1
|
Eddine Attar A, Chaker H, Djennas M, Ondarts M, Fourmentin S. Investigation of Doehlert matrix conception in novel intrinsically conducting polymers based on selenium nanoparticles for wastewater treatment: Synthesis, characterization, kinetic and chemometric study. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2024; 319:124562. [PMID: 38823245 DOI: 10.1016/j.saa.2024.124562] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/07/2024] [Revised: 05/27/2024] [Accepted: 05/28/2024] [Indexed: 06/03/2024]
Abstract
The synthesis of robust intrinsically conducting polymers (ICPs) based on nanoparticles is becoming increasingly attractive to the research community due to the unique properties of these nanocomposites. Indeed, as organic semiconductors, ICPs combine both polymer and metal properties in a single structure. This study presents an innovative approach in which the Doehlert Matrix (DM) is applied to a novel ICP nanocomposite based on polyaniline (Pani) coupled with selenium (Se) loaded mesoporous titania (TiO2) for wastewater treatment by photocatalysis. It includes both the elaboration routes of ICP nanocomposites, characterization of materials by X-ray diffraction (XRD), BET analysis, thermogravimetric analysis (TGA), RAMAN spectroscopy and Fourier transform infrared spectroscopy (FTIR) and photodegradation of methylene blue (MB) as a representative of dye pollutant. In addition, the photocatalytic process has been optimized by a novel DM conception. The effect of the pH of the solution, the catalyst dosage and the initial pollutant concentration was investigated. The optimum conditions were found to be: initial MB concentration of 15 mg/L, the catalyst dosage of 69 mg and pH of 9.6 with an operating time of 75 min, with a coefficient of determination R2 equal to 0.9985. The removal efficiency of BM was close to 97 %. The study shows that the new ICP nanocomposites improve the photocatalytic efficiency compared to pure titania and/or pure Pani. In addition, as the ternary Pani-Se-TiO2 nanocomposite could be obtained from a low-cost synthesis, it is a very promising material for use in wastewater treatment.
Collapse
Affiliation(s)
- Alaa Eddine Attar
- Laboratoire de Catalyse et Synthèse en Chimie Organique BP 119, Université de Tlemcen, Tlemcen 13000, Algérie; Université Belhadj Bouchaib de Ain Temouchent, BP 284, 46000, Ain Temouchent, Algérie
| | - Hanane Chaker
- Laboratoire de Catalyse et Synthèse en Chimie Organique BP 119, Université de Tlemcen, Tlemcen 13000, Algérie; Université Belhadj Bouchaib de Ain Temouchent, BP 284, 46000, Ain Temouchent, Algérie.
| | - Mustapha Djennas
- Faculté des sciences économiques, BP 226, Université de Tlemcen, Tlemcen 13000, Algérie
| | - Michel Ondarts
- Université Savoie Mont Blanc, CNRS, Laboratoire des Procédés Énergétiques du Bâtiment, 73000 Chambéry, France
| | - Sophie Fourmentin
- Université Littoral Côte d'Opale, UR 4492, UCEIV, Unité de Chimie Environnementale et Interactions sur le Vivant, F-59140 Dunkerque, France
| |
Collapse
|
2
|
Naveed M, Salah Ud Din M, Aziz T, Javed T, Miraj Khan S, Naveed R, Ali Khan A, Alharbi M. Comparative analysis among the degradation potential of enzymes obtained from Escherichia coli against the toxicity of sulfur dyes through molecular docking. Z NATURFORSCH C 2024; 79:221-234. [PMID: 38661096 DOI: 10.1515/znc-2024-0072] [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: 04/04/2024] [Accepted: 04/07/2024] [Indexed: 04/26/2024]
Abstract
The common bacterium Escherichia coli has demonstrated potential in the field of biodegradation. E. coli is naturally capable of biodegradation because it carries a variety of enzymes that are essential for the breakdown of different substances. The degradation process is effectively catalyzed by these enzymes. The collaborative effects of E. coli's aryl sulfotransferase, alkanesulfonate moonoxygenase, and azoreductase enzymes on the breakdown of sulfur dyes from industrial effluents are investigated in this work. ExPASY ProtParam was used to confirm the stability of the enzyme, showing an instability index less than 40. We determined the maximum binding affinities of these enzymes with sulfur dye pollutants - 1-naphthalenesulfonic acid, sulfogene, sulfur green 3, sulfur red 6, sulfur red 1, sulfur yellow 2, thianthrene, thiazone, and thional - using comparative molecular docking. Significantly, the highest binding affinity was shown by monooxygenase (-12.1), whereas aryl sulfotransferase and azoreductase demonstrated significant energies of -11.8 and -11.4, respectively. The interactions between proteins and ligands in the docked complexes were examined. To evaluate their combined effects, co-expression analysis of genes and enzyme bioengineering were carried out. Using aryl sulfotransferase, alkanesulfonate monooxygenase, and azoreductase, this study investigates the enzymatic degradation of sulfur dye pollutants, thereby promoting environmentally friendly and effective sulfur dye pollutant management.
Collapse
Affiliation(s)
- Muhammad Naveed
- Department of Biotechnology, Faculty of Science and Technology, 66901 University of Central Punjab , Lahore 54000, Pakistan
| | - Maida Salah Ud Din
- Department of Biotechnology, Faculty of Science and Technology, 66901 University of Central Punjab , Lahore 54000, Pakistan
| | - Tariq Aziz
- Laboratory of Animal Health Food Hygiene and Quality, 37796 University of Ioannina , Arta 47132, Greece
| | - Tayyab Javed
- Department of Biotechnology, Faculty of Science and Technology, 66901 University of Central Punjab , Lahore 54000, Pakistan
| | - Sana Miraj Khan
- Department of Biotechnology, Faculty of Science and Technology, 66901 University of Central Punjab , Lahore 54000, Pakistan
| | - Rida Naveed
- Department of Biotechnology, Faculty of Science and Technology, 66901 University of Central Punjab , Lahore 54000, Pakistan
| | - Ayaz Ali Khan
- Department of Biotechnology, 66714 University of Malakand , Chakdara 18800, Pakistan
| | - Metab Alharbi
- Department of Pharmacology and Toxicology, 37850 King Saud University , Riyadh 11461, Saudi Arabia
| |
Collapse
|
3
|
Jasińska A, Walaszczyk A, Paraszkiewicz K. Omics-Based Approaches in Research on Textile Dye Microbial Decolorization. Molecules 2024; 29:2771. [PMID: 38930836 PMCID: PMC11206425 DOI: 10.3390/molecules29122771] [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: 04/24/2024] [Revised: 06/02/2024] [Accepted: 06/07/2024] [Indexed: 06/28/2024] Open
Abstract
The development of the textile industry has negative effects on the natural environment. Cotton cultivation, dyeing fabrics, washing, and finishing require a lot of water and energy and use many chemicals. One of the most dangerous pollutants generated by the textile industry is dyes. Most of them are characterized by a complex chemical structure and an unfavorable impact on the environment. Especially azo dyes, whose decomposition by bacteria may lead to the formation of carcinogenic aromatic amines and raise a lot of concern. Using the metabolic potential of microorganisms that biodegrade dyes seems to be a promising solution for their elimination from contaminated environments. The development of omics sciences such as genomics, transcriptomics, proteomics, and metabolomics has allowed for a comprehensive approach to the processes occurring in cells. Especially multi-omics, which combines data from different biomolecular levels, providing an integrative understanding of the whole biodegradation process. Thanks to this, it is possible to elucidate the molecular basis of the mechanisms of dye biodegradation and to develop effective methods of bioremediation of dye-contaminated environments.
Collapse
Affiliation(s)
- Anna Jasińska
- Department of Industrial Microbiology and Biotechnology, Faculty of Biology and Environmental Protection, University of Lodz, 90-237 Lodz, Poland;
| | - Aleksandra Walaszczyk
- Department of Industrial Microbiology and Biotechnology, Faculty of Biology and Environmental Protection, Doctoral School of Exact and Natural Sciences, University of Lodz, 90-237 Lodz, Poland;
| | - Katarzyna Paraszkiewicz
- Department of Industrial Microbiology and Biotechnology, Faculty of Biology and Environmental Protection, University of Lodz, 90-237 Lodz, Poland;
| |
Collapse
|
4
|
Samuchiwal S, Sahu A, Selvaraju K, Singh S, Malik A. Unveiling the azo-reductase mechanism in Pseudomonas putida for efficient decolorization of textile Reactive dyes: an in-silico study. J Biomol Struct Dyn 2024:1-14. [PMID: 38284378 DOI: 10.1080/07391102.2024.2308768] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2023] [Accepted: 01/14/2024] [Indexed: 01/30/2024]
Abstract
The textile industry utilizing affordable azo dyes is a high threat to aquatic life and causes environmental problems due to their toxicity. Biodegradation of azo dyes employing microbes and enzymes has proved to be an efficient method for treating industrial effluent. This study used the novel microbial consortium to decolorize reactive azo dyes (Reactive Red 120; Reactive Black 5 and Reactive Blue 13), and its azo-reductase activity was evaluated. The metagenomic analysis of the consortium identified azo-reductase-producing bacterial species. The molecular docking revealed that PpAzoR from Pseudomonas putida had the highest binding affinities for all the three dyes such as Reactive Black 5 (-9.3 kcal/mol), Reactive Blue 13 (-9.8 kcal/mol) and Reactive Red 120 (-10.7 kcal/mol). The structural rigidity and stability of the docked complex were confirmed through MD simulations evaluated across multiple descriptors from the simulation trajectories. Further, MMPBSA analysis validated the results that binding of the ligands, i.e. dye molecules Reactive Black (RB5), Reactive Blue (RB13) and Reactive Red (RR120) binding with the Azoreductase (PpAzoR) to the screened Azo-dyes was spontaneous. Based on molecular dynamics simulations for 100 ns, RR 120 showed the highest binding affinity (-411.336 ± 46.799 KJ/mol), followed by RB5 (-288.012 ± 33.371 KJ/mol). The dyes (RR120 and RB5) exhibited stable interactions with the target azoreductase (PpAzoR). The present study provides insights that PpAzoR shows the highest decolorization potency, which could be interpreted as a potential dye-degrading protein based on dye-degrading assay findings.Communicated by Ramaswamy H. Sarma.
Collapse
Affiliation(s)
- Saurabh Samuchiwal
- Applied Microbiology Lab, Centre for Rural Development and Technology, Indian Institute of Technology, Delhi, India
| | - Abhishek Sahu
- Applied Microbiology Lab, Centre for Rural Development and Technology, Indian Institute of Technology, Delhi, India
| | - Koushalya Selvaraju
- Applied Microbiology Lab, Centre for Rural Development and Technology, Indian Institute of Technology, Delhi, India
| | - Shubha Singh
- Department of Biosciences and Bioengineering, Indian Institute of Technology Guwahati, Assam, India
| | - Anushree Malik
- Applied Microbiology Lab, Centre for Rural Development and Technology, Indian Institute of Technology, Delhi, India
| |
Collapse
|
5
|
Esakkimuthu ES, Ponnuchamy V, Mikuljan M, Schwarzkopf M, DeVallance D. Fungal enzyme degradation of lignin-PLA composites: Insights from experiments and molecular docking simulations. Heliyon 2024; 10:e23838. [PMID: 38192859 PMCID: PMC10772188 DOI: 10.1016/j.heliyon.2023.e23838] [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: 06/29/2023] [Revised: 11/18/2023] [Accepted: 12/13/2023] [Indexed: 01/10/2024] Open
Abstract
Fungal enzymes are effective in degrading various polymeric materials. In this study, we assessed the initial degradation of composites consisting of lignin-poly(lactic acid) (PLA) with both unmodified lignin (LIG) and oxypropylated lignin (oLIG) incorporated at 10 % and 40 % weight within the PLA matrix in a fungal environment. Trametes versicolor fungi were used, and the samples were treated only for eight weeks. Although there was no significant difference in weight loss, the degradation process impacted the chemical and thermal properties of the composites, as shown by Fourier transform infrared spectroscopy (FTIR) and Differential scanning calorimetry (DSC) analyses. After the degradation process, the carbonyl index values decreased for all composites and the hydroxyl index values increased for LIG/PLA and a reverse trend was observed for oLIG/PLA composites. The first heating scan from DSC results showed that the melting peak and the cold crystallization peak disappeared after the degradation process. Microscopic analysis revealed that LIG/PLA exhibited higher roughness than oLIG/PLA. Molecular docking simulations were carried out using guaiacylglycerol-β-guaiacyl ether (GGE) and lactic acid (LA) as model compounds for lignin and PLA, respectively, with laccase (Lac) enzyme for Trametes versicolor. The docking results showed that GGE had the strongest binding interaction and affinity with Lac than lactic acid and oxypropylated GGE. The oxypropylated GGE formed a shorter hydrogen bonding with the Lac enzyme than GGE and LA. The trend associated with the degradation of composites from experimental and molecular docking findings was consistent. This combined approach provided insights into the degradation process using fungi and had the potential to be applied to different polymeric composites.
Collapse
Affiliation(s)
| | - Veerapandian Ponnuchamy
- InnoRenew CoE, Livade 6a, 6310, Izola, Slovenia
- University of Primorska, Andrej Marušič Institute, Muzejski trg 2, 6000, Koper, Slovenia
| | | | - Matthew Schwarzkopf
- InnoRenew CoE, Livade 6a, 6310, Izola, Slovenia
- University of Primorska, Faculty of Mathematics, Natural Sciences and Information Technologies, Glagoljaška 8, 6000, Koper, Slovenia
| | - David DeVallance
- InnoRenew CoE, Livade 6a, 6310, Izola, Slovenia
- University of Primorska, Faculty of Mathematics, Natural Sciences and Information Technologies, Glagoljaška 8, 6000, Koper, Slovenia
| |
Collapse
|
6
|
Wu J, Lv J, Zhao L, Zhao R, Gao T, Xu Q, Liu D, Yu Q, Ma F. Exploring the role of microbial proteins in controlling environmental pollutants based on molecular simulation. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 905:167028. [PMID: 37704131 DOI: 10.1016/j.scitotenv.2023.167028] [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: 07/02/2023] [Revised: 09/03/2023] [Accepted: 09/10/2023] [Indexed: 09/15/2023]
Abstract
Molecular simulation has been widely used to study microbial proteins' structural composition and dynamic properties, such as volatility, flexibility, and stability at the microscopic scale. Herein, this review describes the key elements of molecular docking and molecular dynamics (MD) simulations in molecular simulation; reviews the techniques combined with molecular simulation, such as crystallography, spectroscopy, molecular biology, and machine learning, to validate simulation results and bridge information gaps in the structure, microenvironmental changes, expression mechanisms, and intensity quantification; illustrates the application of molecular simulation, in characterizing the molecular mechanisms of interaction of microbial proteins with four different types of contaminants, namely heavy metals (HMs), pesticides, dyes and emerging contaminants (ECs). Finally, the review outlines the important role of molecular simulations in the study of microbial proteins for controlling environmental contamination and provides ideas for the application of molecular simulation in screening microbial proteins and incorporating targeted mutagenesis to obtain more effective contaminant control proteins.
Collapse
Affiliation(s)
- Jieting Wu
- School of Environmental Science, Liaoning University, Shenyang 110036, China
| | - Jin Lv
- School of Environmental Science, Liaoning University, Shenyang 110036, China
| | - Lei Zhao
- State Key Laboratory of Urban Water Resources & Environment, Harbin Institute of Technology, Harbin 150090, China
| | - Ruofan Zhao
- School of Environment, Beijing Normal University, Beijing 100875, China
| | - Tian Gao
- Key Laboratory of Integrated Regulation and Resource Development of Shallow Lakes, Ministry of Education, College of Environment, Hohai University, Xikang Road #1, Nanjing 210098, China
| | - Qi Xu
- PetroChina Fushun Petrochemical Company, Fushun 113000, China
| | - Dongbo Liu
- School of Environmental Science, Liaoning University, Shenyang 110036, China
| | - Qiqi Yu
- School of Environmental Science, Liaoning University, Shenyang 110036, China
| | - Fang Ma
- State Key Laboratory of Urban Water Resources & Environment, Harbin Institute of Technology, Harbin 150090, China.
| |
Collapse
|
7
|
Ballav S, Lokhande KB, Yadav RS, Ghosh P, Swamy KV, Basu S. Exploring binding mode assessment of novel kaempferol, resveratrol, and quercetin derivatives with PPAR-α as potent drug candidates against cancer. Mol Divers 2023; 27:2867-2885. [PMID: 36544031 DOI: 10.1007/s11030-022-10587-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2022] [Accepted: 12/09/2022] [Indexed: 12/24/2022]
Abstract
Peroxisome proliferator-activated receptors (PPAR)-α, a ligand-activated transcription factor stands out to be a valuable protein target against cancer. Given that ligand binding is the crucial process for the activation of PPAR-α, fibrate class of synthetic compounds serves as potent agonist for the receptor. However, their serious side effects limit the long-term application in cancer. This emphasizes the dire need to identify new candidates that would exert desired activation by abrogating the adverse effects caused by synthetic agonists. Natural dietary products serve as an important source of drug discovery. Hence, the present study encompasses the investigation of the role of natural plant phenolic compounds: kaempferol, resveratrol, and quercetin and their 8708 derivatives by the means of computational pipeline comprising molecular docking and molecular dynamic (MD) simulation techniques. Docking calculations shortlisted potential candidates, namely 6-cinnamylchrysin (6-CC), resveratrol potassium-4-sulfate (RPS) and 6-[2-(3,4-Dihydroxyphenyl)-5-hydroxy-4-oxochromen-7-yl]oxyhexyl nitrate (DHOON), and derivatives of kaempferol, resveratrol, and quercetin, respectively. 6-CC, RPS, and DHOON manifested better affinities of - 32.83 kcal/mol (Ala333, Lys358, His440), - 27.22 kcal/mol (Tyr314, Met355), and - 30.18 kcal/mol (Ser280, Tyr314, Ala333), respectively, and were found to act as good stimulants for PPAR-α. Among these three compounds, 6-CC caused relatively least deviations and fluctuations analyzed through MD simulation which judiciously held responsible to attain most favorable interaction with PPAR-α. Followed by the binding free energy (ΔG) calculations using MM-GBSA confirmed the key role of 6-CC toward PPAR-α. The compound 6-CC also achieved high drug-likeness and pharmacokinetic properties. Thus, these findings stipulate new drug leads for PPAR-α receptor which abets a way to develop new anti-cancer drugs.
Collapse
Affiliation(s)
- Sangeeta Ballav
- Cancer and Translational Research Laboratory, Dr. D. Y. Patil Biotechnology and Bioinformatics Institute, Dr. D. Y. Patil Vidyapeeth, Pune, Maharashtra, 411033, India
| | - Kiran Bharat Lokhande
- Bioinformatics Research Laboratory, Dr. D. Y. Patil Biotechnology & Bioinformatics Institute, Dr. D.Y. Patil Vidyapeeth, Pune, 411033, Maharashtra, India
- Translational Bioinformatics and Computational Genomics Research Lab, Department of Life Sciences, Shiv Nadar Institution of Eminence, Gautam Buddha Nagar, UP, 201314, India
| | - Rohit Singh Yadav
- Cancer and Translational Research Laboratory, Dr. D. Y. Patil Biotechnology and Bioinformatics Institute, Dr. D. Y. Patil Vidyapeeth, Pune, Maharashtra, 411033, India
- Bioinformatics Research Laboratory, Dr. D. Y. Patil Biotechnology & Bioinformatics Institute, Dr. D.Y. Patil Vidyapeeth, Pune, 411033, Maharashtra, India
| | - Payel Ghosh
- Bioinformatics Centre, Savitribai Phule Pune University, Pune, Maharashtra, 411007, India
| | - K V Swamy
- Bioinformatics Research Laboratory, Dr. D. Y. Patil Biotechnology & Bioinformatics Institute, Dr. D.Y. Patil Vidyapeeth, Pune, 411033, Maharashtra, India
- Bioinformatics Research Group, MIT School of Bioengineering Science & Research, MIT Art, Design and Technology University, Pune, Maharashtra, 412201, India
| | - Soumya Basu
- Cancer and Translational Research Laboratory, Dr. D. Y. Patil Biotechnology and Bioinformatics Institute, Dr. D. Y. Patil Vidyapeeth, Pune, Maharashtra, 411033, India.
| |
Collapse
|
8
|
Sharma M, Agarwal S, Agarwal Malik R, Kumar G, Pal DB, Mandal M, Sarkar A, Bantun F, Haque S, Singh P, Srivastava N, Gupta VK. Recent advances in microbial engineering approaches for wastewater treatment: a review. Bioengineered 2023; 14:2184518. [PMID: 37498651 PMCID: PMC10376923 DOI: 10.1080/21655979.2023.2184518] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2022] [Revised: 09/09/2022] [Accepted: 09/14/2022] [Indexed: 07/28/2023] Open
Abstract
In the present era of global climate change, the scarcity of potable water is increasing both due to natural and anthropogenic causes. Water is the elixir of life, and its usage has risen significantly due to escalating economic activities, widespread urbanization, and industrialization. The increasing water scarcity and rising contamination have compelled, scientists and researchers, to adopt feasible and sustainable wastewater treatment methods in meeting the growing demand for freshwater. Presently, various waste treatment technologies are adopted across the globe, such as physical, chemical, and biological treatment processes. There is a need to replace these technologies with sustainable and green technology that encourages the use of microorganisms since they have proven to be more effective in water treatment processes. The present review article is focused on demonstrating how effectively various microbes can be used in wastewater treatment to achieve environmental sustainability and economic feasibility. The microbial consortium used for water treatment offers many advantages over pure culture. There is an urgent need to develop hybrid treatment technology for the effective remediation of various organic and inorganic pollutants from wastewater.
Collapse
Affiliation(s)
- Monika Sharma
- Department of Zoology, University of Jammu, Jammu and Kashmir, India
| | - Sangita Agarwal
- Department of Applied Science, RCC Institute of Information Technology Kolkata, West Bengal, India
| | - Richa Agarwal Malik
- Department of Environmental Studies, PGDAV College, University of Delhi, New Delhi, India
| | - Gaurav Kumar
- Department of Environmental Studies, PGDAV College, University of Delhi, New Delhi, India
| | - Dan Bahadur Pal
- Department of Chemical Engineering, Harcourt Butler Technical University, Kanpur, Uttar Pradesh, India
| | - Mamun Mandal
- Laboratory of Applied Stress Biology, Department of Botany, University of Gour Banga, Malda, West Bengal, India
| | - Abhijit Sarkar
- Laboratory of Applied Stress Biology, Department of Botany, University of Gour Banga, Malda, West Bengal, India
| | - Farkad Bantun
- Department of Microbiology, Faculty of Medicine, Umm Al-Qura University, Makkah, Saudi Arabia
| | - Shafiul Haque
- Research and Scientific Studies Unit, College of Nursing and Allied Health Sciences, Jazan University, Jazan, Saudi Arabia
- Gilbert and Rose-Marie Chagoury School of Medicine, Lebanese American University, Beirut, Lebanon
- Centre of Medical and Bio-Allied Health Sciences Research, Ajman University, Ajman, United Arab Emirates
| | - Pardeep Singh
- Department of Environmental Studies, PGDAV College, University of Delhi, New Delhi, India
| | - Neha Srivastava
- Department of Chemical Engineering and Technology, Indian Institute of Technology (BHU), Varanasi, India
| | | |
Collapse
|
9
|
Pant R, Kumar R, Sharma S, Karuppasamy R, Veerappapillai S. Exploring the potential of Halalkalibacterium halodurans laccase for endosulfan and chlorophacinone degradation: insights from molecular docking and molecular dynamics simulations. J Biomol Struct Dyn 2023:1-15. [PMID: 37990551 DOI: 10.1080/07391102.2023.2283165] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2023] [Accepted: 11/06/2023] [Indexed: 11/23/2023]
Abstract
Pesticides are widely used in agriculture but at the same time, a majority of them are known to cause serious harm to health and the environment. In the recent past, laccases have been reported as key enzymes having the ability to degrade pollutants by converting them into less toxic forms. In this investigation, laccase from polyextremophilic bacterium Halalkalibacterium halodurans C-125 was analyzed for its structural, physicochemical, and functional characterization using in silico approaches. The 3D model of the said enzyme is unknown; therefore, the model was generated by template-independent modeling using ROBETTA, I-TASSER, and Alphafold server. The best-generated model from Alphafold with a confidence of 0.95 was validated from ERRAT and Verify 3D scores of 89.95 and 91.80%, respectively. The Ramachandran plot generated using the PROCHECK server further predicted the accuracy of the model with 93.7% and 5.9% of residues present in most favored and additional allowed regions of the plot respectively. The active sites, ion binding sites, and subcellular localization of laccase were also predicted. The generated model was docked with 121 pollutants (pesticides, insecticides, herbicides, fungicides, and rodenticides) for its degradation potential towards these pollutants. Two ligands chlorophacinone (based on the highest binding energy) and endosulfan (based on agricultural uses) were selected for molecular dynamic simulation studies. Endosulfan as a pesticide is banned but in some countries governments allow its use for special purposes which need serious consideration on developing bioremediation approaches for endosulfan degradation. MD simulation studies revealed that both chlorophacinone and endosulfan form hydrogen bonds and hydrophobic bonds with the active site of laccase and chlorophacinone-laccase complex were more stable in comparison to endosulfan. The present investigation provides insight into the structural features of laccase and its potential for the degradation of pesticides which can be further validated by experimental data.Communicated by Ramaswamy H. Sarma.
Collapse
Affiliation(s)
- Rajat Pant
- Department of Biological Sciences and Engineering, Netaji Subhas University of Technology, Dwarka, New Delhi, India
| | - Ravi Kumar
- Department of Biological Sciences and Engineering, Netaji Subhas University of Technology, Dwarka, New Delhi, India
- Department of Biological Sciences and Engineering, Netaji Subhas Institute of Technology (University of Delhi), New Delhi, India
| | - Shilpa Sharma
- Department of Biological Sciences and Engineering, Netaji Subhas University of Technology, Dwarka, New Delhi, India
| | - Ramanathan Karuppasamy
- Department of Biotechnology, School of Bio Sciences and Technology, Vellore Institute of Technology, Vellore, Tamil Nadu, India
| | - Shanthi Veerappapillai
- Department of Biotechnology, School of Bio Sciences and Technology, Vellore Institute of Technology, Vellore, Tamil Nadu, India
| |
Collapse
|
10
|
Wu Y, Li Y, Jia W, Zhu L, Wan X, Gao S, Zhang Y. Reconstructing hepatic metabolic profile and glutathione-mediated metabolic fate of acrylamide. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2023; 337:122508. [PMID: 37673322 DOI: 10.1016/j.envpol.2023.122508] [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: 05/23/2023] [Revised: 08/13/2023] [Accepted: 09/02/2023] [Indexed: 09/08/2023]
Abstract
The toxicity of acrylamide (AA) has continuously attracted wide concerns as its extensive presence from both environmental and dietary sources. However, its hepatic metabolic transformation and metabolic fate still remain unclear. This study aims to unravel the metabolic profile and glutathione (GSH) mediated metabolic fate of AA in liver of rats under the dose-dependent exposure. We found that exposure to AA dose-dependently alters the binding of AA and GSH and the generation of mercapturic acid adducts, while liver as a target tissue bears the metabolic transformation of AA via regulating GSH synthesis and consumption pathways, in which glutamine synthase (GSS), cytochrome P450 2E1 (CYP2E1), and glutathione S-transferase P1 (GSTP1) play a key role. In response to high- and low-dose exposures to AA, there were significant differences in liver of rats, including the changes in GSH and cysteine (CYS) activities and the conversion ratio of AA to glycidamide (GA), and liver can affect the transformation of AA by regulating the GSH-mediated metabolic pathway. Low-dose exposure to AA activates GSH synthesis pathway in liver and upregulates GSS activity and CYS content with no change in γ-glutamyl transpeptidase 1 (GGT1) activity. High-dose exposure to AA activates the detoxification pathway of GSH and increases GSH consumption by upregulating GSTP1 activity. In addition, molecular docking results showed that most of the metabolic molecules transformed by AA and GA other than themselves can closely bind to GSTP1, GSS, GGT1, N-acetyltransferase 8, and dimethyl sulfide dehydrogenase 1. The binding of AA-GSH and GA-GSH to GSTP1 and CYP2E1 enzymes determine the tendentiousness between toxicity and detoxification of AA, which exerts a prospective avenue for targeting protective role of hepatic enzymes against in vivo toxicity of AA.
Collapse
Affiliation(s)
- Yong Wu
- College of Food Science and Technology, Yunnan Agricultural University, Kunming, 650201, Yunnan, China; College of Chemistry and Life Sciences, Sichuan Provincial Key Laboratory for Development and Utilization of Characteristic Horticultural Biological Resources, Chengdu Normal University, Chengdu, 611130, Sichuan, China
| | - Yaoran Li
- Zhejiang Key Laboratory for Agro-Food Processing, College of Biosystems Engineering and Food Science, Zhejiang University, Hangzhou, 310058, Zhejiang, China
| | - Wei Jia
- Zhejiang Key Laboratory for Agro-Food Processing, College of Biosystems Engineering and Food Science, Zhejiang University, Hangzhou, 310058, Zhejiang, China
| | - Li Zhu
- Zhejiang Key Laboratory for Agro-Food Processing, College of Biosystems Engineering and Food Science, Zhejiang University, Hangzhou, 310058, Zhejiang, China
| | - Xuzhi Wan
- Zhejiang Key Laboratory for Agro-Food Processing, College of Biosystems Engineering and Food Science, Zhejiang University, Hangzhou, 310058, Zhejiang, China
| | - Sunan Gao
- Zhejiang Key Laboratory for Agro-Food Processing, College of Biosystems Engineering and Food Science, Zhejiang University, Hangzhou, 310058, Zhejiang, China
| | - Yu Zhang
- College of Food Science and Technology, Yunnan Agricultural University, Kunming, 650201, Yunnan, China; Zhejiang Key Laboratory for Agro-Food Processing, College of Biosystems Engineering and Food Science, Zhejiang University, Hangzhou, 310058, Zhejiang, China.
| |
Collapse
|
11
|
Silva MA, Nascimento Júnior JCD, Thomaz DV, Maia RT, Costa Amador V, Tommaso G, Coelho GD. Comparative homology of Pleurotus ostreatus laccase enzyme: Swiss model or Modeller? J Biomol Struct Dyn 2023; 41:8927-8940. [PMID: 36310115 DOI: 10.1080/07391102.2022.2138975] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2022] [Accepted: 10/17/2022] [Indexed: 11/05/2022]
Abstract
Laccases stand out in the industrial context due to their versatile biotechnological applications. Although these enzymes are frequently investigated, currently, Pleurotus ostreatus laccase structural model is unknown. Therefore, this research aims to predict and validate a P. ostreatus laccase theoretical model by means of comparative homology. The laccase target's primary structure (AOM73725.1) was obtained from the NCBI database, the model was predicted from homologous structures obtained from the PDB (PDB-ID: 5A7E, 2HRG, 4JHU, 1GYC) using the Swiss-Model and Modeller, and was refined in GalaxyRefine. The models were validated using PROCHECK, VERIFY 3D, ERRAT, PROVE and QMEAN Z-score servers. Moreover, molecular docking between the laccase model (Lacc4MN) and ABTS was performed on AutoDock Vina. The models that were generated by the Modeller showed superior stereochemical and structural characteristics to those predicted by the Swiss Model. The refinement made it difficult to stabilize the copper atoms which are typical of laccases. The Lacc4MN model showed the interactions between the amino acids in the active site of the laccase and the copper atoms, thereby hinting the stabilization of the metal through electrostatic interactions with histidine and cysteine. The molecular docking between Lacc4MN and ABTS showed negative free energy and the formation of two hydrogen bonds involving the amino acids ASP 208 and GLY 268, and a Pi-sulfur bond between residue HIS 458 and ABTS, which demonstrates the typical catalytic functionality of laccases. Furthermore, the theoretical model Lacc4MN presented stereochemical and structural characteristics that allow its use in silico tests.Communicated by Ramaswamy H. Sarma.
Collapse
Affiliation(s)
- Marco Antonio Silva
- Laboratory of Environmental Biotechnology, Faculty of Animal Science and Food Engineering, University of São Paulo, Pirassununga, São Paulo, Brazil
| | - José Cordeiro do Nascimento Júnior
- Center for Water Resources and Environmental Studies, São Carlos School of Engineering, University of São Paulo, São Carlos, São Paulo, Brazil
| | - Douglas Vieira Thomaz
- National Enterprise for nanoScience and nanoTechnology (NEST), Istituto Nanoscienze-CNR and Scuola Normale Superiore, Pisa, Italy
| | - Rafael Trindade Maia
- Academic Unit of Rural Education; Center for Sustainable Development of the Semi-Arid, Federal University of Campina Grande, Sumé, Paraiba, Brazil
| | - Vinícius Costa Amador
- Bioscience Center, Genetics Department, Federal University of Pernambuco, Recife, Brazil
| | - Giovana Tommaso
- Laboratory of Environmental Biotechnology, Faculty of Animal Science and Food Engineering, University of São Paulo, Pirassununga, São Paulo, Brazil
| | - Glauciane Danusa Coelho
- Academic Unit of Biotechnology Engineering; Center for Sustainable Development of the Semi-Arid, Federal University of Campina Grande, Sumé, Paraiba, Brazil
| |
Collapse
|
12
|
Ali M, Bhardwaj P, Ishqi HM, Shahid M, Islam A. Laccase Engineering: Redox Potential Is Not the Only Activity-Determining Feature in the Metalloproteins. Molecules 2023; 28:6209. [PMID: 37687038 PMCID: PMC10488915 DOI: 10.3390/molecules28176209] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2023] [Revised: 08/02/2023] [Accepted: 08/08/2023] [Indexed: 09/10/2023] Open
Abstract
Laccase, one of the metalloproteins, belongs to the multicopper oxidase family. It oxidizes a wide range of substrates and generates water as a sole by-product. The engineering of laccase is important to broaden their industrial and environmental applications. The general assumption is that the low redox potential of laccases is the principal obstacle, as evidenced by their low activity towards certain substrates. Therefore, the primary goal of engineering laccases is to improve their oxidation capability, thereby increasing their redox potential. Even though some of the determinants of laccase are known, it is still not entirely clear how to enhance its redox potential. However, the laccase active site has additional characteristics that regulate the enzymes' activity and specificity. These include the electrostatic and hydrophobic environment of the substrate binding pocket, the steric effect at the substrate binding site, and the orientation of the binding substrate with respect to the T1 site of the laccase. In this review, these features of the substrate binding site will be discussed to highlight their importance as a target for future laccase engineering.
Collapse
Affiliation(s)
- Misha Ali
- Centre for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia, New Delhi 110025, India; (M.A.); (P.B.)
| | - Priyanka Bhardwaj
- Centre for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia, New Delhi 110025, India; (M.A.); (P.B.)
| | - Hassan Mubarak Ishqi
- Department of Surgery and Sylvester Comprehensive Cancer Center, Miller School of Medicine, Miami, FL 33136, USA;
| | - Mohammad Shahid
- Department of Basic Medical Sciences, College of Medicine, Prince Sattam Bin Abdulaziz University, Al-Kharj 16273, Saudi Arabia
| | - Asimul Islam
- Centre for Interdisciplinary Research in Basic Sciences, Jamia Millia Islamia, New Delhi 110025, India; (M.A.); (P.B.)
| |
Collapse
|
13
|
Maqsood Q, Sumrin A, Waseem R, Hussain M, Imtiaz M, Hussain N. Bioengineered microbial strains for detoxification of toxic environmental pollutants. ENVIRONMENTAL RESEARCH 2023; 227:115665. [PMID: 36907340 DOI: 10.1016/j.envres.2023.115665] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/01/2022] [Revised: 03/05/2023] [Accepted: 03/08/2023] [Indexed: 05/08/2023]
Abstract
Industrialization and other anthropogenic human activities pose significant environmental risks. As a result of the hazardous pollution, numerous living organisms may suffer from undesirable diseases in their separate habitats. Bioremediation, which removes hazardous compounds from the environment using microbes or their biologically active metabolites, is one of the most successful remediation approaches. According to the United Nations Environment Program (UNEP), deteriorating soil health negatively impacts food security and human health over time. Soil health restoration is critical right now. Microbes are widely known for their importance in cleaning up toxins present in the soil, such as heavy metals, pesticides, and hydrocarbons. However, the capacity of local bacteria to digest these pollutants is limited, and the process takes an extended time. Genetically modified organisms (GMOs), whose altered metabolic pathways promote the over-secretion of a variety of proteins favorable to the bioremediation process, can speed up the breakdown process. The need for remediation procedures, degrees of soil contamination, site circumstances, broad adoptions, and numerous possibilities occurring at various cleaning stages are all studied in detail. Massive efforts to restore contaminated soils have also resulted in severe issues. This review focuses on the enzymatic removal of hazardous pollutants from the environment, such as pesticides, heavy metals, dyes, and plastics. There are also in-depth assessments of present discoveries and future plans for efficient enzymatic degradation of hazardous pollutants.
Collapse
Affiliation(s)
- Quratulain Maqsood
- Center for Applied Molecular Biology, University of the Punjab, Lahore, Pakistan
| | - Aleena Sumrin
- Center for Applied Molecular Biology, University of the Punjab, Lahore, Pakistan
| | - Rafia Waseem
- Center for Applied Molecular Biology, University of the Punjab, Lahore, Pakistan
| | - Maria Hussain
- Center for Applied Molecular Biology, University of the Punjab, Lahore, Pakistan
| | - Mehwish Imtiaz
- Center for Applied Molecular Biology, University of the Punjab, Lahore, Pakistan
| | - Nazim Hussain
- Center for Applied Molecular Biology, University of the Punjab, Lahore, Pakistan.
| |
Collapse
|
14
|
Ahmad Wadaan M, Baabbad A, Farooq Khan M, Shanmuganathan R, Daniel F. Phytotoxicity and cytotoxicity attributes of immobilized Bacillus cereus treated and untreated textile effluents on Vigna mungo seeds and Artemia franciscana larvae. ENVIRONMENTAL RESEARCH 2023; 231:116111. [PMID: 37178746 DOI: 10.1016/j.envres.2023.116111] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/24/2023] [Revised: 05/07/2023] [Accepted: 05/10/2023] [Indexed: 05/15/2023]
Abstract
The physicochemical attributes of textile effluents collected from secondary treatment stage was investigated in this study and also assess the biosorption potential of membrane immobilized Bacillus cereus and free form of Bacillus cereus on textile effluent through bioreactor model study to find a sustainable solution to manage the textile effluent as vital need. Furthermore, the phytotoxicity and cytotoxicity nature of treated and untreated textile effluents on Vigna mungo and Artemia franciscana larvae under laboratory conditions as a novel approach. The textile effluent physicochemical parameter analysis results showed that the properties such as colour (Hazen unit), pH, turbidity, As, Biological Oxygen Demand (BOD), Chemical Oxygen Demand (COD), Cd, Cl, Cr, Cu, Hg, Ni, Pb, SO42-, and Zn were beyond the acceptable limits. Bacillus cereus immobilized on a polyethylene membrane eliminated greater amounts of dye (25.0 ± 1.3, 56.5 ± 1.8, 57.18 ± 1.5, and 54.34 ± 1.7 Hazen unit from An1, Ae2, Ve3, and So4 respectively) and pollutants (As: 0.9-2.0, Cd: 6-8, Cr: 300-450, Cu: 5-7, Hg: 0.1-0.7, Ni: 8-14, Pb: 4-5, and Zn: 4-8 mg L-1) from textile effluent in a week of biosorption investigation using a bioreactor model (batch type) compared to a free form of B. cereus on textile effluent. The phytotoxicity and cytotoxicity study results revealed that the membrane immobilized B. cereus treated textile effluent exposure showed reduced phytotoxicity and minimal cytotoxicity (including mortality) percentage compared with free form B. cereus treated and untreated textile effluents. These entire results conclude that the membrane immobilized B. cereus may considerably minimize/detoxify the harmful pollutants from the textile effluents. A large scale level biosorption approach need to be performed to validate the maximum pollutants removing potential of this membrane immobilized bacteria species and optimal conditions for effective remediation.
Collapse
Affiliation(s)
- Mohammad Ahmad Wadaan
- Bio-Products Research Chair, Department of Zoology, College of Sciences, King Saud University, P.O. Box; 2455, Riyadh, 11451, Saudi Arabia.
| | - Almohannad Baabbad
- Bio-Products Research Chair, Department of Zoology, College of Sciences, King Saud University, P.O. Box; 2455, Riyadh, 11451, Saudi Arabia
| | - Muhammad Farooq Khan
- Bio-Products Research Chair, Department of Zoology, College of Sciences, King Saud University, P.O. Box; 2455, Riyadh, 11451, Saudi Arabia
| | | | - Freedon Daniel
- Department of Mechanical Engineering, SRM Institute of Science and Technology, Ghaziabad, 201204, India.
| |
Collapse
|
15
|
Sharma B, Tiwari S, Kumar R, Kumar M, Tewari L. Eco-friendly detoxification of hazardous Congo red dye using novel fungal strain Trametes flavida WTFP2: Deduced enzymatic biomineralization process through combinatorial in-silico and in-vitro studies. JOURNAL OF HAZARDOUS MATERIALS 2023; 455:131503. [PMID: 37150098 DOI: 10.1016/j.jhazmat.2023.131503] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/03/2023] [Revised: 04/12/2023] [Accepted: 04/24/2023] [Indexed: 05/09/2023]
Abstract
Growing textile industry is a major global concern, owing to the presence of recalcitrant hazardous pollutants, like synthetic dyes in discharged effluents. To explore new bioresources for mycoremediation, a high laccase-producing novel white-rot fungus (WRF), Trametes flavida WTFP2, was employed. T. flavida is an underexplored member of Polyporales. Using bioinformatic tools, 8 different cis-acting RNA elements were identified in the 5.8 S ITS gene sequence, where CRISPR (CRISPR-DR15), sRNA (RUF1), and snoRNA (ceN111) are uniquely present. Molecular docking was adopted to predict the catalytic interaction of chosen toxic diazo colorant, Congo red (CR), with four dye-degrading enzymes (laccase, lignin peroxidase, azoreductase, and aryl alcohol oxidase). With 376.41 × 103 U/L laccase production, novel WRF exhibited dye-decolorization potential. WTFP2 effectively removed 99.48 ± 0.04% CR (100 mg/L) and demonstrated remarkable recyclability and persistence in consecutive remediation trials. Mycelial dye adsorption was not only substantial driver of colorant elimination; decolorization using active T. flavida was regulated by enzymatic catalysis, as outlined by in-vitro growth, induction of extracellular enzymes, and FESEM. Fifteen metabolites were identified using HRLCMS-QTOF, and novel CR degradation pathway was proposed. Furthermore, microbial and phyto-toxicity tests of metabolites suggested complete detoxification of toxic dye, making the process clean, green, and economically sustainable.
Collapse
Affiliation(s)
- Barkha Sharma
- Department of Microbiology, College of Basic Sciences & Humanities, G. B. Pant University of Agriculture & Technology, Pantnagar, Uttarakhand, India
| | - Shalini Tiwari
- Department of Microbiology, College of Basic Sciences & Humanities, G. B. Pant University of Agriculture & Technology, Pantnagar, Uttarakhand, India
| | - Rakesh Kumar
- School of Ecology and Environment Studies, Nalanda University, Rajgir, 803116 Bihar, India
| | - Manish Kumar
- Sustainability Cluster, University of Petroleum & Energy Studies, Dehradun, Uttarakhand 248007, India; Escuela de Ingeniería y Ciencias, Tecnologico de Monterrey, Campus Monterey, Monterrey 64849, Nuevo Leon, Mexico
| | - Lakshmi Tewari
- Department of Microbiology, College of Basic Sciences & Humanities, G. B. Pant University of Agriculture & Technology, Pantnagar, Uttarakhand, India.
| |
Collapse
|
16
|
Bhatt P, Bhatt K, Chen WJ, Huang Y, Xiao Y, Wu S, Lei Q, Zhong J, Zhu X, Chen S. Bioremediation potential of laccase for catalysis of glyphosate, isoproturon, lignin, and parathion: Molecular docking, dynamics, and simulation. JOURNAL OF HAZARDOUS MATERIALS 2023; 443:130319. [PMID: 36356521 DOI: 10.1016/j.jhazmat.2022.130319] [Citation(s) in RCA: 26] [Impact Index Per Article: 26.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/30/2022] [Revised: 10/21/2022] [Accepted: 11/01/2022] [Indexed: 06/16/2023]
Abstract
The present study aimed to investigate the catalytic degradation produced by laccase in the detoxification of glyphosate, isoproturon, lignin polymer, and parathion. We explored laccase-glyphosate, laccase-lignin polymer, laccase-isoproturon, and laccase-parathion using molecular docking (MD) and molecular dynamics simulation (MDS) approaches. The results suggest that laccase interacts well with glyphosate, lignin polymer, isoproturon, and parathion during biodegradation. We calculated the root mean square deviations (RMSD) of laccase-glyphosate, laccase-lignin polymer, laccase-isoproturon, and laccase-parathion as 0.24 ± 0.02, 0.59 ± 0.32, 0.43 ± 0.07, and 0.43 ± 0.06 nm, respectively. In an aqueous solution, the stability of laccase with glyphosate, lignin polymer, isoproturon, and parathion is mediated through the formation of hydrophobic interactions, hydrogen bonds, and van der Waals interactions. The presence of xenobiotic toxic compounds in the active site changed the conformation of laccase. MDS of the laccase-substrate complexes confirmed their stability during catalytic degradation. Laccase assay results confirmed that the degradation of syringol, dihydroconiferyl alcohol, guaiacol, parathion, isoproturon, and glyphosate were 100%, 99.31%, 95.69%, 60.96%, 54.51%, and 48.34% within 2 h, respectively. Taken together, we describe a novel method to understand the molecular-level biodegradation of xenobiotic compounds through laccase and its potential application in contaminant removal.
Collapse
Affiliation(s)
- Pankaj Bhatt
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Provincial Key Laboratory of Agricultural & Rural Pollution Abatement and Environmental Safety, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou 510642, China; Department of Agricultural & Biological Engineering, Purdue University, West Lafayette 47906, USA
| | - Kalpana Bhatt
- Department of Food Science, Purdue University, West Lafayette 47906, USA
| | - Wen-Juan Chen
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Provincial Key Laboratory of Agricultural & Rural Pollution Abatement and Environmental Safety, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou 510642, China
| | - Yaohua Huang
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Provincial Key Laboratory of Agricultural & Rural Pollution Abatement and Environmental Safety, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou 510642, China
| | - Ying Xiao
- Institute of Chemical Engineering, Guangdong Academy of Sciences, Guangzhou 510665, China
| | - Siyi Wu
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Provincial Key Laboratory of Agricultural & Rural Pollution Abatement and Environmental Safety, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou 510642, China
| | - Qiqi Lei
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Provincial Key Laboratory of Agricultural & Rural Pollution Abatement and Environmental Safety, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou 510642, China
| | - Jianfeng Zhong
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Provincial Key Laboratory of Agricultural & Rural Pollution Abatement and Environmental Safety, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou 510642, China
| | - Xixian Zhu
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Provincial Key Laboratory of Agricultural & Rural Pollution Abatement and Environmental Safety, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou 510642, China
| | - Shaohua Chen
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Provincial Key Laboratory of Agricultural & Rural Pollution Abatement and Environmental Safety, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou 510642, China.
| |
Collapse
|
17
|
Singh P, Ahmad M, Siddiqui KA. Ni-coordination polymer as potential remedial compound for efficient detection and seclusion of toxic aromatic dyes from contaminated water. J Mol Struct 2023. [DOI: 10.1016/j.molstruc.2022.134422] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
|
18
|
Alam R, Mahmood RA, Islam S, Ardiati FC, Solihat NN, Alam MB, Lee SH, Yanto DHY, Kim S. Understanding the biodegradation pathways of azo dyes by immobilized white-rot fungus, Trametes hirsuta D7, using UPLC-PDA-FTICR MS supported by in silico simulations and toxicity assessment. CHEMOSPHERE 2023; 313:137505. [PMID: 36509189 DOI: 10.1016/j.chemosphere.2022.137505] [Citation(s) in RCA: 10] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/08/2022] [Revised: 10/13/2022] [Accepted: 12/06/2022] [Indexed: 06/17/2023]
Abstract
No biodegradation methods are absolute in the treatment of all textile dyes, which leads to structure-dependent degradation. In this study, biodegradation of three azo dyes, reactive black 5 (RB5), acid blue 113 (AB113), and acid orange 7 (AO7), was investigated using an immobilized fungus, Trametes hirsuta D7. The degraded metabolites were identified using UPLC-PDA-FTICR MS and the biodegradation pathway followed was proposed. RB5 (92%) and AB113 (97%) were effectively degraded, whereas only 30% of AO7 was degraded. Molecular docking simulations were performed to determine the reason behind the poor degradation of AO7. Weak binding affinity, deficiency in H-bonding interactions, and the absence of interactions between the azo (-NN-) group and active residues of the model laccase enzyme were responsible for the low degradation efficiency of AO7. Furthermore, cytotoxicity and genotoxicity assays confirmed that the fungus-treated dye produced non-toxic metabolites. The observations of this study will be useful for understanding and further improving enzymatic dye biodegradation.
Collapse
Affiliation(s)
- Rafiqul Alam
- Department of Chemistry, Kyungpook National University, Daegu, 41566, Republic of Korea
| | - Raisul Awal Mahmood
- Department of Chemistry, Kyungpook National University, Daegu, 41566, Republic of Korea
| | - Syful Islam
- Department of Chemistry, Kyungpook National University, Daegu, 41566, Republic of Korea
| | - Fenny Clara Ardiati
- Research Center for Applied Microbiology, National Research and Innovation Agency (BRIN), Bogor, 16911, Indonesia
| | - Nissa Nurfajrin Solihat
- Research Center for Biomass and Bioproducts, National Research and Innovation Agency (BRIN), Bogor, 16911, Indonesia
| | - Md Badrul Alam
- Department of Food Science and Biotechnology, Graduate School, Kyungpook National University, Daegu, 41566, Republic of Korea
| | - Sang Han Lee
- Department of Food Science and Biotechnology, Graduate School, Kyungpook National University, Daegu, 41566, Republic of Korea
| | - Dede Heri Yuli Yanto
- Research Center for Applied Microbiology, National Research and Innovation Agency (BRIN), Bogor, 16911, Indonesia; Research Collaboration Center for Marine Biomaterials, Jatinangor, 45360, Indonesia.
| | - Sunghwan Kim
- Department of Chemistry, Kyungpook National University, Daegu, 41566, Republic of Korea; Mass Spectrometry Converging Research Center and Green-Nano Materials Research Center, Daegu, 41566, Republic of Korea.
| |
Collapse
|
19
|
Islam T, Repon MR, Islam T, Sarwar Z, Rahman MM. Impact of textile dyes on health and ecosystem: a review of structure, causes, and potential solutions. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:9207-9242. [PMID: 36459315 DOI: 10.1007/s11356-022-24398-3] [Citation(s) in RCA: 38] [Impact Index Per Article: 38.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/09/2022] [Accepted: 11/21/2022] [Indexed: 06/17/2023]
Abstract
The rapid growth of population and industrialization have intensified the problem of water pollution globally. To meet the challenge of industrialization, the use of synthetic dyes in the textile industry, dyeing and printing industry, tannery and paint industry, paper and pulp industry, cosmetic and food industry, dye manufacturing industry, and pharmaceutical industry has increased exponentially. Among these industries, the textile industry is prominent for the water pollution due to the hefty consumption of water and discharge of coloring materials in the effluent. The discharge of this effluent into the aquatic reservoir affects its biochemical oxygen demand (BOD), chemical oxygen demand (COD), total dissolved solids (TDS), total suspended solids (TSS), and pH. The release of the effluents without any remedial treatment will generate a gigantic peril to the aquatic ecosystem and human health. The ecological-friendly treatment of the dye-containing wastewater to minimize the detrimental effect on human health and the environment is the need of the hour. The purpose of this review is to evaluate the catastrophic effects of textile dyes on human health and the environment. This review provides a comprehensive insight into the dyes and chemicals used in the textile industry, focusing on the typical treatment processes for their removal from industrial wastewaters, including chemical, biological, physical, and hybrid techniques.
Collapse
Affiliation(s)
- Tarekul Islam
- Department of Textile Engineering, Mawlana Bhashani Science and Technology University, Tangail, 1902, Bangladesh
- ZR Research Institute for Advanced Materials, Sherpur, 2100, Bangladesh
| | - Md Reazuddin Repon
- ZR Research Institute for Advanced Materials, Sherpur, 2100, Bangladesh.
- Department of Textile Engineering, Khwaja Yunus Ali University, Sirajgang, 6751, Bangladesh.
- Department of Production Engineering, Faculty of Mechanical Engineering and Design, Kaunas University of Technology, Studentų 56, 51424, Kaunas, Lithuania.
| | - Tarikul Islam
- ZR Research Institute for Advanced Materials, Sherpur, 2100, Bangladesh
- Department of Textile Engineering, Jashore University of Science and Technology, Jashore, 7408, Bangladesh
| | - Zahid Sarwar
- School of Engineering and Technology, National Textile University, Faisalabad, Pakistan
| | - Mohammed M Rahman
- Center of Excellence for Advanced Materials Research (CEAMR) &, Department of Chemistry, Faculty of Science, King Abdulaziz University, Jeddah, 21589, Saudi Arabia
| |
Collapse
|
20
|
Mohapatra BR. Fermentation medium optimization, molecular modelling and docking analysis of the alginate lyase of a novel Pseudomonas sp. LB56 isolated from seaweed waste. BIOTECHNOL BIOTEC EQ 2022. [DOI: 10.1080/13102818.2022.2071635] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022] Open
Affiliation(s)
- Bidyut Ranjan Mohapatra
- Department of Biological and Chemical Sciences, Faculty of Science and Technology, The University of the West Indies, Cave Hill Campus,, Bridgetown, Barbados
| |
Collapse
|
21
|
Pande V, Joshi T, Pandey SC, Sati D, Mathpal S, Pande V, Chandra S, Samant M. Molecular docking and molecular dynamics simulation approaches for evaluation of laccase-mediated biodegradation of various industrial dyes. J Biomol Struct Dyn 2022; 40:12461-12471. [PMID: 34459700 DOI: 10.1080/07391102.2021.1971564] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
Dyes are being increasingly utilized across the globe, but there is no appropriate method of bioremediation for their full mineralization from the environment. Laccases are key enzymes that help microbes to degrade dyes as well as their intermediate metabolites. Various dyes have been reported to be degraded by bacteria, but it is still unclear how these enzymes function during dye degradation. To effectively eradicate toxic dyes from the system, it is essential to understand the molecular function of enzymes. As a result, the interaction of laccase with different toxic dyes was investigated using molecular docking. Based on the highest binding energy we have screened ten dyes with positive interaction with laccase. Evaluating the MD simulation results, three out of ten dyes were more stable as potential targets for degradation by laccase of Bacillus subtilis. As a result, subsequent research focused solely on the results of three substrates: pigment red, fuchsin base, and Sudan IV. Analysis of MD simulation revealed that pigments red 23, fuchsin base, and Sudan IV form hydrogen and hydrophobic bond as well as Vander Waals interactions with the active site of laccase to keep it stable in aqueous solution. The conformation of laccase is greatly altered by the inclusion of all three substrates in the active site. The MD simulation findings show that laccase complexes remain stable throughout the catalytic reaction. Therefore, this research provides a molecular understanding of laccase expression and its role in the bioremediation of the pigments red 23, fuchsin base, and Sudan IV.Communicated by Ramaswamy H. Sarma.
Collapse
Affiliation(s)
- Veni Pande
- Cell and Molecular Biology Laboratory, Department of Zoology (DST-FIST sponsored), Kumaun University, Almora, Uttarakhand, India.,Department of Biotechnology, Kumaun University, Bhimtal, Uttarakhand, India
| | - Tushar Joshi
- Department of Biotechnology, Kumaun University, Bhimtal, Uttarakhand, India
| | - Satish Chandra Pandey
- Cell and Molecular Biology Laboratory, Department of Zoology (DST-FIST sponsored), Kumaun University, Almora, Uttarakhand, India.,Department of Biotechnology, Kumaun University, Bhimtal, Uttarakhand, India
| | - Diksha Sati
- Cell and Molecular Biology Laboratory, Department of Zoology (DST-FIST sponsored), Kumaun University, Almora, Uttarakhand, India
| | - Shalini Mathpal
- Department of Biotechnology, Kumaun University, Bhimtal, Uttarakhand, India
| | - Veena Pande
- Department of Biotechnology, Kumaun University, Bhimtal, Uttarakhand, India
| | - Subhash Chandra
- Computational Biology & Biotechnology Laboratory, Department of Botany, Soban Singh Jeena University, Almora, Uttarakhand, India
| | - Mukesh Samant
- Cell and Molecular Biology Laboratory, Department of Zoology (DST-FIST sponsored), Kumaun University, Almora, Uttarakhand, India
| |
Collapse
|
22
|
Qiu B, Shao Q, Shi J, Yang C, Chu H. Application of biochar for the adsorption of organic pollutants from wastewater: Modification strategies, mechanisms and challenges. Sep Purif Technol 2022. [DOI: 10.1016/j.seppur.2022.121925] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/11/2023]
|
23
|
Farajzadeh-Dehkordi N, Zahraei Z, Farhadian S, Gholamian-Dehkordi N. The interactions between Reactive Black 5 and human serum albumin: combined spectroscopic and molecular dynamics simulation approaches. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2022; 29:70114-70124. [PMID: 35583763 DOI: 10.1007/s11356-022-20736-7] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/10/2021] [Accepted: 05/05/2022] [Indexed: 06/15/2023]
Abstract
Azo dyes are made in significant amounts annually and released into the environment after being employed in the industry. There are some reports about the toxic effects of these dyes on several organisms. Thus, the textile dye Reactive Black 5 (RB5) has been examined for its cytotoxic effects on the human serum albumin (HSA) structure. Molecular interaction between RB5 and HSA indicated the combination of docking methods, molecular dynamic simulation, and multi-spectroscopic approaches. HSA's intrinsic fluorescence was well quenched with enhancing RB5 level, confirming complex formation. Molecular dynamics (MD) simulation was done to study the cytotoxic effects of RB5 and HSA conformation. Molecular modeling revealed that the RB5-HSA complex was stabilized by hydrogen bonds and van der Waals interactions. The results of molecular docking revealed that the binding energy of RB5 to HSA was - 27.94 kJ/mol. The change in secondary structure causes the annihilation of hydrogen bonding networks and the reduction of biological activity. This research can indicate a suitable molecular modeling interaction of RB5 and HAS and broaden our knowledge for azo dye toxicity under natural conditions.
Collapse
Affiliation(s)
- Nazanin Farajzadeh-Dehkordi
- Department of Cell and Molecular Biology, Faculty of Chemistry, University of Kashan, Kashan, 8731751167, Iran
| | - Zohreh Zahraei
- Department of Cell and Molecular Biology, Faculty of Chemistry, University of Kashan, Kashan, 8731751167, Iran.
| | - Sadegh Farhadian
- Department of Biology, Faculty of Science, Shahrekord University, P. O. Box 115, Shahrekord, Iran
- Member of Chahar Mahal & Bakhtiari Science and Technology Park, SaNa Zist Pardaz Co, Shahrekord, Iran
| | - Neda Gholamian-Dehkordi
- Department of Molecular Medicine, School of Advanced Technologies, Shahrekord University of Medical Sciences, Shahrekord, Iran
| |
Collapse
|
24
|
Antony S, Antony S, Rebello S, George S, Biju DT, R R, Madhavan A, Binod P, Pandey A, Sindhu R, Awasthi MK. Bioremediation of Endocrine Disrupting Chemicals- Advancements and Challenges. ENVIRONMENTAL RESEARCH 2022; 213:113509. [PMID: 35660566 DOI: 10.1016/j.envres.2022.113509] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/19/2022] [Revised: 05/08/2022] [Accepted: 05/18/2022] [Indexed: 06/15/2023]
Abstract
Endocrine Disrupting Chemicals (EDCs), major group of recalcitrant compounds, poses a serious threat to the health and future of millions of human beings, and other flora and fauna for years to come. A close analysis of various xenobiotics undermines the fact that EDC is structurally diverse chemical compounds generated as a part of anthropogenic advancements as well as part of their degradation. Regardless of such structural diversity, EDC is common in their ultimate drastic effect of impeding the proper functioning of the endocrinal system, basic physiologic systems, resulting in deregulated growth, malformations, and cancerous outcomes in animals as well as humans. The current review outlines an overview of various EDCs, their toxic effects on the ecosystem and its inhabitants. Conventional remediation methods such as physico-chemical methods and enzymatic approaches have been put into action as some form of mitigation measures. However, the last decade has seen the hunt for newer technologies and methodologies at an accelerated pace. Genetically engineered microbial degradation, gene editing strategies, metabolic and protein engineering, and in-silico predictive approaches - modern day's additions to our armamentarium in combating the EDCs are addressed. These additions have greater acceptance socially with lesser dissonance owing to reduced toxic by-products, lower health trepidations, better degradation, and ultimately the prevention of bioaccumulation. The positive impact of such new approaches on controlling the menace of EDCs has been outlaid. This review will shed light on sources of EDCs, their impact, significance, and the different remediation and bioremediation approaches, with a special emphasis on the recent trends and perspectives in using sustainable approaches for bioremediation of EDCs. Strict regulations to prevent the release of estrogenic chemicals to the ecosystem, adoption of combinatorial methods to remove EDC and prevalent use of bioremediation techniques should be followed in all future endeavors to combat EDC pollution. Moreover, the proper development, growth and functioning of future living forms relies on their non-exposure to EDCs, thus remediation of such chemicals present even in nano-concentrations should be addressed gravely.
Collapse
Affiliation(s)
- Sherly Antony
- Department of Microbiology, Pushpagiri Institute of Medical Sciences and Research Centre, Thiruvalla, 689 101, Kerala, India
| | - Sham Antony
- Pushpagiri Research Centre, Pushpagiri Institute of Medical Sciences and Research Centre, Thriuvalla, 689 101, Kerala, India
| | - Sharrel Rebello
- School of Food Science & Technology, Mahatma Gandhi University, Kottayam, India
| | - Sandhra George
- Pushpagiri Research Centre, Pushpagiri Institute of Medical Sciences and Research Centre, Thriuvalla, 689 101, Kerala, India
| | - Devika T Biju
- Pushpagiri Research Centre, Pushpagiri Institute of Medical Sciences and Research Centre, Thriuvalla, 689 101, Kerala, India
| | - Reshmy R
- Department of Science and Humanities, Providence College of Engineering, Chengannur, 689 122, Kerala, India
| | - Aravind Madhavan
- Rajiv Gandhi Centre for Biotechnology, Jagathy, Trivandrum, 695 014, India
| | - Parameswaran Binod
- Microbial Processes and Technology Division, CSIR-National Institute for Interdisciplinary Science and Technology (CSIR-NIIST), Thiruvananthapuram, 695 019, Kerala, India
| | - Ashok Pandey
- Center for Innovation and Translational Research, CSIR-Indian Institute of Toxicology Research, Lucknow, 226 001, India; Centre for Energy and Environmental Sustainability, Lucknow, 226 029, Uttar Pradesh, India
| | - Raveendran Sindhu
- Department of Food Technology, T K M Institute of Technology, Kollam, 691 505, Kerala, India.
| | - Mukesh Kumar Awasthi
- College of Natural Resources and Environment, Northwest A&F University, Yangling, Shaanxi Province, 712100, China.
| |
Collapse
|
25
|
Huang Z, Zhang F, Tang Y, Wen Y, Wu Z, Fang Z, Tian X. Rapid Degradation of Rhodamine B through Visible-Photocatalytic Advanced Oxidation Using Self-Degradable Natural Perylene Quinone Derivatives-Hypocrellins. Bioengineering (Basel) 2022; 9:bioengineering9070307. [PMID: 35877358 PMCID: PMC9312347 DOI: 10.3390/bioengineering9070307] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2022] [Revised: 07/01/2022] [Accepted: 07/08/2022] [Indexed: 12/07/2022] Open
Abstract
Hypocrellins (HYPs) are natural perylene quinone derivatives from Ascomycota fungi. Based on the excellent photosensitization properties of HYPs, this work proposed a photocatalytic advanced oxidation process (PAOP) that uses HYPs to degrade rhodamine B (RhB) as a model organic pollutant. A synergistic activity of HYPs and H2O2 (0.18 mM of HYPs, 0.33% w/v of H2O2) was suggested, resulting in a yield of 82.4% for RhB degradation after 60 min under visible light irradiation at 470−475 nm. The principle of pseudo-first-order kinetics was used to describe the decomposition reaction with a calculated constant (k) of 0.02899 min−1 (R2 = 0.983). Light-induced self-degradation of HYPs could be activated under alkaline (pH > 7) conditions, promising HYPs as an advanced property to alleviate the current dilemma of secondary pollution by synthetic photocatalysts in the remediation of emerging organic pollutants.
Collapse
Affiliation(s)
- Zhixian Huang
- Guangdong Key Laboratory of Fermentation & Enzyme Engineering, School of Biology and Biological Engineering, South China University of Technology, 382 East Out Loop, University Park, Guangzhou 510006, China; (Z.H.); (Y.T.); (Y.W.); (Z.W.)
- Zhuhai Institute of Modern Industrial Innovation, South China University of Technology, 8 Fushan Road, Fushan Industrial Park, Zhuhai 519100, China
| | - Fan Zhang
- Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Kunming 650204, China;
| | - Yanbo Tang
- Guangdong Key Laboratory of Fermentation & Enzyme Engineering, School of Biology and Biological Engineering, South China University of Technology, 382 East Out Loop, University Park, Guangzhou 510006, China; (Z.H.); (Y.T.); (Y.W.); (Z.W.)
- Zhuhai Institute of Modern Industrial Innovation, South China University of Technology, 8 Fushan Road, Fushan Industrial Park, Zhuhai 519100, China
| | - Yongdi Wen
- Guangdong Key Laboratory of Fermentation & Enzyme Engineering, School of Biology and Biological Engineering, South China University of Technology, 382 East Out Loop, University Park, Guangzhou 510006, China; (Z.H.); (Y.T.); (Y.W.); (Z.W.)
| | - Zhenqiang Wu
- Guangdong Key Laboratory of Fermentation & Enzyme Engineering, School of Biology and Biological Engineering, South China University of Technology, 382 East Out Loop, University Park, Guangzhou 510006, China; (Z.H.); (Y.T.); (Y.W.); (Z.W.)
| | - Zhen Fang
- Biomass Group, Faculty of Engineering, Nanjing Agricultural University, Nanjing 210031, China
- Correspondence: (Z.F.); (X.T.)
| | - Xiaofei Tian
- Guangdong Key Laboratory of Fermentation & Enzyme Engineering, School of Biology and Biological Engineering, South China University of Technology, 382 East Out Loop, University Park, Guangzhou 510006, China; (Z.H.); (Y.T.); (Y.W.); (Z.W.)
- Zhuhai Institute of Modern Industrial Innovation, South China University of Technology, 8 Fushan Road, Fushan Industrial Park, Zhuhai 519100, China
- Correspondence: (Z.F.); (X.T.)
| |
Collapse
|
26
|
Matin P, Hanee U, Alam MS, Jeong JE, Matin MM, Rahman MR, Mahmud S, Alshahrani MM, Kim B. Novel Galactopyranoside Esters: Synthesis, Mechanism, In Vitro Antimicrobial Evaluation and Molecular Docking Studies. Molecules 2022; 27:molecules27134125. [PMID: 35807371 PMCID: PMC9268324 DOI: 10.3390/molecules27134125] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2022] [Revised: 06/22/2022] [Accepted: 06/24/2022] [Indexed: 02/04/2023] Open
Abstract
One-step direct unimolar valeroylation of methyl α-D-galactopyranoside (MDG) mainly furnished the corresponding 6-O-valeroate. However, DMAP catalyzed a similar reaction that produced 2,6-di-O-valeroate and 6-O-valeroate, with the reactivity sequence as 6-OH > 2-OH > 3-OH,4-OH. To obtain novel antimicrobial agents, 6-O- and 2,6-di-O-valeroate were converted into several 2,3,4-tri-O- and 3,4-di-O-acyl esters, respectively, with other acylating agents in good yields. The PASS activity spectra along with in vitro antimicrobial evaluation clearly indicated that these MDG esters had better antifungal activities than antibacterial agents. To rationalize higher antifungal potentiality, molecular docking was conducted with sterol 14α-demethylase (PDB ID: 4UYL, Aspergillus fumigatus), which clearly supported the in vitro antifungal results. In particular, MDG ester 7−12 showed higher binding energy than the antifungal drug, fluconazole. Additionally, these compounds were found to have more promising binding energy with the SARS-CoV-2 main protease (6LU7) than tetracycline, fluconazole, and native inhibitor N3. Detailed investigation of Ki values, absorption, distribution, metabolism, excretion, and toxicity (ADMET), and the drug-likeness profile indicated that most of these compounds satisfy the drug-likeness evaluation, bioavailability, and safety tests, and hence, these synthetic novel MDG esters could be new antifungal and antiviral drugs.
Collapse
Affiliation(s)
- Priyanka Matin
- Bioorganic and Medicinal Chemistry Laboratory, Department of Chemistry, Faculty of Science, University of Chittagong, Chittagong 4331, Bangladesh; (P.M.); (U.H.)
| | - Umme Hanee
- Bioorganic and Medicinal Chemistry Laboratory, Department of Chemistry, Faculty of Science, University of Chittagong, Chittagong 4331, Bangladesh; (P.M.); (U.H.)
| | - Muhammad Shaiful Alam
- Department of Pharmacy, University of Science and Technology Chittagong, Chittagong 4202, Bangladesh;
| | - Jae Eon Jeong
- Department of Pathology, College of Korean Medicine, Kyung Hee University, Seoul 02447, Korea;
| | - Mohammed Mahbubul Matin
- Bioorganic and Medicinal Chemistry Laboratory, Department of Chemistry, Faculty of Science, University of Chittagong, Chittagong 4331, Bangladesh; (P.M.); (U.H.)
- Correspondence: (M.M.M.); (B.K.); Tel.: +880-1716-839689 (M.M.M.)
| | - Md. Rezaur Rahman
- Department of Chemical Engineering and Energy Sustainability, Faculty of Engineering, Universiti Malaysia Sarawak, Kota Samarahan 94300, Malaysia;
| | - Shafi Mahmud
- Division of Genome Sciences and Cancer, The John Curtin School of Medical Research, The Shine-Dalgarno Centre for RNA Innovation, The Australian National University, Canberra, ACT 2601, Australia;
| | - Mohammed Merae Alshahrani
- Department of Clinical Laboratory Sciences, Faculty of Applied Medical Sciences, Najran University, Najran 61441, Saudi Arabia;
| | - Bonglee Kim
- Department of Pathology, College of Korean Medicine, Kyung Hee University, Seoul 02447, Korea;
- Correspondence: (M.M.M.); (B.K.); Tel.: +880-1716-839689 (M.M.M.)
| |
Collapse
|
27
|
Optimization of reactive black 5 decolorization by the newly isolated Saccharomyces cerevisiae X19G2 using response-surface methodology. 3 Biotech 2022; 12:142. [PMID: 35664650 DOI: 10.1007/s13205-022-03191-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/31/2022] [Accepted: 04/26/2022] [Indexed: 11/01/2022] Open
Abstract
In the current investigation, the capacity of different yeast strains to decolorize reactive black 5 (RB-5) was assessed. A comparative study between the different strains demonstrated that Saccharomyces cerevisiae X19G2 exhibited the highest decolorization rate (69.20 ± 1.16%) after 48 h of incubation. This strain was selected to optimize the medium components' concentrations for maximum RB-5 decolorization. Response-surface methodology (RSM) was tested for the most significant parameters (glucose, yeast extract and RB-5 dye concentrations) that were previously determined by Plackett-Burman design. A dye decolorization rate of 99.59 ± 0.24% was achieved within 48 h using a maximum RB-5 concentration (0.15 g/L) with glucose and yeast extract concentrations equalling to 10.5 g/L and 1 g/L, respectively. Experimental data results proved to fit well with the pseudo-second order kinetics model. The phytotoxicity assessment was carried out using Raphanus sativus seeds to determine the toxicity of RB-5 before and after treatment by S. cerevisiae. Results suggested that germination rate and the length of seeds radical irrigated with 0.15 g/L of RB-5 decreased by 30 and 53%, compared to those irrigated with treated solution. Therefore, metabolites derived from decolorization of RB-5 by S. cerevisiae X19G2 were significantly less toxic than the original dye.
Collapse
|
28
|
Singh AK, Bilal M, Iqbal HMN, Raj A. In silico analytical toolset for predictive degradation and toxicity of hazardous pollutants in water sources. CHEMOSPHERE 2022; 292:133250. [PMID: 34922975 DOI: 10.1016/j.chemosphere.2021.133250] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/29/2021] [Revised: 11/26/2021] [Accepted: 12/08/2021] [Indexed: 02/08/2023]
Abstract
Different phenolic compounds, including multimeric lignin derivatives in the β-O-4 form, are among the most prevalent compounds in wastewater, often generated from paper industries. Relatively small concentrations of lignin are hazardous to aquatic organisms and can trigger severe environmental hazards. Herein, we present a predictive toolset to insight the induced toxic hazards prediction, and their Lignin peroxidase (LiP)-assisted degradation mechanism of selected multimeric lignin model compounds. T.E.ST and Toxtree toolset were deployed for toxic hazards estimation in different endpoints. To minimize the concerning hazards, we screened multimeric compounds for binding affinity with LiP. The binding affinity was found to be significantly lower than the reference compound. An Extra precision (XP) Glide score of -6.796 kcal/mol was found for dimer (guaiacyl 4-O-5 guaiacyl) complex as lowest compared to reference compound (-4.007 kcal/mol). The active site residues ASP-153, HIP-226, VAL-227, ARG-244, GLU-215, 239, PHE-261 were identified as site-specific key binding AA residues actively involved with corresponding ligands, forming Hydrophobic, H-Bond, π-Stacking, π-π type interactions. The DESMOND-assisted molecular dynamics simulation's (MDS) trajectories of protein-ligand revealed the considerable binding behavior and attained stability and system equilibrium state. Such theoretical and predictive conclusions indicted the feasibility of LiP assisted sustainable mitigation of lignin-based compounds, and such could be used to protect the environment from the potential hazards posed by recognized similar pollutants.
Collapse
Affiliation(s)
- Anil Kumar Singh
- Environmental Microbiology Laboratory, Environmental Toxicology Group, CSIR-Indian Institute of Toxicology Research (CSIR-IITR), Vishvigyan Bhawan, 31, Mahatma Gandhi Marg, Lucknow, 226001, Uttar Pradesh, India; Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India
| | - Muhammad Bilal
- School of Life Science and Food Engineering, Huaiyin Institute of Technology, Huaian, 223003, China
| | - Hafiz M N Iqbal
- Tecnologico de Monterrey, School of Engineering and Sciences, Monterrey, 64849, Mexico.
| | - Abhay Raj
- Environmental Microbiology Laboratory, Environmental Toxicology Group, CSIR-Indian Institute of Toxicology Research (CSIR-IITR), Vishvigyan Bhawan, 31, Mahatma Gandhi Marg, Lucknow, 226001, Uttar Pradesh, India; Academy of Scientific and Innovative Research (AcSIR), Ghaziabad, 201002, India.
| |
Collapse
|
29
|
Al-Ansari MM, Li Z, Masood A, Rajaselvam J. Decolourization of azo dye using a batch bioreactor by an indigenous bacterium Enterobacter aerogenes ES014 from the waste water dye effluent and toxicity analysis. ENVIRONMENTAL RESEARCH 2022; 205:112189. [PMID: 34627801 DOI: 10.1016/j.envres.2021.112189] [Citation(s) in RCA: 19] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/20/2021] [Revised: 09/27/2021] [Accepted: 10/04/2021] [Indexed: 06/13/2023]
Abstract
Effluents of textile industries caused serious environmental problem throughout the world. In this study, a total of 23 bacterial strains from five bacterial species were isolated from the dye effluent. Of these strains, a unique and novel Enterobacter aerogenes ES014 was utilized for dye decolourization and toxicity analysis. The selected strain could effectively decolourize three selected azo dyes. It showed the capability for decolourizing acid orange (82.3 ± 3.6%), methyl orange (78.2 ± 3.3%), and congo red (81.5 ± 3.2%). The selected bacterial strain significantly decolourized 100 mg/L acid orange at 35 °C, pH 7.5 with 6% sodium chloride concentration. Most of the tested nitrogen and carbon sources effectively enhanced decolourization process. It showed the ability to decolourize acid orange in the culture medium containing 1.5% glucose (100 ± 2.8%) and 0.8% beef extract (100 ± 3.1%). A laboratory-scale batch bioreactor was used to decolourize azo dye at optimized culture conditions. The decolourizing ability improved with 100 mL/h hydraulic retention time. The treated wastewater quality was improved due to sharp depletion of Total Dissolved Solids (TDS), pH, Chemical Oxygen Demand (COD), alkalinity and sulphate concentration. The selected bacteria has the potential to produce dye degrading laccase. Laccase was detected during fermentation process in batch bioreactor as a key enzyme for decolourization produced by E. aerogenes ES014. Phytotoxicity and acute toxicity analysis were performed using Arachis hypogaea (pea nut) seed and first instar larvae of Artemia parthenogenetica (brine shrimp). The seed germination rate of treated wastewater was improved (94.3 ± 1.8%) and enhanced survival rate (91.7 ± 2.9%) in the first instar Artemia larvae treated with wastewater after 24 h. Overall, E. aerogenes ES014, might be a promising bacterial strain for the treatment of textile effluents with high azo dye concentrations.
Collapse
Affiliation(s)
- Mysoon M Al-Ansari
- Department of Botany and Microbiology, College of Science, King Saud University, Riyadh, 11451, Saudi Arabia
| | - Zihan Li
- Jiangsu Environmental Engineering Technology Co., Ltd., Nanjing, 210036, China
| | - Afshan Masood
- Proteomics Resource Unit, College of Medicine, King Saud University, P.O. Box 2925 (98), Riyadh, 11461, Saudi Arabia
| | - Jayarajapazham Rajaselvam
- Department of Zoology, Holycross College, Affiliated to Manonmaniam Sundaranar University, Tamilnadu, India.
| |
Collapse
|
30
|
Liu H, Tian X, Xiang X, Chen S. Preparation of carboxymethyl cellulose/graphene composite aerogel beads and their adsorption for methylene blue. Int J Biol Macromol 2022; 202:632-643. [PMID: 35065136 DOI: 10.1016/j.ijbiomac.2022.01.052] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2021] [Revised: 01/04/2022] [Accepted: 01/09/2022] [Indexed: 11/18/2022]
Abstract
Carboxymethyl cellulose/ graphene composite aerogel beads (CMC/GAs) were prepared by the easily scaling-up method, i.e., wet spinning- environmental pressure drying method. The influences of the type and concentration of coagulating bath on the formation of aerogel beads were discussed, and the forming mechanism was analyzed. The CMC/GAs was characterized through SEM, XRD, FI-IR, Raman, XPS, electronic universal testing machine and other methods. The CMC/GAs-30 has an average particle size and a mean pore diameter of 3.83 mm and 82 μm, respectively. The analysis results indicated that the adsorption mechanisms of CMC/GAs on methylene blue (MB) are mainly through the electrostatic interaction. The adsorption process conforms to the Langmuir model (R2 = 0.9964) and pseudo-second-order kinetic model (R2 is higher than 0.99). When the particle size of CMC/GAs-30 decreases, the equilibrium adsorption capacity for MB increases. Under the experimental conditions explored, the Langmuir maximum adsorption capacity of CMC/GAs-30 for MB is 222.72 mg.g-1. The CMC/GAs-30 show good recycle performance in MB adsorption. The removal rate of MB from water by CMC/GAs-30 remained at about 90% after 30-times adsorption- regeneration cycles.
Collapse
Affiliation(s)
- Huie Liu
- College of Chemistry and Chemical Engineering, China University of Petroleum (East China), Qingdao 266580, Shandong Province, PR China.
| | - Xiaowen Tian
- College of Chemistry and Chemical Engineering, China University of Petroleum (East China), Qingdao 266580, Shandong Province, PR China
| | - Xiaoxiao Xiang
- College of Chemistry and Chemical Engineering, China University of Petroleum (East China), Qingdao 266580, Shandong Province, PR China
| | - Shuang Chen
- College of Chemistry and Chemical Engineering, China University of Petroleum (East China), Qingdao 266580, Shandong Province, PR China
| |
Collapse
|
31
|
Zheng L, Meng J, Jiang K, Lan H, Wang Z, Lin M, Li W, Guo H, Wei Y, Mu Y. Improving protein-ligand docking and screening accuracies by incorporating a scoring function correction term. Brief Bioinform 2022; 23:6548372. [PMID: 35289359 PMCID: PMC9116214 DOI: 10.1093/bib/bbac051] [Citation(s) in RCA: 31] [Impact Index Per Article: 15.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2021] [Revised: 01/30/2022] [Accepted: 01/31/2022] [Indexed: 12/13/2022] Open
Abstract
Scoring functions are important components in molecular docking for structure-based drug discovery. Traditional scoring functions, generally empirical- or force field-based, are robust and have proven to be useful for identifying hits and lead optimizations. Although multiple highly accurate deep learning- or machine learning-based scoring functions have been developed, their direct applications for docking and screening are limited. We describe a novel strategy to develop a reliable protein–ligand scoring function by augmenting the traditional scoring function Vina score using a correction term (OnionNet-SFCT). The correction term is developed based on an AdaBoost random forest model, utilizing multiple layers of contacts formed between protein residues and ligand atoms. In addition to the Vina score, the model considerably enhances the AutoDock Vina prediction abilities for docking and screening tasks based on different benchmarks (such as cross-docking dataset, CASF-2016, DUD-E and DUD-AD). Furthermore, our model could be combined with multiple docking applications to increase pose selection accuracies and screening abilities, indicating its wide usage for structure-based drug discoveries. Furthermore, in a reverse practice, the combined scoring strategy successfully identified multiple known receptors of a plant hormone. To summarize, the results show that the combination of data-driven model (OnionNet-SFCT) and empirical scoring function (Vina score) is a good scoring strategy that could be useful for structure-based drug discoveries and potentially target fishing in future.
Collapse
Affiliation(s)
- Liangzhen Zheng
- Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences, Shenzhen, Guangdong 518055, China.,Shanghai Zelixir Biotech Company Ltd., Shanghai 200030, China
| | - Jintao Meng
- Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences, Shenzhen, Guangdong 518055, China.,National Supercomputer Center in Shenzhen, Shenzhen, 518000, China
| | - Kai Jiang
- Institute of Plant and Food Science, Department of Biology, School of Life Sciences, Southern University of Science and Technology (SUSTech), Shenzhen, Guangdong 518055, China
| | - Haidong Lan
- Tencent AI Lab, Shenzhen, Guangdong 518000, China
| | - Zechen Wang
- School of Physics, Shandong University, Jinan, Shandong 250101, China
| | - Mingzhi Lin
- Shanghai Zelixir Biotech Company Ltd., Shanghai 200030, China
| | - Weifeng Li
- School of Physics, Shandong University, Jinan, Shandong 250101, China
| | - Hongwei Guo
- Institute of Plant and Food Science, Department of Biology, School of Life Sciences, Southern University of Science and Technology (SUSTech), Shenzhen, Guangdong 518055, China
| | - Yanjie Wei
- Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences, Shenzhen, Guangdong 518055, China
| | - Yuguang Mu
- School of Biological Sciences, Nanyang Technological University, 60 Nanyang Drive 637551, Singapore
| |
Collapse
|
32
|
Mishra A, Takkar S, Joshi NC, Shukla S, Shukla K, Singh A, Manikonda A, Varma A. An Integrative Approach to Study Bacterial Enzymatic Degradation of Toxic Dyes. Front Microbiol 2022; 12:802544. [PMID: 35154033 PMCID: PMC8831545 DOI: 10.3389/fmicb.2021.802544] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2021] [Accepted: 11/30/2021] [Indexed: 01/14/2023] Open
Abstract
Synthetic dyes pose a large threat to the environment and consequently to human health. Various dyes are used in textile, cosmetics, and pharmaceutical industries, and are released into the environment without any treatment, thus adversely affecting both the environment and neighboring human populations. Several existing physical and chemical methods for dye degradation are effective but have many drawbacks. Biological methods over the years have gained importance in the decolorization and degradation of dye and have also overcome the disadvantages of physiochemical methods. Furthermore, biological methods are eco-friendly and lead to complete decolorization. The mechanism of decolorization and degradation by several bacterial enzymes are discussed in detail. For the identification of ecologically sustainable strains and their application at the field level, we have focused on bioaugmentation aspects. Furthermore, in silico studies such as molecular docking of bacterial enzymes with dyes can give a new insight into biological studies and provide an easy way to understand the interaction at the molecular level. This review mainly focuses on an integrative approach and its importance for the effective treatment and decolorization of dyes.
Collapse
Affiliation(s)
- Arti Mishra
- Amity Institute of Microbial Technology, Amity University, Noida, India
- *Correspondence: Arti Mishra,
| | - Simran Takkar
- Amity Institute of Microbial Technology, Amity University, Noida, India
| | | | - Smriti Shukla
- Amity Institute of Environmental Toxicology, Safety and Management, Amity University, Noida, India
| | - Kartikeya Shukla
- Amity Institute of Environmental Sciences, Amity University, Noida, India
| | - Anamika Singh
- Department of Botany, Maitreyi College, University of Delhi, New Delhi, India
| | | | - Ajit Varma
- Amity Institute of Microbial Technology, Amity University, Noida, India
| |
Collapse
|
33
|
Can docking scoring functions guarantee success in virtual screening? VIRTUAL SCREENING AND DRUG DOCKING 2022. [DOI: 10.1016/bs.armc.2022.08.008] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
|
34
|
Rizk HF, El-Borai MA, Ragab A, Ibrahim SA, Sadek ME. A Novel of Azo-Thiazole Moiety Alternative for Benzidine-Based Pigments: Design, Synthesis, Characterization, Biological Evaluation, and Molecular Docking Study. Polycycl Aromat Compd 2021. [DOI: 10.1080/10406638.2021.2015402] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Affiliation(s)
- Hala F. Rizk
- Department of Chemistry, Faculty of Science, Tanta University, Tanta, Egypt
| | | | - Ahmed Ragab
- Department of Chemistry, Faculty of Science (Boys), Al-Azhar University, Cairo, Egypt
| | - Seham A. Ibrahim
- Department of Chemistry, Faculty of Science, Tanta University, Tanta, Egypt
| | - Mohamed E. Sadek
- Department of Chemistry, Faculty of Science, Tanta University, Tanta, Egypt
| |
Collapse
|
35
|
Liu J, Chen J, Zuo K, Li H, Peng F, Ran Q, Wang R, Jiang Z, Song H. Chemically induced oxidative stress improved bacterial laccase-mediated degradation and detoxification of the synthetic dyes. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2021; 226:112823. [PMID: 34597843 DOI: 10.1016/j.ecoenv.2021.112823] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/20/2021] [Revised: 09/15/2021] [Accepted: 09/21/2021] [Indexed: 06/13/2023]
Abstract
To alleviate the risk of textile effluent, the development of highly effective bioremediation strategies for synthetic dye removal is needed. Herein, we aimed to assess whether intensified bioactivity of Bacillus pumilus ZB1 by oxidative stress could improve the removal of textile dyes. Methyl methanesulfonate (MMS) induced oxidative stress significantly promoted laccase expression of B. pumilus ZB1. Both the level of hydrogen dioxide and superoxide anion showed a significant positive correlation with laccase activity (RSQ = 0.963 and 0.916, respectively) along with the change of MMS concentration. The regulation of laccase expression was closely related to oxidative stress. The overexpressed laccase in the supernatant improved the decolorization of synthetic dyes (16.43% for Congo Red, 54.05% for Crystal Violet, and 41.61% for Reactive Blue 4). Laccase was subsequently expressed in E. coli. Investigation of the potential of bacterial laccase in dye remediation using Congo Red showed that an effective degradation of azo dye could be achieved with laccase treatment. Laccase remediation alleviated the cytotoxicity of Congo Red to human hepatocytes. In silico study identified eight amino acid residues of laccase involved in binding with Congo Red. Overall, regulation of oxidative stress towards bacterium can be used as a promising approach for the improvement of bacterial bioactivity in synthetic dye remediation.
Collapse
Affiliation(s)
- Jiashu Liu
- State Key Laboratory of Biocatalysis and Enzyme Engineering, Hubei University, Wuhan 430062, PR China; Hubei Key Laboratory of Industrial Biotechnology, School of Life Science, Hubei University, Wuhan 430062, PR China
| | - Jianhui Chen
- State Key Laboratory of Biocatalysis and Enzyme Engineering, Hubei University, Wuhan 430062, PR China; Hubei Key Laboratory of Industrial Biotechnology, School of Life Science, Hubei University, Wuhan 430062, PR China
| | - Kangjia Zuo
- State Key Laboratory of Biocatalysis and Enzyme Engineering, Hubei University, Wuhan 430062, PR China; Hubei Key Laboratory of Industrial Biotechnology, School of Life Science, Hubei University, Wuhan 430062, PR China
| | - Huanan Li
- State Key Laboratory of Biocatalysis and Enzyme Engineering, Hubei University, Wuhan 430062, PR China; Hubei Key Laboratory of Industrial Biotechnology, School of Life Science, Hubei University, Wuhan 430062, PR China
| | - Fang Peng
- State Key Laboratory of Biocatalysis and Enzyme Engineering, Hubei University, Wuhan 430062, PR China; Hubei Key Laboratory of Regional Development and Environmental Response, Faculty of Resources and Environmental Science, Hubei University, Wuhan 430062, PR China
| | - Qiuping Ran
- State Key Laboratory of Biocatalysis and Enzyme Engineering, Hubei University, Wuhan 430062, PR China; Hubei Key Laboratory of Industrial Biotechnology, School of Life Science, Hubei University, Wuhan 430062, PR China
| | - Rui Wang
- State Key Laboratory of Biocatalysis and Enzyme Engineering, Hubei University, Wuhan 430062, PR China; Hubei Key Laboratory of Industrial Biotechnology, School of Life Science, Hubei University, Wuhan 430062, PR China
| | - Zhengbing Jiang
- State Key Laboratory of Biocatalysis and Enzyme Engineering, Hubei University, Wuhan 430062, PR China; Hubei Key Laboratory of Industrial Biotechnology, School of Life Science, Hubei University, Wuhan 430062, PR China
| | - Huiting Song
- State Key Laboratory of Biocatalysis and Enzyme Engineering, Hubei University, Wuhan 430062, PR China; Hubei Key Laboratory of Regional Development and Environmental Response, Faculty of Resources and Environmental Science, Hubei University, Wuhan 430062, PR China.
| |
Collapse
|
36
|
do Nascimento GE, de Freitas RA, Rodríguez-Díaz JM, da Silva PM, Napoleão TH, Duarte MMMB. Degradation of the residual textile mixture cetyltrimethylammonium bromide/remazol yellow gold RNL-150%/reactive blue BF-5G: evaluation photo-peroxidation and photo-Fenton processes in LED and UV-C photoreactors. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:64630-64641. [PMID: 34318422 DOI: 10.1007/s11356-021-15502-0] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/13/2021] [Accepted: 07/14/2021] [Indexed: 06/13/2023]
Abstract
This article presents a study on the degradation of a residual textile mixture composed of cationic surfactant cetyltrimethylammonium bromide (CTAB) and the remazol yellow gold RNL-150% and reactive blue BF-5G textile dyes. This was carried out by employing the photo-peroxidation and photo-Fenton processes in LED and UV-C photoreactors. The photo-Fenton process was the most efficient as regards the degradation of the CTAB and dye mixture, for both types of radiation. In the kinetic study, degradations of 99% were obtained in 180 min for the chromophore groups using both types of radiation. The degradation of the CTAB and aromatic groups was, meanwhile, an average of 25% when employing LED radiation. The behavior of the degradation reaction was pseudo-first-order. Toxicity tests indicated that the solutions were better able to grow seeds and bacteria after treatment with the photo-Fenton process, using both types of radiation. The photo-Fenton processes carried out by employing LED and UV-C photoreactors were able to degrade the CTAB and dye mixture, thus highlighting the efficiency of LED radiation when its power (three times smaller) is compared to that of UV-C radiation. This process, therefore, represents an alternative for use in textile wastewater treatment systems.
Collapse
Affiliation(s)
- Graziele Elisandra do Nascimento
- Departamento de Engenharia Química, Universidade Federal de Pernambuco, Av. Prof. Arthur de Sá, s/n, Recife, PE, 50740-521, Brazil
| | - Raissa Aguiar de Freitas
- Departamento de Engenharia Química, Universidade Federal de Pernambuco, Av. Prof. Arthur de Sá, s/n, Recife, PE, 50740-521, Brazil
| | - Joan Manuel Rodríguez-Díaz
- Laboratorio de Análisis Químicos y Biotecnológicos, Instituto de Investigación, Universidad Técnica de Manabí, Portoviejo, Ecuador
- Departamento de Procesos Químicos, Facultad de Ciencias Matemáticas, Físicas y Químicas, Universidad Técnica de Manabí, Portoviejo, Ecuador
| | - Pollyanna Michelle da Silva
- Departamento de Bioquímica, Universidade Federal de Pernambuco, Av. Prof. Moraes Rego, s/n, Recife, PE, 50670-420, Brazil
| | - Thiago Henrique Napoleão
- Departamento de Bioquímica, Universidade Federal de Pernambuco, Av. Prof. Moraes Rego, s/n, Recife, PE, 50670-420, Brazil
| | | |
Collapse
|
37
|
Saravanan A, Kumar PS, Vo DVN, Jeevanantham S, Karishma S, Yaashikaa PR. A review on catalytic-enzyme degradation of toxic environmental pollutants: Microbial enzymes. JOURNAL OF HAZARDOUS MATERIALS 2021; 419:126451. [PMID: 34174628 DOI: 10.1016/j.jhazmat.2021.126451] [Citation(s) in RCA: 84] [Impact Index Per Article: 28.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/01/2021] [Revised: 06/14/2021] [Accepted: 06/18/2021] [Indexed: 05/17/2023]
Abstract
Industrialization and other human anthropogenic activities cause serious threats to the environment. The toxic pollutants can cause detrimental diseases on diverse living beings in their respective ecosystems. Bioremediation is one of the efficient remediation methods in which the toxic pollutants are removed from the environment by the application of microorganisms or their biologically active products (enzymes). Typically, the microorganisms in the environment produce various enzymes to immobilize and degrade the toxic environmental pollutants by utilizing them as a substrate for their growth and development. Both the bacterial and fungal enzymes can degrade the toxic pollutants present in the environment and convert them into non-toxic forms through their catalytic reaction mechanism. Hydrolases, oxidoreductases, dehalogenases, oxygenases and transferases are the major classes of microbial enzymes responsible for the degradation of most of the toxic pollutants in the environment. Recently, there are different immobilizations and genetic engineering techniques have been developed to enhance enzyme efficiency and diminish the process cost for pollutant removal. This review focused on enzymatic removal of toxic pollutants such as heavy metals, dyes, plastics and pesticides in the environment. Current trends and further expansion for efficient removal of toxic pollutants through enzymatic degradation are also reviewed in detail.
Collapse
Affiliation(s)
- A Saravanan
- Department of Biotechnology, Rajalakshmi Engineering College, Chennai 602105, India
| | - P Senthil Kumar
- Department of Chemical Engineering, Sri Sivasubramaniya Nadar College of Engineering, Chennai 603110, India; Centre of Excellence in Water Research (CEWAR), Sri Sivasubramaniya Nadar College of Engineering, Chennai 603110, India.
| | - Dai-Viet N Vo
- Institute of Environmental Sciences, Nguyen Tat Thanh University, Ho Chi Minh City, Viet Nam
| | - S Jeevanantham
- Department of Biotechnology, Rajalakshmi Engineering College, Chennai 602105, India
| | - S Karishma
- Department of Biotechnology, Rajalakshmi Engineering College, Chennai 602105, India
| | - P R Yaashikaa
- Department of Biotechnology, Saveetha School of Engineering, Saveetha Institute of Medical and Technical Sciences, Saveetha University, Chennai, Tamil Nadu, India
| |
Collapse
|
38
|
Liu M, Yin W, Zhao TL, Yao QZ, Fu SQ, Zhou GT. High-efficient removal of organic dyes from model wastewater using Mg(OH)2-MnO2 nanocomposite: Synergistic effects of adsorption, precipitation, and photodegradation. Sep Purif Technol 2021. [DOI: 10.1016/j.seppur.2021.118901] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
|
39
|
Singh AK, Bilal M, Iqbal HMN, Meyer AS, Raj A. Bioremediation of lignin derivatives and phenolics in wastewater with lignin modifying enzymes: Status, opportunities and challenges. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 777:145988. [PMID: 33684751 DOI: 10.1016/j.scitotenv.2021.145988] [Citation(s) in RCA: 64] [Impact Index Per Article: 21.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/02/2021] [Revised: 02/14/2021] [Accepted: 02/15/2021] [Indexed: 02/08/2023]
Abstract
Lignin modifying enzymes from fungi and bacteria are potential biocatalysts for sustainable mitigation of different potentially toxic pollutants in wastewater. Notably, the paper and pulp industry generates enormous amounts of wastewater containing high amounts of complex lignin-derived chlorinated phenolics and sulfonated pollutants. The presence of these compounds in wastewater is a critical issue from environmental and toxicological perspectives. Some chloro-phenols are harmful to the environment and human health, as they exert carcinogenic, mutagenic, cytotoxic, and endocrine-disrupting effects. In order to address these most urgent concerns, the use of oxidative lignin modifying enzymes for bioremediation has come into focus. These enzymes catalyze modification of phenolic and non-phenolic lignin-derived substances, and include laccase and a range of peroxidases, specifically lignin peroxidase (LiP), manganese peroxidase (MnP), versatile peroxidase (VP), and dye-decolorizing peroxidase (DyP). In this review, we explore the key pollutant-generating steps in paper and pulp processing, summarize the most recently reported toxicological effects of industrial lignin-derived phenolic compounds, especially chlorinated phenolic pollutants, and outline bioremediation approaches for pollutant mitigation in wastewater from this industry, emphasizing the oxidative catalytic potential of oxidative lignin modifying enzymes in this regard. We highlight other emerging biotechnical approaches, including phytobioremediation, bioaugmentation, Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR)-based technology, protein engineering, and degradation pathways prediction, that are currently gathering momentum for the mitigation of wastewater pollutants. Finally, we address current research needs and options for maximizing sustainable biobased and biocatalytic degradation of toxic industrial wastewater pollutants.
Collapse
Affiliation(s)
- Anil Kumar Singh
- Environmental Microbiology Laboratory, Environmental Toxicology Group CSIR-Indian Institute of Toxicology Research (CSIR-IITR), Vishvigyan Bhawan, 31, Mahatma Gandhi Marg, Lucknow 226001, Uttar Pradesh, India; Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India
| | - Muhammad Bilal
- School of Life Science and Food Engineering, Huaiyin Institute of Technology, Huaian 223003, China.
| | - Hafiz M N Iqbal
- Tecnologico de Monterrey, School of Engineering and Sciences, Monterrey 64849, Mexico
| | - Anne S Meyer
- Department for Biotechnology and Biomedicine, Technical University of Denmark, Building 221, DK-2800 Lyngby, Denmark.
| | - Abhay Raj
- Environmental Microbiology Laboratory, Environmental Toxicology Group CSIR-Indian Institute of Toxicology Research (CSIR-IITR), Vishvigyan Bhawan, 31, Mahatma Gandhi Marg, Lucknow 226001, Uttar Pradesh, India; Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India.
| |
Collapse
|
40
|
Diversity of Synthetic Dyes from Textile Industries, Discharge Impacts and Treatment Methods. APPLIED SCIENCES-BASEL 2021. [DOI: 10.3390/app11146255] [Citation(s) in RCA: 112] [Impact Index Per Article: 37.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
Natural dyes have been used from ancient times for multiple purposes, most importantly in the field of textile dying. The increasing demand and excessive costs of natural dye extraction engendered the discovery of synthetic dyes from petrochemical compounds. Nowadays, they are dominating the textile market, with nearly 8 × 105 tons produced per year due to their wide range of color pigments and consistent coloration. Textile industries consume huge amounts of water in the dyeing processes, making it hard to treat the enormous quantities of this hazardous wastewater. Thus, they have harmful impacts when discharged in non-treated or partially treated forms in the environment (air, soil, plants and water), causing several human diseases. In the present work we focused on synthetic dyes. We started by studying their classification which depended on the nature of the manufactured fiber (cellulose, protein and synthetic fiber dyes). Then, we mentioned the characteristics of synthetic dyes, however, we focused more on their negative impacts on the ecosystem (soil, plants, water and air) and on humans. Lastly, we discussed the applied physical, chemical and biological strategies solely or in combination for textile dye wastewater treatments. Additionally, we described the newly established nanotechnology which achieves complete discharge decontamination.
Collapse
|
41
|
Zhang Z, Wang Z, Li QX, Hua R, Wu X. Enantioselective metabolism of phenylpyrazole insecticides by rat liver microsomal CYP3A1, CYP2E1 and CYP2D2. PESTICIDE BIOCHEMISTRY AND PHYSIOLOGY 2021; 176:104861. [PMID: 34119225 DOI: 10.1016/j.pestbp.2021.104861] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/19/2021] [Revised: 04/11/2021] [Accepted: 04/27/2021] [Indexed: 06/12/2023]
Abstract
The stereoselective difference of chiral pesticide enantiomers is an important factor of risk evaluation and the subject has received wide attention. In the present work, enantioselective metabolism of chiral phenylpyrazole insecticides including fipronil, ethiprole and flufiprole in rat liver microsomes was investigated in vitro. The result showed remarkable enantioselectivity for fipronil and ethiprole with the EF values of 0.11-0.58. The metabolite fipronil-sulfone was formed with the degradation of fipronil. R-Ethiprole to S-ethiprole transformation was observed, but not S-ethiprole to R-ethiprole. No enantioselective metabolism was observed for flufiprole with the EF values of 0.49-0.51. The enzymatic assays showed that the inhibition ratio of R-fipronil and S-ethiprole was 1.5-2.1times that of the corresponding enantiomers on CYP2E1 and CYP2D2 activity, leading to the enantioselective metabolism. The result of the homology modeling and molecular docking further revealed that S-fipronil (-7.56 kcal mol-1) and R-ethiprole (-6.45 kcal mol-1) performed better binding with CYP2E1 and CYP2D2, respectively. The results provided useful data for the risk evaluation of chiral phenylpyrazole insecticides on ecological safety and human health.
Collapse
Affiliation(s)
- Zhaoxian Zhang
- College of Resources and Environment, Anhui Agricultural University, Key Laboratory of Agri-food Safety of Anhui Province, Hefei 230036, China
| | - Zhiqiang Wang
- College of Resources and Environment, Anhui Agricultural University, Key Laboratory of Agri-food Safety of Anhui Province, Hefei 230036, China
| | - Qing X Li
- Department of Molecular Biosciences and Bioengineering, University of Hawaii at Manoa, 1955 East-West Road, Honolulu, HI 96822, USA
| | - Rimao Hua
- College of Resources and Environment, Anhui Agricultural University, Key Laboratory of Agri-food Safety of Anhui Province, Hefei 230036, China
| | - Xiangwei Wu
- College of Resources and Environment, Anhui Agricultural University, Key Laboratory of Agri-food Safety of Anhui Province, Hefei 230036, China.
| |
Collapse
|
42
|
Pandey K, Lokhande KB, Swamy KV, Nagar S, Dake M. In Silico Exploration of Phytoconstituents From Phyllanthus emblica and Aegle marmelos as Potential Therapeutics Against SARS-CoV-2 RdRp. Bioinform Biol Insights 2021; 15:11779322211027403. [PMID: 34248355 PMCID: PMC8236766 DOI: 10.1177/11779322211027403] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2021] [Accepted: 06/04/2021] [Indexed: 12/23/2022] Open
Abstract
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) worldwide has increased the importance of computational tools to design a drug or vaccine in reduced time with minimum risk. Earlier studies have emphasized the important role of RNA-dependent RNA polymerase (RdRp) in SARS-CoV-2 replication as a potential drug target. In our study, comprehensive computational approaches were applied to identify potential compounds targeting RdRp of SARS-CoV-2. To study the binding affinity and stability of the phytocompounds from Phyllanthus emblica and Aegel marmelos within the defined binding site of SARS-CoV-2 RdRp, they were subjected to molecular docking, 100 ns molecular dynamics (MD) simulation followed by post-simulation analysis. Furthermore, to assess the importance of features involved in the strong binding affinity, molecular field-based similarity analysis was performed. Based on comparative molecular docking and simulation studies of the selected phytocompounds with SARS-CoV-2 RdRp revealed that EBDGp possesses a stronger binding affinity (-23.32 kcal/mol) and stability than other phytocompounds and reference compound, Remdesivir (-19.36 kcal/mol). Molecular field-based similarity profiling has supported our study in the validation of the importance of the presence of hydroxyl groups in EBDGp, involved in increasing its binding affinity toward SARS-CoV-2 RdRp. Molecular docking and dynamic simulation results confirmed that EBDGp has better inhibitory potential than Remdesivir and can be an effective novel drug for SARS-CoV-2 RdRp. Furthermore, binding free energy calculations confirmed the higher stability of the SARS-CoV-2 RdRp-EBDGp complex. These results suggest that the EBDGp compound may emerge as a promising drug against SARS-CoV-2 and hence requires further experimental validation.
Collapse
Affiliation(s)
- Khushboo Pandey
- Bioinformatics Research Laboratory, Dr. D. Y. Patil Biotechnology & Bioinformatics Institute, Dr. D. Y. Patil Vidyapeeth, Pune, India
| | - Kiran Bharat Lokhande
- Bioinformatics Research Laboratory, Dr. D. Y. Patil Biotechnology & Bioinformatics Institute, Dr. D. Y. Patil Vidyapeeth, Pune, India
| | - K Venkateswara Swamy
- Bioinformatics Research Laboratory, Dr. D. Y. Patil Biotechnology & Bioinformatics Institute, Dr. D. Y. Patil Vidyapeeth, Pune, India
- Bioinformatics and Drug Discovery Group, MIT School of Bioengineering Sciences & Research, MIT Art, Design and Technology University, Pune, India
| | - Shuchi Nagar
- Bioinformatics Research Laboratory, Dr. D. Y. Patil Biotechnology & Bioinformatics Institute, Dr. D. Y. Patil Vidyapeeth, Pune, India
| | - Manjusha Dake
- Protein Biochemistry Laboratory, Dr. D. Y. Patil Biotechnology & Bioinformatics Institute, Dr. D. Y. Patil Vidyapeeth, Pune, India
| |
Collapse
|
43
|
Santacruz-Juárez E, Buendia-Corona RE, Ramírez RE, Sánchez C. Fungal enzymes for the degradation of polyethylene: Molecular docking simulation and biodegradation pathway proposal. JOURNAL OF HAZARDOUS MATERIALS 2021; 411:125118. [PMID: 33485228 DOI: 10.1016/j.jhazmat.2021.125118] [Citation(s) in RCA: 42] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/14/2020] [Revised: 12/17/2020] [Accepted: 01/08/2021] [Indexed: 06/12/2023]
Abstract
Polyethylene (PE) is one of the most highly consumed petroleum-based polymers and its accumulation as waste causes environmental pollution. In this sense, the use of microorganisms and their enzymes represents the most ecofriendly and effective decontamination approach. In this work, molecular docking simulation for catalytic enzyme degradation of PE was carried out using individual enzymes: laccase (Lac), manganese peroxidase (MnP), lignin peroxidase (LiP) and unspecific peroxygenase (UnP). PE-binding energy, PE-binding affinity and dimensions of PE-binding sites in the enzyme cavity were calculated in each case. Four hypothetical PE biodegradation pathways were proposed using individual enzymes, and one pathway was proposed using a synergic enzyme combination. These results show that in nature, enzymes act in a synergic manner, using their specific features to undertake an extraordinarily effective sequential catalytic process for organopollutants degradation. In this process, Lac (oxidase) is crucial to provide hydrogen peroxide to the medium to ensure pollutant breakdown. UnP is a versatile enzyme that offers a promising practical application for the degradation of PE and other pollutants due to its cavity features. This is the first in silico report of PE enzymatic degradation, showing the mode of interaction of PE with enzymes as well as the degradation mechanism.
Collapse
Affiliation(s)
- Ericka Santacruz-Juárez
- Universidad Politécnica de Tlaxcala. San Pedro Xalcatzinco, Tepeyanco, Tlaxcala C. P. 90180, Mexico
| | - Ricardo E Buendia-Corona
- Departamento de Fisicomatemáticas, Facultad de Ciencias Químicas, Benemérita Universidad Autónoma de Puebla, Av. San Claudio y 14 Sur, Col. San Manuel, C.P. 72570, Puebla, Pue., Mexico
| | - Ramsés E Ramírez
- Departamento de Fisicomatemáticas, Facultad de Ciencias Químicas, Benemérita Universidad Autónoma de Puebla, Av. San Claudio y 14 Sur, Col. San Manuel, C.P. 72570, Puebla, Pue., Mexico
| | - Carmen Sánchez
- Laboratory of Biotechnology, Research Centre for Biological Sciences, Universidad Autónoma de Tlaxcala, Ixtacuixtla, Tlaxcala C.P. 90120, Mexico.
| |
Collapse
|
44
|
Singh AK, Bilal M, Iqbal HMN, Raj A. Trends in predictive biodegradation for sustainable mitigation of environmental pollutants: Recent progress and future outlook. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 770:144561. [PMID: 33736422 DOI: 10.1016/j.scitotenv.2020.144561] [Citation(s) in RCA: 58] [Impact Index Per Article: 19.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/27/2020] [Revised: 12/13/2020] [Accepted: 12/13/2020] [Indexed: 02/05/2023]
Abstract
The feasibility of in-silico techniques, together with the computational framework, has been applied to predictive bioremediation aiming to clean-up contaminants, toxicity evaluation, and possibilities for the degradation of complex recalcitrant compounds. Emerging contaminants from different industries have posed a significant hazard to the environment and public health. Given current bioremediation strategies, it is often a failure or inadequate for sustainable mitigation of hazardous pollutants. However, clear-cut vital information about biodegradation is quite incomplete from a conventional remediation techniques perspective. Lacking complete information on bio-transformed compounds leads to seeking alternative methods. Only scarce information about the transformed products and toxicity profile is available in the published literature. To fulfill this literature gap, various computational or in-silico technologies have emerged as alternating techniques, which are being recognized as in-silico approaches for bioremediation. Molecular docking, molecular dynamics simulation, and biodegradation pathways predictions are the vital part of predictive biodegradation, including the Quantitative Structure-Activity Relationship (QSAR), Quantitative structure-biodegradation relationship (QSBR) model system. Furthermore, machine learning (ML), artificial neural network (ANN), genetic algorithm (GA) based programs offer simultaneous biodegradation prediction along with toxicity and environmental fate prediction. Herein, we spotlight the feasibility of in-silico remediation approaches for various persistent, recalcitrant contaminants while traditional bioremediation fails to mitigate such pollutants. Such could be addressed by exploiting described model systems and algorithm-based programs. Furthermore, recent advances in QSAR modeling, algorithm, and dedicated biodegradation prediction system have been summarized with unique attributes.
Collapse
Affiliation(s)
- Anil Kumar Singh
- Environmental Microbiology Laboratory, Environmental Toxicology Group, CSIR-Indian Institute of Toxicology Research (CSIR-IITR), Vishvigyan Bhawan, 31, Mahatma Gandhi Marg, Lucknow 226001, Uttar Pradesh, India; Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India
| | - Muhammad Bilal
- School of Life Science and Food Engineering, Huaiyin Institute of Technology, Huaian 223003, China
| | - Hafiz M N Iqbal
- Tecnologico de Monterrey, School of Engineering and Sciences, Monterrey 64849, Mexico.
| | - Abhay Raj
- Environmental Microbiology Laboratory, Environmental Toxicology Group, CSIR-Indian Institute of Toxicology Research (CSIR-IITR), Vishvigyan Bhawan, 31, Mahatma Gandhi Marg, Lucknow 226001, Uttar Pradesh, India; Academy of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India.
| |
Collapse
|
45
|
Xavier Senra MV, Fonseca AL. New tyrosinases with putative action against contaminants of emerging concern. Proteins 2021; 89:1180-1192. [PMID: 33969540 DOI: 10.1002/prot.26139] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2020] [Revised: 03/16/2021] [Accepted: 04/30/2021] [Indexed: 11/07/2022]
Abstract
Tyrosinases (EC 1.14.18.1) are type-3 copper metalloenzymes with strong oxidative capacities and low allosteric selectivity to phenolic and non-phenolic aromatic compounds, which have been used as biosensors and biocatalysts to mitigate the impacts of environmental contaminants over aquatic ecosystems. However, the widespread use of these polyphenol oxidases is limited by elevated production costs and restricted knowledge on their spectrum of action. Here, six tyrosinase homologs were identified and characterized from the genomes of four widespread freshwater ciliates using bioinformatics. Next, we performed a virtual screening to calculate binding energies between 3D models of these homologs and ~ 1000 contaminants of emerging concern (CECs), as an indirect approach to identify likely and unlikely targets for tyrosinases. Many fine chemicals, pharmaceuticals, personal care products, illicit drugs, natural toxins, and pesticides exhibited strong binding energies to these new tyrosinases, suggesting the spectrum of targets of these enzymes might be considerably broader than previously thought. Many ciliates, including those carrying tyrosinase genes, are fast-growing unicellular microeukaryotes that can be efficiently cultured, at large scales, under in vitro conditions, suggesting these organisms should be regarded as potential low-cost sources of new environmental biotechnological molecules.
Collapse
Affiliation(s)
| | - Ana Lúcia Fonseca
- Instituto de Recursos Naturais, Universidade Federal de Itajubá, Itajubá, Minas Gerais, Brazil
| |
Collapse
|
46
|
Bhatt P, Joshi T, Bhatt K, Zhang W, Huang Y, Chen S. Binding interaction of glyphosate with glyphosate oxidoreductase and C-P lyase: Molecular docking and molecular dynamics simulation studies. JOURNAL OF HAZARDOUS MATERIALS 2021; 409:124927. [PMID: 33450511 DOI: 10.1016/j.jhazmat.2020.124927] [Citation(s) in RCA: 70] [Impact Index Per Article: 23.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/07/2020] [Revised: 12/14/2020] [Accepted: 12/20/2020] [Indexed: 05/12/2023]
Abstract
Widespread application of glyphosate poses a threat to living organisms. Microbial strains are able to degrade glyphosate via contrasting metabolic pathways with the help of enzymes. Glyphosate oxidoreductase (GOX) and C-P lyase are the key enzymes for the biodegradation of glyphosate and its intermediate metabolite aminomethylphosphonic acid (AMPA) in microbes. The microbial degradation of glyphosate has been reported, but the underlying molecular mechanism is still unclear. Therefore, in this study, the interaction mechanism of GOX and C-P lyase with glyphosate and AMPA were investigated by using molecular docking and molecular dynamics (MD) simulations. The results indicate that glyphosate contacts with the active site of GOX and C-P lyase by hydrogen bonds as well as hydrophobic and van der Waals interactions in aqueous solution to maintain its stability. The presence of glyphosate and AMPA in the active site significantly changes the conformation of GOX and C-P lyase. The results of the MD simulations confirm that GOX and C-P lyase complexes are stable during the catalytic reaction. This study offers a molecular level of understanding of the expression and function of GOX and C-P lyase for the bioremediation of glyphosate.
Collapse
Affiliation(s)
- Pankaj Bhatt
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou 510642, China
| | - Tushar Joshi
- Department of Biotechnology, Kumaun University, Bhimtal Campus, Bhimtal, Uttarakhand 263136, India
| | - Kalpana Bhatt
- Department of Botany and Microbiology, Gurukul Kangri University, Haridwar, Uttarakhand 249404, India
| | - Wenping Zhang
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou 510642, China
| | - Yaohua Huang
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou 510642, China
| | - Shaohua Chen
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou 510642, China; Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou 510642, China.
| |
Collapse
|
47
|
Biological Treatment of Real Textile Effluent Using Aspergillus flavus and Fusarium oxysporium and Their Consortium along with the Evaluation of Their Phytotoxicity. J Fungi (Basel) 2021; 7:jof7030193. [PMID: 33803129 PMCID: PMC8001397 DOI: 10.3390/jof7030193] [Citation(s) in RCA: 33] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2021] [Revised: 03/04/2021] [Accepted: 03/05/2021] [Indexed: 12/12/2022] Open
Abstract
Twenty-one fungal strains were isolated from dye-contaminated soil; out of them, two fungal strains A2 and G2-1 showed the highest decolorization capacity for real textile effluent and were, hence, identified as Aspergillus flavus and Fusarium oxysporium based on morphological and molecular methods. The highest decolorization percentage of 78.12 ± 2.1% was attained in the biotreatment with fungal consortium followed by A. flavus and F. oxysporium separately with removal percentages of 54.68 ± 1.2% and 52.41 ± 1.0%, respectively. Additionally, ultraviolet-visible spectroscopy of the treated effluent showed that a maximum peak (λmax) of 415 nm was reduced as compared with the control. The indicators of wastewater treatment efficacy, namely total dissolved solids, total suspended solids, conductivity, biological oxygen demand, and chemical oxygen demand with removal percentages of 78.2, 78.4, 58.2, 78.1, and 77.6%, respectively, demonstrated a considerable decrease in values due to fungal consortium treatment. The reduction in peak and mass area along with the appearance of new peaks in GC-MS confirms a successful biodegradation process. The toxicity of treated textile effluents on the seed germination of Vicia faba was decreased as compared with the control. The shoot length after irrigation with effluents treated by the fungal consortium was 15.12 ± 1.01 cm as compared with that treated by tap-water, which was 17.8 ± 0.7 cm. Finally, we recommended the decrease of excessive uses of synthetic dyes and utilized biological approaches for the treatment of real textile effluents to reuse in irrigation of uneaten plants especially with water scarcity worldwide.
Collapse
|
48
|
Srinivasan S, Sadasivam SK. Biodegradation of textile azo dyes by textile effluent non-adapted and adapted Aeromonas hydrophila. ENVIRONMENTAL RESEARCH 2021; 194:110643. [PMID: 33385387 DOI: 10.1016/j.envres.2020.110643] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/16/2019] [Revised: 11/11/2020] [Accepted: 12/15/2020] [Indexed: 06/12/2023]
Abstract
Textile effluent discharged in water and soil have severe effects on living beings as well as environs worldwide. Pioneering, ecologically sustainable and economically viable treatment systems are urgently desired. This study investigated decolorization along with degradation of three azo dyes by non-adapted Aeromonas hydrophila MTCC 1739 and textile-effluent adapted Aeromonas hydrophila SK16 bacteria under optimized physicochemical conditions. UV-visible analysis (for decolorization percentage calculated using absorbance), FTIR (fourier transform infrared spectroscopy for functional group identification), HPLC (high performance liquid chromatography for degraded metabolites analysis based on retention time) and GC-MS (gas chromatography-mass spectrometry for proposing degradative pathways based on mass/charge as well as molecular weight) supported efficient biodegradation of these dyes into simpler metabolites by both cultures. Time taken for decolorization by the adapted strain was less but both were equally efficient in mineralizing dyes, utilizing them as energy source. Enzyme assays revealed over-expression of dye degrading enzymes in presence of toxic azo dyes. Thus, it is suggested that both adapted and non-adapted bacteria act as azo dye degraders with potential use in efficient and lucrative effluent treatment curbing expansive preliminary screening of autochthonous strains for azo dye degradation.
Collapse
Affiliation(s)
- Shantkriti Srinivasan
- Department of Biotechnology, Kalasalingam Academy of Research and Education, Krishnankoil, 626126, Tamil Nadu, India.
| | - Senthil Kumar Sadasivam
- Geobiotechnology Laboratory, National College (Autonomous), Tiruchirappalli, 620001, Tamil Nadu, India; PG & Research Department of Botany, National College (Autonomous), Tiruchirappalli, 620001, Tamil Nadu, India
| |
Collapse
|
49
|
Zhou Q, Guo M, Ni K, Kerton FM. Construction of supramolecular laccase enzymes and understanding of catalytic dye degradation using multispectral and molecular docking approaches. REACT CHEM ENG 2021. [DOI: 10.1039/d1re00111f] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A non-covalent supramolecular enzyme system which was successfully constructed by non-covalent interaction of enzyme with substrates analogs can effectively recognize and degrade 13 kinds of dyes.
Collapse
Affiliation(s)
- Qingteng Zhou
- College of Engineering, Zhejiang A&F University, Hangzhou, Zhejiang 311300, China
| | - Ming Guo
- College of Engineering, Zhejiang A&F University, Hangzhou, Zhejiang 311300, China
- College of Science, Zhejiang A&F University, Hangzhou, Zhejiang 311300, China
| | - Kaijie Ni
- College of Science, Zhejiang A&F University, Hangzhou, Zhejiang 311300, China
| | - Francesca M. Kerton
- Department of Chemistry, Memorial University of Newfoundland, St. John's, NL, Canada A1B 3X7
| |
Collapse
|
50
|
Cai J, Pan A, Li Y, Xiao Y, Zhou Y, Chen C, Sun F, Su X. A novel strategy for enhancing anaerobic biodegradation of an anthraquinone dye reactive blue 19 with resuscitation-promoting factors. CHEMOSPHERE 2021; 263:127922. [PMID: 32841875 DOI: 10.1016/j.chemosphere.2020.127922] [Citation(s) in RCA: 32] [Impact Index Per Article: 10.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/02/2020] [Revised: 07/17/2020] [Accepted: 08/03/2020] [Indexed: 06/11/2023]
Abstract
Anaerobic process has been widely applied as a cost-effective method for textile wastewater treatment. However, many bacteria exhibit low metabolic activity in unfavorable conditions due to the entry into a viable but non-culturable (VBNC) state. Thus, in this study, a novel method of using resuscitation-promoting factors (Rpfs), which has been proven to resuscitate and stimulate the growth of VBNC bacteria, is explored to enhance the degradation of the anthraquinone dye reactive blue 19 (RB19) in the anaerobic process. The results show that Rpfs could efficiently prompt RB19 decolorization. Compared to the conventional anaerobic condition, RB19 decolorization efficiency was increased by more than 20% with the Rpf addition. UV-visible spectral and gas chromatograph-mass spectrometry analysis indicate that the aromatic amines structures of RB19 was cleaved. More importantly, the Rpf addition appeared to stimulate and/or enrich some dye-degrading species of the family Peptostreptococcaceae, thus leading to a higher RB19 decolorization efficiency.
Collapse
Affiliation(s)
- Jiafang Cai
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China
| | - Aodong Pan
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China
| | - Yilin Li
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China
| | - Yeyuan Xiao
- Department of Civil and Environmental Engineering, Shantou University, Shantou, 515063, China
| | - Yan Zhou
- Advanced Environmental Biotechnology Centre, Nanyang Environment and Water Research Institute, Nanyang Technological University, 637141, Singapore; School of Civil and Environmental Engineering, Nanyang Technological University, 639798, Singapore
| | - Chongjun Chen
- Jiangsu Provincial Key Laboratory of Environmental Science and Engineering, School of Environmental Science and Engineering, Suzhou University of Science and Technology, Suzhou, 215009, China
| | - Faqian Sun
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China.
| | - Xiaomei Su
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China.
| |
Collapse
|