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Zhang Y, Lin H, Yu A, Wang X, Liu Y, Liu T, Zhao C, Mei R. Migration mechanism of atrazine in the simulated lake icing process at different freezing temperatures based on density function theory. J Environ Sci (China) 2024; 144:45-54. [PMID: 38802237 DOI: 10.1016/j.jes.2023.07.032] [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: 04/04/2023] [Revised: 07/22/2023] [Accepted: 07/23/2023] [Indexed: 05/29/2024]
Abstract
Atrazine causes concern due to its resistant to biodegradation and could be accumulated in aquatic organisms, causing pollution in lakes. This study measured the concentration of atrazine in ice and the water under ice through a simulated icing experiment and calculated the distribution coefficient K to characterize its migration ability in the freezing process. Furthermore, density functional theory (DFT) calculations were employed to expatiate the migration law of atrazine during icing process. According to the results, it could release more energy into the environment when atrazine staying in water phase (-15.077 kcal/mol) than staying in ice phase (-14.388 kcal/mol), therefore it was beneficial for the migration of atrazine from ice to water. This explains that during the freezing process, the concentration of atrazine in the ice was lower than that in the water. Thermodynamic calculations indicated that when the temperature decreases from 268 to 248 K, the internal energy contribution of the compound of atrazine and ice molecule (water cluster) decreases at the same vibrational frequency, resulting in an increase in the free energy difference of the compound from -167.946 to -165.390 kcal/mol. This demonstrated the diminished migratory capacity of atrazine. This study revealed the environmental behavior of atrazine during lake freezing, which was beneficial for the management of atrazine and other pollutants during freezing and environmental protection.
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Affiliation(s)
- Yan Zhang
- School of Civil Engineering, Yantai University, Yantai 264005, China.
| | - Hao Lin
- School of Civil Engineering, Yantai University, Yantai 264005, China
| | - Aixin Yu
- School of Civil Engineering, Yantai University, Yantai 264005, China
| | - Xiaozhuang Wang
- School of Civil Engineering, Yantai University, Yantai 264005, China
| | - Yucan Liu
- School of Civil Engineering, Yantai University, Yantai 264005, China
| | - Tongshuai Liu
- School of Civil Engineering, Yantai University, Yantai 264005, China
| | - Chen Zhao
- School of Civil Engineering, Yantai University, Yantai 264005, China
| | - Rui Mei
- School of Civil Engineering, Yantai University, Yantai 264005, China
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2
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Wang R, Wang B, Chen A. Application of machine learning in the study of development, behavior, nerve, and genotoxicity of zebrafish. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2024:124473. [PMID: 38945191 DOI: 10.1016/j.envpol.2024.124473] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/01/2024] [Revised: 05/26/2024] [Accepted: 06/28/2024] [Indexed: 07/02/2024]
Abstract
Machine learning (ML) as a novel model-based approach has been used in studying aquatic toxicology in the environmental field. Zebrafish, as an ideal model organism in aquatic toxicology research, has been widely used to study the toxic effects of various pollutants. However, toxicity testing on organisms may cause significant harm, consume considerable time and resources, and raise ethical concerns. Therefore, ML is used in related research to reduce animal experiments and assist researchers in conducting toxicological research. Although ML techniques have matured in various fields, research on ML-based aquatic toxicology is still in its infancy due to the lack of comprehensive large-scale toxicity databases for environmental pollutants and model organisms. Therefore, to better understand the recent research progress of ML in studying the development, behavior, nerve, and genotoxicity of zebrafish, this review mainly focuses on using ML modeling to assess and predict the toxic effects of zebrafish exposure to different toxic chemicals. Meanwhile, the opportunities and challenges faced by ML in the field of toxicology were analyzed. Finally, suggestions and perspectives were proposed for the toxicity studies of ML on zebrafish in future applications.
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Affiliation(s)
- Rui Wang
- Key Laboratory of Karst Georesources and Environment, Ministry of Education, (Guizhou University), Guiyang, Guizhou 550025, China
| | - Bing Wang
- Key Laboratory of Karst Georesources and Environment, Ministry of Education, (Guizhou University), Guiyang, Guizhou 550025, China; College of Resources and Environmental Engineering, Guizhou University, Guiyang, Guizhou, 550025, China.
| | - Anying Chen
- College of Resources and Environmental Engineering, Guizhou University, Guiyang, Guizhou, 550025, China
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3
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Li B, Qu R, Wang T, Guo R, Tian J, Li S, Abukhadra MR, Mahmoud RK, Wang Z. Experimental insights and modeling innovations: Deciphering Fe(VI) oxidation in imidazole ionic liquids through QSAR and RFR. JOURNAL OF HAZARDOUS MATERIALS 2024; 476:134980. [PMID: 38905978 DOI: 10.1016/j.jhazmat.2024.134980] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/26/2024] [Revised: 06/09/2024] [Accepted: 06/18/2024] [Indexed: 06/23/2024]
Abstract
In this investigation, we conducted a detailed analysis of the oxidation of 16 imidazole ionic liquid variants by Fe(VI) under uniform experimental setups, thereby securing a dataset of second-order reaction rate constants (kobs). This methodology ensures superior data consistency and comparability over traditional methods that amalgamate disparate data from varied studies. Utilizing 16 chemical structural parameters obtained via Density Functional Theory (DFT) as descriptors, we developed a Quantitative Structure Activity Relationship (QSAR) model. Through rigorous correlation analysis, Principal Component Analysis (PCA), Multiple Linear Regression (MLR), and Applicability Domain (AD) evaluation, we identified a pronounced negative correlation between the molecular orbital gap energy (Egap) and kobs. MLR analysis further underscored Egap as a pivotal predictive variable, with its lower values indicating heightened oxidative reactivity towards Fe(VI) in the ionic liquids, leading the QSAR model to achieve a predictive accuracy of 0.95. Furthermore, we integrated an advanced machine learning approach - Random Forest Regression (RFR), which adeptly highlighted the critical factors influencing the oxidation efficiency of imidazole ionic liquids by Fe(VI) through elaborate decision trees, feature importance assessment, Recursive Feature Elimination (RFE), and cross-validation strategies. The RFR model demonstrated a remarkable predictive performance of 0.98. Both QSAR and RFR models pinpointed Egap as a key descriptor significantly affecting oxidation efficiency, with the RFR model presenting lower root mean square errors, establishing it as a more reliable predictive tool. The application of the RFR model in this study significantly improved the model's stability and the intuitive display of key influencing factors, introducing promising advanced analytical tools to the field of environmental chemistry.
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Affiliation(s)
- Beibei Li
- College of Environmental Sciences and Engineering, Peking University, Key Laboratory of Water and Sediment Sciences, Ministry of Education, Beijing 100871, PR China; State Key Laboratory of Pollution Control and Resources Reuse, School of the Environment, Nanjing University, Jiangsu Nanjing 210023, PR China
| | - Ruijuan Qu
- State Key Laboratory of Pollution Control and Resources Reuse, School of the Environment, Nanjing University, Jiangsu Nanjing 210023, PR China
| | - Ting Wang
- College of Environmental Sciences and Engineering, Peking University, Key Laboratory of Water and Sediment Sciences, Ministry of Education, Beijing 100871, PR China
| | - Ruixue Guo
- State Key Laboratory of Pollution Control and Resources Reuse, School of the Environment, Nanjing University, Jiangsu Nanjing 210023, PR China
| | - Jie Tian
- State Key Laboratory of Pollution Control and Resources Reuse, School of the Environment, Nanjing University, Jiangsu Nanjing 210023, PR China
| | - Shuyi Li
- State Key Laboratory of Pollution Control and Resources Reuse, School of the Environment, Nanjing University, Jiangsu Nanjing 210023, PR China
| | | | | | - Zunyao Wang
- State Key Laboratory of Pollution Control and Resources Reuse, School of the Environment, Nanjing University, Jiangsu Nanjing 210023, PR China.
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An H, Li X, Huang Y, Wang W, Wu Y, Liu L, Ling W, Li W, Zhao H, Lu D, Liu Q, Jiang G. A new ChatGPT-empowered, easy-to-use machine learning paradigm for environmental science. ECO-ENVIRONMENT & HEALTH 2024; 3:131-136. [PMID: 38638173 PMCID: PMC11021822 DOI: 10.1016/j.eehl.2024.01.006] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/21/2023] [Revised: 12/23/2023] [Accepted: 01/02/2024] [Indexed: 04/20/2024]
Abstract
The quantity and complexity of environmental data show exponential growth in recent years. High-quality big data analysis is critical for performing a sophisticated characterization of the complex network of environmental pollution. Machine learning (ML) has been employed as a powerful tool for decoupling the complexities of environmental big data based on its remarkable fitting ability. Yet, due to the knowledge gap across different subjects, ML concepts and algorithms have not been well-popularized among researchers in environmental sustainability. In this context, we introduce a new research paradigm-"ChatGPT + ML + Environment", providing an unprecedented chance for environmental researchers to reduce the difficulty of using ML models. For instance, each step involved in applying ML models to environmental sustainability, including data preparation, model selection and construction, model training and evaluation, and hyper-parameter optimization, can be easily performed with guidance from ChatGPT. We also discuss the challenges and limitations of using this research paradigm in the field of environmental sustainability. Furthermore, we highlight the importance of "secondary training" for future application of "ChatGPT + ML + Environment".
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Affiliation(s)
- Haoyuan An
- State Key Laboratory of Environmental Chemistry and Toxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
- Biomedical Engineering Institute, School of Control Science and Engineering, Shandong University, Jinan 250061, China
| | - Xiangyu Li
- State Key Laboratory of Environmental Chemistry and Toxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Yuming Huang
- State Key Laboratory of Environmental Chemistry and Toxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Weichao Wang
- State Key Laboratory of Environmental Chemistry and Toxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Yuehan Wu
- State Key Laboratory of Environmental Chemistry and Toxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Lin Liu
- State Key Laboratory of Environmental Chemistry and Toxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Weibo Ling
- State Key Laboratory of Environmental Chemistry and Toxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Wei Li
- Biomedical Engineering Institute, School of Control Science and Engineering, Shandong University, Jinan 250061, China
| | - Hanzhu Zhao
- Biomedical Engineering Institute, School of Control Science and Engineering, Shandong University, Jinan 250061, China
| | - Dawei Lu
- State Key Laboratory of Environmental Chemistry and Toxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Qian Liu
- State Key Laboratory of Environmental Chemistry and Toxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Guibin Jiang
- State Key Laboratory of Environmental Chemistry and Toxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
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Wen S, Huang J, Li W, Wu M, Steyskal F, Meng J, Xu X, Hou P, Tang J. Henna plant biomass enhanced azo dye removal: Operating performance, microbial community and machine learning modeling. CHEMOSPHERE 2024; 352:141471. [PMID: 38373445 DOI: 10.1016/j.chemosphere.2024.141471] [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: 09/06/2023] [Revised: 12/17/2023] [Accepted: 02/14/2024] [Indexed: 02/21/2024]
Abstract
The bio-reduction of azo dyes is significantly dependent on the availability of electron donors and external redox mediators. In this study, the natural henna plant biomass was supplemented to promote the biological reduction of an azo dye of Acid Orange 7 (AO7). Besides, the machine learning (ML) approach was applied to decipher the intricate process of henna-assisted azo dye removal. The experimental results indicated that the hydrolysis and fermentation of henna plant biomass provided both electron donors such as volatile fatty acid (VFA) and redox mediator of lawsone to drive the bio-reduction of AO7 to sulfanilic acid (SA). The high henna dosage selectively enriched certain bacteria, such as Firmicutes phylum, Levilinea and Paludibacter genera, functioning in both the henna fermentation and AO7 reduction processes simultaneously. Among the three tested ML algorithms, eXtreme Gradient Boosting (XGBoost) presented exceptional accuracy and generalization ability in predicting the effluent AO7 concentrations with pH, oxidation-reduction potential (ORP), soluble chemical oxygen demand (SCOD), VFA, lawsone, henna dosage, and cumulative henna as input variables. The validating experiments with tailored optimal operating conditions and henna dosage (pH 7.5, henna dosage of 2 g/L, and cumulative henna of 14 g/L) confirmed that XGBoost was an effective ML model to predict the efficient AO7 removal (91.6%), with a negligible calculating error of 3.95%. Overall, henna plant biomass addition was a cost-effective and robust method to improve the bio-reduction of AO7, which had been demonstrated by long-term operation, ML modeling, and experimental validation.
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Affiliation(s)
- Shilin Wen
- College of Materials and Environmental Engineering, Hangzhou Dianzi University, Hangzhou, 310018, PR China
| | - Jingang Huang
- College of Materials and Environmental Engineering, Hangzhou Dianzi University, Hangzhou, 310018, PR China; China-Austria Belt and Road Joint Laboratory on Artificial Intelligence and Advanced Manufacturing, Hangzhou Dianzi University, Hangzhou, 310018, PR China.
| | - Weishuai Li
- College of Materials and Environmental Engineering, Hangzhou Dianzi University, Hangzhou, 310018, PR China
| | - Mengke Wu
- College of Materials and Environmental Engineering, Hangzhou Dianzi University, Hangzhou, 310018, PR China
| | - Felix Steyskal
- China-Austria Belt and Road Joint Laboratory on Artificial Intelligence and Advanced Manufacturing, Hangzhou Dianzi University, Hangzhou, 310018, PR China; M-U-T Maschinen-Umwelttechnik-Transportanlagen GmbH, Stockerau, 2000, Austria
| | - Jianfang Meng
- China-Austria Belt and Road Joint Laboratory on Artificial Intelligence and Advanced Manufacturing, Hangzhou Dianzi University, Hangzhou, 310018, PR China; M-U-T Maschinen-Umwelttechnik-Transportanlagen GmbH, Stockerau, 2000, Austria
| | - Xiaobin Xu
- China-Austria Belt and Road Joint Laboratory on Artificial Intelligence and Advanced Manufacturing, Hangzhou Dianzi University, Hangzhou, 310018, PR China
| | - Pingzhi Hou
- China-Austria Belt and Road Joint Laboratory on Artificial Intelligence and Advanced Manufacturing, Hangzhou Dianzi University, Hangzhou, 310018, PR China
| | - Junhong Tang
- College of Materials and Environmental Engineering, Hangzhou Dianzi University, Hangzhou, 310018, PR China
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Zhang G, Zhu Q, Zheng H, Zhang S, Ma J. Prediction of free radical reactions toward organic pollutants with easily accessible molecular descriptors. CHEMOSPHERE 2024; 346:140660. [PMID: 37951397 DOI: 10.1016/j.chemosphere.2023.140660] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/12/2023] [Revised: 10/19/2023] [Accepted: 11/06/2023] [Indexed: 11/14/2023]
Abstract
Machine learning (ML) is becoming an efficient tool for predicting the fate of aquatic contaminants owing to the preponderance of big data. However, whether ML can "learn" the differences in reactivity among different free radicals has not yet been tested. In this work, the effectiveness of combining ML algorithms with molecular fingerprints to predict the reactivity of three free radicals was evaluated. First, a dataset containing 211 organic pollutants and their respective rate constants with the carbonate radical (CO3•-) was used to develop predictive models using both linear regression and ML methods. The use of topological atomic alignment information, in the form of the molecular access system (MACCS) and Morgan Fingerprint, and the electronic structure features (energy levels of the lowest unoccupied and highest occupied molecular orbitals, ELUMO and EHOMO, and the energy gap between ELUMO and EHOMO) gave satisfactory predictive performances (ML model with Random Forest algorithm with MACCS: RMSEtest = 0.787; linear regression model with energy levels: RMSEtest = 0.641). Additionally, the model interpretation correctly described that the key reactivity features for CO3•- were relatively close to those for SO4•- rather than those for •OH. These results suggest that combination of ML algorithms with easily accessible molecular fingerprints would be a powerful tool to accurately predict the radical reactions towards organic compounds.
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Affiliation(s)
- Guoyang Zhang
- State Key Laboratory of Pollution Control and Resource Reuse, School of Environment, Nanjing University, Nanjing, 210023, China
| | - Qiang Zhu
- Key Laboratory of Mesoscopic Chemistry of Ministry of Education, Institute of Theoretical and Computational Chemistry, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, 210023, China
| | - Hongcen Zheng
- State Key Laboratory of Pollution Control and Resource Reuse, School of Environment, Nanjing University, Nanjing, 210023, China
| | - Shujuan Zhang
- State Key Laboratory of Pollution Control and Resource Reuse, School of Environment, Nanjing University, Nanjing, 210023, China.
| | - Jing Ma
- Key Laboratory of Mesoscopic Chemistry of Ministry of Education, Institute of Theoretical and Computational Chemistry, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, 210023, China.
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7
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Cao H, Peng J, Zhou Z, Yang Z, Wang L, Sun Y, Wang Y, Liang Y. Investigation of the Binding Fraction of PFAS in Human Plasma and Underlying Mechanisms Based on Machine Learning and Molecular Dynamics Simulation. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2023; 57:17762-17773. [PMID: 36282672 DOI: 10.1021/acs.est.2c04400] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
More than 7000 per- and polyfluorinated alkyl substances (PFAS) have been documented in the U.S. Environmental Protection Agency's CompTox Chemicals database. These PFAS can be used in a broad range of industrial and consumer applications but may pose potential environmental issues and health risks. However, little is known about emerging PFAS bioaccumulation to assess their chemical safety. This study focuses specifically on the large and high-quality data set of fluorochemicals from the related environmental and pharmaceutical chemicals databases, and machine learning (ML) models were developed for the classification prediction of the unbound fraction of compounds in plasma. A comprehensive evaluation of the ML models shows that the best blending model yields an accuracy of 0.901 for the test set. The predictions suggest that most PFAS (∼92%) have a high binding fraction in plasma. Introduction of alkaline amino groups is likely to reduce the binding affinities of PFAS with plasma proteins. Molecular dynamics simulations indicate a clear distinction between the high and low binding fractions of PFAS. These computational workflows can be used to predict the bioaccumulation of emerging PFAS and are also helpful for the molecular design of PFAS to prevent the release of high-bioaccumulation compounds into the environment.
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Affiliation(s)
- Huiming Cao
- Hubei Key Laboratory of Environmental and Health Effects of Persistent Toxic Substances, School of Environment and Health, Jianghan University, Wuhan 430056, China
| | - Jianhua Peng
- Hubei Key Laboratory of Environmental and Health Effects of Persistent Toxic Substances, School of Environment and Health, Jianghan University, Wuhan 430056, China
| | - Zhen Zhou
- Hubei Key Laboratory of Environmental and Health Effects of Persistent Toxic Substances, School of Environment and Health, Jianghan University, Wuhan 430056, China
| | - Zeguo Yang
- Hubei Key Laboratory of Environmental and Health Effects of Persistent Toxic Substances, School of Environment and Health, Jianghan University, Wuhan 430056, China
| | - Ling Wang
- Hubei Key Laboratory of Environmental and Health Effects of Persistent Toxic Substances, School of Environment and Health, Jianghan University, Wuhan 430056, China
| | - Yuzhen Sun
- Hubei Key Laboratory of Environmental and Health Effects of Persistent Toxic Substances, School of Environment and Health, Jianghan University, Wuhan 430056, China
| | - Yawei Wang
- State Key Laboratory of Environmental Chemistry and Ecotoxicology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Yong Liang
- Hubei Key Laboratory of Environmental and Health Effects of Persistent Toxic Substances, School of Environment and Health, Jianghan University, Wuhan 430056, China
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8
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Zhu T, Zhang Y, Li Y, Tao T, Tao C. Contribution of molecular structures and quantum chemistry technique to root concentration factor: An innovative application of interpretable machine learning. JOURNAL OF HAZARDOUS MATERIALS 2023; 459:132320. [PMID: 37604035 DOI: 10.1016/j.jhazmat.2023.132320] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/25/2023] [Revised: 08/03/2023] [Accepted: 08/15/2023] [Indexed: 08/23/2023]
Abstract
Root concentration factor (RCF) is a significant parameter to characterize uptake and accumulation of hazardous organic contaminants (HOCs) by plant roots. However, complex interactions among chemicals, plant roots and soil make it challenging to identify underlying mechanisms of uptake and accumulation of HOCs. Here, nine machine learning techniques were applied to investigate major factors controlling RCF based on variable combinations of molecular descriptors (MD), MACCS fingerprints, quantum chemistry descriptors (QCD) and three physicochemical properties related to chemical-soil-plant system. Compared to models with variables including MACCS fingerprints or solitary physicochemical properties, the XGBoost-6 model developed by the variable combination of MD, QCD and three physicochemical properties achieved the most remarkable performance, with R2 of 0.977. Model interpretation achieved by permutation variable importance and partial dependence plots revealed the vital importance of HOCs lipophilicity, lipid content of plant roots, soil organic matter content, the overall deformability and the molecular dispersive ability of HOCs for regulating RCF. The integration of MD and QCD with physicochemical properties could improve our knowledge of underlying mechanisms regarding HOCs accumulation in plant roots from innovative structural perspectives. Multiple variables combination-oriented performance improvement of model can be extended to other parameters prediction in environmental risk assessment field.
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Affiliation(s)
- Tengyi Zhu
- School of Environmental Science and Engineering, Yangzhou University, Yangzhou 225127, Jiangsu, China.
| | - Yu Zhang
- School of Environmental Science and Engineering, Yangzhou University, Yangzhou 225127, Jiangsu, China
| | - Yi Li
- School of Environmental Science and Engineering, Yangzhou University, Yangzhou 225127, Jiangsu, China
| | - Tianyun Tao
- College of Agriculture, Yangzhou University, Yangzhou 225009, Jiangsu, China
| | - Cuicui Tao
- School of Environmental Science and Engineering, Yangzhou University, Yangzhou 225127, Jiangsu, China
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Guo Z, Wang T, Chen G, Wang J, Fujii M, Yoshimura C. Apparent quantum yield for photo-production of singlet oxygen in reservoirs and its relation to the water matrix. WATER RESEARCH 2023; 244:120456. [PMID: 37579568 DOI: 10.1016/j.watres.2023.120456] [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: 06/02/2023] [Revised: 07/21/2023] [Accepted: 08/06/2023] [Indexed: 08/16/2023]
Abstract
Man-made reservoirs are important for human daily lives and offer different functions, however they are contaminated due to anthropogenic activities. Dissolved organic matter (DOM) from each reservoir is unique in composition, which further determines its photo-reactivity. Thus, this study aimed to investigate the photo-reactivity of reservoir DOM in terms of the quantum yield for photo-production of singlet oxygen (Ф1O2). We sampled surface water of 50 reservoirs in Japan and determined their Ф1O2 using simulated sunlight together with bulk water analysis. Their Ф1O2 ranged from 1.46 × 10-2 to 6.21 × 10-2 (mean, 2.55 × 10-2), which was identical to those of lakes and rivers reported in the literature, but lower than those of wetland water and wastewater. High-energy triplet-state of DOM accounted for 59.4% of the 1O2 production in the reservoir water on average. Among the bulk water properties, the spectral slope of wavelength from 350 to 400 nm (S350-400) was statistically detected as the most important predictor for Ф1O2. Furthermore, the multiple linear regression model employed S350-400 and the biological index as predictors with no intercorrelations and reasonable accuracy (r2 = 0.86), while the random forest model showed a better accuracy (r2 = 0.90). Overall, these major findings are beneficial for understanding the photo-reactivity of reservoir waters.
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Affiliation(s)
- Zhongyu Guo
- Department of Civil and Environmental Engineering, Tokyo Institute of Technology, Meguro-Ku, Tokyo, 152-8552, Japan
| | - Tingting Wang
- Graduate School of Science, Nagoya University, Furo-Cho, Chikusa-Ku, Nagoya, 464-8602, Japan
| | - Guo Chen
- Department of Civil and Environmental Engineering, Tokyo Institute of Technology, Meguro-Ku, Tokyo, 152-8552, Japan
| | - Jieqiong Wang
- College of Environmental Science and Engineering, North China Electric Power University, Beijing 102206, China
| | - Manabu Fujii
- Department of Civil and Environmental Engineering, Tokyo Institute of Technology, Meguro-Ku, Tokyo, 152-8552, Japan
| | - Chihiro Yoshimura
- Department of Civil and Environmental Engineering, Tokyo Institute of Technology, Meguro-Ku, Tokyo, 152-8552, Japan.
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10
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Hou Z, Li Y, Zheng M, Liu X, Zhang Q, Wang W. Regioselective oxidation of heterocyclic aromatic hydrocarbons catalyzed by cytochrome P450: A case study of carbazole. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2023; 258:114964. [PMID: 37121081 DOI: 10.1016/j.ecoenv.2023.114964] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/05/2023] [Revised: 04/11/2023] [Accepted: 04/26/2023] [Indexed: 05/22/2023]
Abstract
Recently there are increasing interests in accurately evaluating the health effects of heterocyclic PAHs. However, the activation mechanism and possible metabolites of heterocyclic PAHs catalyzed by human CYP1A1 is still elusive to a great extent. Here, leveraged to high level QM/MM calculations, the corresponding activation pathways of a representative heterocyclic PAHs, carbazole, were systematically explored. The first stage is electrophilic addition or hydrogen abstraction from N-H group. Electrophilic addition was evidenced to be more feasible and regioselectivity at C3 and C4 sites were identified. Correlations between energy barriers and key structural/electrostatic parameters reveal that O-Cα distance and Fe-O-Cα angle are the main origin for the catalytic regioselectivity. Electrophilic addition was determined as the rate-determining step and the subsequent possible reactions include epoxidation, NIH shift (the hydrogen migration from the site of hydroxylation to the adjacent carbon) and proton shuttle. The corresponding products are epoxides, ketones and hydroxylated carbazoles, respectively. The main metabolites (hydroxylated carbazoles) are estimated to be more toxic than carbazole. The regioselectivity of carbazole activated by CYP1A1 is different from the environmental processes (gas and aqueous phase). Collectively, these results will inform the in-depth understanding the metabolic processes of heterocyclic PAHs and aid the accurate evaluation of their health effects.
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Affiliation(s)
- Zexi Hou
- Environment Research Institute, Shandong University, Qingdao 266237, PR China
| | - Yanwei Li
- Environment Research Institute, Shandong University, Qingdao 266237, PR China; Shenzhen Research Institute, Shandong University, Shenzhen 518057, PR China.
| | - Mingna Zheng
- Environment Research Institute, Shandong University, Qingdao 266237, PR China
| | - Xinning Liu
- Environment Research Institute, Shandong University, Qingdao 266237, PR China
| | - Qingzhu Zhang
- Environment Research Institute, Shandong University, Qingdao 266237, PR China
| | - Wenxing Wang
- Environment Research Institute, Shandong University, Qingdao 266237, PR China
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11
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Li Y, Sha Z, Tang A, Goulding K, Liu X. The application of machine learning to air pollution research: A bibliometric analysis. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2023; 257:114911. [PMID: 37154080 DOI: 10.1016/j.ecoenv.2023.114911] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/24/2022] [Revised: 03/27/2023] [Accepted: 04/10/2023] [Indexed: 05/10/2023]
Abstract
Machine learning (ML) is an advanced computer algorithm that simulates the human learning process to solve problems. With an explosion of monitoring data and the increasing demand for fast and accurate prediction, ML models have been rapidly developed and applied in air pollution research. In order to explore the status of ML applications in air pollution research, a bibliometric analysis was made based on 2962 articles published from 1990 to 2021. The number of publications increased sharply after 2017, comprising approximately 75% of the total. Institutions in China and United States contributed half of all publications with most research being conducted by individual groups rather than global collaborations. Cluster analysis revealed four main research topics for the application of ML: chemical characterization of pollutants, short-term forecasting, detection improvement and optimizing emission control. The rapid development of ML algorithms has increased the capability to explore the chemical characteristics of multiple pollutants, analyze chemical reactions and their driving factors, and simulate scenarios. Combined with multi-field data, ML models are a powerful tool for analyzing atmospheric chemical processes and evaluating the management of air quality and deserve greater attention in future.
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Affiliation(s)
- Yunzhe Li
- Beijing Key Laboratory of Farmland Soil Pollution Prevention and Remediation, College of Resources and Environmental Science, China Agricultural University, Beijing 100193, China
| | - Zhipeng Sha
- Beijing Key Laboratory of Farmland Soil Pollution Prevention and Remediation, College of Resources and Environmental Science, China Agricultural University, Beijing 100193, China
| | - Aohan Tang
- Beijing Key Laboratory of Farmland Soil Pollution Prevention and Remediation, College of Resources and Environmental Science, China Agricultural University, Beijing 100193, China.
| | - Keith Goulding
- Sustainable Soils and Crops, Rothamsted Research, Harpenden AL5 2JQ, UK
| | - Xuejun Liu
- Beijing Key Laboratory of Farmland Soil Pollution Prevention and Remediation, College of Resources and Environmental Science, China Agricultural University, Beijing 100193, China
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Ye Q, Ding Y, Ding Z, Li R, Shi Z. Unified Modeling Approach for Quantifying the Proton and Metal Binding Ability of Soil Dissolved Organic Matter. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2023; 57:831-841. [PMID: 36574384 DOI: 10.1021/acs.est.2c08482] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/17/2023]
Abstract
Soil dissolved organic matter (DOM) is composed of a mass of complex organic compounds in soil solutions and significantly affects a range of (bio)geochemical processes in soil environment. However, how the chemical complexity (i.e., heterogeneity and chemodiversity) of soil DOM molecules affects their proton and metal binding ability remains unclear, which limits our ability for predicting the environmental behavior of DOM and metals. In this study, we developed a unified modeling approach for quantifying the proton and metal binding ability of soil DOM based on Cu titration experiments, Fourier transform ion cyclotron resonance mass spectrometry data, and molecular modeling method. Although soil DOM samples from different regions have enormously heterogeneous and diverse properties, we found that the molecules of soil DOM can be divided into three representative groups according to their Cu binding capacity. Based on the molecular models for individual molecular groups and the relative contributions of each group in each soil DOM, we were able to further develop molecular models for all soil DOM to predict their molecular properties and proton and metal binding ability. Our results will help to develop mechanistic models for predicting the reactivity of soil DOM from various sources.
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Affiliation(s)
- Qianting Ye
- The Key Lab of Pollution Control and Ecosystem Restoration in Industry Clusters, Ministry of Education, School of Environment and Energy, South China University of Technology, Guangzhou, Guangdong510006, People's Republic of China
| | - Yang Ding
- The Key Lab of Pollution Control and Ecosystem Restoration in Industry Clusters, Ministry of Education, School of Environment and Energy, South China University of Technology, Guangzhou, Guangdong510006, People's Republic of China
| | - Zecong Ding
- The Key Lab of Pollution Control and Ecosystem Restoration in Industry Clusters, Ministry of Education, School of Environment and Energy, South China University of Technology, Guangzhou, Guangdong510006, People's Republic of China
| | - Rong Li
- The Key Lab of Pollution Control and Ecosystem Restoration in Industry Clusters, Ministry of Education, School of Environment and Energy, South China University of Technology, Guangzhou, Guangdong510006, People's Republic of China
| | - Zhenqing Shi
- The Key Lab of Pollution Control and Ecosystem Restoration in Industry Clusters, Ministry of Education, School of Environment and Energy, South China University of Technology, Guangzhou, Guangdong510006, People's Republic of China
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13
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Wu X, Zhou Q, Mu L, Hu X. Machine learning in the identification, prediction and exploration of environmental toxicology: Challenges and perspectives. JOURNAL OF HAZARDOUS MATERIALS 2022; 438:129487. [PMID: 35816807 DOI: 10.1016/j.jhazmat.2022.129487] [Citation(s) in RCA: 17] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/25/2022] [Revised: 06/16/2022] [Accepted: 06/26/2022] [Indexed: 06/15/2023]
Abstract
Over the past few decades, data-driven machine learning (ML) has distinguished itself from hypothesis-driven studies and has recently received much attention in environmental toxicology. However, the use of ML in environmental toxicology remains in the early stages, with knowledge gaps, technical bottlenecks in data quality, high-dimensional/heterogeneous/small-sample data analysis and model interpretability, and a lack of an in-depth understanding of environmental toxicology. Given the above problems, we review the recent progress in the literature and highlight state-of-the-art toxicological studies using ML (such as learning and predicting toxicity in complicated biosystems and multiple-factor environmental scenarios of long-term and large-scale pollution). Beyond predicting simple biological endpoints by integrating untargeted omics and adverse outcome pathways, ML development should focus on revealing toxicological mechanisms. The integration of data-driven ML with other methods (e.g., omics analysis and adverse outcome pathway frameworks) endows ML with widely promising application in revealing toxicological mechanisms. High-quality databases and interpretable algorithms are urgently needed for toxicology and environmental science. Addressing the core issues and future challenges for ML in this review may narrow the knowledge gap between environmental toxicity and computational science and facilitate the control of environmental risk in the future.
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Affiliation(s)
- Xiaotong Wu
- Key Laboratory of Pollution Processes and Environmental Criteria (Ministry of Education)/Tianjin Key Laboratory of Environmental Remediation and Pollution Control, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China
| | - Qixing Zhou
- Key Laboratory of Pollution Processes and Environmental Criteria (Ministry of Education)/Tianjin Key Laboratory of Environmental Remediation and Pollution Control, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China
| | - Li Mu
- Tianjin Key Laboratory of Agro-environment and Safe-product, Key Laboratory for Environmental Factors Control of Agro-product Quality Safety (Ministry of Agriculture and Rural Affairs), Institute of Agro-environmental Protection, Ministry of Agriculture and Rural Affairs, Tianjin 300191, China.
| | - Xiangang Hu
- Key Laboratory of Pollution Processes and Environmental Criteria (Ministry of Education)/Tianjin Key Laboratory of Environmental Remediation and Pollution Control, College of Environmental Science and Engineering, Nankai University, Tianjin 300350, China.
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14
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Feng S, Li Y, Zhang R, Zhang Q, Wang W. Origin of metabolites diversity and selectivity of P450 catalyzed benzo[a]pyrene metabolic activation. JOURNAL OF HAZARDOUS MATERIALS 2022; 435:129008. [PMID: 35490637 DOI: 10.1016/j.jhazmat.2022.129008] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/15/2022] [Revised: 04/19/2022] [Accepted: 04/22/2022] [Indexed: 06/14/2023]
Abstract
Polycyclic Aromatic Hydrocarbon (PAHs) presents one of the most abundant class of environmental pollutants. Recent study shows a lab-synthesized PAHs derivative, helicenium, can selectively kill cancer cells rather than normal cells, calling for the in-depth understanding of the metabolic process. However, the origin of metabolites diversity and selectivity of P450 catalyzed PAHs metabolic activation is still unclear to a great extent. Here we systematically investigated P450 enzymes catalyzed activation mechanism of a representative PAHs, benzo[a]pyrene (BaP), and found the corresponding activation process mainly involves two elementary steps: electrophilic addition and epoxidation. Electrophilic addition step is evidenced to be rate determining step. Two representative binding modes of BaP with P450 were found, which enables the electrophilic addition of Heme (FeO) to almost all the carbons of BaP. This electrophilic addition was proposed to be accelerated by the P450 enzyme environment when compared with the gas phase and water solvent. To dig deeper on the origin of metabolites diversity, we built several linear regression models to explore the structural-energy relationships. The selectivity was eventually attributed to the integrated effects of structural (e.g. O-C distance and O-C-Fe angle) and electrostatic parameters (e.g. charge of C and O) from both BaP and P450.
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Affiliation(s)
- Shanshan Feng
- Environment Research Institute, Shandong University, Qingdao 266237, PR China
| | - Yanwei Li
- Environment Research Institute, Shandong University, Qingdao 266237, PR China.
| | - Ruiming Zhang
- Environment Research Institute, Shandong University, Qingdao 266237, PR China
| | - Qingzhu Zhang
- Environment Research Institute, Shandong University, Qingdao 266237, PR China
| | - Wenxing Wang
- Environment Research Institute, Shandong University, Qingdao 266237, PR China
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Zhou J, Zhang X, Li Y, Feng S, Zhang Q, Wang W. Endocrine-disrupting metabolic activation of 2-nitrofluorene catalyzed by human cytochrome P450 1A1: A QM/MM approach. ENVIRONMENT INTERNATIONAL 2022; 166:107355. [PMID: 35751956 DOI: 10.1016/j.envint.2022.107355] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/01/2022] [Revised: 05/25/2022] [Accepted: 06/14/2022] [Indexed: 06/15/2023]
Abstract
Nitropolycyclic aromatic hydrocarbons (NPAHs) present one of the most important airborne pollutants. Recent studies have shown that one of the most abundant NPAHs, 2-Nitrofluorene (NF), was supposed to be converted to endocrine-disrupting metabolites by cytochrome P450 1A1 (CYP1A1) in human cells. However, the mechanism is still largely unexplored. Here the metabolic activation and transformation mechanism of NF catalyzed by CYP1A1 were systematically studied with the aid of Molecular Dynamics, Density Functional Theory and Quantum Mechanics/Molecular Mechanics techniques. We evidence that CYP1A1 can activate NF through two elementary processes: (i) electrophilic addition (12.4 kcal·mol-1) or hydrogen abstraction (38.2 kcal·mol-1) and (ii) epoxidation (5.9 and 8.7 kcal·mol-1) or NIH shift (12.5 and 14.9 kcal·mol-1) or proton shuttle (12.1 kcal·mol-1). Electrophilic addition was found to be the rate-determining step while epoxidation rather than NIH shift or proton shuttle is the more feasible pathway after electrophilic addition. Metabolites 6,7-epoxide-2-nitrofluorene and 7,8-epoxide-2-nitrofluorene were identified as the major epoxidation products. Epoxides are unstable and easy to react with hydrated hydrogen ions and hydroxyls to produce endocrine disrupter 7-hydroxy-2-nitrofluorene. Toxic analysis shows that some of the metabolites are more toxic to model aquatic organisms (e.g. Green algea) than NF. Binding affinity analysis to human sex hormone binding globulin reveals that NF metabolites all have endocrine-disrupting potential. This study provides a comprehensive understanding on the biotransformation process of NF and may aid future studies on various NPAHs activation catalyzed by human P450 enzyme.
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Affiliation(s)
- Junhua Zhou
- Environment Research Institute, Shandong University, Qingdao 266237, PR China; School of Environmental Science and Engineering, Shandong University, Qingdao 266237, PR China
| | - Xin Zhang
- Environment Research Institute, Shandong University, Qingdao 266237, PR China; School of Environmental Science and Engineering, Shandong University, Qingdao 266237, PR China
| | - Yanwei Li
- Environment Research Institute, Shandong University, Qingdao 266237, PR China.
| | - Shanshan Feng
- Environment Research Institute, Shandong University, Qingdao 266237, PR China
| | - Qingzhu Zhang
- Environment Research Institute, Shandong University, Qingdao 266237, PR China
| | - Wenxing Wang
- Environment Research Institute, Shandong University, Qingdao 266237, PR China
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