubble sizes (diameter = 1, 2, 3 mm) and three different HRTs (0.56, 1.13, and 2.25 h) to study the sensitivity of the results to the uniformity of the biofloc distribution, respectively. The results show that to get a better biofloc distribution, the bubble size should lie between 1 mm and 2 mm, and as the HRT decreasing, the distribution of biofloc distribution will be more homogeneous (0.45 ≤ HRT≤ 0.56 h). This paper provides an essential data set for determining the bubble size and HRT in production, and developing, as well as evaluating the accuracy of various CFD models for capturing the complex flow field in a BFT rearing tank.

ACS Style

Song Ming Zhu; Ming Ming Shi; Yun Jie Ruan; Xi Shan Guo; Zhang Ying Ye; Zhi Ying Han; Yale Deng; Gang Liu. Applications of computational fluid dynamics to modeling hydrodynamics in tilapia rearing tank of Recirculating Biofloc Technology system. Aquacultural Engineering 2016, 74, 120 -130.

AMA Style

Song Ming Zhu, Ming Ming Shi, Yun Jie Ruan, Xi Shan Guo, Zhang Ying Ye, Zhi Ying Han, Yale Deng, Gang Liu. Applications of computational fluid dynamics to modeling hydrodynamics in tilapia rearing tank of Recirculating Biofloc Technology system. Aquacultural Engineering. 2016; 74 ():120-130.

Chicago/Turabian Style

Song Ming Zhu; Ming Ming Shi; Yun Jie Ruan; Xi Shan Guo; Zhang Ying Ye; Zhi Ying Han; Yale Deng; Gang Liu. 2016. "Applications of computational fluid dynamics to modeling hydrodynamics in tilapia rearing tank of Recirculating Biofloc Technology system." Aquacultural Engineering 74, no. : 120-130.

Journal article
Published: 12 April 2016 in Environmental Science and Pollution Research
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Rapid start-up of biofilter is essential for intensive marine recirculating aquaculture system (RAS) production. This study evaluated the nitrifying biofilm formation using mature biofilm as an inoculum to accelerate the process in RAS practice. The effects of inoculation ratios (0–15 %) on the reactor performance and biofilm structure were investigated. Complete nitrification was achieved rapidly in reactors with inoculated mature biofilm (even in 32 days when 15 % seeding ratio was applied). However, the growth of target biofilm on blank carrier was affected by the mature biofilm inoculated through substrate competition. The analysis of extracellular polymeric substance (EPS) and nitrification rates confirmed the divergence of biofilm cultivation among reactors. Besides, three N-acyl-homoserine lactones (AHLs) were found in the process, which might regulate the activities of biofilm. Multivariate analysis based on non-metric multidimensional scaling (nMDS) also indicated the great roles of AHLs and substrate supply which might fundamentally determine varied cultivation performance on target biofilm.

ACS Style

Songming Zhu; Jiazheng Shen; Yunjie Ruan; Xishan Guo; Zhangying Ye; Yale Deng; Mingming Shi. The effects of different seeding ratios on nitrification performance and biofilm formation in marine recirculating aquaculture system biofilter. Environmental Science and Pollution Research 2016, 23, 14540 -14548.

AMA Style

Songming Zhu, Jiazheng Shen, Yunjie Ruan, Xishan Guo, Zhangying Ye, Yale Deng, Mingming Shi. The effects of different seeding ratios on nitrification performance and biofilm formation in marine recirculating aquaculture system biofilter. Environmental Science and Pollution Research. 2016; 23 (14):14540-14548.

Chicago/Turabian Style

Songming Zhu; Jiazheng Shen; Yunjie Ruan; Xishan Guo; Zhangying Ye; Yale Deng; Mingming Shi. 2016. "The effects of different seeding ratios on nitrification performance and biofilm formation in marine recirculating aquaculture system biofilter." Environmental Science and Pollution Research 23, no. 14: 14540-14548.

Comparative study
Published: 01 September 2015 in Bioresource Technology
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Nitrate removal is essential for the sustainable operation of recirculating aquaculture system (RAS). This study evaluated the heterotrophic denitrification using poly(butylene succinate) as carbon source and biofilm carrier for RAS wastewater treatment. The effect of varied operational conditions (influent type, salinity and nitrate loading) on reactor performance and microbial community was investigated. The high denitrification rates of 0.53 ± 0.19 kg NO3(-)-N m(-3) d(-1) (salinity, 0‰) and 0.66 ± 0.12 kg NO3(-)-Nm(-3) d(-1) (salinity, 25‰) were achieved, and nitrite concentration was maintained below 1mg/L. In addition, the existence of salinity exhibited more stable nitrate removal efficiency, but caused adverse effects such as excessive effluent dissolved organic carbon (DOC) and dissimilation nitrate reduce to ammonia (DNRA) activity. The degradation of PBS was further confirmed by SEM and FTIR analysis. Illumina sequencing revealed the abundance and species changes of functional denitrification and degradation microflora which might be the primary cause of varied reactor performance.

ACS Style

Song-Ming Zhu; Ya-Le Deng; Yun-Jie Ruan; Xi-Shan Guo; Ming-Ming Shi; Jia-Zheng Shen. Biological denitrification using poly(butylene succinate) as carbon source and biofilm carrier for recirculating aquaculture system effluent treatment. Bioresource Technology 2015, 192, 603 -610.

AMA Style

Song-Ming Zhu, Ya-Le Deng, Yun-Jie Ruan, Xi-Shan Guo, Ming-Ming Shi, Jia-Zheng Shen. Biological denitrification using poly(butylene succinate) as carbon source and biofilm carrier for recirculating aquaculture system effluent treatment. Bioresource Technology. 2015; 192 ():603-610.

Chicago/Turabian Style

Song-Ming Zhu; Ya-Le Deng; Yun-Jie Ruan; Xi-Shan Guo; Ming-Ming Shi; Jia-Zheng Shen. 2015. "Biological denitrification using poly(butylene succinate) as carbon source and biofilm carrier for recirculating aquaculture system effluent treatment." Bioresource Technology 192, no. : 603-610.