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Wang Z, Zhou H, Cheng Y, An L, Yan D, Chao H, Wu J. Novel small multidrug resistance protein Tmt endows the Escherichia coli with triphenylmethane dyes bioremediation capability. Biotechnol Lett 2024; 46:627-639. [PMID: 38662307 DOI: 10.1007/s10529-024-03480-5] [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: 12/05/2023] [Revised: 02/23/2024] [Accepted: 03/10/2024] [Indexed: 04/26/2024]
Abstract
Dye contamination in printing and dyeing wastewater has long been a major concern due to its serious impact on both the environment and human health. In the quest for bioremediation of these hazardous dyes, biological resources such as biodegradation bacteria and enzymes have been investigated in severely polluted environments. In this context, the triphenylmethane transporter gene (tmt) was identified in six distinct clones from a metagenomic library of the printing and dyeing wastewater treatment system. Escherichia coli expressing tmt revealed 98.1% decolorization efficiency of triphenylmethane dye malachite green within 24 h under shaking culture condition. The tolerance to malachite green was improved over eightfold in the Tmt strain compared of the none-Tmt expressed strain. Similarly, the tolerance of Tmt strain to other triphenylmethane dyes like crystal violet and brilliant green, was improved by at least fourfold. Site-directed mutations, including A75G, A75S and V100G, were found to reinforce the tolerance of malachite green, and double mutations of these even further improve the tolerance. Therefore, the tmt has been demonstrated to be a specific efflux pump for triphenylmethane dyes, particularly the malachite green. By actively pumping out toxic triphenylmethane dyes, it significantly extends the cells tolerance in a triphenylmethane dye-rich environment, which may provide a promising strategy for bioremediation of triphenylmethane dye pollutants in the environments.
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Affiliation(s)
- Zhou Wang
- School of Life Science and Technology, Wuhan Polytechnic University, Wuhan, 430023, People's Republic of China
| | - Haoqiang Zhou
- School of Life Science and Technology, Wuhan Polytechnic University, Wuhan, 430023, People's Republic of China
| | - Yilan Cheng
- School of Life Science and Technology, Wuhan Polytechnic University, Wuhan, 430023, People's Republic of China
| | - Lijin An
- School of Life Science and Technology, Wuhan Polytechnic University, Wuhan, 430023, People's Republic of China
| | - Dazhong Yan
- School of Life Science and Technology, Wuhan Polytechnic University, Wuhan, 430023, People's Republic of China
| | - Hongjun Chao
- School of Life Science and Technology, Wuhan Polytechnic University, Wuhan, 430023, People's Republic of China
| | - Jing Wu
- School of Life Science and Technology, Wuhan Polytechnic University, Wuhan, 430023, People's Republic of China.
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Cunningham CJ, Peshkur TA, Kuyukina MS, Ivshina IB. Environmental Technology Verification (ETV): Challenges to Verifying the Performance of Bioremediation Technologies. RUSS J ECOL+ 2022. [DOI: 10.1134/s1067413622060030] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
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Naloka K, Polrit D, Muangchinda C, Thoetkiattikul H, Pinyakong O. Bioballs carrying a syntrophic Rhodococcus and Mycolicibacterium consortium for simultaneous sorption and biodegradation of fuel oil in contaminated freshwater. CHEMOSPHERE 2021; 282:130973. [PMID: 34091296 DOI: 10.1016/j.chemosphere.2021.130973] [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: 08/06/2020] [Revised: 04/14/2021] [Accepted: 05/22/2021] [Indexed: 06/12/2023]
Abstract
Nonpathogenic effective bacterial hydrocarbon degraders, Rhodococcus ruber S103, Mycolicibacterium parafortuitum J101 and Mycolicibacterium austroafricanum Y502, were isolated from mixed polycyclic aromatic hydrocarbon (PAH)-enriched river sediments. They possessed broad substrate specificities toward various PAHs and aliphatic compounds as sole carbon sources. These strains exhibited promising characteristics, including biosurfactant production, high cell hydrophobicity, biofilm formation and no antagonistic interactions, and contained genes encoding hydrocarbon-degrading enzymes. The mixed bacterial consortium combining S103, J101 and Y502, showed more effective syntrophic degradation of two types of refined petroleum products, diesel and fuel oils, than monocultures. The defined consortium immobilized on plastic balls achieved over 50% removal efficiency of high fuel oil concentration (3000 mg L-1) in a synthetic medium and contaminated freshwater. Furthermore, the immobilized cells simultaneously degraded more than 46% of total fuel oil adsorbed on plastic balls in both culture systems. SEM imaging confirmed that the immobilized consortium exhibited biofilm formation with the bacterial community covering most of the bioball surface, resulting in high bacterial survival against toxic contaminants. The results of this study showed the potential use of the cooperative interaction between Rhodococcus and Mycolicibacterium as immobilized bioballs for the bioremediation of fuel oil-contaminated environments. Additionally, this research has motivated further investigations into the development of bioremediation products for fuel oil degradation.
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Affiliation(s)
- Kallayanee Naloka
- Microbial Technology for Marine Pollution Treatment Research Unit, Department of Microbiology, Faculty of Science, Chulalongkorn University, Bangkok, 10330, Thailand
| | - Duangporn Polrit
- International Program in Hazardous Substance and Environmental Management, Graduate School, Chulalongkorn University, Bangkok, 10330, Thailand
| | - Chanokporn Muangchinda
- Microbial Technology for Marine Pollution Treatment Research Unit, Department of Microbiology, Faculty of Science, Chulalongkorn University, Bangkok, 10330, Thailand
| | - Honglada Thoetkiattikul
- Technology Management Center, National Science and Technology Development Agency, Pathum Thani, 12120, Thailand
| | - Onruthai Pinyakong
- Microbial Technology for Marine Pollution Treatment Research Unit, Department of Microbiology, Faculty of Science, Chulalongkorn University, Bangkok, 10330, Thailand; Research Program on Remediation Technologies for Petroleum Contamination, Center of Excellence on Hazardous Substance Management (HSM), Chulalongkorn University, Bangkok, 10330, Thailand.
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González-Benítez N, Bautista LF, Simarro R, Vargas C, Salmerón A, Murillo Y, Molina MC. Bacterial diversity in aqueous/sludge phases within diesel fuel storage tanks. World J Microbiol Biotechnol 2020; 36:180. [PMID: 33164118 DOI: 10.1007/s11274-020-02956-6] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2019] [Accepted: 10/27/2020] [Indexed: 10/23/2022]
Abstract
Diesel fuel storage tanks are not hostile environments for microorganisms and tend to form sludges in the water deposited at the bottom of the tanks. The lack of nutrient, carbon and energy limitations within these habitats boost the abundance and the metabolic activity of microorganisms providing microbial hotspots with high growing rates of diesel degradation (0.10 ± 0.021 d-1). Five different Phyla (Thermotogae, Spirochaetes, Firmicutes, Bacteroidetes Proteobacteria) were identified within the aqueous/sludge phase from in situ diesel storage tanks, by cultured independent molecular surveys using the 16S rDNA gene fragment. The identified dominant strains were Geotoga aestuarianus, Flavobacterium ceti, Spirochaeta thermophila, Propionispira arboris, Sporobacterium olearium and Dysgonomonas genera. The altitude where the storage tanks are located and the organic carbon concentration within the aqueous/sludge phases affected the bacterial diversity. Therefore, the more diverse the microbial communities are, the more probability of the presence of bacteria with capacity to metabolized diesel and eliminate organic matter. Despite, only phosphate showed an effect on the bacterial distribution within the storage tanks, there was an apparent lack of deterministic process in structuring microbial communities. Consequently, preventative protocols are a priority to avoid the microbial growth within diesel fuel storage tanks. A new focus of this worldwide problem within the oil industry would be to explore deeply the wide range of metabolic and adaptive capacities of these microorganisms. These microbial consortia are potential tools with new specific services to apply in bioremediation among others.
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Affiliation(s)
- Natalia González-Benítez
- Department of Biology, Geology, Physics and Inorganic Chemistry, ESCET, Universidad Rey Juan Carlos., 28933, Móstoles, Madrid, Spain.
| | - Luis Fernando Bautista
- Department of Chemical and Environmental Technology, ESCET, Universidad Rey Juan Carlos, 28933, Móstoles, Madrid, Spain
| | - Raquel Simarro
- Department of Biology, Geology, Physics and Inorganic Chemistry, ESCET, Universidad Rey Juan Carlos., 28933, Móstoles, Madrid, Spain
| | - Carolina Vargas
- Department of Chemical and Environmental Technology, ESCET, Universidad Rey Juan Carlos, 28933, Móstoles, Madrid, Spain
| | - Armando Salmerón
- Repsol Technology Centre, C/ Agustín de Betancourt, s/n., 28935, Móstoles, Madrid, Spain
| | - Yolanda Murillo
- Repsol Technology Centre, C/ Agustín de Betancourt, s/n., 28935, Móstoles, Madrid, Spain
| | - María Carmen Molina
- Department of Biology, Geology, Physics and Inorganic Chemistry, ESCET, Universidad Rey Juan Carlos., 28933, Móstoles, Madrid, Spain
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Cunningham CJ, Kuyukina MS, Ivshina IB, Konev AI, Peshkur TA, Knapp CW. Potential risks of antibiotic resistant bacteria and genes in bioremediation of petroleum hydrocarbon contaminated soils. ENVIRONMENTAL SCIENCE. PROCESSES & IMPACTS 2020; 22:1110-1124. [PMID: 32236187 DOI: 10.1039/c9em00606k] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Bioremediation represents a sustainable approach to remediating petroleum hydrocarbon contaminated soils. One aspect of sustainability includes the sourcing of nutrients used to stimulate hydrocarbon-degrading microbial populations. Organic nutrients such as animal manure and sewage sludge may be perceived as more sustainable than conventional inorganic fertilizers. However, organic nutrients often contain antibiotic residues and resistant bacteria (along with resistance genes and mobile genetic elements). This is further exacerbated since antibiotic resistant bacteria may become more abundant in contaminated soils due to co-selection pressures from pollutants such as metals and hydrocarbons. We review the issues surrounding bioremediation of petroleum-hydrocarbon contaminated soils, as an example, and consider the potential human-health risks from antibiotic resistant bacteria. While awareness is coming to light, the relationship between contaminated land and antibiotic resistance remains largely under-explored. The risk of horizontal gene transfer between soil microorganisms, commensal bacteria and/or human pathogens needs to be further elucidated, and the environmental triggers for gene transfer need to be better understood. Findings of antibiotic resistance from animal manures are emerging, but even fewer bioremediation studies using sewage sludge have made any reference to antibiotic resistance. Resistance mechanisms, including those to antibiotics, have been considered by some authors to be a positive trait associated with resilience in strains intended for bioremediation. Nevertheless, recognition of the potential risks associated with antibiotic resistant bacteria and genes in contaminated soils appears to be increasing and requires further investigation. Careful selection of bacterial candidates for bioremediation possessing minimal antibiotic resistance as well as pre-treatment of organic wastes to reduce selective pressures (e.g., antibiotic residues) are suggested to prevent environmental contamination with antibiotic-resistant bacteria and genes.
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Affiliation(s)
- Colin J Cunningham
- Department of Civil and Environmental Engineering, University of Strathclyde, Glasgow, UK
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Fareed A, Riaz S, Nawaz I, Iqbal M, Ahmed R, Hussain J, Hussain A, Rashid A, Naqvi TA. Immobilized cells of a novel bacterium increased the degradation of N-methylated carbamates under low temperature conditions. Heliyon 2019; 5:e02740. [PMID: 31768430 PMCID: PMC6872827 DOI: 10.1016/j.heliyon.2019.e02740] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2019] [Revised: 09/05/2019] [Accepted: 10/23/2019] [Indexed: 11/16/2022] Open
Abstract
Carbamates are synthetic pesticides, extensively used throughout the world due to their broad specificity against various insect pests. However, their enormous and inadequate use have made them a potential threat to the environment. At low temperature, degradation of carbamates becomes difficult mainly because of low biological activity. In the present study, we isolated a bacterial strain from a low temperature climate where the N-methylated carbamates are used for crop protection. The bacterium, was identified as Pseudomonas plecoglossicida strain (TA3) by 16S rRNA analysis. Degradation experiments with both free and immobilized cells in minimal salt medium indicated that the strain TA3 utilized carbaryl, carbofuran and aldicarb as both carbon and nitrogen source. TA3 can grow well at 4 °C and demonstrated the ability to degrade three carbamates (50 μgml-1) at low temperature. The immobilized cells were found more efficient than their free cells counter parts. Immobilized cells has ability to degrade 100% of carbamates at 30 °C while 80% at 4 °C but incase of their free cells counter parts the efficiency to degrade carbamates was less which was 60% at 4 °C and 80% at 30 °C. TA3 free cellsextract also depicted high activity against all the three carbamates even at 4 °C indicating a possible enzymatic mechanism of degradation.
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Affiliation(s)
- Anum Fareed
- Department of Biotechnology, COMSATS University Islamabad, Abbottabad Campus, Pakistan
| | - Sania Riaz
- Department of Biotechnology, COMSATS University Islamabad, Abbottabad Campus, Pakistan
| | - Ismat Nawaz
- Department of Biotechnology, COMSATS University Islamabad, Abbottabad Campus, Pakistan
| | - Mazhar Iqbal
- Department of Environmental Sciences, Quaid-i-Azam University, Islamabad, Pakistan
| | - Raza Ahmed
- Department of Biotechnology, COMSATS University Islamabad, Abbottabad Campus, Pakistan
| | - Jamshaid Hussain
- Department of Biotechnology, COMSATS University Islamabad, Abbottabad Campus, Pakistan
| | - Azhar Hussain
- Department of Agriculture and Food Technology, Karakoram International University, Gilgit-Baltistan, Pakistan
| | - Azhar Rashid
- Pakistan Atomic Energy Commission, Nuclear Institute for Food and Agriculture, Peshawar, Pakistan
| | - Tatheer Alam Naqvi
- Department of Biotechnology, COMSATS University Islamabad, Abbottabad Campus, Pakistan
- Corresponding author.
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Mangwani N, Kumari S, Das S. Taxonomy and Characterization of Biofilm Forming Polycyclic Aromatic Hydrocarbon Degrading Bacteria from Marine Environments. Polycycl Aromat Compd 2019. [DOI: 10.1080/10406638.2019.1666890] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
Affiliation(s)
- Neelam Mangwani
- Laboratory of Environmental Microbiology and Ecology (LEnME), Department of Life Science, National Institute of Technology, Rourkela, Odisha, India
| | - Supriya Kumari
- Laboratory of Environmental Microbiology and Ecology (LEnME), Department of Life Science, National Institute of Technology, Rourkela, Odisha, India
| | - Surajit Das
- Laboratory of Environmental Microbiology and Ecology (LEnME), Department of Life Science, National Institute of Technology, Rourkela, Odisha, India
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Qu W, Liu T, Wang D, Hong G, Zhao J. Metagenomics-Based Discovery of Malachite Green-Degradation Gene Families and Enzymes From Mangrove Sediment. Front Microbiol 2018; 9:2187. [PMID: 30258430 PMCID: PMC6143792 DOI: 10.3389/fmicb.2018.02187] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2018] [Accepted: 08/27/2018] [Indexed: 11/13/2022] Open
Abstract
Malachite green (MG) is an organic contaminant and the effluents with MG negatively influence the health and balance of the coastal and marine ecosystem. The diverse and abundant microbial communities inhabiting in mangroves participate actively in various ecological processes. Metagenomic sequencing from mangrove sediments was applied to excavate the resources MG-degradation genes (MDGs) and to assess the potential of their corresponding enzymes. A data set of 10 GB was assembled into 33,756 contigs and 44,743 ORFs were predicted. In the data set, 666 bacterial genera and 13 pollutant degradation pathways were found. Proteobacteria and Actinobacteria were the most dominate phyla in taxonomic assignment. A total of 44 putative MDGs were revealed and possibly derived from 30 bacterial genera, most of which belonged to the phyla of Proteobacteria and Bacteroidetes. The MDGs belonged to three gene families, including peroxidase genes (up to 93.54% of total MDGs), laccase (3.40%), and p450 (3.06%). Of the three gene families, three representatives (Mgv-rLACC, Mgv-rPOD, and Mgv-rCYP) which had lower similarities to the closest sequences in GenBank were prokaryotic expressed and their enzymes were characterized. Three recombinant proteins showed different MG-degrading activities. Mgv-rPOD had the strongest activity which decolorized 97.3% of MG (300 mg/L) within 40 min. In addition, Mgv-rPOD showed a more complete process of MG degradation compared with other two recombinant proteins according to the intermediates detected by LC-MS. Furthermore, the high MG-degrading activity was maintained at low temperature (20°C), wider pH range, and the existence of metal ions and chelating agent. Mgv-rLACC and Mgv-rCYP also removed 63.7% and 54.1% of MG (20 mg/L) within 24 h, respectively. The results could provide a broad insight into discovering abundant genetic resources and an effective strategy to access the eco-friendly way for preventing coastal pollution.
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Affiliation(s)
- Wu Qu
- School of Life Sciences, Xiamen University, Xiamen, China
| | - Tan Liu
- College of Ocean and Earth Sciences, Xiamen University, Xiamen, China
| | - Dexiang Wang
- College of Ocean and Earth Sciences, Xiamen University, Xiamen, China
| | - Guolin Hong
- The Department of Laboratory Medicine, The First Affiliated Hospital of Xiamen University, Xiamen, China
| | - Jing Zhao
- College of Ocean and Earth Sciences, Xiamen University, Xiamen, China
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Bacterial and fungal composition profiling of microbial based cleaning products. Food Chem Toxicol 2017; 116:25-31. [PMID: 29217269 DOI: 10.1016/j.fct.2017.12.006] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2017] [Revised: 12/01/2017] [Accepted: 12/02/2017] [Indexed: 12/20/2022]
Abstract
Microbial based cleaning products (MBCPs) are a new generation of cleaning products that are gaining greater use in household, institutional, and industrial settings. Little is known about the exact microbial composition of these products because they are not identified in detail on product labels and formulations are often proprietary. To gain a better understanding of their microbial and fungal composition towards risk assessment, the cultivable microorganisms and rDNA was surveyed for microbial content in five different MBCPs manufactured and sold in North America. Individual bacterial and fungal colonies were identified by ribosequencing and fatty acid methyl ester (FAME) gas chromatography. Metagenomic DNA (mDNA) corresponding to each of the products was subjected to amplification and short read sequencing of seven of the variable regions of the bacterial 16S ribosomal DNA. Taken together, the cultivable microorganism and rDNA survey analyses showed that three of the products were simple mixtures of Bacillus species. The two other products featured a mixture of cultivable fungi with Bacilli, and by rDNA survey analysis, they featured greater microbial complexity. This study improves our understanding of the microbial composition of several MBCPs towards a more comprehensive risk assessment.
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