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Wang K, Zhang J, Li M, Zhu S, Pan T. From Antagonism to Enhancement: Triton X-100 Surfactant Affects Phenanthrene Interfacial Biodegradation by Mycobacteria through a Shift in Uptake Mechanisms. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2024; 40:11106-11115. [PMID: 38745419 DOI: 10.1021/acs.langmuir.4c00655] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/16/2024]
Abstract
Polycyclic aromatic hydrocarbons (PAHs), as persistent environmental pollutants, often reside in nonaqueous-phase liquids (NAPLs). Mycobacterium sp. WY10, boasting highly hydrophobic surfaces, can adsorb to the oil-water interface, stabilizing the Pickering emulsion and directly accessing PAHs for biodegradation. We investigated the impact of Triton X-100 (TX100) on this interfacial uptake of phenanthrene (PHE) by Mycobacteria, using n-tetradecane (TET) and bis-(2-ethylhexyl) phthalate (DEHP) as NAPLs. Interfacial tension, phase behavior, and emulsion stability studies, alongside confocal laser scanning microscopy and electron microscope observations, unveiled the intricate interplay. In surfactant-free systems, Mycobacteria formed stable W/O Pickering emulsions, directly degrading PHE within the NAPLs because of their intimate contact. Introducing low-dose TX100 disrupted this relationship. Preferentially binding to the cells, the surfactant drastically increased the cell hydrophobicity, triggering desorption from the interface and phase separation. Consequently, PAH degradation plummeted due to hindered NAPL access. Higher TX100 concentrations flipped the script, creating surfactant-stabilized O/W emulsions devoid of interfacial cells. Surprisingly, PAH degradation remained efficient. This paradox can be attributed to NAPL emulsification, driven by the surfactant, which enhanced mass transfer and brought the substrate closer to the cells, despite their absence at the interface. This study sheds light on the complex effect of surfactants on Mycobacteria and PAH uptake, revealing an antagonistic effect at low concentrations that ultimately leads to enhanced degradation through emulsification at higher doses. These findings offer valuable insights into optimizing bioremediation strategies in PAH-contaminated environments.
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Affiliation(s)
- Kai Wang
- Jiangxi Provincial Key Laboratory of Environmental Pollution Prevention and Control in Mining and Metallurgy, and School of Resource and Environmental Engineering, Jiangxi University of Science and Technology, Ganzhou 341000, China
| | - Jiameng Zhang
- Jiangxi Provincial Key Laboratory of Environmental Pollution Prevention and Control in Mining and Metallurgy, and School of Resource and Environmental Engineering, Jiangxi University of Science and Technology, Ganzhou 341000, China
| | - Meishu Li
- School of Life Sciences, Jiangxi University of Science and Technology, Ganzhou 341000, China
| | - Shuting Zhu
- School of Life Sciences, Jiangxi University of Science and Technology, Ganzhou 341000, China
| | - Tao Pan
- Jiangxi Provincial Key Laboratory of Environmental Pollution Prevention and Control in Mining and Metallurgy, and School of Resource and Environmental Engineering, Jiangxi University of Science and Technology, Ganzhou 341000, China
- School of Life Sciences, Jiangxi University of Science and Technology, Ganzhou 341000, China
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2
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Dou Y, Zhou X, Liu X, Hou J. Exoproteome analysis of Pseudomonas aeruginosa response to high alkane stress. Arch Microbiol 2024; 206:51. [PMID: 38175208 DOI: 10.1007/s00203-023-03749-9] [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: 09/14/2023] [Revised: 11/15/2023] [Accepted: 11/15/2023] [Indexed: 01/05/2024]
Abstract
Microbial biodegradation serves as an effective approach to treat oil pollution. However, the application of such methods for the degrading long-chain alkanes still encounters significant challenges. Comparative proteomics has extensively studied the intracellular proteins of bacteria that degrade short- and medium-chain alkanes, but the role and mechanism of extracellular proteins in many microorganism remain unclear. To enhance our understanding of the roles of extracellular proteins in the adaptation to long-chain alkanes, a label-free LC-MS/MS strategy was applied for the relative quantification of extracellular proteins of Pseudomonas aeruginosa SJTD-1-M (ProteomeXchange identifier PXD014638). 444 alkane-sentitive proteins were acquired and their cell localization analysis was performed using the Pseudomonas Genome Database. Among them, 111 proteins were found to be located in extracellular or Outer Membrane Vesicles (OMVs). The alkane-induced abundance of 11 extracellular or OMV target proteins was confirmed by parallel reaction monitoring (PRM). Furthermore, we observed that the expression levels of three proteins (Pra, PA2815, and FliC) were associated with the carbon chain length of the added alkane in the culture medium. The roles of these proteins in cell mobility, alkane emulsification, assimilation, and degradation were further discussed. OMVs were found to contain a number of enzymes involved in alkane metabolism, fatty acid beta-oxidation, and the TCA cycle, suggesting their potential as sites for facilitated alkane degradation. In this sense, this exoproteome analysis contributes to a better understanding of the role of extracellular proteins in the hydrocarbon treatment process.
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Affiliation(s)
- Yue Dou
- School of Pharmacy, Shanghai Jiao Tong University, 800 Dong-Chuan Road, Shanghai, 200240, China
| | - Xuefeng Zhou
- School of Life Science and Biotechnology, Shanghai Jiao Tong University, 800 Dong-Chuan Road, Shanghai, 200240, China
- State Key Laboratory of Microbial Metabolism, Shanghai Jiao Tong University, 800 Dong-Chuan Road, Shanghai, 200240, China
| | - Xipeng Liu
- School of Life Science and Biotechnology, Shanghai Jiao Tong University, 800 Dong-Chuan Road, Shanghai, 200240, China
- State Key Laboratory of Microbial Metabolism, Shanghai Jiao Tong University, 800 Dong-Chuan Road, Shanghai, 200240, China
| | - Jingli Hou
- Instrumental Analysis Center of Shanghai Jiao Tong University, 800 Dong-Chuan Road, Shanghai, 200240, China.
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Qin W, Zheng C, Yang J, Hong M, Song Y, Ma J. Long-term performance and biofilms of the novel nano manganese dioxide coupling carbon source pre-loaded biological activated carbon filters for drinking water. ENVIRONMENTAL RESEARCH 2024; 240:117436. [PMID: 37865322 DOI: 10.1016/j.envres.2023.117436] [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: 07/14/2023] [Revised: 10/09/2023] [Accepted: 10/16/2023] [Indexed: 10/23/2023]
Abstract
In order to accelerate the start-up of biological activated carbon (BAC) filters and enhance ammonium (NH4+-N) removal performance, three substrates (sucrose and/or nano manganese dioxide (nMnO2)) pre-loaded BAC filters were set up to investigate the pollutants removals and microbiological characteristics for a long-term operation of 197 days. The average NH4+-N removal performance treated by the sucrose coupled with nMnO2 loaded BAC filter was the highest (71.18 %), which was 3.83 times of that by the control filter (18.58 %). 29 % of NH4+-N treated by the sucrose coupled with nMnO2 loaded BAC removed through the traditional nitrification and denitrification, or simultaneous nitrification and denitrification (SND) pathways according to the calculation of the alkalinity consumption (6.12 mmol/L). There was no leakage of carbon source and Mn, and no accumulation of nitrite from the substrates loaded BAC. The dominant bacteria in the sucrose coupled with nMnO2 loaded BAC were Dechloromona (accounting for 8.02% of the total bacterial) and Acidaminobacter (accounting for 15.16% of total bacterial) on the Day 180, which had the capacity of nitrification or denitrification. NH4+-N and micropollutants removals treated by the combined process of peracetic acid (PAA) pre-oxidation and substrates loaded BAC were significant due to the generation of assimilable organic carbon (AOC) (5.98 ± 1.93 μg-C/mL) by PAA (100 μM)/Fe2+ pre-oxidation and the higher biomass ((4.57 ± 3.07) × 107 cells/g DW BAC) in the sucrose coupled with nMnO2 loaded BAC filter. Therefore, nMnO2 coupling carbon source pre-loading strategy could not only enhance initial colonization, but also promote pollutants removals for long-term operation.
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Affiliation(s)
- Wen Qin
- School of Civil and Transportation Engineering, Guangdong University of Technology, Guangzhou, 510006, PR China.
| | - Chengyuan Zheng
- School of Civil and Transportation Engineering, Guangdong University of Technology, Guangzhou, 510006, PR China.
| | - Jingru Yang
- School of Civil and Transportation Engineering, Guangdong University of Technology, Guangzhou, 510006, PR China.
| | - Miaoqing Hong
- School of Civil and Transportation Engineering, Guangdong University of Technology, Guangzhou, 510006, PR China.
| | - Yang Song
- School of Civil and Transportation Engineering, Guangdong University of Technology, Guangzhou, 510006, PR China.
| | - Jun Ma
- State Key Laboratory of Urban Water Resource and Environment, School of Environment, Harbin Institute of Technology, Harbin, 150090, PR China.
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Bajelani S, Enayatizamir N, Agha ABA, Sharifi R. Potential of some microbial isolates on diesel hydrocarbons removal, bio surfactant production and biofilm formation. JOURNAL OF ENVIRONMENTAL HEALTH SCIENCE & ENGINEERING 2023; 21:417-428. [PMID: 37869592 PMCID: PMC10584761 DOI: 10.1007/s40201-023-00868-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/17/2022] [Accepted: 06/17/2023] [Indexed: 10/24/2023]
Abstract
Potential of Arthrobacter citreus B27Pet, Bacillus thuringiensis B48Pet and Candida catnulata to produce biosurfactant using four different carbon sources (naphthalene, hexadecane, diesel and petroleum crude oil) was investigated. Removal of petroleum crude oil from aqueous culture and degradation of diesel were also determined using single and mixed culture of strains. The biofilm existence in single and mixed culture of strains was considered using naphthalene, hexadecane and diesel in culture medium. Cell surface hydrophobicity of A. citreus was higher than other isolates which also showed maximum surface tension reduction and emulsification index. As a whole, remarkable biosurfactant production occurred using petroleum crude oil as a carbon source in medium. A. citreus was found to be more robust than other tested strains in removal efficiency of crude oil due to its biosurfactant production capability. Statistically significant positive correlation was observed between biofilm existence and surface tension using diesel and hexadecane as carbon source. Overall diesel biodegradation efficiency by the mix culture of three applied strains was about 75% within a short period of time (10 days) which was accompanied with high biofilm production.
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Affiliation(s)
- Sara Bajelani
- Department of Soil Science and Engineering, Faculty of Agriculture, Shahid Chamran University of Ahvaz, Ahvaz, Iran
| | - Naeimeh Enayatizamir
- Department of Soil Science and Engineering, Faculty of Agriculture, Shahid Chamran University of Ahvaz, Ahvaz, Iran
| | - Ali Beheshti Ale Agha
- Department of Soil Science, Faculty of Agriculture, Razi University, Kermanshah, Iran
| | - Rouhallah Sharifi
- Department of Plant Protection, Faculty of Agriculture, Razi University, Kermanshah, Iran
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5
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Ehiosun KI, Godin S, Vargas V, Preud'homme H, Grimaud R, Lobinski R. Biodegradation of saturate fraction of crude oil and production of signature carboxylic acids. CHEMOSPHERE 2023; 339:139773. [PMID: 37567266 DOI: 10.1016/j.chemosphere.2023.139773] [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: 04/01/2023] [Revised: 07/18/2023] [Accepted: 08/08/2023] [Indexed: 08/13/2023]
Abstract
Bacteria degrading large portion of saturated hydrocarbons are important for crude oil bioremediation. This study investigates Novosphingobium sp. S1, Gordonia amicalis S2 and Gordonia terrae S5 capability of degrading wide range of saturated hydrocarbons from Congo Bilondo crude oil and discusses the degradation pathway. A parallel analytical approach combining GC-MS and LC-HRMS enabled characterization of saturated hydrocarbons and comprehensive determination of carboxylic acid metabolites produced during biodegradation, respectively. Results showed that the three strains could efficiently degrade the n-alkanes (C10-C28) as well as methyl-substituted alkanes (C11-C26). The series of mono-, hydroxy- and dicarboxylic acids identified in this study confirmed the active biodegradation of the saturate fraction and suggest their degradation was via the bi-terminal oxidation pathway. This is the first study linking these bacterial species to bi-terminal oxidation of the saturated hydrocarbons. The study highlights the potential application of the bacterial strains in the bioremediation of crude oil contaminated sites. Additionally, while carboxylic acids is indicated as a suitable and valuable metabolic biomarker, its application is considered feasible and cost effective for rapid monitoring and evaluation of hydrocarbon biodegradation.
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Affiliation(s)
- Kevin Iyere Ehiosun
- Université de Pau et des Pays de l'Adour, E2S UPPA, CNRS, IPREM, Pau, France; Department of Biochemistry, Edo State University Uzairue, Edo State, Nigeria.
| | - Simon Godin
- Université de Pau et des Pays de l'Adour, E2S UPPA, CNRS, IPREM, Pau, France
| | - Vicmary Vargas
- Université de Pau et des Pays de l'Adour, E2S UPPA, CNRS, IPREM, Pau, France
| | - Hugues Preud'homme
- Université de Pau et des Pays de l'Adour, E2S UPPA, CNRS, IPREM, Pau, France
| | - Régis Grimaud
- Université de Pau et des Pays de l'Adour, E2S UPPA, CNRS, IPREM, Pau, France
| | - Ryszard Lobinski
- Université de Pau et des Pays de l'Adour, E2S UPPA, CNRS, IPREM, Pau, France
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6
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Conde Molina D, Liporace F, Quevedo CV. Bioremediation of an industrial soil contaminated by hydrocarbons in microcosm system, involving bioprocesses utilizing co-products and agro-industrial wastes. World J Microbiol Biotechnol 2023; 39:323. [PMID: 37773232 DOI: 10.1007/s11274-023-03766-2] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2023] [Accepted: 09/15/2023] [Indexed: 10/01/2023]
Abstract
The present study describes practical implication of bioaugmentation and biostimulation processes for bioremediation of an industrial soil chronically contaminated by hydrocarbons. For this purpose, biomass production of six autochthonous hydrocarbon-degrading bacteria were evaluated as inoculum of bioaugmentation strategy, by testing carbon and nitrogen sources included co-products and agro-industrial waste as sustainable and low-cost components of the growth medium. Otherwise, biostimulation was approached by the addition of optimized concentration of nitrogen and phosphorus. Microcosm assays showed that total hydrocarbons (TH) were significantly removed from chronically contaminated soil undergoing bioremediation treatment. Systems Mix (bioaugmentation); N,P (biostimulation) and Mix + N,P (bioaugmentation and biostimulation) reached higher TH removal, being 89.85%, 91.00%, 93.04%, respectively, comparing to 77.83% of system C (natural attenuation) at 90 days. The increased heterotrophic aerobic bacteria and hydrocarbon degrading bacteria counts were according to TH biodegrading process during the experiments. Our results showed that biostimulation with nutrients represent a valuable alternative tool to treat a chronically hydrocarbon-contaminated industrial soil, while bioaugmentation with a consortium of hydrocarbon degrading bacteria would be justified when the soil has a low amount of endogenous degrading microorganisms. Furthermore, the production of inoculum for application in bioaugmentation using low-cost substrates, such as industrial waste, would lead to the development of an environmentally friendly and attractive process in terms of cost-benefit.
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Affiliation(s)
- Debora Conde Molina
- Grupo de Biotecnología y Nanotecnología Aplicada, Facultad Regional Delta, Universidad Tecnológica Nacional, San Martín 1171, Campana, 2804, Buenos Aires, Argentina.
| | - Franco Liporace
- Grupo de Biotecnología y Nanotecnología Aplicada, Facultad Regional Delta, Universidad Tecnológica Nacional, San Martín 1171, Campana, 2804, Buenos Aires, Argentina
| | - Carla V Quevedo
- Grupo de Biotecnología y Nanotecnología Aplicada, Facultad Regional Delta, Universidad Tecnológica Nacional, San Martín 1171, Campana, 2804, Buenos Aires, Argentina
- Consejo de Investigaciones Científicas y Técnicas (CONICET), CABA (C1425FQB), 2290, Godoy Cruz, Argentina
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7
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Deng Y, Mou T, Wang J, Su J, Yan Y, Zhang YQ. Characterization of three rapidly growing novel Mycobacterium species with significant polycyclic aromatic hydrocarbon bioremediation potential. Front Microbiol 2023; 14:1225746. [PMID: 37744919 PMCID: PMC10517868 DOI: 10.3389/fmicb.2023.1225746] [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: 05/30/2023] [Accepted: 08/28/2023] [Indexed: 09/26/2023] Open
Abstract
Mycobacterium species exhibit high bioremediation potential for the degradation of polycyclic aromatic hydrocarbons (PAHs) that are significant environmental pollutants. In this study, three Gram-positive, rapidly growing strains (YC-RL4T, MB418T, and HX176T) were isolated from petroleum-contaminated soils and were classified as Mycobacterium within the family Mycobacteriaceae. Genomic average nucleotide identity (ANI; < 95%) and digital DNA-DNA hybridization (dDDH; < 70%) values relative to other Mycobacterium spp. indicated that the strains represented novel species. The morphological, physiological, and chemotaxonomic characteristics of the isolates also supported their affiliation with Mycobacterium and their delineation as novel species. The strains were identified as Mycobacterium adipatum sp. nov. (type strain YC-RL4T = CPCC 205684T = CGMCC 1.62027T), Mycobacterium deserti sp. nov. (type strain MB418T = CPCC 205710T = KCTC 49782T), and Mycobacterium hippophais sp. nov. (type strain HX176T = CPCC 205372T = KCTC 49413T). Genes encoding enzymes involved in PAH degradation and metal resistance were present in the genomes of all three strains. Specifically, genes encoding alpha subunits of aromatic ring-hydroxylating dioxygenases were encoded by the genomes. The genes were also identified as core genes in a pangenomic analysis of the three strains along with 70 phylogenetically related mycobacterial strains that were previously classified as Mycolicibacterium. Notably, strain YC-RL4T could not only utilize phthalates as their sole carbon source for growth, but also convert di-(2-ethylhexyl) phthalate into phthalic acid. These results indicated that strains YC-RL4T, MB418T, and HX176T were important resources with significant bioremediation potential in soils contaminated by PAHs and heavy metals.
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Affiliation(s)
- Yang Deng
- Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
- State Key Laboratory of Dao-di Herbs, Beijing, China
| | - Tong Mou
- Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
- State Key Laboratory of Dao-di Herbs, Beijing, China
| | - Junhuan Wang
- Graduate School of Chinese Academy of Agricultural Sciences, Beijing, China
| | - Jing Su
- Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
| | - Yanchun Yan
- Graduate School of Chinese Academy of Agricultural Sciences, Beijing, China
| | - Yu-Qin Zhang
- Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, China
- State Key Laboratory of Dao-di Herbs, Beijing, China
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Valizadeh S, Enayatizamir N, Ghomsheh HN, Motamedi H, Moghadam BK. Characterization of the biosurfactant production and enzymatic potential of bacteria isolated from an oil-contaminated saline soil. INTERNATIONAL MICROBIOLOGY : THE OFFICIAL JOURNAL OF THE SPANISH SOCIETY FOR MICROBIOLOGY 2023:10.1007/s10123-022-00318-w. [PMID: 36680696 DOI: 10.1007/s10123-022-00318-w] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/16/2022] [Revised: 12/16/2022] [Accepted: 12/29/2022] [Indexed: 01/22/2023]
Abstract
Biosurfactants are amphiphilic compounds with extensive applications in oily contaminated environments to remove hydrocarbons. Moreover, enzymes such as laccase and manganese peroxidase are responsible for the oxidation of a variety of phenolic compounds and aromatic amines. Therefore, in the present study, bacteria with the potential to produce biosurfactants and enzymes (namely, laccase, manganese peroxidase, and endoglucanase carboxymethyl cellulose (CMCase)) were isolated from petroleum oil-contaminated soil. From 15 isolated bacteria, three isolates were selected as the best producers of biosurfactants according to the related tests, such as tests for surface tension reduction. These three bacteria indicated tolerance to a salinity test and were classified as resistant and very resistant. The isolates 3, 12, 13, and 14 showed positive results for the degradation of guaiacol, phenol red, and carboxymethylcellulose, as well as the decoloration of methylene blue by the creation of a clear halo around the bacterial colony. Upon the quantitation of the laccase and manganese peroxidase activities, 22.58 U/L and 21.81 U/L, respectively, were measured by isolate 13. Furthermore, CMCase activity was recorded with 0.057436 U/ml belonging to isolate 14. Bacterial strains with appreciable laccase, peroxidase, CMCase activity, and biosurfactant production potentials were identified through 16S rDNA sequence analysis as Bacillus sp. (isolate 3), Bacillus toyonensis (isolate 12), Bacillus cereus (isolate 13), and Bacillus tropicus (isolate 14), and their nucleotide sequences were deposited in the GenBank. The potentials for the industrial applicability of the biosurfactants and enzymes abound, and production needs to be optimized by the selected bacterial strains.
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Affiliation(s)
- Sara Valizadeh
- Department of Soil Science, Agricultural Sciences and Natural Resources University of Khuzestan, Mollasani, Iran
| | - Naeimeh Enayatizamir
- Department of Soil Science, Faculty of Agriculture, Shahid Chamran University of Ahvaz, Ahvaz, Iran.
| | - Habibolah Nadian Ghomsheh
- Department of Soil Science, Agricultural Sciences and Natural Resources University of Khuzestan, Mollasani, Iran
| | - Hossein Motamedi
- Department of Biology, Faculty of Science, Shahid Chamran University of Ahvaz, Ahvaz, Iran.,Biotechnology and Biological Science Research Center, Shahid Chamran University of Ahvaz, Ahvaz, Iran
| | - Bijan Khalili Moghadam
- Department of Soil Science, Agricultural Sciences and Natural Resources University of Khuzestan, Mollasani, Iran
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9
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Zhang H, Zhang SS, Zhang W, Zhu L, Li YP, Pan Y. Biomineralization and AHLs-guided quorum sensing enhanced phosphorus recovery in the alternating aerobic/anaerobic biofilm system under metal ion stress. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2023; 325:116583. [PMID: 36308955 DOI: 10.1016/j.jenvman.2022.116583] [Citation(s) in RCA: 6] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/09/2022] [Revised: 10/07/2022] [Accepted: 10/18/2022] [Indexed: 06/16/2023]
Abstract
The alternating aerobic/anaerobic biofilm system had been applied for phosphorus (P) enrichment and recovery because of the advantage of low energy consumption and high efficiency. The metal ions and N-acyl-L-homoserine lactones (AHLs) in system were studied to better clarify the mechanism of P uptake/release under metal ion stress. The results indicated that the increase of metal ions stimulated the release of AHLs, and AHLs-guided quorum sensing (QS) enhanced P uptake. Moreover, biomineralization could stimulate the increase of P content in biofilm (Pbiofilm). Meanwhile, some ortho-p was converted to short-chain poly-p in extracellular polymer substance (EPS), and others were transferred into cell through EPS to synthesize poly-p. With the Pbiofilm increased, more P could be absorbed/released due to the shift in the metabolic model of polyphosphate accumulating organisms (PAOs). The release of AHLs between microorganisms was also inhibited when PAOs reached the state of P saturation (75.6 ± 2.5 mg/g SS), which meant that the effect of signaling function would tend to stabilize, and the 169.2 ± 2.6 mg/L P concentration in the enriched solution was obtained due to the P release was inhibited. Moreover, P was rapidly transferred to the new enriched solution after the P was recovered, and PAOs restored its capability of P uptake/release. In addition, 31P-NMR analysis demonstrated that EPS played a major role in PAOs compared to cell, and inorganic phosphorus (IP) played an essential role in the uptake/release of P compared to organic phosphorus (OP). Furthermore, the microbiological analysis showed that Candidatus Accumulibacter was positively correlated with AHLs (P < 0.05). This study provided essential support for clarifying the P metabolism mechanism of PAOs.
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Affiliation(s)
- Hao Zhang
- Key Laboratory of Integrated Regulation and Resources Development on Shallow Lakes, Ministry of Education, Hohai University, Nanjing, 210098, China; College of Environment, Hohai University, Nanjing, 210098, China
| | | | - Wei Zhang
- Key Laboratory of Integrated Regulation and Resources Development on Shallow Lakes, Ministry of Education, Hohai University, Nanjing, 210098, China; College of Environment, Hohai University, Nanjing, 210098, China
| | - Liang Zhu
- Key Laboratory of Integrated Regulation and Resources Development on Shallow Lakes, Ministry of Education, Hohai University, Nanjing, 210098, China; College of Environment, Hohai University, Nanjing, 210098, China.
| | - Yi-Ping Li
- Key Laboratory of Integrated Regulation and Resources Development on Shallow Lakes, Ministry of Education, Hohai University, Nanjing, 210098, China; College of Environment, Hohai University, Nanjing, 210098, China.
| | - Yang Pan
- School of Environmental Science and Engineering, Suzhou University of Scienceand Technology, Suzhou, 215009, China
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10
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Adhesion of Rhodococcus bacteria to solid hydrocarbons and enhanced biodegradation of these compounds. Sci Rep 2022; 12:21559. [PMID: 36513758 PMCID: PMC9748138 DOI: 10.1038/s41598-022-26173-3] [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: 06/25/2022] [Accepted: 12/12/2022] [Indexed: 12/15/2022] Open
Abstract
Adhesive activities of hydrocarbon-oxidizing Rhodococcus bacteria towards solid hydrocarbons, effects of adhesion on biodegradation of these compounds by rhodococcal cells and adhesion mechanisms of Rhodococcus spp. were studied in this work. It was shown that efficiency of Rhodococcus cells' adhesion to solid n-alkanes and polycyclic aromatic hydrocarbons (PAHs) varied from 0.0 to 10.6·106 CFU/cm2. R. erythropolis IEGM 212 and R. opacus IEGM 262 demonstrated the highest (≥ 4.3·106 CFU/cm2) adhesion. The percentage biodegradation of solid hydrocarbons (n-hexacosane and anthracene as model substrates) by Rhodococcus cells was 5 to 60% at a hydrocarbon concentration of 0.2% (w/w) after 9 days and strongly depended on cell adhesive activities towards these compounds (r ≥ 0.71, p < 0.05). No strict correlation between the adhesive activities of rhodococcal cells and physicochemical properties of bacteria and hydrocarbons was detected. Roughness of the cell surface was a definitive factor of Rhodococcus cell adhesion to solid hydrocarbons. Specific appendages with high adhesion force (≥ 0.6 nN) and elastic modulus (≥ 6 MPa) were found on the surface of Rhodococcus cells with high surface roughness. We hypothesized that these appendages participated in the adhesion process.
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11
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Guergouri I, Guergouri M, Khouni S, Benhizia Y. Identification of cultivable bacterial strains producing biosurfactants/bioemulsifiers isolated from an Algerian oil refinery. Arch Microbiol 2022; 204:649. [PMID: 36171503 DOI: 10.1007/s00203-022-03265-2] [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: 07/29/2022] [Revised: 09/15/2022] [Accepted: 09/19/2022] [Indexed: 11/02/2022]
Abstract
Algerian petrochemical industrial areas are usually running spills and leakages of hydrocarbons, which constitutes a major source of toxic compounds in soil such as aromatic hydrocarbons. In this paper, samples of crude oil-polluted soil were collected from Skikda's oil refinery and were subjected to mono and polyaromatic hydrocarbons threshold assessment. Soil physicochemical parameters were determined for each sample to examine their response to pollution. Amid 34 isolated bacteria, eleven strains were selected as best Biosurfactants (Bs)/Bioemulsifiers (Be) producers and were assigned to Firmicutes and Proteobacteria phyla based on molecular identification. Phylogenetic analysis of partial 16S rDNA gene sequences allowed the construction of evolutionary trees by means of the maximum likelihood method. Accordingly, strains were similar to Bacillus spp., Priesta spp., Pseudomonas spp., Enterobacter spp. and Kosakonia spp. with more than 95% similarity. These strains could be qualified candidates for an efficient bioremediation process of severally polluted soils.
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Affiliation(s)
- Ibtissem Guergouri
- Laboratory of Molecular and Cellular Biology, Department of Microbiology, Faculty of Nature and Life Sciences, Mentouri Brothers Constantine 1 University, Constantine, Algeria.
| | - Mounia Guergouri
- Laboratory of Materials Chemistry, Faculty of Exact Sciences, Department of Chemistry, Mentouri Brothers Constantine 1 University, Constantine, Algeria
| | - Sabra Khouni
- Laboratory of Molecular and Cellular Biology, Department of Microbiology, Faculty of Nature and Life Sciences, Mentouri Brothers Constantine 1 University, Constantine, Algeria
| | - Yacine Benhizia
- Laboratory of Molecular and Cellular Biology, Department of Microbiology, Faculty of Nature and Life Sciences, Mentouri Brothers Constantine 1 University, Constantine, Algeria
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12
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Wei YF, Wang L, Xia ZY, Gou M, Sun ZY, Lv WF, Tang YQ. Microbial communities in crude oil phase and filter-graded aqueous phase from a Daqing oilfield after polymer flooding. J Appl Microbiol 2022; 133:842-856. [PMID: 35490352 DOI: 10.1111/jam.15603] [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: 02/08/2022] [Revised: 04/23/2022] [Accepted: 04/27/2022] [Indexed: 12/01/2022]
Abstract
AIMS The aim was to characterize indigenous microorganisms in oil reservoirs after polymer flooding (RAPF). METHODS The microbial communities in the crude oil phase (Oil) and in the filter-graded aqueous phases Aqu0.22 (>0.22 μm) and Aqu0.1 (0.1~0.22 μm) were investigated by 16S rRNA gene high-throughput sequencing. RESULTS Indigenous microorganisms related to hydrocarbon degradation prevailed in the three phases of each well. However, obvious differences of bacterial compositions were observed among the three phases of the same well and among the same phase of different wells. The crude oil and Aqu0.22 shared many dominant bacteria. Aqu0.1 contained a unique bacterial community in each well. Most bacteria in Aqu0.1 were affiliated to culturable genera, suggesting that they may adapt to the oil reservoir environment by reduction of cell size. Contrary to the bacterial genera, archaeal genera were similar in the three phases but varied in relative abundances. The observed microbial differences may be driven by specific environmental factors in each oil well. CONCLUSIONS The results suggest an application potential of microbial enhanced oil recovery (MEOR) technology in RAPF. The crude oil and Aqu0.1 contain many different functional microorganisms related to hydrocarbon degradation. Both should not be overlooked when investing and exploring the indigenous microorganisms for MEOR. SIGNIFICANCE AND IMPACT OF THE STUDY This work facilitates the understanding of microbial community structures in RAPF and provides information for microbial control in oil fields.
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Affiliation(s)
- Yan-Feng Wei
- College of Architecture and Environment, Sichuan University, No. 24, South Section 1, First Ring Road, Chengdu, Sichuan 610065, China
| | - Lu Wang
- State Key Laboratory of Enhanced Oil Recovery, Research Institute of Petroleum Exploration and Development, CNPC, Beijing 100083, China
| | - Zi-Yuan Xia
- College of Architecture and Environment, Sichuan University, No. 24, South Section 1, First Ring Road, Chengdu, Sichuan 610065, China
| | - Min Gou
- College of Architecture and Environment, Sichuan University, No. 24, South Section 1, First Ring Road, Chengdu, Sichuan 610065, China
| | - Zhao-Yong Sun
- College of Architecture and Environment, Sichuan University, No. 24, South Section 1, First Ring Road, Chengdu, Sichuan 610065, China
| | - Wei-Feng Lv
- State Key Laboratory of Enhanced Oil Recovery, Research Institute of Petroleum Exploration and Development, CNPC, Beijing 100083, China
| | - Yue-Qin Tang
- College of Architecture and Environment, Sichuan University, No. 24, South Section 1, First Ring Road, Chengdu, Sichuan 610065, China
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13
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Zhang H, Zhang SS, Zhu L, Li YP, Chen L. Phosphorus recovery in the alternating aerobic/anaerobic biofilm system: Performance and mechanism. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 810:152297. [PMID: 34896486 DOI: 10.1016/j.scitotenv.2021.152297] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/22/2021] [Revised: 11/17/2021] [Accepted: 12/06/2021] [Indexed: 06/14/2023]
Abstract
To balance the high phosphorus concentration in recirculated solution and the stability of biofilm system, this study explored the performance and mechanism of phosphorus uptake/release for recovering phosphorus from sewage when the phosphorus content in biofilm (Pbiofilm) changed. The results showed that the maximum phosphorus concentration in the concentrated solution reached 171.2 ± 2.5 mg·L-1 in harvest 1st-5th stages. Polyphosphate accumulating organisms (PAOs) performed a metabolic shift from glycogen accumulation metabolism (GAM) to polyphosphate accumulation metabolism (PAM) when Pbiofilm increased at each phosphorus enrichment stage, and more phosphorus was absorbed/released by PAOs. Nevertheless, the release of poly-phosphate from PAOs was inhibited after phosphorus concentration stabilized, and PAOs were unable to absorb phosphorus from wastewater as it reached the phosphorus saturation stage. To maintain the stability of the system, phosphorus had to be harvested so that the saturated phosphorus in PAOs was easily released in a new recirculated solution, resulting in adequate storage space for PAOs to absorb phosphorus. Meanwhile, the 31P NMR analysis demonstrated that phosphorus was stored in EPS and cell of PAOs, whereas EPS played a significant role than cell at the anaerobic phase. Particularly, ortho-phosphate was the major component of phosphorus release by EPS and poly-phosphate was the major part of phosphorus release by cell. Furthermore, the change of Pbiofilm had no impact on biofilm characteristics and microbial communities, whereas some PAOs would be enriched, and others that were not suitable for this process would be inhibited with repeated cycles of alternating aerobic/anaerobic operation.
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Affiliation(s)
- Hao Zhang
- Key Laboratory of Integrated Regulation and Resources Development on Shallow Lakes, Ministry of Education, Hohai University, Nanjing 210098, China; College of Environment, Hohai University, Nanjing 210098, China
| | | | - Liang Zhu
- Key Laboratory of Integrated Regulation and Resources Development on Shallow Lakes, Ministry of Education, Hohai University, Nanjing 210098, China; College of Environment, Hohai University, Nanjing 210098, China.
| | - Yi-Ping Li
- Key Laboratory of Integrated Regulation and Resources Development on Shallow Lakes, Ministry of Education, Hohai University, Nanjing 210098, China; College of Environment, Hohai University, Nanjing 210098, China.
| | - Lin Chen
- Key Laboratory of Integrated Regulation and Resources Development on Shallow Lakes, Ministry of Education, Hohai University, Nanjing 210098, China; College of Environment, Hohai University, Nanjing 210098, China
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14
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Péquin B, Cai Q, Lee K, Greer CW. Natural attenuation of oil in marine environments: A review. MARINE POLLUTION BULLETIN 2022; 176:113464. [PMID: 35231783 DOI: 10.1016/j.marpolbul.2022.113464] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/30/2021] [Revised: 01/31/2022] [Accepted: 02/11/2022] [Indexed: 06/14/2023]
Abstract
Natural attenuation is an important process for oil spill management in marine environments. Natural attenuation affects the fate of oil by physical, chemical, and biological processes, which include evaporation, dispersion, dissolution, photo-oxidation, emulsification, oil particle aggregation, and biodegradation. This review examines the cumulative knowledge regarding these natural attenuation processes as well as their simulation and prediction using modelling approaches. An in-depth discussion is provided on how oil type, microbial community and environmental factors contribute to the biodegradation process. It describes how our understanding of the structure and function of indigenous oil degrading microbial communities in the marine environment has been advanced by the application of next generation sequencing tools. The synergetic and/or antagonist effects of oil spill countermeasures such as the application of chemical dispersants, in-situ burning and nutrient enrichment on natural attenuation were explored. Several knowledge gaps were identified regarding the synergetic and/or antagonistic effects of active response countermeasures on the natural attenuation/biodegradation process. This review highlighted the need for field data on both the effectiveness and potential detrimental effects of oil spill response options to support modelling and decision-making on their selection and application.
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Affiliation(s)
- Bérangère Péquin
- McGill University, Department of Natural Resource Sciences, Ste-Anne-de-Bellevue, Quebec, Canada.
| | - Qinhong Cai
- McGill University, Department of Natural Resource Sciences, Ste-Anne-de-Bellevue, Quebec, Canada
| | - Kenneth Lee
- Ecosystem Science, Fisheries and Oceans Canada, Ottawa, Ontario, Canada
| | - Charles W Greer
- McGill University, Department of Natural Resource Sciences, Ste-Anne-de-Bellevue, Quebec, Canada; Energy, Mining and Environment Research Centre, National Research Council Canada, Montreal, Quebec, Canada
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15
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Wong GCL, Antani JD, Lele PP, Chen J, Nan B, Kühn MJ, Persat A, Bru JL, Høyland-Kroghsbo NM, Siryaporn A, Conrad JC, Carrara F, Yawata Y, Stocker R, V Brun Y, Whitfield GB, Lee CK, de Anda J, Schmidt WC, Golestanian R, O'Toole GA, Floyd KA, Yildiz FH, Yang S, Jin F, Toyofuku M, Eberl L, Nomura N, Zacharoff LA, El-Naggar MY, Yalcin SE, Malvankar NS, Rojas-Andrade MD, Hochbaum AI, Yan J, Stone HA, Wingreen NS, Bassler BL, Wu Y, Xu H, Drescher K, Dunkel J. Roadmap on emerging concepts in the physical biology of bacterial biofilms: from surface sensing to community formation. Phys Biol 2021; 18. [PMID: 33462162 PMCID: PMC8506656 DOI: 10.1088/1478-3975/abdc0e] [Citation(s) in RCA: 29] [Impact Index Per Article: 9.7] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2020] [Accepted: 01/14/2021] [Indexed: 11/29/2022]
Abstract
Bacterial biofilms are communities of bacteria that exist as aggregates that can adhere to surfaces or be free-standing. This complex, social mode of cellular organization is fundamental to the physiology of microbes and often exhibits surprising behavior. Bacterial biofilms are more than the sum of their parts: single-cell behavior has a complex relation to collective community behavior, in a manner perhaps cognate to the complex relation between atomic physics and condensed matter physics. Biofilm microbiology is a relatively young field by biology standards, but it has already attracted intense attention from physicists. Sometimes, this attention takes the form of seeing biofilms as inspiration for new physics. In this roadmap, we highlight the work of those who have taken the opposite strategy: we highlight the work of physicists and physical scientists who use physics to engage fundamental concepts in bacterial biofilm microbiology, including adhesion, sensing, motility, signaling, memory, energy flow, community formation and cooperativity. These contributions are juxtaposed with microbiologists who have made recent important discoveries on bacterial biofilms using state-of-the-art physical methods. The contributions to this roadmap exemplify how well physics and biology can be combined to achieve a new synthesis, rather than just a division of labor.
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Affiliation(s)
- Gerard C L Wong
- Department of Bioengineering, University of California-Los Angeles, Los Angeles, California, CA 90095, United States of America.,Department of Chemistry and Biochemistry, University of California-Los Angeles, Los Angeles, California, CA 90095, United States of America.,California NanoSystems Institute, University of California-Los Angeles, Los Angeles, California, CA 90095, United States of America
| | - Jyot D Antani
- Artie McFerrin Department of Chemical Engineering, Texas A&M University, College Station, TX 77843, United States of America
| | - Pushkar P Lele
- Artie McFerrin Department of Chemical Engineering, Texas A&M University, College Station, TX 77843, United States of America
| | - Jing Chen
- Department of Biological Sciences, Virginia Polytechnic Institute and State University, Blacksburg, VA24061, United States of America
| | - Beiyan Nan
- Department of Biology, Texas A&M University, College Station, Texas, TX 77845, United States of America
| | - Marco J Kühn
- Institute of Bioengineering and Global Health Institute, School of Life Sciences, École Polytechnique Fédérale de Lausanne, Lausanne, Switzerland
| | - Alexandre Persat
- Institute of Bioengineering and Global Health Institute, School of Life Sciences, École Polytechnique Fédérale de Lausanne, Lausanne, Switzerland
| | - Jean-Louis Bru
- Department of Molecular Biology & Biochemistry, University of California-Irvine, California, CA 92697, United States of America
| | | | - Albert Siryaporn
- Department of Molecular Biology & Biochemistry, University of California-Irvine, California, CA 92697, United States of America.,Department of Physics & Astronomy, University of California-Irvine, California, CA 92697, United States of America
| | - Jacinta C Conrad
- William A Brookshire Department of Chemical and Biomolecular Engineering, University of Houston, Houston, Texas, TX 77204, United States of America
| | - Francesco Carrara
- Institute of Environmental Engineering, Department of Civil, Environmental and Geomatic Engineering, ETH Zurich, 8093 Zurich, Switzerland
| | - Yutaka Yawata
- Faculty of Life and Environmental Sciences, University of Tsukuba, Tsukuba, Ibaraki 305-8572, Japan.,Microbiology Research Center for Sustainability, University of Tsukuba, 305-8572 Tsukuba, Japan
| | - Roman Stocker
- Institute of Environmental Engineering, Department of Civil, Environmental and Geomatic Engineering, ETH Zurich, 8093 Zurich, Switzerland
| | - Yves V Brun
- University of Montreal, Faculty of Medicine, Montreal, Quebec, H3C 3J7, Canada
| | - Gregory B Whitfield
- University of Montreal, Faculty of Medicine, Montreal, Quebec, H3C 3J7, Canada
| | - Calvin K Lee
- Department of Bioengineering, University of California-Los Angeles, Los Angeles, California, CA 90095, United States of America.,Department of Chemistry and Biochemistry, University of California-Los Angeles, Los Angeles, California, CA 90095, United States of America.,California NanoSystems Institute, University of California-Los Angeles, Los Angeles, California, CA 90095, United States of America
| | - Jaime de Anda
- Department of Bioengineering, University of California-Los Angeles, Los Angeles, California, CA 90095, United States of America.,Department of Chemistry and Biochemistry, University of California-Los Angeles, Los Angeles, California, CA 90095, United States of America.,California NanoSystems Institute, University of California-Los Angeles, Los Angeles, California, CA 90095, United States of America
| | - William C Schmidt
- Department of Bioengineering, University of California-Los Angeles, Los Angeles, California, CA 90095, United States of America.,Department of Chemistry and Biochemistry, University of California-Los Angeles, Los Angeles, California, CA 90095, United States of America.,California NanoSystems Institute, University of California-Los Angeles, Los Angeles, California, CA 90095, United States of America
| | - Ramin Golestanian
- Max Planck Institute for Dynamics and Self-Organization (MPIDS), D-37077 Göttingen, Germany.,Rudolf Peierls Centre for Theoretical Physics, University of Oxford, Oxford OX1 3PU, United Kingdom
| | - George A O'Toole
- Department of Microbiology and Immunology, Geisel School of Medicine at Dartmouth, Hanover, NH 03755, United States of America
| | - Kyle A Floyd
- Department of Microbiology and Environmental Toxicology, University of California-Santa Cruz, Santa Cruz, California, CA 95060, United States of America
| | - Fitnat H Yildiz
- Department of Microbiology and Environmental Toxicology, University of California-Santa Cruz, Santa Cruz, California, CA 95060, United States of America
| | - Shuai Yang
- CAS Key Laboratory of Quantitative Engineering Biology, Shenzhen Institute of Synthetic Biology, Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Shenzhen 518055, People's Republic of China
| | - Fan Jin
- CAS Key Laboratory of Quantitative Engineering Biology, Shenzhen Institute of Synthetic Biology, Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences, Shenzhen 518055, People's Republic of China
| | - Masanori Toyofuku
- Faculty of Life and Environmental Sciences, University of Tsukuba, Tsukuba, Ibaraki 305-8572, Japan.,Microbiology Research Center for Sustainability, University of Tsukuba, 305-8572 Tsukuba, Japan
| | - Leo Eberl
- Department of Plant and Microbial Biology, University of Zürich, 8008 Zürich, Switzerland
| | - Nobuhiko Nomura
- Faculty of Life and Environmental Sciences, University of Tsukuba, Tsukuba, Ibaraki 305-8572, Japan.,Microbiology Research Center for Sustainability, University of Tsukuba, 305-8572 Tsukuba, Japan
| | - Lori A Zacharoff
- Department of Physics and Astronomy, University of Southern California, Los Angeles, California, CA 90089, United States of America.,Department of Chemistry, University of Southern California, Los Angeles, California, CA 90089, United States of America
| | - Mohamed Y El-Naggar
- Department of Physics and Astronomy, University of Southern California, Los Angeles, California, CA 90089, United States of America.,Department of Chemistry, University of Southern California, Los Angeles, California, CA 90089, United States of America.,Department of Biological Sciences, University of Southern California, Los Angeles, California, CA 90089, United States of America
| | - Sibel Ebru Yalcin
- Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut, CT 06516, United States of America.,Microbial Sciences Institute, Yale University, New Haven, Connecticut, CT 06516, United States of America
| | - Nikhil S Malvankar
- Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, Connecticut, CT 06516, United States of America.,Microbial Sciences Institute, Yale University, New Haven, Connecticut, CT 06516, United States of America
| | - Mauricio D Rojas-Andrade
- Department of Materials Science and Engineering, University of California-Irvine, Irvine, California CA 92697, United States of America
| | - Allon I Hochbaum
- Department of Molecular Biology & Biochemistry, University of California-Irvine, California, CA 92697, United States of America.,Department of Materials Science and Engineering, University of California-Irvine, Irvine, California CA 92697, United States of America.,Department of Chemistry, University of California-Irvine, Irvine, California, CA 92697, United States of America.,Department of Chemical and Biomolecular Engineering, University of California-Irvine, Irvine, California, CA 92697, United States of America
| | - Jing Yan
- Department of Molecular, Cellular and Developmental Biology, Yale University, New Haven, Connecticut, CT 06511, United States of America
| | - Howard A Stone
- Department of Mechanical and Aerospace Engineering, Princeton University, Princeton, New Jersey, NJ 08544, United States of America
| | - Ned S Wingreen
- Department of Molecular Biology, Princeton University, Princeton, New Jersey, NJ 08544, United States of America.,Lewis-Sigler Institute for Integrative Genomics, Princeton University, Princeton, New Jersey, NJ 08544, United States of America
| | - Bonnie L Bassler
- Department of Molecular Biology, Princeton University, Princeton, New Jersey, NJ 08544, United States of America.,The Howard Hughes Medical Institute, Chevy Chase, Maryland MD 20815, United States of America
| | - Yilin Wu
- Department of Physics and Shenzhen Research Institute, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong, People's Republic of China
| | - Haoran Xu
- Department of Physics and Shenzhen Research Institute, The Chinese University of Hong Kong, Shatin, New Territories, Hong Kong, People's Republic of China
| | - Knut Drescher
- Max Planck Institute for Terrestrial Microbiology, 35043 Marburg, Germany.,Department of Physics, Philipps-Universität Marburg, 35043 Marburg, Germany
| | - Jörn Dunkel
- Department of Mathematics, Massachusetts Institute of Technology, Cambridge, Massachusetts, MA 02139-4307, United States of America
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16
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Singha LP, Pandey P. Rhizosphere assisted bioengineering approaches for the mitigation of petroleum hydrocarbons contamination in soil. Crit Rev Biotechnol 2021; 41:749-766. [PMID: 33626996 DOI: 10.1080/07388551.2021.1888066] [Citation(s) in RCA: 21] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
The high demand for petroleum oil has led to hydrocarbon contamination in soil, including agricultural lands, and many other ecosystems across the globe. Physical and chemical treatments are effective strategies for the removal of high contamination levels and are useful for small areas, although with concerns of cost-effectiveness. Alternatively, several bacteria belonging to the Phylum: Proteobacteria, Bacteroidetes, Actinobacteria, Nocardioides, or Firmicutes are used for biodegradation of different hydrocarbons - aliphatic, polyaromatic hydrocarbons (PAH), and asphaltenes in the oil-contaminated soil. The rhizoremediation strategy with plant-microbe interactions has prospects to achieve the desired result in the field conditions. However, adequate biostimulation, and bioaugmentation with the suitable plant-microbe combination, and efficiency under a toxic environment needs to be evaluated. Modifying the microbiomes to achieve better biodegradation of contaminants is an upcoming strategy popularly known as microbiome engineering. In this review, rhizoremediation for the successful removal of the hydrocarbons have been critically discussed, with challenges for making it a feasible technology.HIGHLIGHTSPetroleum hydrocarbon contamination has increased around the globe.Rhizoremediation has the potential for the mitigation of pollutants from the contaminated sites.An accurate and detailed analysis of the physio-chemical and climatic conditions of the contaminated sites must be focused on.The suitable plant and bacteria, with other major considerations, may be employed for in-situ remediation.The appropriate data should be obtained using the omics approach to help toward the success of the rhizoremediation strategy.
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Affiliation(s)
| | - Piyush Pandey
- Department of Microbiology, Assam University, Silchar, India
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17
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Bacosa HP, Kang A, Lu K, Liu Z. Initial oil concentration affects hydrocarbon biodegradation rates and bacterial community composition in seawater. MARINE POLLUTION BULLETIN 2021; 162:111867. [PMID: 33276157 DOI: 10.1016/j.marpolbul.2020.111867] [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: 06/08/2020] [Revised: 11/17/2020] [Accepted: 11/22/2020] [Indexed: 06/12/2023]
Abstract
During oil spills in the field or for laboratory incubation studies, different oil concentrations are often encountered or applied, yet how initial oil concentration affects biodegradation rates of hydrocarbons and the development of oil degraders remains unclear. We incubated seawater for 50 d with different oil concentrations (0, 50, 100, 200, 400 and 800 ppm). n-Alkanes and polycyclic aromatic hydrocarbons (PAHs), and the bacterial community were analyzed periodically. Results show that the biodegradation rates of alkanes, derived from first order kinetics, decreased with increasing oil concentration, but percent residual was ~50% regardless of the initial concentration. In contrast, the biodegradation rates of PAHs increased with concentration, and the percent residual increased with oil concentration. Increasing oil concentration resulted in increased abundances of Rhodobacterales, Altererythrobacter, and Neptuniibacter. However, Alcanivorax abundance was barely detected in 400 and 800 ppm. Overall, oil concentration critically affected the degradation of hydrocarbons and the bacterial community.
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Affiliation(s)
- Hernando P Bacosa
- Marine Science Institute, The University of Texas at Austin, 750 Channel View Drive, Port Aransas, TX 78373, USA; Department of Biological Sciences, Mindanao State University-Iligan Institute of Technology, Iligan City 9200, Philippines.
| | - Andrew Kang
- Marine Science Institute, The University of Texas at Austin, 750 Channel View Drive, Port Aransas, TX 78373, USA; University of Guam Marine Laboratory, UOG Station, Mangilao, Guam 96923, USA
| | - Kaijun Lu
- Marine Science Institute, The University of Texas at Austin, 750 Channel View Drive, Port Aransas, TX 78373, USA
| | - Zhanfei Liu
- Marine Science Institute, The University of Texas at Austin, 750 Channel View Drive, Port Aransas, TX 78373, USA
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18
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Rodrigues EM, Cesar DE, Santos de Oliveira R, de Paula Siqueira T, Tótola MR. Hydrocarbonoclastic bacterial species growing on hexadecane: Implications for bioaugmentation in marine ecosystems. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2020; 267:115579. [PMID: 33254655 DOI: 10.1016/j.envpol.2020.115579] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/03/2020] [Revised: 08/24/2020] [Accepted: 08/30/2020] [Indexed: 06/12/2023]
Abstract
of bioaugmentation strategies are an obstacle for damage mitigation caused by oil spills in marine environments. Cells added to the contaminated sites are quickly lost by low adherence to the contaminants, rendering ineffective. This study used two hydrocarbonoclastic species - Rhodococcus rhodochrous TRN7 and Nocardia farcinica TRH1 cells - growing in mineral medium containing hexadecane to evaluate cell distribution in a crude-oil contaminated marine water. Cell affinity to hydrophobic compounds was quantified using Microbial Adhesion to Hydrocarbons test and analysis of fatty acids profile was performed using the Microbial Identification System. Bioremediation simulations were set up and cell populations of both strains were quantified by Fluorescent in situ Hybridization. R. rhodochrous and N. farcinica reached up to 97% and 60% of adhesion to hexadecane, respectively. The carbon source had more influence on the fatty acid profiles of both strains than the microbial species. The presence of 45.24% of 13:0 anteiso on total fatty acids in R. rhodochrous and 12.35% of saturated fatty acids with less than 13 carbons atoms in N. farcinica, as well as the occurrence of fatty alcohols only in presence of hexadecane in both species, are indicators that fatty acid changes are involved in the adaptation of the cells to remain at the water/oil interface. Cell quantification after bioremediation simulations revealed an increase in the density of both species, suggesting that the bioremediation strategies resulted on the increase of hydrocarbonoclastic species and up to 27.9% of all prokaryotic microbial populations in the microcosms were composed of R. rhodochrous or N. farcinica. These findings show the potential of application of these two bacterial strains in bioaugmentation of hydrocarbon-contaminated marine ecosystems.R. rhodochrous TRN7 and N. farcinica TRH1 hydrocarbonoclastic strains modify the fatty acid profile and increases density, optimizing hydrocarbons biodegradation.
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Affiliation(s)
- Edmo Montes Rodrigues
- Laboratório de Biotecnologia e Biodiversidade para o Meio Ambiente, Departamento de Microbiologia, Universidade Federal de Viçosa, Viçosa, Minas Gerais, Brazil; Instituto Federal de Educação, Ciência e Tecnologia Do Ceará - IFCE - Campus Camocim, Camocim, Ceará, Brazil.
| | - Dionéia Evangelista Cesar
- Laboratório de Ecologia e Biologia Molecular de Microorganismos, Departamento de Biologia, Universidade Federal de Juiz de Fora, Juiz de Fora, Minas Gerais, Brazil
| | - Renatta Santos de Oliveira
- Laboratório de Ecologia e Biologia Molecular de Microorganismos, Departamento de Biologia, Universidade Federal de Juiz de Fora, Juiz de Fora, Minas Gerais, Brazil
| | - Tatiane de Paula Siqueira
- Laboratório de Biotecnologia e Biodiversidade para o Meio Ambiente, Departamento de Microbiologia, Universidade Federal de Viçosa, Viçosa, Minas Gerais, Brazil
| | - Marcos Rogério Tótola
- Laboratório de Biotecnologia e Biodiversidade para o Meio Ambiente, Departamento de Microbiologia, Universidade Federal de Viçosa, Viçosa, Minas Gerais, Brazil
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19
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Rodrigues EM, de Carvalho Teixeira AVN, Cesar DE, Tótola MR. Strategy to improve crude oil biodegradation in oligotrophic aquatic environments: W/O/W fertilized emulsions and hydrocarbonoclastic bacteria. Braz J Microbiol 2020; 51:1159-1168. [PMID: 32078731 PMCID: PMC7455643 DOI: 10.1007/s42770-020-00244-x] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/03/2019] [Accepted: 02/08/2020] [Indexed: 02/07/2023] Open
Abstract
We studied petroleum biodegradation by biostimulation by using water in oil in water (W/O/W) double emulsions. These emulsions were developed using seawater, canola oil, surfactants, and mineral salts as sources of NPK. The emulsions were used in the simulation of hydrocarbon bioremediation in oligotrophic sea water. Hydrocarbon biodegradation was evaluated by CO2 emissions from microcosms. We also evaluated the release of inorganic nutrients and the stability of the emulsion's droplets. The double emulsions improved CO2 emission from the microcosms, suggesting the increase in the hydrocarbon biodegradation. Mineral nutrients were gradually released from the emulsions supporting the hydrocarbon biodegradation. This was attributed to the formation of different diameters of droplets and therefore, varying stabilities of the droplets. Addition of the selected hydrocarbonoclastic isolates simulating bioaugmentation improved the hydrocarbon biodegradation. We conclude that the nutrient-rich W/O/W emulsion developed in this study is an effective biostimulation agent for bioremediation in oligotrophic aquatic environments.
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Affiliation(s)
- Edmo Montes Rodrigues
- Laboratório de Biotecnologia e Biodiversidade para o Meio Ambiente, Departamento de Microbiologia, Universidade Federal de Viçosa, Av. P.H. Rolfs s/n, Centro, Viçosa, Minas Gerais, Brazil.
- Instituto Federal de Educação, Ciência e Tecnologia do Ceará - IFCE - campus Camocim, Camocim, Ceará, Brazil.
| | | | - Dionéia Evangelista Cesar
- Laboratório de Ecologia e Biologia Molecular de Microorganismos, Departamento de Microbiologia, Universidade Federal de Juiz de Fora, Juiz de Fora, Minas Gerais, Brazil
| | - Marcos Rogério Tótola
- Laboratório de Biotecnologia e Biodiversidade para o Meio Ambiente, Departamento de Microbiologia, Universidade Federal de Viçosa, Av. P.H. Rolfs s/n, Centro, Viçosa, Minas Gerais, Brazil.
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20
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Biophysical methods to quantify bacterial behaviors at oil-water interfaces. J Ind Microbiol Biotechnol 2020; 47:725-738. [PMID: 32743734 DOI: 10.1007/s10295-020-02293-5] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2020] [Accepted: 07/16/2020] [Indexed: 02/03/2023]
Abstract
Motivated by the need for improved understanding of physical processes involved in bacterial biodegradation of catastrophic oil spills, we review biophysical methods to probe bacterial motility and adhesion at oil-water interfaces. This review summarizes methods that probe bulk, average behaviors as well as local, microscopic behaviors, and highlights opportunities for future work to bridge the gap between biodegradation and biophysics.
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21
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Medina-Moreno SA, Conde-Báez L, Jiménez-González A, Aguilar-López R, Rodríguez-Vázquez R, Tec-Caamal EN. Modelling hexadecane uptake strategies of a rhizospheric bacterial consortium under different hydrodynamic draft-tube airlift reactor conditions. Biochem Eng J 2020. [DOI: 10.1016/j.bej.2020.107611] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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22
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Desai N, Ardekani AM. Biofilms at interfaces: microbial distribution in floating films. SOFT MATTER 2020; 16:1731-1750. [PMID: 31976509 DOI: 10.1039/c9sm02038a] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Cellular motility is a key function guiding microbial adhesion to interfaces, which is the first step in the formation of biofilms. The close association of biofilms and bioremediation has prompted extensive research aimed at comprehending the physics of microbial locomotion near interfaces. We study the dynamics and statistics of microorganisms in a 'floating biofilm', i.e., a confinement with an air-liquid interface on one side and a liquid-liquid interface on the other. We use a very general mathematical model, based on a multipole representation and probabilistic simulations, to ascertain the spatial distribution of microorganisms in films of different viscosities. Our results reveal that microorganisms can be distributed symmetrically or asymmetrically across the height of the film, depending on their morphology and the ratio of the film's viscosity to that of the fluid substrate. Long-flagellated, elongated bacteria exhibit stable swimming parallel to the liquid-liquid interface when the bacterial film is less viscous than the underlying fluid. Bacteria with shorter flagella on the other hand, swim away from the liquid-liquid interface and accumulate at the free surface. We also analyze microorganism dynamics in a flowing film and show how a microorganism's ability to resist 'flow-induced-erosion' from interfaces is affected by its elongation and mode of propulsion. Our study generalizes past efforts on understanding microorganism dynamics under confinement by interfaces and provides key insights on biofilm initiation at liquid-liquid interfaces.
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Affiliation(s)
- Nikhil Desai
- School of Mechanical Engineering, Purdue University, West Lafayette, IN 47907, USA.
| | - Arezoo M Ardekani
- School of Mechanical Engineering, Purdue University, West Lafayette, IN 47907, USA.
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23
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Sivadon P, Barnier C, Urios L, Grimaud R. Biofilm formation as a microbial strategy to assimilate particulate substrates. ENVIRONMENTAL MICROBIOLOGY REPORTS 2019; 11:749-764. [PMID: 31342619 DOI: 10.1111/1758-2229.12785] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/21/2018] [Revised: 07/15/2019] [Accepted: 07/21/2019] [Indexed: 06/10/2023]
Abstract
In most ecosystems, a large part of the organic carbon is not solubilized in the water phase. Rather, it occurs as particles made of aggregated hydrophobic and/or polymeric natural or man-made organic compounds. These particulate substrates are degraded by extracellular digestion/solubilization implemented by heterotrophic bacteria that form biofilms on them. Organic particle-degrading biofilms are widespread and have been observed in aquatic and terrestrial natural ecosystems, in polluted and man-driven environments and in the digestive tracts of animals. They have central ecological functions as they are major players in carbon recycling and pollution removal. The aim of this review is to highlight bacterial adhesion and biofilm formation as central mechanisms to exploit the nutritive potential of organic particles. It focuses on the mechanisms that allow access and assimilation of non-dissolved organic carbon, and considers the advantage provided by biofilms for gaining a net benefit from feeding on particulate substrates. Cooperative and competitive interactions taking place in biofilms feeding on particulate substrates are also discussed.
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Affiliation(s)
- Pierre Sivadon
- CNRS/Université de Pau et des Pays de l'Adour/E2S UPPA, Institut des Sciences Analytiques et de Physico-Chimie pour l'Environnement et les Matériaux UMR5254, Pau, 64000, France
| | - Claudie Barnier
- CNRS/Université de Pau et des Pays de l'Adour/E2S UPPA, Institut des Sciences Analytiques et de Physico-Chimie pour l'Environnement et les Matériaux UMR5254, Pau, 64000, France
| | - Laurent Urios
- CNRS/Université de Pau et des Pays de l'Adour/E2S UPPA, Institut des Sciences Analytiques et de Physico-Chimie pour l'Environnement et les Matériaux UMR5254, Pau, 64000, France
| | - Régis Grimaud
- CNRS/Université de Pau et des Pays de l'Adour/E2S UPPA, Institut des Sciences Analytiques et de Physico-Chimie pour l'Environnement et les Matériaux UMR5254, Pau, 64000, France
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24
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Kim J, Chang W. Modified soil respiration model (URESP) extended to sub-zero temperatures for biostimulated petroleum hydrocarbon-contaminated sub-Arctic soils. THE SCIENCE OF THE TOTAL ENVIRONMENT 2019; 667:400-411. [PMID: 30831374 DOI: 10.1016/j.scitotenv.2019.02.067] [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: 10/31/2018] [Revised: 01/28/2019] [Accepted: 02/04/2019] [Indexed: 06/09/2023]
Abstract
It has been increasingly reported that aerobic soil respiration activity (CO2 production and O2 consumption) is measurable in frozen cold-climate soils. This study modifies the Generalized Respiration (GRESP) model, a function of soil temperature (T) and unfrozen water content (M), to cover the frozen, partially frozen and unfrozen phases of successfully bioremediated, petroleum hydrocarbon-contaminated, sandy sub-Arctic soils. The Michaelis-Menten equation was modified to express the observable change in unfrozen water content near 0 °C, which is related to soil respiration activity during soil phase changes and at temperatures below the effective endpoint of detectable unfrozen water at -2 °C. The modified Michaelis-Menten equation was further combined with a Q10 temperature term, and was then incorporated into the GRESP equation to produce a new URESP model for the engineered soil bioremediation system at sub-zero temperatures. The URESP model was applied to published input data measured from the biostimulated site soils of a pilot-scale soil tank experiment conducted between -5 and 15 °C. The model fit well with the experimental data for CO2 production (R2 = 0.96) and O2 consumption (R2 = 0.92). A numerical soil thermal model (TEMP/W model) of the thawing biotreated soils in the tank was also used in this study to produce valid alternative (predictive) input T and M data for the URESP model. The URESP-derived respiration quotients (RQ; 0.695 to 0.698), or the ratios of CO2 production to O2 consumption, aligned with the experimental RQ values from the soil tank experiment (0.69) and fell within the theoretical RQ range for aerobic hydrocarbon degradation (0.63-0.80). The URESP model combined with the TEMP/W simulation approximated changes in soil respiration during thawing and characterized the computed soil respiration outputs as related to hydrocarbon utilization, based on their RQ values.
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Affiliation(s)
- Jihun Kim
- Department of Civil, Geological and Environmental Engineering, University of Saskatchewan, Canada
| | - Wonjae Chang
- Department of Civil, Geological and Environmental Engineering, University of Saskatchewan, Canada.
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25
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Qi L, Christopher GF. Role of Flagella, Type IV Pili, Biosurfactants, and Extracellular Polymeric Substance Polysaccharides on the Formation of Pellicles by Pseudomonas aeruginosa. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2019; 35:5294-5304. [PMID: 30883129 DOI: 10.1021/acs.langmuir.9b00271] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Microbial biofilms are viscoelastic materials formed by bacteria, which occur on solid surfaces, at liquid interfaces, or in free solution. Although solid surface biofilms have been widely studied, pellicles, biofilms at liquid interfaces, have had significantly less focus. In this work, interfacial shear rheology and scanning electron microscopy imaging are used to characterize how flagella, type IV pili, biosurfactants, and extracellular polymeric substance polysaccharides affect the formation of pellicles by Pseudomonas aeruginosa at an air/water interface. Pellicles still form with the loss of a single biological attachment mechanism, which is hypothesized to be due to surface tension-aided attachment. Changes in the surface structure of the pellicles are observed when changing both the function/structure of type IV pili, removing the flagella, or stopping the expression of biosurfactants. However, these changes do not appear to affect pellicle elasticity in a consistent way. Traits that affect adsorption and growth/spreading appear to affect pellicles in a manner consistent with literature results for solid surface biofilms; small differences are seen in attachment-related mechanisms, which may occur due to surface tension.
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Affiliation(s)
- Lingjuan Qi
- Department of Mechanical Engineering , Texas Tech University , Lubbock 79409 , United States
| | - Gordon F Christopher
- Department of Mechanical Engineering , Texas Tech University , Lubbock 79409 , United States
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26
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Xu X, Liu W, Tian S, Wang W, Qi Q, Jiang P, Gao X, Li F, Li H, Yu H. Petroleum Hydrocarbon-Degrading Bacteria for the Remediation of Oil Pollution Under Aerobic Conditions: A Perspective Analysis. Front Microbiol 2018; 9:2885. [PMID: 30559725 PMCID: PMC6287552 DOI: 10.3389/fmicb.2018.02885] [Citation(s) in RCA: 209] [Impact Index Per Article: 34.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2018] [Accepted: 11/12/2018] [Indexed: 11/13/2022] Open
Abstract
With the sharp increase in population and modernization of society, environmental pollution resulting from petroleum hydrocarbons has increased, resulting in an urgent need for remediation. Petroleum hydrocarbon-degrading bacteria are ubiquitous in nature and can utilize these compounds as sources of carbon and energy. Bacteria displaying such capabilities are often exploited for the bioremediation of petroleum oil-contaminated environments. Recently, microbial remediation technology has developed rapidly and achieved major gains. However, this technology is not omnipotent. It is affected by many environmental factors that hinder its practical application, limiting the large-scale application of the technology. This paper provides an overview of the recent literature referring to the usage of bacteria as biodegraders, discusses barriers regarding the implementation of this microbial technology, and provides suggestions for further developments.
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Affiliation(s)
- Xingjian Xu
- Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun, China.,Hinggan League Academy of Agriculture and Animal Husbandry, Ulanhot, China
| | - Wenming Liu
- Hinggan League Academy of Agriculture and Animal Husbandry, Ulanhot, China
| | - Shuhua Tian
- Hinggan League Academy of Agriculture and Animal Husbandry, Ulanhot, China
| | - Wei Wang
- Hinggan League Academy of Agriculture and Animal Husbandry, Ulanhot, China
| | - Qige Qi
- Hinggan League Academy of Agriculture and Animal Husbandry, Ulanhot, China
| | - Pan Jiang
- Hinggan League Academy of Agriculture and Animal Husbandry, Ulanhot, China
| | - Xinmei Gao
- Hinggan League Academy of Agriculture and Animal Husbandry, Ulanhot, China
| | - Fengjiao Li
- Hinggan League Academy of Agriculture and Animal Husbandry, Ulanhot, China
| | - Haiyan Li
- Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun, China.,School of Life Science and Technology, Changchun University of Science and Technology, Changchun, China
| | - Hongwen Yu
- Northeast Institute of Geography and Agroecology, Chinese Academy of Sciences, Changchun, China.,School of Life Science and Technology, Changchun University of Science and Technology, Changchun, China
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27
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Pannekens M, Kroll L, Müller H, Mbow FT, Meckenstock RU. Oil reservoirs, an exceptional habitat for microorganisms. N Biotechnol 2018; 49:1-9. [PMID: 30502541 PMCID: PMC6323355 DOI: 10.1016/j.nbt.2018.11.006] [Citation(s) in RCA: 77] [Impact Index Per Article: 12.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2018] [Revised: 11/27/2018] [Accepted: 11/27/2018] [Indexed: 01/21/2023]
Abstract
Water-containing parts within oil reservoirs extend the zone of biodegradation. Biodegradation is controlled by environmental factors. Proteobacteria and Euryarchaeota are ubiquitous in oil reservoirs over all temperature ranges. Biofilms as microbial adaption in oil reservoirs. Viruses as potential control for microbial activity and function.
Microorganisms are present in oil reservoirs around the world where they degrade oil and lead to changes in oil quality. Unfortunately, our knowledge about processes in deep oil reservoirs is limited due to the lack of undisturbed samples. In this review, we discuss the distribution of microorganisms at the oil-water transition zone as well as in water saturated parts of the oil leg and their possible physiological adaptations to abiotic and biotic ecological factors such as temperature, salinity and viruses. We show the importance of studying the water phase within the oil, because small water inclusions and pockets within the oil leg provide an exceptional habitat for microorganisms within a natural oil reservoir and concurrently enlarge the zone of oil biodegradation. Environmental factors such as temperature and salinity control oil biodegradation. Temperature determines the type of microorganisms which are able to inhabit the reservoir. Proteobacteria and Euryarchaeota, are ubiquitous in oil reservoirs over all temperature ranges, whereas some others are tied to specific temperatures. It is proposed that biofilm formation is the dominant way of life within oil reservoirs, enhancing nutrient uptake, syntrophic interactions and protection against environmental stress. Literature shows that viruses are abundant in oil reservoirs and the possible impact on microbial community composition due to control of microbial activity and function is discussed.
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Affiliation(s)
- Mark Pannekens
- University of Duisburg-Essen, Biofilm Centre, Universitätsstr. 5, 41451, Essen, Germany
| | - Lisa Kroll
- University of Duisburg-Essen, Biofilm Centre, Universitätsstr. 5, 41451, Essen, Germany
| | - Hubert Müller
- University of Duisburg-Essen, Biofilm Centre, Universitätsstr. 5, 41451, Essen, Germany
| | - Fatou Tall Mbow
- University of Duisburg-Essen, Biofilm Centre, Universitätsstr. 5, 41451, Essen, Germany
| | - Rainer U Meckenstock
- University of Duisburg-Essen, Biofilm Centre, Universitätsstr. 5, 41451, Essen, Germany.
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28
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Vergeynst L, Wegeberg S, Aamand J, Lassen P, Gosewinkel U, Fritt-Rasmussen J, Gustavson K, Mosbech A. Biodegradation of marine oil spills in the Arctic with a Greenland perspective. THE SCIENCE OF THE TOTAL ENVIRONMENT 2018; 626:1243-1258. [PMID: 29898532 DOI: 10.1016/j.scitotenv.2018.01.173] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/01/2017] [Revised: 01/17/2018] [Accepted: 01/18/2018] [Indexed: 06/08/2023]
Abstract
New economic developments in the Arctic, such as shipping and oil exploitation, bring along unprecedented risks of marine oil spills. Microorganisms have played a central role in degrading and reducing the impact of the spilled oil during past oil disasters. However, in the Arctic, and in particular in its pristine areas, the self-cleaning capacity and biodegradation potential of the natural microbial communities have yet to be uncovered. This review compiles and investigates the current knowledge with respect to environmental parameters and biochemical constraints that control oil biodegradation in the Arctic. Hereby, seawaters off Greenland are considered as a case study. Key factors for biodegradation include the bioavailability of hydrocarbons, the presence of hydrocarbon-degrading bacteria and the availability of nutrients. We show how these key factors may be influenced by the physical oceanographic conditions in seawaters off Greenland and other environmental parameters including low temperature, sea ice, sunlight regime, suspended sediment plumes and phytoplankton blooms that characterize the Arctic. Based on the acquired insights, a first qualitative assessment of the biodegradation potential in seawaters off Greenland is presented. In addition to the most apparent Arctic characteristics, such as low temperature and sea ice, the impact of typical Arctic features such as the oligotrophic environment, poor microbial adaptation to hydrocarbon degradation, mixing of stratified water masses, and massive phytoplankton blooms and suspended sediment plumes merit to be topics of future investigation.
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Affiliation(s)
- Leendert Vergeynst
- Arctic Research Centre, Department of Bioscience, Aarhus University, Denmark.
| | - Susse Wegeberg
- Arctic Research Centre, Department of Bioscience, Aarhus University, Denmark
| | - Jens Aamand
- Department of Geochemistry, Geological Survey of Denmark and Greenland, Denmark
| | - Pia Lassen
- Department of Environmental Science, Aarhus University, Denmark
| | | | | | - Kim Gustavson
- Arctic Research Centre, Department of Bioscience, Aarhus University, Denmark
| | - Anders Mosbech
- Arctic Research Centre, Department of Bioscience, Aarhus University, Denmark
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29
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Liang B, Zhang K, Wang LY, Liu JF, Yang SZ, Gu JD, Mu BZ. Different Diversity and Distribution of Archaeal Community in the Aqueous and Oil Phases of Production Fluid From High-Temperature Petroleum Reservoirs. Front Microbiol 2018; 9:841. [PMID: 29755446 PMCID: PMC5934436 DOI: 10.3389/fmicb.2018.00841] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/11/2017] [Accepted: 04/12/2018] [Indexed: 11/13/2022] Open
Abstract
To get a better knowledge on how archaeal communities differ between the oil and aqueous phases and whether environmental factors promote substantial differences on microbial distributions among production wells, we analyzed archaeal communities in oil and aqueous phases from four high-temperature petroleum reservoirs (55–65°C) by using 16S rRNA gene based 454 pyrosequencing. Obvious dissimilarity of the archaeal composition between aqueous and oil phases in each independent production wells was observed, especially in production wells with higher water cut, and diversity in the oil phase was much higher than that in the corresponding aqueous phase. Statistical analysis further showed that archaeal communities in oil phases from different petroleum reservoirs tended to be more similar, but those in aqueous phases were the opposite. In the high-temperature ecosystems, temperature as an environmental factor could have significantly affected archaeal distribution, and archaeal diversity raised with the increase of temperature (p < 0.05). Our results suggest that to get a comprehensive understanding of petroleum reservoirs microbial information both in aqueous and oil phases should be taken into consideration. The microscopic habitats of oil phase, technically the dispersed minuscule water droplets in the oil could be a better habitat that containing the indigenous microorganisms.
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Affiliation(s)
- Bo Liang
- State Key Laboratory of Bioreactor Engineering and Institute of Applied Chemistry, East China University of Science and Technology, Shanghai, China
| | - Kai Zhang
- State Key Laboratory of Bioreactor Engineering and Institute of Applied Chemistry, East China University of Science and Technology, Shanghai, China
| | - Li-Ying Wang
- State Key Laboratory of Bioreactor Engineering and Institute of Applied Chemistry, East China University of Science and Technology, Shanghai, China
| | - Jin-Feng Liu
- State Key Laboratory of Bioreactor Engineering and Institute of Applied Chemistry, East China University of Science and Technology, Shanghai, China.,Shanghai Collaborative Innovation Center for Biomanufacturing Technology, East China University of Science and Technology, Shanghai, China
| | - Shi-Zhong Yang
- State Key Laboratory of Bioreactor Engineering and Institute of Applied Chemistry, East China University of Science and Technology, Shanghai, China.,Shanghai Collaborative Innovation Center for Biomanufacturing Technology, East China University of Science and Technology, Shanghai, China
| | - Ji-Dong Gu
- School of Biological Sciences, The University of Hong Kong, Pokfulam, Hong Kong
| | - Bo-Zhong Mu
- State Key Laboratory of Bioreactor Engineering and Institute of Applied Chemistry, East China University of Science and Technology, Shanghai, China.,Shanghai Collaborative Innovation Center for Biomanufacturing Technology, East China University of Science and Technology, Shanghai, China
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30
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McLay RB, Nguyen HN, Jaimes-Lizcano YA, Dewangan NK, Alexandrova S, Rodrigues DF, Cirino PC, Conrad JC. Level of Fimbriation Alters the Adhesion of Escherichia coli Bacteria to Interfaces. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2018; 34:1133-1142. [PMID: 28976770 DOI: 10.1021/acs.langmuir.7b02447] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Adhesion of bacteria to interfaces is the first step in pathogenic infection, in biofilm formation, and in bioremediation of oil spills and other pollutants. Bacteria use a variety of surface structures to promote interfacial adhesion, with the level of expression of these structures varying in response to local conditions and environmental signals. Here, we investigated how overexpression of type 1 fimbriae, one such appendage, modifies the ability of Escherichia coli to adhere to solid substrates, via biofilm formation and yeast agglomeration, and to oil/water interfaces, via a microbial adhesion to hydrocarbon assay. A plasmid that enables inducible expression of E. coli MG1655 type 1 fimbriae was transformed into fimbriae-deficient mutant strain MG1655ΔfimA. The level of fimH gene expression in the engineered strain, measured using quantitative real-time PCR, could be tuned by changing the concentration of inducer isopropyl β-d-1-thiogalactopyranoside (IPTG), and was higher than that in strain MG1655. Increasing the degree of fimbriation only slightly modified the surface energy and zeta potential of the bacteria, but enhanced their ability to agglomerate yeast cells and to adhere to solid substrates (as measured by biofilm formation) and to oil/water interfaces. We anticipate that the tunable extent of fimbriation accessible with this engineered strain can be used to investigate how adhesin expression modifies the ability of bacteria to adhere to interfaces and to actively self-assemble there.
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Affiliation(s)
- Ryan B McLay
- Department of Chemical and Biomolecular Engineering, University of Houston , Houston, Texas 77204-4004, United States
| | - Hang N Nguyen
- Department of Civil and Environmental Engineering, University of Houston , Houston, Texas 77204-4003, United States
| | - Yuly Andrea Jaimes-Lizcano
- Department of Chemical and Biomolecular Engineering, University of Houston , Houston, Texas 77204-4004, United States
| | - Narendra K Dewangan
- Department of Chemical and Biomolecular Engineering, University of Houston , Houston, Texas 77204-4004, United States
| | - Simone Alexandrova
- Department of Chemical and Biomolecular Engineering, University of Houston , Houston, Texas 77204-4004, United States
| | - Debora F Rodrigues
- Department of Civil and Environmental Engineering, University of Houston , Houston, Texas 77204-4003, United States
| | - Patrick C Cirino
- Department of Chemical and Biomolecular Engineering, University of Houston , Houston, Texas 77204-4004, United States
- Department of Biology and Biochemistry, University of Houston , Houston, Texas 77204-5008, United States
| | - Jacinta C Conrad
- Department of Chemical and Biomolecular Engineering, University of Houston , Houston, Texas 77204-4004, United States
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31
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Oberding LK, Gieg LM. Methanogenic Paraffin Biodegradation: Alkylsuccinate Synthase Gene Quantification and Dicarboxylic Acid Production. Appl Environ Microbiol 2018; 84:e01773-17. [PMID: 29030441 PMCID: PMC5734044 DOI: 10.1128/aem.01773-17] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/11/2017] [Accepted: 10/09/2017] [Indexed: 11/20/2022] Open
Abstract
Paraffinic n-alkanes (>C17) that are solid at ambient temperature comprise a large fraction of many crude oils. The comparatively low water solubility and reactivity of these long-chain alkanes can lead to their persistence in the environment following fuel spills and pose serious problems for crude oil recovery operations by clogging oil production wells. However, the degradation of waxy paraffins under the anoxic conditions characterizing contaminated groundwater environments and deep subsurface energy reservoirs is poorly understood. Here, we assessed the ability of a methanogenic culture enriched from freshwater fuel-contaminated aquifer sediments to biodegrade the model paraffin n-octacosane (C28H58). Compared with that in controls, the consumption of n-octacosane was coupled to methane production, demonstrating its biodegradation under these conditions. Smithella was postulated to be an important C28H58 degrader in the culture on the basis of its high relative abundance as determined by 16S rRNA gene sequencing. An identified assA gene (known to encode the α subunit of alkylsuccinate synthase) aligned most closely with those from other Smithella organisms. Quantitative PCR (qPCR) and reverse transcription qPCR assays for assA demonstrated significant increases in the abundance and expression of this gene in C28H58-degrading cultures compared with that in controls, suggesting n-octacosane activation by fumarate addition. A metabolite analysis revealed the presence of several long-chain α,ω-dicarboxylic acids only in the C28H58-degrading cultures, a novel observation providing clues as to how methanogenic consortia access waxy hydrocarbons. The results of this study broaden our understanding of how waxy paraffins can be biodegraded in anoxic environments with an application toward bioremediation and improved oil recovery.IMPORTANCE Understanding the methanogenic biodegradation of different classes of hydrocarbons has important applications for effective fuel-contaminated site remediation and for improved recovery from oil reservoirs. Previous studies have clearly demonstrated that short-chain alkanes (C17) that comprise many fuel mixtures. Using an enrichment culture derived from a freshwater fuel-contaminated site, we demonstrate that the model waxy alkane n-octacosane can be biodegraded under methanogenic conditions by a presumed Smithella phylotype. Compared with that of controls, we show an increased abundance and expression of the assA gene, which is known to be important for anaerobic n-alkane metabolism. Metabolite analyses revealed the presence of a range of α,ω-dicarboxylic acids found only in n-octacosane-degrading cultures, a novel finding that lends insight as to how anaerobic communities may access waxes as growth substrates in anoxic environments.
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Affiliation(s)
- Lisa K Oberding
- Department of Biological Sciences, University of Calgary, Calgary, Alberta, Canada
| | - Lisa M Gieg
- Department of Biological Sciences, University of Calgary, Calgary, Alberta, Canada
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32
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Lu F, Liu L, Huang Y, Zhang X, Wang Z. Production of Monascus pigments as extracellular crystals by cell suspension culture. Appl Microbiol Biotechnol 2017; 102:677-687. [PMID: 29177624 DOI: 10.1007/s00253-017-8646-1] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2017] [Revised: 11/10/2017] [Accepted: 11/12/2017] [Indexed: 02/02/2023]
Abstract
It is generally accepted that Monascus pigments are predominantly cell-bound, including both intracellular and surface-bound pigments. This long-term misconception was corrected in the present work. Production of extracellular crystal pigments by submerged culture of Monascus sp. was confirmed by microscopic observation and collection of Monascus pigments from extracellular broth by direct membrane filtration. Following up the new fact, the bioactivity of mycelia as whole-cell biocatalyst for biosynthesis and biodegradation of Monascus pigments had been detailedly examined in both an aqueous solution and a nonionic surfactant micelle aqueous solution. Based on those experimental results, cell suspension culture in an aqueous medium was developed as a novel strategy for accumulation of high concentration of Monascus pigments. Thus, glucose feeding during submerged culture in the aqueous medium was carried out successfully and high orange Monascus pigments concentration of near 4 g/L was achieved.
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Affiliation(s)
- Fengling Lu
- School of Pharmacy, State Key Laboratory of Microbial Metabolism, and Engineering Research Center of Cell and Therapeutic Antibody, Ministry of Education, Shanghai Jiao Tong University, Shanghai, 200240, People's Republic of China
| | - Lujie Liu
- School of Pharmacy, State Key Laboratory of Microbial Metabolism, and Engineering Research Center of Cell and Therapeutic Antibody, Ministry of Education, Shanghai Jiao Tong University, Shanghai, 200240, People's Republic of China
| | - Yaolin Huang
- School of Pharmacy, State Key Laboratory of Microbial Metabolism, and Engineering Research Center of Cell and Therapeutic Antibody, Ministry of Education, Shanghai Jiao Tong University, Shanghai, 200240, People's Republic of China
| | - Xuehong Zhang
- School of Life Science and Biotechnology, and State Key Laboratory of Microbial Metabolism, Shanghai Jiao Tong University, Shanghai, 200240, People's Republic of China
| | - Zhilong Wang
- School of Pharmacy, State Key Laboratory of Microbial Metabolism, and Engineering Research Center of Cell and Therapeutic Antibody, Ministry of Education, Shanghai Jiao Tong University, Shanghai, 200240, People's Republic of China.
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Zeng J, Zhu Q, Wu Y, Chen H, Lin X. Characterization of a polycyclic aromatic ring-hydroxylation dioxygenase from Mycobacterium sp. NJS-P. CHEMOSPHERE 2017; 185:67-74. [PMID: 28686888 DOI: 10.1016/j.chemosphere.2017.07.001] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/06/2016] [Revised: 06/01/2017] [Accepted: 07/01/2017] [Indexed: 06/07/2023]
Abstract
Ring-hydroxylating dioxygenases (RHDs) play a critical role in the biodegradation of polycyclic aromatic hydrocarbons (PAHs). In this study, genes pdoAB encoding a dioxygenase capable of oxidizing various PAHs with up to five-ring benzo[a]pyrene were cloned from Mycobacterium sp. NJS-P. The α-subunit of the PdoAB showed 99% and 93% identity to that from Mycobacterium sp. S65 and Mycobacterium sp. py136, respectively. An Escherichia coli expression experiment revealed that the enzyme is able to oxidize anthracene, phenanthrene, pyrene and benzo[a]pyrene, but not to fluoranthene and benzo[a]anthracene. Furthermore, the results of in silico analysis showed that PdoAB has a large substrate-binding pocket satisfying for accommodation of HMW PAHs, and suggested that the binding energy of intermolecular interaction may predict the substrate conversion of RHDs towards HMW PAHs, especially those may have steric constraints on the substrate-binding pocket, such as benzo[a]pyrene and benzo[a]anthracene.
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Affiliation(s)
- Jun Zeng
- Key Laboratory of Soil Environment and Pollution Remediation, Institute of Soil Science, Chinese Academy of Sciences, Beijing East Road, 71, Nanjing 210008, PR China; Joint Open Laboratory of Soil and the Environment, Hong Kong University and Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, PR China
| | - Qinghe Zhu
- Key Laboratory of Soil Environment and Pollution Remediation, Institute of Soil Science, Chinese Academy of Sciences, Beijing East Road, 71, Nanjing 210008, PR China; Joint Open Laboratory of Soil and the Environment, Hong Kong University and Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, PR China
| | - Yucheng Wu
- Key Laboratory of Soil Environment and Pollution Remediation, Institute of Soil Science, Chinese Academy of Sciences, Beijing East Road, 71, Nanjing 210008, PR China; Joint Open Laboratory of Soil and the Environment, Hong Kong University and Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, PR China
| | - Hong Chen
- Soil and Environment Analysis Center, Institute of Soil Science, Chinese Academy of Science, PR China
| | - Xiangui Lin
- Key Laboratory of Soil Environment and Pollution Remediation, Institute of Soil Science, Chinese Academy of Sciences, Beijing East Road, 71, Nanjing 210008, PR China; Joint Open Laboratory of Soil and the Environment, Hong Kong University and Institute of Soil Science, Chinese Academy of Sciences, Nanjing 210008, PR China.
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Films of bacteria at interfaces. Adv Colloid Interface Sci 2017; 247:561-572. [PMID: 28778342 DOI: 10.1016/j.cis.2017.07.016] [Citation(s) in RCA: 41] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2017] [Revised: 07/14/2017] [Accepted: 07/14/2017] [Indexed: 11/21/2022]
Abstract
Bacteria are often discussed as active colloids, self-propelled organisms whose collective motion can be studied in the context of non-equilibrium statistical mechanics. In such studies, the behavior of bacteria confined to interfaces or in the proximity of an interface plays an important role. For instance, many studies have probed collective behavior of bacteria in quasi two-dimensional systems such as soap films. Since fluid interfaces can adsorb surfactants and other materials, the stress and velocity boundary conditions at interfaces can alter bacteria motion; hydrodynamic studies of interfaces with differing boundary conditions are reviewed. Also, bacteria in bulk can become trapped at or near fluid interfaces, where they colonize and form structures comprising secretions like exopolysaccharides, surfactants, living and dead bacteria, thereby creating Films of Bacteria at Interfaces (FBI). The formation of FBI is discussed at air-water, oil-water, and water-water interfaces, with an emphasis on film mechanics, and with some allusion to genetic functions guiding bacteria to restructure fluid interfaces. At air-water interfaces, bacteria form pellicles or interfacial biofilms. Studies are reviewed that reveal that pellicle material properties differ for different strains of bacteria, and that pellicle physicochemistry can act as a feedback mechanism to regulate film formation. At oil-water interfaces, a range of FBI form, depending on bacteria strain. Some bacteria-laden interfaces age from an initial active film, with dynamics dominated by motile bacteria, through viscoelastic states, to form an elastic film. Others remain active with no evidence of elastic film formation even at significant interface ages. Finally, bacteria can adhere to and colonize ultra-low surface tension interfaces such as aqueous-aqueous systems common in food industries. Relevant literature is reviewed, and areas of interest for potential application are discussed, ranging from health to bioremediation.
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Angeles O, Medina-Moreno S, Jiménez-González A, Coreño-Alonso A, Lizardi-Jiménez M. Predominant mode of diesel uptake: Direct interfacial versus emulsification in multiphase bioreactor. Chem Eng Sci 2017. [DOI: 10.1016/j.ces.2017.02.046] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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36
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Temme HR, Sande K, Yan T, Novak PJ. Rapid Enrichment of Dehalococcoides-Like Bacteria by Partial Hydrophobic Separation. Appl Environ Microbiol 2017; 83:e02946-16. [PMID: 28087526 PMCID: PMC5335530 DOI: 10.1128/aem.02946-16] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/24/2016] [Accepted: 01/05/2017] [Indexed: 11/20/2022] Open
Abstract
Organohalide-respiring bacteria can be difficult to enrich and isolate, which can limit research on these important organisms. The goal of this research was to develop a method to rapidly (minutes to days) enrich these organisms from a mixed community. The method presented is based on the hypothesis that organohalide-respiring bacteria would be more hydrophobic than other bacteria as they dehalogenate hydrophobic compounds. The method developed tests this hypothesis by separating a portion of putative organohalide-respiring bacteria, those phylogenetically related to Dehalococcoides mccartyi, at the interface between a hydrophobic organic solvent and an aqueous medium. This novel partial separation technique was tested with a polychlorinated biphenyl-enriched sediment-free culture, a tetrachloroethene-enriched digester sludge culture, and uncontaminated lake sediment. Significantly higher fractions, up to 20.4 times higher, of putative organohalide-respiring bacteria were enriched at the interface between the medium and either hexadecane or trichloroethene. The selective partial separation of these putative organohalide-respiring bacteria occurred after 20 min, strongly suggesting that the separation was a result of physical-chemical interactions between the cell surface and hydrophobic solvent. Dechlorination activity postseparation was verified by the production of cis-dichloroethene when amended with tetrachloroethene. A longer incubation time of 6 days prior to separation with trichloroethene increased the total number of putative organohalide-respiring bacteria. This method provides a way to quickly separate some of the putative organohalide-respiring bacteria from other bacteria, thereby improving our ability to study multiple and different bacteria of potential interest and improving knowledge of these bacteria.IMPORTANCE Organohalide-respiring bacteria, bacteria capable of respiring chlorinated contaminants, can be difficult to enrich, which can limit their predictable use for the bioremediation of contaminated sites. This paper describes a method to quickly separate Dehalococcoides-like bacteria, a group of organisms containing organohalide-respiring bacteria, from other bacteria in a mixed community. From this work, Dehalococcoides-like bacteria appear to have a hydrophobic cell surface, facilitating a rapid (20 min) partial separation from a mixed culture at the surface of a hydrophobic liquid. This method was verified in a polychlorinated biphenyl-enriched sediment-free culture, an anaerobic digester sludge, and uncontaminated sediment. The method described can drastically reduce the amount of time required to partially separate Dehalococcoides-like bacteria from a complex mixed culture, improving researchers' ability to study these important bacteria.
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Affiliation(s)
- Hanna R Temme
- Department of Civil, Environmental, and Geo-Engineering, University of Minnesota, Minneapolis, Minnesota, USA
| | - Kipp Sande
- Department of Civil, Environmental, and Geo-Engineering, University of Minnesota, Minneapolis, Minnesota, USA
| | - Tao Yan
- Department of Civil and Environmental Engineering, University of Hawaii at Manoa, Honolulu, Hawaii, USA
| | - Paige J Novak
- Department of Civil, Environmental, and Geo-Engineering, University of Minnesota, Minneapolis, Minnesota, USA
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Gkorezis P, Daghio M, Franzetti A, Van Hamme JD, Sillen W, Vangronsveld J. The Interaction between Plants and Bacteria in the Remediation of Petroleum Hydrocarbons: An Environmental Perspective. Front Microbiol 2016; 7:1836. [PMID: 27917161 PMCID: PMC5116465 DOI: 10.3389/fmicb.2016.01836] [Citation(s) in RCA: 87] [Impact Index Per Article: 10.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/20/2016] [Accepted: 11/01/2016] [Indexed: 11/24/2022] Open
Abstract
Widespread pollution of terrestrial ecosystems with petroleum hydrocarbons (PHCs) has generated a need for remediation and, given that many PHCs are biodegradable, bio- and phyto-remediation are often viable approaches for active and passive remediation. This review focuses on phytoremediation with particular interest on the interactions between and use of plant-associated bacteria to restore PHC polluted sites. Plant-associated bacteria include endophytic, phyllospheric, and rhizospheric bacteria, and cooperation between these bacteria and their host plants allows for greater plant survivability and treatment outcomes in contaminated sites. Bacterially driven PHC bioremediation is attributed to the presence of diverse suites of metabolic genes for aliphatic and aromatic hydrocarbons, along with a broader suite of physiological properties including biosurfactant production, biofilm formation, chemotaxis to hydrocarbons, and flexibility in cell-surface hydrophobicity. In soils impacted by PHC contamination, microbial bioremediation generally relies on the addition of high-energy electron acceptors (e.g., oxygen) and fertilization to supply limiting nutrients (e.g., nitrogen, phosphorous, potassium) in the face of excess PHC carbon. As an alternative, the addition of plants can greatly improve bioremediation rates and outcomes as plants provide microbial habitats, improve soil porosity (thereby increasing mass transfer of substrates and electron acceptors), and exchange limiting nutrients with their microbial counterparts. In return, plant-associated microorganisms improve plant growth by reducing soil toxicity through contaminant removal, producing plant growth promoting metabolites, liberating sequestered plant nutrients from soil, fixing nitrogen, and more generally establishing the foundations of soil nutrient cycling. In a practical and applied sense, the collective action of plants and their associated microorganisms is advantageous for remediation of PHC contaminated soil in terms of overall cost and success rates for in situ implementation in a diversity of environments. Mechanistically, there remain biological unknowns that present challenges for applying bio- and phyto-remediation technologies without having a deep prior understanding of individual target sites. In this review, evidence from traditional and modern omics technologies is discussed to provide a framework for plant-microbe interactions during PHC remediation. The potential for integrating multiple molecular and computational techniques to evaluate linkages between microbial communities, plant communities and ecosystem processes is explored with an eye on improving phytoremediation of PHC contaminated sites.
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Affiliation(s)
- Panagiotis Gkorezis
- Environmental Biology, Centre for Environmental Sciences, Hasselt UniversityDiepenbeek, Belgium
| | - Matteo Daghio
- Department of Environmental Sciences, University of Milano-BicoccaMilano, Italy
- Department of Biological Sciences, Thompson Rivers University, KamloopsBC, Canada
| | - Andrea Franzetti
- Department of Environmental Sciences, University of Milano-BicoccaMilano, Italy
| | | | - Wouter Sillen
- Environmental Biology, Centre for Environmental Sciences, Hasselt UniversityDiepenbeek, Belgium
| | - Jaco Vangronsveld
- Environmental Biology, Centre for Environmental Sciences, Hasselt UniversityDiepenbeek, Belgium
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38
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Sphingobium hydrophobicum sp. nov., a hydrophobic bacterium isolated from electronic-waste-contaminated sediment. Int J Syst Evol Microbiol 2016; 66:3912-3916. [DOI: 10.1099/ijsem.0.001287] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
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39
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Smułek W, Zdarta A, Łuczak M, Krawczyk P, Jesionowski T, Kaczorek E. Sapindus saponins’ impact on hydrocarbon biodegradation by bacteria strains after short- and long-term contact with pollutant. Colloids Surf B Biointerfaces 2016; 142:207-213. [DOI: 10.1016/j.colsurfb.2016.02.049] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2015] [Revised: 02/17/2016] [Accepted: 02/23/2016] [Indexed: 11/15/2022]
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40
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Zhang Z, Christopher G. Effect of Particulate Contaminants on the Development of Biofilms at Air/Water Interfaces. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2016; 32:2724-30. [PMID: 26943272 DOI: 10.1021/acs.langmuir.6b00143] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/24/2023]
Abstract
The development of biofilms at air/water or oil/water interfaces has important ramifications on several applications, but it has received less attention than biofilm formation on solid surfaces. A key difference between the growth of biofilms on solid surfaces versus liquid interfaces is the range of complicated boundary conditions the liquid interface can create that may affect bacteria, as they adsorb onto and grow on the interface. This situation is exacerbated by the existence of complex interfaces in which interfacially adsorbed components can even more greatly affect interfacial boundary conditions. In this work, we present evidence as to how particle-laden interfaces impact biofilm growth at an air/water interface. We find that particles can enhance the rate of growth and final strength of biofilms at liquid interfaces by providing sites of increased adhesive strength for bacteria. The increased adhesion stems from creating localized areas of hydrophobicity that protrude in the water phase and provide sites where bacteria preferentially adhere. This mechanism is found to be primarily controlled by particle composition, with particle size providing a secondary effect. This increased adhesion through interfacial conditions creates biofilms with properties similar to those observed when adhesion is increased through biological means. Because of the generally understood ubiquity of increased bacteria attachment to hydrophobic surfaces, this result has general applicability to pellicle formation for many pellicle-forming bacteria.
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Affiliation(s)
- Zhenhuan Zhang
- Department of Mechanical Engineering, Texas Tech University , Lubbock, Texas 79409-1035, United States
| | - Gordon Christopher
- Department of Mechanical Engineering, Texas Tech University , Lubbock, Texas 79409-1035, United States
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41
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Zhuang M, Abulikemu G, Campo P, Platten WE, Suidan MT, Venosa AD, Conmy RN. Effect of dispersants on the biodegradation of South Louisiana crude oil at 5 and 25 °C. CHEMOSPHERE 2016; 144:767-774. [PMID: 26414737 DOI: 10.1016/j.chemosphere.2015.08.040] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/01/2015] [Revised: 08/06/2015] [Accepted: 08/11/2015] [Indexed: 06/05/2023]
Abstract
This article reports biodegradation rates for a commercial dispersant, JD-2000, South Louisiana crude oil (SLC) alone, and SLC dispersed with JD-2000 at 5 and 25 °C. Results from the biodegradation experiments revealed that Component X, a chemical marker for JD-2000, rapidly degraded at both temperatures. The application of JD-2000 decreased by half the overall biodegradation rate of aliphatic compounds at 25 °C. At 5 °C, a residual fraction consisting of iso- and n-alkanes (C29-C35) persisted after 56 d. The combination of dispersant and higher temperature resulted in faster removal rates for 2- and 3-ring polycyclic aromatic hydrocarbons. When compared with Corexit 9500, our results suggest that the chemistry of the surfactant (or surfactants) in JD-2000 might have favored oil dissolution (substrate transport to the aqueous phase) as an uptake mechanism over adhesion, which requires direct contact of the biomass with the oil.
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Affiliation(s)
- Mobing Zhuang
- Department of Biomedical, Chemical and Environmental Engineering, University of Cincinnati, 2901 Woodside Drive, Cincinnati, OH 45221, USA
| | - Gulizhaer Abulikemu
- Pegasus Technical Services Inc., 46 E Hollister St, Cincinnati, OH 45219, USA
| | - Pablo Campo
- Department of Biomedical, Chemical and Environmental Engineering, University of Cincinnati, 2901 Woodside Drive, Cincinnati, OH 45221, USA
| | - William E Platten
- Pegasus Technical Services Inc., 46 E Hollister St, Cincinnati, OH 45219, USA
| | - Makram T Suidan
- Faculty of Engineering and Architecture, American University of Beirut, Bechtel Engineering Bldg, 3rd Flr., Room 308M, P.O. Box: 11-0236, Riad El Solh 1107 2020, Beirut, Lebanon.
| | - Albert D Venosa
- US. Environmental Protection Agency, NRMRL, 26 W MLK Drive, Cincinnati, OH 45268, USA
| | - Robyn N Conmy
- US. Environmental Protection Agency, NRMRL, 26 W MLK Drive, Cincinnati, OH 45268, USA
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42
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Vaccari L, Allan DB, Sharifi-Mood N, Singh AR, Leheny RL, Stebe KJ. Films of bacteria at interfaces: three stages of behaviour. SOFT MATTER 2015; 11:6062-6074. [PMID: 26135879 DOI: 10.1039/c5sm00696a] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
We report an investigation of the formation of films by bacteria at an oil-water interface using a combination of particle tracking and pendant drop elastometry. The films display a remarkably varied series of dynamical and mechanical properties as they evolve over the course of minutes to hours following the creation of an initially pristine interface. At the earliest stage of formation, which we interrogate using dispersions of colloidal probes, the interface is populated with motile bacteria. Interactions with the bacteria dominate the colloidal motion, and the interface displays canonical features of active matter in a quasi-two-dimensional context. This active stage gives way to a viscoelastic transition, presumably driven by the accumulation at the interface of polysaccharides and surfactants produced by the bacteria, which instill the interface with the hallmarks of soft glassy rheology that we characterize with microrheology. Eventually, the viscoelastic film becomes fully elastic with the capability to support wrinkling upon compression, and we investigate this final stage with the pendant drop measurements. We characterize quantitatively the dynamic and mechanical properties of the films during each of these three stages - active, viscoelastic, and elastic - and comment on their possible significance for the interfacial bacterial colony. This work also brings to the forefront the important role that interfacial mechanics may play in bacterial suspensions with free surfaces.
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Affiliation(s)
- Liana Vaccari
- Chemical and Biomolecular Engineering, University of Pennsylvania, Philadelphia, PA 19104, USA.
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43
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Smułek W, Kaczorek E, Zgoła-Grzeskowiak A, Cybulski Z. Impact of Alkyl Polyglucosides Surfactant Lutensol GD 70 on Modification of Bacterial Cell Surface Properties. WATER, AIR, AND SOIL POLLUTION 2015; 226:45. [PMID: 25741049 PMCID: PMC4338357 DOI: 10.1007/s11270-015-2327-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/28/2014] [Accepted: 01/26/2015] [Indexed: 06/04/2023]
Abstract
Alkyl polyglucosides, due to their low toxicity and environmental compatibility, could be used in biodegradation of hydrophobic compounds. In this study, the influence of Lutensol GD 70 on the cell hydrophobicity and zeta potential was measured. The particle size distribution and surfactant biodegradation were also investigated. Microbacterium sp. strain E19, Pseudomonas stutzeri strain 9, and the same strain cultivated in stress conditions were used in studies. Adding surfactant to the diesel oil system resulted in an increase of the cell surface hydrophobicity and the formation of cell aggregates (a high polydispersity index). The correlation between cell hydrophobicity and zeta potential in examined samples was not found. The results showed a significant influence of Lutensol GD 70 on the changes in cell surface properties. Moreover, a high biodegradation of a surfactant (over 50 %) by tested strains was observed. The biodegradation of Lutensol GD 70 depends on the length of both polar and nonpolar chains. A long-term contact with diesel oil of stressed strain modifies not only cell surface properties but also its ability to a surfactant biodegradation.
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Affiliation(s)
- Wojciech Smułek
- Institute of Chemical Technology and Engineering, Poznan University of Technology, Berdychowo 4, 60-965 Poznan, Poland
| | - Ewa Kaczorek
- Institute of Chemical Technology and Engineering, Poznan University of Technology, Berdychowo 4, 60-965 Poznan, Poland
| | - Agnieszka Zgoła-Grzeskowiak
- Institute of Chemistry and Technical Electrochemistry, Poznan University of Technology, Berdychowo 4, 60-965 Poznan, Poland
| | - Zefiryn Cybulski
- Department of Microbiology, Greater Poland Cancer Centre, Garbary 15, 61-866 Poznan, Poland
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44
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Akbari A, Ghoshal S. Pilot-scale bioremediation of a petroleum hydrocarbon-contaminated clayey soil from a sub-Arctic site. JOURNAL OF HAZARDOUS MATERIALS 2014; 280:595-602. [PMID: 25218258 DOI: 10.1016/j.jhazmat.2014.08.016] [Citation(s) in RCA: 30] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/22/2014] [Revised: 08/04/2014] [Accepted: 08/13/2014] [Indexed: 05/13/2023]
Abstract
Bioremediation is a potentially cost-effective solution for petroleum contamination in cold region sites. This study investigates the extent of biodegradation of petroleum hydrocarbons (C16-C34) in a pilot-scale biopile experiment conducted at 15°C for periods up to 385 days, with a clayey soil, from a crude oil-impacted site in northern Canada. Although several studies on bioremediation of petroleum hydrocarbon-contaminated soils from cold region sites have been reported for coarse-textured, sandy soils, there are limited studies of bioremediation of petroleum contamination in fine-textured, clayey soils. Our results indicate that aeration and moisture addition was sufficient for achieving 47% biodegradation and an endpoint of 530 mg/kg for non-volatile (C16-C34) petroleum hydrocarbons. Nutrient amendment with 95 mg-N/kg showed no significant effect on biodegradation compared to a control system without nutrient but similar moisture content. In contrast, in a biopile amended with 1340 mg-N/kg, no statistically significant biodegradation of non-volatile fraction was detected. Terminal Restriction Fragment Length Polymorphism (T-RFLP) analyses of alkB and 16S rRNA genes revealed that inhibition of hydrocarbon biodegradation was associated with a lack of change in microbial community composition. Overall, our data suggests that biopiles are feasible for attaining the bioremediation endpoint in clayey soils. Despite the significantly lower biodegradation rate of 0.009 day(-1) in biopile tank compared to 0.11 day(-1) in slurry bioreactors for C16-C34 hydrocarbons, the biodegradation extents for this fraction were comparable in these two systems.
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Affiliation(s)
- Ali Akbari
- Department of Civil Engineering, McGill University, Montreal, Canada
| | - Subhasis Ghoshal
- Department of Civil Engineering, McGill University, Montreal, Canada.
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45
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Krasowska A, Sigler K. How microorganisms use hydrophobicity and what does this mean for human needs? Front Cell Infect Microbiol 2014; 4:112. [PMID: 25191645 PMCID: PMC4137226 DOI: 10.3389/fcimb.2014.00112] [Citation(s) in RCA: 314] [Impact Index Per Article: 31.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/21/2014] [Accepted: 07/29/2014] [Indexed: 11/25/2022] Open
Abstract
Cell surface hydrophobicity (CSH) plays a crucial role in the attachment to, or detachment from the surfaces. The influence of CSH on adhesion of microorganisms to biotic and abiotic surfaces in medicine as well as in bioremediation and fermentation industry has both negative and positive aspects. Hydrophobic microorganisms cause the damage of surfaces by biofilm formation; on the other hand, they can readily accumulate on organic pollutants and decompose them. Hydrophilic microorganisms also play a considerable role in removing organic wastes from the environment because of their high resistance to hydrophobic chemicals. Despite the many studies on the environmental and metabolic factors affecting CSH, the knowledge of this subject is still scanty and is in most cases limited to observing the impact of hydrophobicity on adhesion, aggregation or flocculation. The future of research seems to lie in finding a way to managing the microbial adhesion process, perhaps by steering cell hydrophobicity.
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Affiliation(s)
- Anna Krasowska
- Department of Biotransformation, Faculty of Biotechnology, University of Wroclaw Wroclaw, Poland
| | - Karel Sigler
- Department of Cell Biology, Institute of Microbiology, Czech Academy of Sciences Prague, Czech Republic
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46
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Role of low-concentration monorhamnolipid in cell surface hydrophobicity of Pseudomonas aeruginosa: adsorption or lipopolysaccharide content variation. Appl Microbiol Biotechnol 2014; 98:10231-41. [DOI: 10.1007/s00253-014-5957-3] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2014] [Revised: 07/11/2014] [Accepted: 07/14/2014] [Indexed: 10/25/2022]
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47
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Fuentes S, Méndez V, Aguila P, Seeger M. Bioremediation of petroleum hydrocarbons: catabolic genes, microbial communities, and applications. Appl Microbiol Biotechnol 2014; 98:4781-94. [PMID: 24691868 DOI: 10.1007/s00253-014-5684-9] [Citation(s) in RCA: 153] [Impact Index Per Article: 15.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2014] [Revised: 03/10/2014] [Accepted: 03/11/2014] [Indexed: 01/22/2023]
Abstract
Bioremediation is an environmental sustainable and cost-effective technology for the cleanup of hydrocarbon-polluted soils and coasts. In spite of that longer times are usually required compared with physicochemical strategies, complete degradation of the pollutant can be achieved, and no further confinement of polluted matrix is needed. Microbial aerobic degradation is achieved by the incorporation of molecular oxygen into the inert hydrocarbon molecule and funneling intermediates into central catabolic pathways. Several families of alkane monooxygenases and ring hydroxylating dioxygenases are distributed mainly among Proteobacteria, Actinobacteria, Firmicutes and Fungi strains. Catabolic routes, regulatory networks, and tolerance/resistance mechanisms have been characterized in model hydrocarbon-degrading bacteria to understand and optimize their metabolic capabilities, providing the basis to enhance microbial fitness in order to improve hydrocarbon removal. However, microbial communities taken as a whole play a key role in hydrocarbon pollution events. Microbial community dynamics during biodegradation is crucial for understanding how they respond and adapt to pollution and remediation. Several strategies have been applied worldwide for the recovery of sites contaminated with persistent organic pollutants, such as polycyclic aromatic hydrocarbons and petroleum derivatives. Common strategies include controlling environmental variables (e.g., oxygen availability, hydrocarbon solubility, nutrient balance) and managing hydrocarbon-degrading microorganisms, in order to overcome the rate-limiting factors that slow down hydrocarbon biodegradation.
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Affiliation(s)
- Sebastián Fuentes
- Laboratorio de Microbiología Molecular y Biotecnología Ambiental, Departamento de Química & Centro de Biotecnología & Center of Nanotechnology and Systems Biology, Universidad Técnica Federico Santa María, Valparaíso, Chile
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48
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Microbial advanced biofuels production: overcoming emulsification challenges for large-scale operation. Trends Biotechnol 2014; 32:221-9. [DOI: 10.1016/j.tibtech.2014.02.002] [Citation(s) in RCA: 48] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2013] [Revised: 01/31/2014] [Accepted: 02/06/2014] [Indexed: 11/19/2022]
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49
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Shetty A, Hickey WJ. Effects of outer membrane vesicle formation, surface-layer production and nanopod development on the metabolism of phenanthrene by Delftia acidovorans Cs1-4. PLoS One 2014; 9:e92143. [PMID: 24642639 PMCID: PMC3958437 DOI: 10.1371/journal.pone.0092143] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2013] [Accepted: 02/18/2014] [Indexed: 11/18/2022] Open
Abstract
Nanopods are extracellular structures arising from the convergence of two widely distributed bacterial characteristics: production of outer membrane vesicles (OMV) and formation of surface layers (S-layers). Nanopod production is driven by OMV formation, and in Delftia acidovorans Cs1-4 growth on phenanthrene induces OMV/nanopod formation. While OMV production has been associated with many functions, particularly with pathogens, linkage to biodegradation has been limited to a membrane stress response to lipophilic compounds. The objectives of this study were to determine: 1.) Whether induction of nanopod formation was linked to phenanthrene metabolism or a non-specific membrane stress response, and 2.) The relative importance of OMV/nanopod formation vs. formation of the S-layer alone to phenanthrene utilization. Membrane stress response was investigated by quantifying nanopod formation following exposure to compounds that exceeded phenanthrene in membrane stress-inducing potential. Naphthalene did not induce nanopod formation, and toluene was a weak inducer compared to phenanthrene (two- vs. six-fold increase, respectively). Induction of nanopod formation by growth on phenanthrene was therefore linked to phenanthrene metabolism and not a membrane stress response. Impacts on phenanthrene biodegradation of OMV/nanopod production vs. S-layer formation were assessed with D. acidovorans Cs1-4 mutants deficient in S-layer formation or OMV/nanopod production. Both mutants had impaired growth on phenanthrene, but the loss of OMV/nanopod production was more significant than loss of the S-layer. The S-layer of D. acidovorans Cs1-4 did not affect phenanthrene uptake, and its primary role in phenanthrene biodegradation process appeared to be enabling nanopod development. Nanopods appeared to benefit phenanthrene biodegradation by enhancing cellular retention of metabolites. Collectively, these studies established that nanopod/OMV formation was an essential characteristic of the D. acidovorans Cs1-4 phenanthrene degradation process. This report thus established a new dimension in the area of biodegradation, namely, the involvement of extracellular structures as elements supporting metabolic processes underlying biodegradation.
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Affiliation(s)
- Ameesha Shetty
- O.N. Allen Laboratory for Soil Microbiology, Department of Soil Science, University of Wisconsin-Madison, Madison, Wisconsin, United States of America
| | - William J. Hickey
- O.N. Allen Laboratory for Soil Microbiology, Department of Soil Science, University of Wisconsin-Madison, Madison, Wisconsin, United States of America
- * E-mail:
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Chang CF, Chen CC, Lee CF, Liu SM. Identifying and characterizing Yarrowia keelungensis sp. nov., an oil-degrading yeast isolated from the sea surface microlayer. Antonie van Leeuwenhoek 2013; 104:1117-23. [PMID: 24026513 DOI: 10.1007/s10482-013-0033-z] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/09/2013] [Accepted: 09/06/2013] [Indexed: 11/29/2022]
Abstract
Ascomycetous yeast strain SM-22 was isolated from the sea-surface microlayer near the Keelung City off the northern coast of Taiwan. This strain showed a cell surface hydrophobicity higher than 90 %, moderate UV A/B resistance, and it degraded 68 % of the total petroleum hydrocarbon content of an artificial seawater medium containing 1 % (v v(-1)) diesel oil within 15 days at 25 °C. The closest phylogenetic relative of this strain is Candida oslonensis CBS 10146(T), but it differs from strain SM-22 by a 3.7 % divergence (including 18 nucleotide substitutions and 2 gaps) in the D1/D2 domain sequence of the large subunit rRNA gene. This difference clearly suggests that the strain SM-22 represents a distinct species. Strain SM-22 does not produce ascospores on common sporulation media and it can therefore be considered an anamorph of the genus Yarrowia. Thus, the name Yarrowia keelungensis sp. nov. (type strain SM-22(T) = BCRC 23110(T) = JCM 14894(T) = CBS 11062(T)) is proposed as a novel species of genus Yarrowia.
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MESH Headings
- Biotransformation
- Cluster Analysis
- Culture Media/chemistry
- DNA, Fungal/chemistry
- DNA, Fungal/genetics
- DNA, Intergenic/chemistry
- DNA, Intergenic/genetics
- DNA, Ribosomal/chemistry
- DNA, Ribosomal/genetics
- Genes, rRNA
- Microscopy
- Molecular Sequence Data
- Mycological Typing Techniques
- Oils/metabolism
- Phylogeny
- RNA, Fungal/genetics
- RNA, Ribosomal/genetics
- Seawater/microbiology
- Sequence Analysis, DNA
- Spores, Fungal/growth & development
- Taiwan
- Yarrowia/classification
- Yarrowia/growth & development
- Yarrowia/isolation & purification
- Yarrowia/metabolism
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Affiliation(s)
- Chin-Feng Chang
- Graduate Institute of Marine Biology, National Taiwan Ocean University, 2 Pei-Ning Road, Keelung, 20224, Taiwan
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