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Zhu M, Tang Y. Response of sediment microbial communities to the flow effect of the triangular artificial reef: A simulation-based experimental study. MARINE ENVIRONMENTAL RESEARCH 2024; 198:106546. [PMID: 38795576 DOI: 10.1016/j.marenvres.2024.106546] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/10/2024] [Revised: 04/22/2024] [Accepted: 05/06/2024] [Indexed: 05/28/2024]
Abstract
Artificial reefs (ARs), as an important tool for habitat restoration, play significant impacts on benthic microbial ecosystems. This study utilized 16S rRNA gene sequencing technology and computational fluid dynamics (CFD) flow simulation to investigate the effects of flow field distribution around ARs on microbial community structure. The results revealed distinct regional distribution patterns of microbial communities affected by different hydrodynamic conditions. Flow velocity and flow regime of water in sediment-water interface shaped the microbial community structure. The diversity and richness in R-HF were significantly decreased compared to other five regions (p < 0.05). At the phyla and OUT levels, most abundant taxa (1>%) showed an enrichment trend in R-HB. However, more than half of differentially abundant taxa were enriched in R-HB, which was significantly correlated with organic matter (OM). Bugbase phenotypic predictions indicated a low abundance of the anaerobic phenotype in R-HF and a high abundance of the biofilm-forming phenotype in R-HB.
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Affiliation(s)
- Meiling Zhu
- College of Fisheries, Ocean University of China, Qingdao, 266003, PR China
| | - Yanli Tang
- College of Fisheries, Ocean University of China, Qingdao, 266003, PR China.
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Liu YH, Gao L, Jiang HC, Fang BZ, Huang Y, Li L, Li S, Abdugheni R, Lian WH, Zhang JY, Yang ZD, Mohamad OAA, Li WJ. Response of microbial diversity and function to the degradation of Barkol Saline Lake. Front Microbiol 2024; 15:1358222. [PMID: 38784797 PMCID: PMC11111964 DOI: 10.3389/fmicb.2024.1358222] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/19/2023] [Accepted: 04/25/2024] [Indexed: 05/25/2024] Open
Abstract
Barkol Lake, a shrinking hypersaline lake situated in the northeast of Xinjiang, China, has experienced the exposure of its riverbed and the gradual drying up of its original sediment due to climate change and human activities, resulting in the formation of alkaline soils. These changes have correspondingly altered the physicochemical characteristics of the surrounding environment. Microorganisms play a crucial role, with special functioning involved in various nutrient cycling and energy transfer in saline lake environments. However, little is known about how the microbial community dynamics and metabolic functions in this shrinking saline lake relate to the degradation process. To address this knowledge gap, a cultivation-independent method of amplicon sequencing was used to identify and analyze the microbial community and its potential ecological functions in the sediment and degraded area. The microbial community diversity was found to be significantly lower in the degraded areas than in the sediment samples. The Pseudomonadota was dominant in Barkol Saline Lake. The abundance of Desulfobacterota and Bacillota in the degraded areas was lower than in the lake sediment, while Pseudomonadota, Acidobacteriota, and Actinobacteriota showed an opposite trend. The βNTI showed that microbial community assembly was primarily associated with deterministic processes in Barkol Saline Lake ecosystems and stochastic processes at the boundary between sediment and degraded areas. Functional predictions showed that sulfur metabolism, particularly sulfate respiration, was much higher in sediment samples than in the degraded areas. Overall, these findings provided a possible perspective for us to understand how microorganisms adapt to extreme environments and their role in saline lakes under environmental change.
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Affiliation(s)
- Yong-Hong Liu
- State Key Laboratory of Desert and Oasis Ecology, Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
- Xinjiang Key Laboratory of Biodiversity Conservation and Application in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
| | - Lei Gao
- State Key Laboratory of Desert and Oasis Ecology, Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
| | - Hong-Chen Jiang
- State Key Laboratory of Desert and Oasis Ecology, Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
| | - Bao-Zhu Fang
- State Key Laboratory of Desert and Oasis Ecology, Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
| | - Yin Huang
- State Key Laboratory of Desert and Oasis Ecology, Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
| | - Li Li
- State Key Laboratory of Desert and Oasis Ecology, Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
| | - Shuai Li
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, China
| | - Rashidin Abdugheni
- State Key Laboratory of Desert and Oasis Ecology, Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
| | - Wen-Hui Lian
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, China
| | - Jing-Yi Zhang
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, China
| | - Zhen-Dong Yang
- School of Architecture and Civil Engineering, Chengdu University, Chengdu, China
| | - Osama Abdalla Abdelshafy Mohamad
- State Key Laboratory of Desert and Oasis Ecology, Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
- Department of Biological, Marine Sciences and Environmental Agriculture, Institute for Post Graduate Environmental Studies, Arish University, Arish, Egypt
| | - Wen-Jun Li
- State Key Laboratory of Desert and Oasis Ecology, Key Laboratory of Ecological Safety and Sustainable Development in Arid Lands, Xinjiang Institute of Ecology and Geography, Chinese Academy of Sciences, Urumqi, China
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, China
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Dindhoria K, Kumar R, Bhargava B, Kumar R. Metagenomic assembled genomes indicated the potential application of hypersaline microbiome for plant growth promotion and stress alleviation in salinized soils. mSystems 2024; 9:e0105023. [PMID: 38377278 PMCID: PMC10949518 DOI: 10.1128/msystems.01050-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2023] [Accepted: 01/19/2024] [Indexed: 02/22/2024] Open
Abstract
Climate change is causing unpredictable seasonal variations globally. Due to the continuously increasing earth's surface temperature, the rate of water evaporation is enhanced, conceiving a problem of soil salinization, especially in arid and semi-arid regions. The accumulation of salt degrades soil quality, impairs plant growth, and reduces agricultural yields. Salt-tolerant, plant-growth-promoting microorganisms may offer a solution, enhancing crop productivity and soil fertility in salinized areas. In the current study, genome-resolved metagenomic analysis has been performed to investigate the salt-tolerating and plant growth-promoting potential of two hypersaline ecosystems, Sambhar Lake and Drang Mine. The samples were co-assembled independently by Megahit, MetaSpades, and IDBA-UD tools. A total of 67 metagenomic assembled genomes (MAGs) were reconstructed following the binning process, including 15 from Megahit, 26 from MetaSpades, and 26 from IDBA_UD assembly tools. As compared to other assemblers, the MAGs obtained by MetaSpades were of superior quality, with a completeness range of 12.95%-96.56% and a contamination range of 0%-8.65%. The medium and high-quality MAGs from MetaSpades, upon functional annotation, revealed properties such as salt tolerance (91.3%), heavy metal tolerance (95.6%), exopolysaccharide (95.6%), and antioxidant (60.86%) biosynthesis. Several plant growth-promoting attributes, including phosphate solubilization and indole-3-acetic acid (IAA) production, were consistently identified across all obtained MAGs. Conversely, characteristics such as iron acquisition and potassium solubilization were observed in a substantial majority, specifically 91.3%, of the MAGs. The present study indicates that hypersaline microflora can be used as bio-fertilizing agents for agricultural practices in salinized areas by alleviating prevalent stresses. IMPORTANCE The strategic implementation of metagenomic assembled genomes (MAGs) in exploring the properties and harnessing microorganisms from ecosystems like hypersaline niches has transformative potential in agriculture. This approach promises to redefine our comprehension of microbial diversity and its ecosystem roles. Recovery and decoding of MAGs unlock genetic resources, enabling the development of new solutions for agricultural challenges. Enhanced understanding of these microbial communities can lead to more efficient nutrient cycling, pest control, and soil health maintenance. Consequently, traditional agricultural practices can be improved, resulting in increased yields, reduced environmental impacts, and heightened sustainability. MAGs offer a promising avenue for sustainable agriculture, bridging the gap between cutting-edge genomics and practical field applications.
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Affiliation(s)
- Kiran Dindhoria
- Biotechnology Division, CSIR-Institute of Himalayan Bioresource Technology, Palampur, Himachal Pradesh, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India
| | - Raghawendra Kumar
- Biotechnology Division, CSIR-Institute of Himalayan Bioresource Technology, Palampur, Himachal Pradesh, India
| | - Bhavya Bhargava
- Biotechnology Division, CSIR-Institute of Himalayan Bioresource Technology, Palampur, Himachal Pradesh, India
| | - Rakshak Kumar
- Biotechnology Division, CSIR-Institute of Himalayan Bioresource Technology, Palampur, Himachal Pradesh, India
- Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, India
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Wang X, Riaz M, Babar S, Eldesouki Z, Liu B, Xia H, Li Y, Wang J, Xia X, Jiang C. Alterations in the composition and metabolite profiles of the saline-alkali soil microbial community through biochar application. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2024; 352:120033. [PMID: 38218168 DOI: 10.1016/j.jenvman.2024.120033] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/15/2023] [Revised: 11/30/2023] [Accepted: 01/02/2024] [Indexed: 01/15/2024]
Abstract
Saline-alkali soil poses significant chanllenges to sustainable development of agriculture. Although biochar is commonly used as a soil organic amendment, its microbial remediation mechanism on saline-alkali soil requires further confirmation. To address this, we conducted a pot experiment using cotton seedlings to explore the potential remediation mechanism of rice straw biochar (BC) at three different levels on saline-alkaline soil. The results showed that adding of 2% biochar greatly improved the quality of saline-alkaline soil by reducing pH levels, electrical conductivity (EC), and water-soluble ions. Moreover, biochar increased the soil organic matter (SOM), nutrient availability and extracellular enzyme activity. Interestingly, it also reduced soil salinity and salt content in various cotton plant tissues. Additionally, biochar had a notable impact on the composition of the microbial community, causing changes in soil metabolic pathways. Notably, the addition of biochar promoted the growth and metabolism of dominant salt-tolerant bacteria, such as Proteobacteria, Bacteroidota, Acidobacteriota, and Actinobacteriota. By enhancing the positive correlation between microorganisms and metabolites, biochar alleviated the inhibitory effect of salt ions on microorganisms. In conclusion, the incorporation of biochar significantly improves the soil microenvironment, reduces soil salinity, and shows promise in ameliorating saline-alkaline soil conditions.
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Affiliation(s)
- Xiangling Wang
- Microelement Research Center, College of Resources and Environment, Huazhong Agricultural University, Wuhan, Hubei, 430070, PR China; The Key Laboratory of Oasis Ecoagriculture, Xinjiang Production and Construction Corps, Shihezi University, Shihezi, Xinjiang, 832000, PR China.
| | - Muhammad Riaz
- College of Resources and Environment, Zhongkai University of Agriculture and Engineering, Guangzhou, 510225, PR China.
| | - Saba Babar
- Microelement Research Center, College of Resources and Environment, Huazhong Agricultural University, Wuhan, Hubei, 430070, PR China.
| | - Zeinab Eldesouki
- Microelement Research Center, College of Resources and Environment, Huazhong Agricultural University, Wuhan, Hubei, 430070, PR China; Department of Soil Sciences, Faculty of Agriculture, Ain Shams University, Cairo, 11241, Egypt.
| | - Bo Liu
- Key Laboratory of Fertilization from Agricultural Wastes, Ministry of Agriculture and Rural Affairs, Institute of Plant Protection and Soil Fertilizer, Hubei Academy of Agricultural Sciences, Wuhan, Hubei, 430064, PR China.
| | - Hao Xia
- Microelement Research Center, College of Resources and Environment, Huazhong Agricultural University, Wuhan, Hubei, 430070, PR China.
| | - Yuxuan Li
- Microelement Research Center, College of Resources and Environment, Huazhong Agricultural University, Wuhan, Hubei, 430070, PR China.
| | - Jiyuan Wang
- Microelement Research Center, College of Resources and Environment, Huazhong Agricultural University, Wuhan, Hubei, 430070, PR China.
| | - Xiaoyang Xia
- Microelement Research Center, College of Resources and Environment, Huazhong Agricultural University, Wuhan, Hubei, 430070, PR China.
| | - Cuncang Jiang
- Microelement Research Center, College of Resources and Environment, Huazhong Agricultural University, Wuhan, Hubei, 430070, PR China; The Key Laboratory of Oasis Ecoagriculture, Xinjiang Production and Construction Corps, Shihezi University, Shihezi, Xinjiang, 832000, PR China.
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Liu Q, Sheng Y, Wang Z, Liu X. New insights into the sustainable use of co-pyrolyzed dredged sediment for the in situ remediation of Cd polluted sediments in coastal rivers. JOURNAL OF HAZARDOUS MATERIALS 2024; 466:133664. [PMID: 38309161 DOI: 10.1016/j.jhazmat.2024.133664] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/23/2023] [Revised: 01/02/2024] [Accepted: 01/28/2024] [Indexed: 02/05/2024]
Abstract
The remediation of Cd-polluted sediment in coastal rivers is essential because of its potential hazards to river and marine ecosystems. Herein, a co-pyrolysis product of contaminated dredged sediment (S@BC) was innovatively applied to cap and immobilize Cd-contaminated sediment in coastal rivers in situ, and their remediation efficiencies, mechanisms, and microbial responses were explored based on a 360 d incubation experiment. The results showed that although S@BC immobilization and capping restrained sediment Cd release to the overlying water, S@BC capping presented a high inhibitory efficiency (66.0% vs. 95.3% at 360 d). Fraction analysis indicated that labile Cd was partially transformed to stable fraction after remediation, with decreases of 0.5%- 32.7% in the acid-soluble fraction and increases of 5.0%- 182.8% in the residual fraction. S@BC immobilization and capping had minor influences on the sediment bacterial community structure compared to the control. S@BC could directly adsorb sediment mobile Cd (precipitation and complexation) to inhibit Cd release and change sediment properties (e.g., pH and cation exchange capacity) to indirectly reduce Cd release. Particularly, S@BC capping also promoted Cd stabilization by enhancing the sediment sulfate reduction process. Comparatively, S@BC capping was a priority approach for Cd-polluted sediment remediation. This study provides new insights into the remediation of Cd-contaminated sediments in coastal rivers.
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Affiliation(s)
- Qunqun Liu
- Key Laboratory of Coastal Zone Environmental Processes and Ecological Remediation, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai, Shandong, China
| | - Yanqing Sheng
- Key Laboratory of Coastal Zone Environmental Processes and Ecological Remediation, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai, Shandong, China.
| | - Zheng Wang
- Key Laboratory of Coastal Zone Environmental Processes and Ecological Remediation, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai, Shandong, China; University of Chinese Academy of Sciences, Beijing, China
| | - Xiaozhu Liu
- Key Laboratory of Coastal Zone Environmental Processes and Ecological Remediation, Yantai Institute of Coastal Zone Research, Chinese Academy of Sciences, Yantai, Shandong, China; University of Chinese Academy of Sciences, Beijing, China
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Wang Y, Li J, Liu M, Gu L, Xu L, Li J, Ao L. Enhancement of anaerobic digestion of high salinity food waste by magnetite and potassium ions: Digestor performance, microbial and metabolomic analyses. BIORESOURCE TECHNOLOGY 2023; 388:129769. [PMID: 37722541 DOI: 10.1016/j.biortech.2023.129769] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/21/2023] [Revised: 08/29/2023] [Accepted: 09/11/2023] [Indexed: 09/20/2023]
Abstract
The study investigated the effectiveness of magnetite and potassium ions (K+) in enhancing anaerobic digestion of high salinity food waste. Results indicated that both magnetite and K+ improved anaerobic digestion in high-salt environments, and their combination yielded even better results. The combination of magnetite and K+ promoted microorganism activity, and resulted in increased abundance of DMER64, Halobacteria and Methanosaeta. Metabolomic analysis revealed that magnetite mainly influenced quorum sensing, while K+ mainly stimulated the synthesis of compatible solutes, aiding in maintaining osmotic balance. The combined additives regulated pathways such as ATP binding cassette transport, methane metabolism, and inhibitory substance metabolism, enabling cells to resist environmental stress and maintain normal metabolic activity. Overall, this study demonstrated the potential of magnetite and K+ to enhance food waste anaerobic digestion in high salt conditions and provided valuable insights into the molecular mechanism.
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Affiliation(s)
- Yi Wang
- Key laboratory of the Three Gorges Reservoir Region's Eco-environments, Ministry of Education, Institute of Environment and Ecology, Chongqing University, 174 Shapingba Road, 400045, PR China
| | - Jianhao Li
- Yangtze River Delta (jiaxing) Ecological Development Co.,LTD, 32 Qinyi Road, 314050, Zhejiang, PR China
| | - Miao Liu
- Gastrointestinal Cancer Center, Chongqing University Cancer Hospital, 174 Shapingba Road, 400045, PR China
| | - Li Gu
- Key laboratory of the Three Gorges Reservoir Region's Eco-environments, Ministry of Education, Institute of Environment and Ecology, Chongqing University, 174 Shapingba Road, 400045, PR China.
| | - Linji Xu
- Key laboratory of the Three Gorges Reservoir Region's Eco-environments, Ministry of Education, Institute of Environment and Ecology, Chongqing University, 174 Shapingba Road, 400045, PR China
| | - Jinze Li
- Key laboratory of the Three Gorges Reservoir Region's Eco-environments, Ministry of Education, Institute of Environment and Ecology, Chongqing University, 174 Shapingba Road, 400045, PR China
| | - Lianggen Ao
- Key laboratory of the Three Gorges Reservoir Region's Eco-environments, Ministry of Education, Institute of Environment and Ecology, Chongqing University, 174 Shapingba Road, 400045, PR China
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Wei Z, Xu Y, Shi Y, Zhou X, Lin J, Ruan A. The response mechanism of microorganisms to the organic carbon-driven formation of black and odorous water. ENVIRONMENTAL RESEARCH 2023; 231:116255. [PMID: 37245578 DOI: 10.1016/j.envres.2023.116255] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/20/2023] [Revised: 05/15/2023] [Accepted: 05/26/2023] [Indexed: 05/30/2023]
Abstract
The formation of black and odorous water is a complex process influenced by various factors such as organic matter and environmental conditions. However, there are limited studies on the role of microorganisms in water and sediment during the blackening and odorization process. In this study, we investigated the characteristics of black and odorous water formation by simulating organic carbon-driven black and odorous water through indoor experiments. The study revealed that the water turned black and odorous when DOC reached 50 mg/L and the microbial community structure in the water changed significantly during this process, with the relative abundance of Desulfobacterota increasing significantly and Desulfovibrio being the main dominant genus in Desulfobacterota. Additionally, we observed a notable decrease in the α-diversity of the microbial community in water and a considerable increase in microbial function of sulfur compounds respiration in water. In contrast, the sediment microbial community changed slightly, and the main functions of the sediment microbial community remained unchanged. The partial least squares path model (PLS-PM) suggested that organic carbon will drive the blackening and odorization process by affecting DO levels and microbial community structure and that the contribution of Desulfobacterota in water to the formation of black and odorous water was higher than that in sediment. Overall, our study provides insights into the characteristics of black and odorous water formation and suggests potential ways to prevent its formation by controlling DOC and inhibiting the growth of Desulfobacterota in water bodies.
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Affiliation(s)
- Zhipeng Wei
- State Key Laboratory of Hydrology-Water Resources and Hydraulic Engineering, Hohai University, Nanjing 210098, China; College of Hydrology and Water Resources, Hohai University, Nanjing 210098, China
| | - Yaofei Xu
- State Key Laboratory of Hydrology-Water Resources and Hydraulic Engineering, Hohai University, Nanjing 210098, China; College of Hydrology and Water Resources, Hohai University, Nanjing 210098, China
| | - Yingying Shi
- State Key Laboratory of Hydrology-Water Resources and Hydraulic Engineering, Hohai University, Nanjing 210098, China; College of Hydrology and Water Resources, Hohai University, Nanjing 210098, China
| | - Xiaotian Zhou
- State Key Laboratory of Hydrology-Water Resources and Hydraulic Engineering, Hohai University, Nanjing 210098, China; College of Hydrology and Water Resources, Hohai University, Nanjing 210098, China
| | - Jie Lin
- State Key Laboratory of Hydrology-Water Resources and Hydraulic Engineering, Hohai University, Nanjing 210098, China; College of Hydrology and Water Resources, Hohai University, Nanjing 210098, China
| | - Aidong Ruan
- State Key Laboratory of Hydrology-Water Resources and Hydraulic Engineering, Hohai University, Nanjing 210098, China; College of Hydrology and Water Resources, Hohai University, Nanjing 210098, China.
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