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Shi J, Zhou X, Zhang S, Sun F, Shen C, Su X. Unveiling the distribution characteristics of rpf-like genes and indigenous resuscitation promoting factor production in PCB-contaminated soils. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2024; 357:120803. [PMID: 38569268 DOI: 10.1016/j.jenvman.2024.120803] [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: 12/13/2023] [Revised: 02/17/2024] [Accepted: 03/30/2024] [Indexed: 04/05/2024]
Abstract
Resuscitation promoting factors (Rpfs), known for their anti-dormancy cytokine properties, have been extensively investigated in the medical field. Although the Rpf from Micrococcus luteus has been successfully utilized to resuscitate and stimulate microbial populations for the degradation of polychlorinated biphenyls (PCBs), the presence of indigenous Rpf homologs in PCB-contaminated soils has not been established. In this study, the distribution characteristics of rpf-like genes and indigenous strain capable of producing Rpf in PCB-contaminated soils were explored. The results revealed the widespread presence of Rpf-like domains and their associated genes, particularly in close association with heavy metals and PCBs. The rpf-like genes were predominantly found in Proteobacteria and displayed a positive correlation with genes involved in PCB degradation and viable but non-culturable (VBNC) formation. Notably, the recombinant Rpf-Ac protein derived from the indigenous strain Achromobacter sp. HR2 exhibited muralytic activity and demonstrated significant efficacy in resuscitating the growth of VBNC cells, while also stimulating the growth of normal cells. These findings shed light on the prevalent presence of Rpf homologs in PCB-contaminated soils and their potential to resuscitate functional populations in the VBNC state, thereby enhancing in situ bioremediation.
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Affiliation(s)
- Jie Shi
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China
| | - Xinru Zhou
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China
| | - Shusheng Zhang
- The Management Center of Wuyanling National Natural Reserve in Zhejiang, Wenzhou, 325500, China
| | - Faqian Sun
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China
| | - Chaofeng Shen
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China
| | - Xiaomei Su
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China.
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2
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Shi J, Yang Y, Zhang S, Lin Q, Sun F, Lin H, Shen C, Su X. New insights into survival strategies and PCB bioremediation potential of resuscitated strain Achromobacter sp. HR2 under combined stress conditions. JOURNAL OF HAZARDOUS MATERIALS 2024; 465:133242. [PMID: 38103289 DOI: 10.1016/j.jhazmat.2023.133242] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/07/2023] [Revised: 12/08/2023] [Accepted: 12/10/2023] [Indexed: 12/19/2023]
Abstract
The resuscitated strains achieved through the addition of resuscitation promoting factor (Rpf) hold significant promise as bio-inoculants for enhancing the bioremediation of polychlorinated biphenyls (PCBs). Nevertheless, the potential of these resuscitated strains to transition into a viable but non-culturable (VBNC) state, along with the specific stressors that initiate this transformation, remains to be comprehensively elucidated. In this study, a resuscitated strain HR2, obtained through Rpf amendment, was employed to investigate its survival strategies under combined stress involving low temperature (LT), and PCBs, in the absence and presence of heavy metals (HMs). Whole-genome analysis demonstrated that HR2, affiliated with Achromobacter, possessed 107 genes associated with the degradation of polycyclic aromatic compounds. Remarkably, HR2 exhibited effective degradation of Aroclor 1242 and robust resistance to stress induced by LT and PCBs, while maintaining its culturability. However, when exposed to the combined stress of LT, PCBs, and HMs, HR2 entered the VBNC state. This state was characterized by significant decreases in enzyme activities and notable morphological, physiological, and molecular alterations compared to normal cells. These findings uncovered the survival status of resuscitated strains under stressful conditions, thereby offering valuable insights for the development of effective bioremediation strategies.
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Affiliation(s)
- Jie Shi
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Yingying Yang
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Shusheng Zhang
- The Management Center of Wuyanling National Natural Reserve in Zhejiang, Wenzhou 325500, China
| | - Qihua Lin
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Faqian Sun
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Hongjun Lin
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Chaofeng Shen
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Xiaomei Su
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China.
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Yang Y, Zhang Q, Lin Q, Sun F, Shen C, Lin H, Su X. Unveiling the PCB biodegradation potential and stress survival strategies of resuscitated strain Pseudomonas sp. HR1. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2024; 344:123320. [PMID: 38185359 DOI: 10.1016/j.envpol.2024.123320] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/30/2023] [Revised: 01/03/2024] [Accepted: 01/04/2024] [Indexed: 01/09/2024]
Abstract
The exploration of resuscitated strains, facilitated by the resuscitation promoting factor (Rpf), has substantially expanded the pool of cultivated degraders, enhancing the screening of bio-inoculants for bioremediation applications. However, it remains unknown whether these resuscitated strains can re-enter the viable but non-culturable (VBNC) state and the specific stress conditions that trigger such a transition. In this work, the whole genome, and polychlorinated biphenyl (PCB)-degrading capabilities of a resuscitated strain HR1, were investigated. Notably, the focus of this exploration was on elucidating whether HR1 would undergo a transition into the VBNC state when exposed to low temperature and PCBs, with and without the presence of heavy metals (HMs). The results suggested that the resuscitated strain Pseudomonas sp. HR1 harbored various functional genes related to xenobiotic biodegradation, demonstrating remarkable efficiency in Aroclor 1242 degradation and strong resistance against stress induced by low temperature and PCBs. Nevertheless, when exposed to the combined stress of low temperature, PCBs, and HMs, HR1 underwent a transition into the VBNC state. This transition was characterized by significant decreases in enzyme activities and notable changes in both morphological and physiological traits when compared to normal cells. Gene expression analysis revealed molecular shifts underlying the VBNC state, with down-regulated genes showed differential expression across multiple pathways and functions, including oxidative phosphorylation, glycolysis, tricarboxylic acid cycle, amino acid metabolism, translation and cytoplasm, while up-regulated genes predominantly associated with transcription regulation, membrane function, quorum sensing, and transporter activity. These findings highlighted the great potential of resuscitated strains as bio-inoculants in bioaugmentation and shed light on the survival mechanisms of functional strains under stressful conditions, which should be carefully considered during bioremediation processes.
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Affiliation(s)
- Yingying Yang
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China
| | - Qian Zhang
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China
| | - Qihua Lin
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China
| | - Faqian Sun
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China
| | - Chaofeng Shen
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China
| | - Hongjun Lin
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China
| | - Xiaomei Su
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China.
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Acosta Hernández I, Muñoz Morales M, Fernández Morales FJ, Rodríguez Romero L, Villaseñor Camacho J. Removal of heavy metals from mine tailings by in-situ bioleaching coupled to electrokinetics. ENVIRONMENTAL RESEARCH 2023; 238:117183. [PMID: 37769830 DOI: 10.1016/j.envres.2023.117183] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/16/2023] [Revised: 09/04/2023] [Accepted: 09/20/2023] [Indexed: 10/03/2023]
Abstract
This work utilizes a combined biological-electrochemical technique for the in-situ removal of metals from polluted mine tailings. As the main novelty point it is proposed to use electrokinetics (EK) for the in-situ activation of a bioleaching mechanism into the tailings, in order to promote biological dissolution of metal sulphides (Step 1), and for the subsequent removal of leached metals by EK transport out of the tailings (Step 2). Mine tailings were collected from an abandoned Pb/Zn mine located in central-southern Spain. EK-bioleaching experiments were performed under batch mode using a lab scale EK cell. A mixed microbial culture of autochthonous acidophilic bacteria grown from the tailings was used. Direct current with polarity reversal vs alternate current was evaluated in Step 1. In turn, different biological strategies were used: biostimulation, bioaugmentation and the abiotic reference test (EK alone). It was observed that bioleaching activation was very low during Step 1, because it was difficult to maintain acidic pH in the whole soil, but then it worked correctly during Step 2. It was confirmed that microorganisms successfully contributed to the in-situ solubilization of the metal sulphides as final metal removal rates were improved compared to the conventional abiotic EK (best increases of around 40% for Cu, 162% for Pb, 18% for Zn, 13% for Mn, 40% for Ni and 15% for Cr). Alternate current seemed to be the best option. The tailings concentrations of Fe, Al, Cu, Mn, Ni and Pb after treatment comply with regulations, but Pb, Cd and Zn concentrations exceed the maximum values. From the data obtained in this work it has been observed that EK-bioleaching could be feasible, but some upgrades and future work must be done in order to optimize experimental conditions, especially the control of soil pH in acidic values.
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Affiliation(s)
- Irene Acosta Hernández
- Chemical Engineering Department, Research Institute for Chemical and Environmental Technologies (ITQUIMA), University of Castilla La Mancha UCLM, 13071 Ciudad Real, Spain
| | - Martín Muñoz Morales
- Chemical Engineering Department, Research Institute for Chemical and Environmental Technologies (ITQUIMA), University of Castilla La Mancha UCLM, 13071 Ciudad Real, Spain
| | - Francisco Jesús Fernández Morales
- Chemical Engineering Department, Research Institute for Chemical and Environmental Technologies (ITQUIMA), University of Castilla La Mancha UCLM, 13071 Ciudad Real, Spain
| | - Luis Rodríguez Romero
- Chemical Engineering Department, Research Institute for Chemical and Environmental Technologies (ITQUIMA), University of Castilla La Mancha UCLM, 13071 Ciudad Real, Spain
| | - José Villaseñor Camacho
- Chemical Engineering Department, Research Institute for Chemical and Environmental Technologies (ITQUIMA), University of Castilla La Mancha UCLM, 13071 Ciudad Real, Spain.
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Lin R, Wu H, Kong X, Ren H, Lu Z. Ribosomal RNA gene operon copy number, a functional trait indicating the hydrocarbon degradation level of bacterial communities. JOURNAL OF HAZARDOUS MATERIALS 2023; 459:132100. [PMID: 37523962 DOI: 10.1016/j.jhazmat.2023.132100] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/06/2023] [Revised: 07/04/2023] [Accepted: 07/18/2023] [Indexed: 08/02/2023]
Abstract
The lack of universal indicators for predicting microbial biodegradation potential and assessing remediation effects limits the generalization of bioremediation. The community-level ribosomal RNA gene operon (rrn) copy number, an important functional trait, has the potential to serve as a key indicator of the bioremediation of organic pollutants. A meta-analysis based on 1275 samples from 26 hydrocarbon-related studies revealed a positive relationship between the microbial hydrocarbon biodegradation level and the community-level rrn copy number in soil, seawater and culture. Subsequently, a microcosm experiment was performed to decipher the community-level rrn copy number response mechanism during total petroleum hydrocarbon (TPH) biodegradation. The treatment combining straw with resuscitation-promoting factor (Rpf) exhibited the highest community-level rrn copy number and the most effective biodegradation compared with other treatments, and the initial TPH content (20,000 mg kg-1) was reduced by 67.67% after 77 days of incubation. TPH biodegradation rate was positively correlated with the average community-level rrn copy number (p = 0.001, R2 = 0.5781). Both meta and community analyses showed that rrn copy number may reflect the potential of hydrocarbon degradation and microbial dormancy. Our findings provide insight into the applicability of the community-level rrn copy number to assess bacterial biodegradation for pollution remediation.
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Affiliation(s)
- Renzhang Lin
- MOE Laboratory of Biosystem Homeostasis and Protection, College of Life Sciences, Zhejiang University, Hangzhou 310058, China; Cancer Center, Zhejiang University, Hangzhou 310058, China
| | - Hao Wu
- MOE Laboratory of Biosystem Homeostasis and Protection, College of Life Sciences, Zhejiang University, Hangzhou 310058, China; Cancer Center, Zhejiang University, Hangzhou 310058, China
| | - Xiangyu Kong
- MOE Laboratory of Biosystem Homeostasis and Protection, College of Life Sciences, Zhejiang University, Hangzhou 310058, China; Cancer Center, Zhejiang University, Hangzhou 310058, China
| | - Hao Ren
- MOE Laboratory of Biosystem Homeostasis and Protection, College of Life Sciences, Zhejiang University, Hangzhou 310058, China; Cancer Center, Zhejiang University, Hangzhou 310058, China
| | - Zhenmei Lu
- MOE Laboratory of Biosystem Homeostasis and Protection, College of Life Sciences, Zhejiang University, Hangzhou 310058, China; Cancer Center, Zhejiang University, Hangzhou 310058, China.
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Abdullah K, Wilkins D, Ferrari BC. Utilization of-Omic technologies in cold climate hydrocarbon bioremediation: a text-mining approach. Front Microbiol 2023; 14:1113102. [PMID: 37396353 PMCID: PMC10313077 DOI: 10.3389/fmicb.2023.1113102] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/01/2022] [Accepted: 05/02/2023] [Indexed: 07/04/2023] Open
Abstract
Hydrocarbon spills in cold climates are a prominent and enduring form of anthropogenic contamination. Bioremediation is one of a suite of remediation tools that has emerged as a cost-effective strategy for transforming these contaminants in soil, ideally into less harmful products. However, little is understood about the molecular mechanisms driving these complex, microbially mediated processes. The emergence of -omic technologies has led to a revolution within the sphere of environmental microbiology allowing for the identification and study of so called 'unculturable' organisms. In the last decade, -omic technologies have emerged as a powerful tool in filling this gap in our knowledge on the interactions between these organisms and their environment in vivo. Here, we utilize the text mining software Vosviewer to process meta-data and visualize key trends relating to cold climate bioremediation projects. The results of text mining of the literature revealed a shift over time from optimizing bioremediation experiments on the macro/community level to, in more recent years focusing on individual organisms of interest, interactions within the microbiome and the investigation of novel metabolic degradation pathways. This shift in research focus was made possible in large part by the rise of omics studies allowing research to focus not only what organisms/metabolic pathways are present but those which are functional. However, all is not harmonious, as the development of downstream analytical methods and associated processing tools have outpaced sample preparation methods, especially when dealing with the unique challenges posed when analyzing soil-based samples.
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Affiliation(s)
- Kristopher Abdullah
- Faculty of Science, School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, NSW, Australia
| | - Daniel Wilkins
- Environmental Stewardship Program, Australian Antarctic Division, Department of Climate Change, Energy, Environment and Water, Kingston, TAS, Australia
| | - Belinda C. Ferrari
- Faculty of Science, School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, NSW, Australia
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Patowary R, Devi A, Mukherjee AK. Advanced bioremediation by an amalgamation of nanotechnology and modern artificial intelligence for efficient restoration of crude petroleum oil-contaminated sites: a prospective study. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:74459-74484. [PMID: 37219770 PMCID: PMC10204040 DOI: 10.1007/s11356-023-27698-4] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/06/2023] [Accepted: 05/11/2023] [Indexed: 05/24/2023]
Abstract
Crude petroleum oil spillage is becoming a global concern for environmental pollution and poses a severe threat to flora and fauna. Bioremediation is considered a clean, eco-friendly, and cost-effective process to achieve success among the several technologies adopted to mitigate fossil fuel pollution. However, due to the hydrophobic and recalcitrant nature of the oily components, they are not readily bioavailable to the biological components for the remediation process. In the last decade, nanoparticle-based restoration of oil-contaminated, owing to several attractive properties, has gained significant momentum. Thus, intertwining nano- and bioremediation can lead to a suitable technology termed 'nanobioremediation' expected to nullify bioremediation's drawbacks. Furthermore, artificial intelligence (AI), an advanced and sophisticated technique that utilizes digital brains or software to perform different tasks, may radically transfer the bioremediation process to develop an efficient, faster, robust, and more accurate method for rehabilitating oil-contaminated systems. The present review outlines the critical issues associated with the conventional bioremediation process. It analyses the significance of the nanobioremediation process in combination with AI to overcome such drawbacks of a traditional approach for efficiently remedying crude petroleum oil-contaminated sites.
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Affiliation(s)
- Rupshikha Patowary
- Environmental Chemistry Laboratory, Life Sciences Division, Institute of Advanced Study in Science and Technology, Paschim Boragaon, Guwahati, 781 035, Assam, India
| | - Arundhuti Devi
- Environmental Chemistry Laboratory, Life Sciences Division, Institute of Advanced Study in Science and Technology, Paschim Boragaon, Guwahati, 781 035, Assam, India
| | - Ashis K Mukherjee
- Microbial Biotechnology and Protein Research Laboratory, Life Sciences Division, Institute of Advanced Study in Science and Technology, Paschim Boragaon, Guwahati, 781 035, Assam, India.
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8
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Silva NM, Romagnoli CL, Santiago CRDN, de Lacerda JPA, Leão SC, Digiampietri LA, Viana-Niero C. Multi-Approach Characterization of Novel Pyrene-Degrading Mycolicibacterium austroafricanum Isolates Lacking nid Genes. Microorganisms 2023; 11:1413. [PMID: 37374915 DOI: 10.3390/microorganisms11061413] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2023] [Revised: 05/21/2023] [Accepted: 05/22/2023] [Indexed: 06/29/2023] Open
Abstract
Polycyclic aromatic hydrocarbons (PAHs) are chemical compounds that are widespread in the environment, arising from the incomplete combustion of organic material, as well as from human activities involving petrol exploitation, petrochemical industrial waste, gas stations, and environmental disasters. PAHs of high molecular weight, such as pyrene, have carcinogenic and mutagenic effects and are considered pollutants. The microbial degradation of PAHs occurs through the action of multiple dioxygenase genes (nid), which are localized in genomic island denominate region A, and cytochrome P450 monooxygenases genes (cyp) dispersed in the bacterial genome. This study evaluated pyrene degradation by five isolates of Mycolicibacterium austroafricanum using 2,6-dichlorophenol indophenol (DCPIP assay), gas chromatography/mass spectrometry (CG/MS), and genomic analyses. Two isolates (MYC038 and MYC040) exhibited pyrene degradation indexes of 96% and 88%, respectively, over a seven-day incubation period. Interestingly, the genomic analyses showed that the isolates do not have nid genes, which are involved in PAH biodegradation, despite their ability to degrade pyrene, suggesting that degradation may occur due to the presence of cyp150 genes, or even genes that have not yet been described. To the best of our knowledge, this is the first report of isolates without nid genes demonstrating the ability to degrade pyrene.
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Affiliation(s)
- Natalia Maria Silva
- Department of Microbiology, Immunology and Parasitology, Federal University of São Paulo, São Paulo 04023-901, Brazil
| | - Camila Lopes Romagnoli
- Department of Microbiology, Immunology and Parasitology, Federal University of São Paulo, São Paulo 04023-901, Brazil
| | | | - João Paulo Amorim de Lacerda
- Laboratory of Chemistry and Manufactured Products, Institute of Technological Research, São Paulo 05508-901, Brazil
| | - Sylvia Cardoso Leão
- Department of Microbiology, Immunology and Parasitology, Federal University of São Paulo, São Paulo 04023-901, Brazil
| | | | - Cristina Viana-Niero
- Department of Microbiology, Immunology and Parasitology, Federal University of São Paulo, São Paulo 04023-901, Brazil
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Xia M, Chen B, Fan G, Weng S, Qiu R, Hong Z, Yan Z. The shifting research landscape for PAH bioremediation in water environment: a bibliometric analysis on three decades of development. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023:10.1007/s11356-023-27404-4. [PMID: 37150789 DOI: 10.1007/s11356-023-27404-4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/06/2022] [Accepted: 04/29/2023] [Indexed: 05/09/2023]
Abstract
Polycyclic aromatic hydrocarbons (PAHs) with their carcinogenic, teratogenic, and mutagenic effects can cause great damage to the ecosystem and public health when present in water. With bioremediation, PAH contamination in water environment can be greatly reduced in an eco-friendly manner. It has thus become the research focus for many environmental scientists. In this study, a bibliometric analysis on three-decade (1990-2022) development of PAH bioremediation in water environment was conducted from temporal and spatial dimensions using CiteSpace. A total of 2480 publications, obtained from Web of Science core collection database, were used to explore the basic characteristics, hotspots, and prospects of the research area. The results showed that (1) bioremediation/biodegradation of PAHs in water environment has been getting researchers' attention since 1990, and is gaining even more traction as time goes on. (2) In terms of countries, China and the USA were the major contributors in this research area, while at the institutional level, the Chinese Academy of Sciences has produced the most research results. However, international cooperation across regions was lacking in the field. (3) Environment Science and Technology, Chemosphere, Applied and Environment Microbiology, Journal of Hazardous Materials, and Environment Pollution were the 5 most cited journals in this field. (4) There were three major stages the field has gone through, each with distinct research hotspots, including initial stage (1990-1994), mechanism investigation (1995-2000), and application exploration (2001-2010; 2011-2022). Finally, research perspectives were proposed, covering three directions, namely, bioavailability, immobilization, and viable but nonculturable (VBNC) bacteria.
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Affiliation(s)
- Mingqian Xia
- College of Civil Engineering, Fuzhou University, Fuzhou, 350116, China
| | - Bo Chen
- College of Civil Engineering, Fuzhou University, Fuzhou, 350116, China
| | - Gongduan Fan
- College of Civil Engineering, Fuzhou University, Fuzhou, 350116, China.
| | - Sunxian Weng
- Electric Power Research Institute of State Grid Fujian Electric Power Co., Ltd., Fuzhou, 350007, China
| | - Rongpeng Qiu
- College of Civil Engineering, Fuzhou University, Fuzhou, 350116, China
| | - Zhanglin Hong
- China Construction Third Bureau First Engineering Co., Ltd., Hubei, 430040, China
| | - Zhongsen Yan
- College of Civil Engineering, Fuzhou University, Fuzhou, 350116, China
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Lin Q, Ding J, Yang Y, Sun F, Shen C, Lin H, Su X. Simultaneous adsorption and biodegradation of polychlorinated biphenyls using resuscitated strain Streptococcus sp. SPC0 immobilized in polyvinyl alcohol‑sodium alginate. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 868:161620. [PMID: 36649762 DOI: 10.1016/j.scitotenv.2023.161620] [Citation(s) in RCA: 9] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/04/2022] [Revised: 01/06/2023] [Accepted: 01/10/2023] [Indexed: 06/17/2023]
Abstract
Enhanced bioremediation of polychlorinated biphenyls (PCBs) is a promising and effective strategy for eliminating the risks posed by PCBs. In the present study, the feasibility of utilizing an immobilization approach to enhance the PCBs degradation performance of a resuscitated strain Streptococcus sp. SPC0 was evaluated. The results indicated that a mixed matrix containing polyvinyl alcohol (PVA) and sodium alginate (SA) used as immobilized carriers provided a porous microstructure space for SPC0 colonization and proliferation. The enhanced removal of PCBs by immobilized SPC0 was attributed to simultaneous adsorption and biodegradation performances of PVA-SA-SPC0 beads. The relative equilibrium adsorption capacity of immobilized beads increased with elevated initial concentration, and the maximum theoretical value calculated was 1.64 mg/g. The adsorption process of PCBs by immobilized beads was well fitted to the quasi-second-order kinetic model, and most suitable for Langmuir isotherm model. Immobilized SPC0 enhanced PCB removal with 1.0-7.1 times higher than free cells. Especially, more effective removal of PCBs at higher concentrations could be achieved, in which 73.9 % of 20 mg/L PCBs was removed at 12 h by immobilized SPC0, whereas only 12.0 % by free cells. Moreover, the immobilized SPC0 with excellent stability and reusability retained almost 100 % of the original PCBs removal activity after reusing four times. These results revealed the application potential of immobilizing resuscitated strains for enhanced bioremediation of PCBs.
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Affiliation(s)
- Qihua Lin
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Jiayan Ding
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Yingying Yang
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Faqian Sun
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Chaofeng Shen
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China
| | - Hongjun Lin
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Xiaomei Su
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China.
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11
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Chen R, Huang J, Li X, Yang C, Wu X. Functional characterization of an efficient ibuprofen-mineralizing bacterial consortium. JOURNAL OF HAZARDOUS MATERIALS 2023; 447:130751. [PMID: 36641849 DOI: 10.1016/j.jhazmat.2023.130751] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/31/2022] [Revised: 12/21/2022] [Accepted: 01/06/2023] [Indexed: 06/17/2023]
Abstract
Ibuprofen (IBU) is a widely used non-steroidal anti-inflammatory drug (NSAID), which has attracted widespread attention due to its high frequency of environmental detection, non-degradability and potential ecological risks. However, little is known about the functional characterization of the highly efficient IBU-mineralizing consortium. In this study, an IBU-mineralizing consortium C6 was obtained by continuous enrichment of the original consortium C1 accumulated the metabolite of 2-Hydroxyibuprofen (2HIBU). Methylobacter, Pseudomonas, and Dokdonella spp. were significantly enriched in the consortium C6. Streptomyces sp. had a relative abundance of about 0.01 % in the consortium C1 but extremely low (< 0.001 %) in the consortium C6. Subsequently, two IBU degraders, Streptomyces sp. D218 and Pseudomonas sp. M20 with detection of 2HIBU or not, were isolated from the consortia C1 and C6, respectively. These results imply that the degradation of IBU in the consortia C1 and C6 may be mainly mediated by key players of Streptomyces and Pseudomonas, respectively. This study showed that the composition of the core functional strains of the bacterial community structure was changed by continuous enrichment, which affected the degradation process of IBU. These findings provide new insights into our understanding of the biotransformation process of NSAIDs and provide valuable strain resources for bioremediation.
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Affiliation(s)
- Ruomu Chen
- College of Resources and Environment, Anhui Agricultural University, Key Laboratory of Agri-food Safety of Anhui Province, Hefei 230036, China
| | - Junwei Huang
- College of Resources and Environment, Anhui Agricultural University, Key Laboratory of Agri-food Safety of Anhui Province, Hefei 230036, China
| | - Xiaomeng Li
- College of Resources and Environment, Anhui Agricultural University, Key Laboratory of Agri-food Safety of Anhui Province, Hefei 230036, China
| | - Chen Yang
- College of Resources and Environment, Anhui Agricultural University, Key Laboratory of Agri-food Safety of Anhui Province, Hefei 230036, China
| | - Xiangwei Wu
- College of Resources and Environment, Anhui Agricultural University, Key Laboratory of Agri-food Safety of Anhui Province, Hefei 230036, China.
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12
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Zhou X, Zhang S, Wang R, An Z, Sun F, Shen C, Lin H, Su X. A novel strategy for enhancing bioremediation of polychlorinated biphenyl-contaminated soil with resuscitation promoting factor and resuscitated strain. JOURNAL OF HAZARDOUS MATERIALS 2023; 447:130781. [PMID: 36641851 DOI: 10.1016/j.jhazmat.2023.130781] [Citation(s) in RCA: 13] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/06/2022] [Revised: 01/08/2023] [Accepted: 01/10/2023] [Indexed: 06/17/2023]
Abstract
PCBs bioremediation is largely impeded by the reduced metabolic activity and degradation ability of indigenous and exogenous microorganisms. Resuscitation promoting factor (Rpf) of Micrococcus luteus, has been reported to resuscitate and stimulate the growth of PCB-degrading bacterial populations, and the resuscitated strains exhibited excellent PCB-degrading performances. Therefore, this study was conducted to assess the feasibility of supplementing Rpf (SR) or resuscitated strain LS1 (SL), or both (SRL) for enhanced bioremediation of PCB-contaminated soil. The results indicated that Rpf and/or LS1 amended soil microcosms achieved more rapid PCBs degradation, which were 1.1-3.2 times faster than control microcosms. Although soil-inoculated LS1 maintained the PCB-degrading activity, higher PCBs degradation was observed in Rpf-amended soil microcosms compared with SL. The order of enhancement effect on PCBs bioremediation was SRL > SR > SL. PCBs degradation in soil microcosms was via HOPDA-benzoate-catechol/protocatechuate pathways. The improved PCBs degradation in Rpf-amended soil microcosms was attributed to the enhanced abundances of PCB-degrading populations which were mainly belonged to Proteobacteria and Actinobacteria. These results suggest that Rpf and resuscitated strains serve as effective additive and bio-inoculant for enhanced bioremediation, providing new approaches to realizing large scale applications of in situ bioremediation.
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Affiliation(s)
- Xinru Zhou
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Shusheng Zhang
- The Management Center of Wuyanling National Natural Reserve in Zhejiang, Wenzhou 325500, China
| | - Rui Wang
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Zijing An
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Faqian Sun
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Chaofeng Shen
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China
| | - Hongjun Lin
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Xiaomei Su
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China.
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13
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Fan J, Feng J, Xu D, Li X, Xu F, Li H, Shen C. Extended lag phase indicates the dormancy of biphenyl degrading Rhodococcus biphenylivorans TG9 under heat stress. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2023; 322:121248. [PMID: 36764375 DOI: 10.1016/j.envpol.2023.121248] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/31/2022] [Revised: 02/03/2023] [Accepted: 02/07/2023] [Indexed: 06/18/2023]
Abstract
Microbial remediation is a green and sustainable technology, but harsh environmental conditions could lead to microbial dormancy, such as entering a viable but non-culturable (VBNC) state. However, the evidence of VBNC is controversial and limited. In this study, heat stress (60 °C), one of the leading challenges for mesophilic degrading bacteria, was mimicked to investigate the physiological response of Rhodococcus biphenylivorans TG9. After 2 h of heat stress, the culturable TG9 cell count decreased from 108 cells/mL to undetectable while the viable cell count was still 105 cells/mL. The biphenyl degradation efficiency of stressed TG9 dropped by 50% compared to that of cells at logarithmic phase. During heat stress, the respiratory activity of TG9 declined dramatically while the intracellular ATP level initially increased and then decreased. Notably, the corresponding indicators recovered when restored to 30 °C. These characteristics were in consistent with bacteria entering into VBNC state. Furthermore, fluorescence activated cell sorting together with single cell as seed culture detection verified the unculturability and viability of VBNC state of TG9 cells. Also, we found that single cells in VBNC state could resuscitate and regrowth with significantly extended lag phase (LP). Our results highlight the potential of TG9 for microbial remediation and hint LP duration as an indicator for survival state of bacteria.
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Affiliation(s)
- Jiahui Fan
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory for Water Pollution Control and Environmental Safety, Hangzhou, 310058, China
| | - Jinsong Feng
- Department of Food Science, College of Food Science and Nutrition, Zhejiang University, Hangzhou, 310058, China
| | - Dongdong Xu
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China
| | - Xinyi Li
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory for Water Pollution Control and Environmental Safety, Hangzhou, 310058, China
| | - Fengjun Xu
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory for Water Pollution Control and Environmental Safety, Hangzhou, 310058, China
| | - Haoming Li
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory for Water Pollution Control and Environmental Safety, Hangzhou, 310058, China
| | - Chaofeng Shen
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory for Water Pollution Control and Environmental Safety, Hangzhou, 310058, China.
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14
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Li D, Li K, Liu Y, Wang L, Liu N, Huang S. Synergistic PAH biodegradation by a mixed bacterial consortium: based on a multi-substrate enrichment approach. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:24606-24616. [PMID: 36344887 DOI: 10.1007/s11356-022-23960-3] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/24/2022] [Accepted: 10/29/2022] [Indexed: 06/16/2023]
Abstract
Polycyclic aromatic hydrocarbon (PAH) contamination in the environment involves multiple PAHs and various intermediates produced during the microbial metabolic process. A multi-substrate enrichment approach was proposed to develop a mixed bacterial community (MBC) from the activated sludge of a coking wastewater plant. The degradation performance of MBC was evaluated under different initial concentrations of PAHs (25-200 mg/L), temperature (20-35 °C), pH (5.0-9.0), salinity (0-10 g/L NaCl), and coexisting substrates (catechol, salicylic acid, and phthalic acid). The results showed that the degradation rates of phenanthrene and pyrene in all treatments were up to (99 ± 0.71)% and (99 ± 0.90)% after incubation of 5 days, respectively, indicating excellent biodegradation ability of PAHs by MBC. Furthermore, 16S rRNA gene amplicon sequencing analysis revealed that Pseudomonas was dominant, while Burkholderia had the largest proportion in acidic (pH = 5.0) and saline (10 g/L NaCl) environments. However, the proportion of dominant bacteria in MBC was markedly affected by intermediate metabolites. It was shown that MBC had a higher degradation rate of PAHs in the coexisting matrix due to the timely clearance of intermediates reducing the metabolic burden. Overall, our study provided valuable information to help design an effective strategy for the bioremediation of PAHs in complex environments.
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Affiliation(s)
- Dan Li
- School of Environment Science and Spatial Informatics, China University of Mining and Technology, No. 1, Daxue Road, Xuzhou, Jiangsu, 221116, People's Republic of China
| | - Kang Li
- State Key Joint Laboratory of Environmental Simulation and Pollution Control, College of Environmental Sciences and Engineering, Peking University, Beijing, 100871, People's Republic of China
| | - Yanzehua Liu
- School of Environment Science and Spatial Informatics, China University of Mining and Technology, No. 1, Daxue Road, Xuzhou, Jiangsu, 221116, People's Republic of China
| | - Liping Wang
- School of Environment Science and Spatial Informatics, China University of Mining and Technology, No. 1, Daxue Road, Xuzhou, Jiangsu, 221116, People's Republic of China.
| | - Na Liu
- School of Environment Science and Spatial Informatics, China University of Mining and Technology, No. 1, Daxue Road, Xuzhou, Jiangsu, 221116, People's Republic of China
| | - Shaomeng Huang
- School of Environment Science and Spatial Informatics, China University of Mining and Technology, No. 1, Daxue Road, Xuzhou, Jiangsu, 221116, People's Republic of China
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15
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Jiang Y, Gao B, Wang Z, Li J, Du Y, He C, Liu Y, Yao G, Lai B. Efficient wastewater disinfection by raised 1O 2 yield through enhanced electron transfer and intersystem crossing via photocatalysis of peroxymonosulfate with CuS quantum dots modified MIL-101(Fe). WATER RESEARCH 2023; 229:119489. [PMID: 36528926 DOI: 10.1016/j.watres.2022.119489] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/16/2022] [Revised: 12/06/2022] [Accepted: 12/12/2022] [Indexed: 06/17/2023]
Abstract
Peroxymonosulfate (PMS)-based photocatalysis is a promising alternative approach for wastewater disinfection. Singlet oxygen (1O2) is sensitive and efficient for bacterial inactivation. This study developed a 1O2-predominated PMS disinfection technique under visible light with CuS quantum dots (QDs) modified MIL-101(Fe) (CSQDs@MF). CuS QDs modification greatly enhanced the 1O2 quantum yield by 80% than that of MIL-101(Fe). Photoelectricity and photoluminescence tests demonstrated that both the enhanced electron transfer and energy transfer were responsible for improved 1O2 generation in Vis/PMS/CSQDs@MF system. The system took 60 min to inactivate 7.5-log E. coli, and it could be applied in a broad pH and dissolve oxygen range. Bacterial inactivation mechanism suggested that 1O2 attacked cell membrane first, then induced oxidative stress, up-regulated intracellular ROS level, eventually broke DNA strand. The system showed good disinfection performance on Gram-positive B. subtilis and fecal coliforms in practical wastewater, implying it is a promising alternative disinfection technology for wastewater treatment.
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Affiliation(s)
- Yanni Jiang
- State Key Laboratory of Hydraulics and Mountain River Engineering, College of Architecture and Environment, Sichuan University, Chengdu 610065, China; Sino-German Centre for Water and Health Research, Sichuan University, Chengdu 610065, China
| | - Binyang Gao
- Department of Ultrasound, West China Hospital of Sichuan University, Chengdu 610041, China
| | - Zhongjuan Wang
- State Key Laboratory of Hydraulics and Mountain River Engineering, College of Architecture and Environment, Sichuan University, Chengdu 610065, China; Sino-German Centre for Water and Health Research, Sichuan University, Chengdu 610065, China
| | - Jie Li
- State Key Laboratory of Hydraulics and Mountain River Engineering, College of Architecture and Environment, Sichuan University, Chengdu 610065, China; Sino-German Centre for Water and Health Research, Sichuan University, Chengdu 610065, China
| | - Ye Du
- State Key Laboratory of Hydraulics and Mountain River Engineering, College of Architecture and Environment, Sichuan University, Chengdu 610065, China; Sino-German Centre for Water and Health Research, Sichuan University, Chengdu 610065, China.
| | - Chuanshu He
- State Key Laboratory of Hydraulics and Mountain River Engineering, College of Architecture and Environment, Sichuan University, Chengdu 610065, China; Sino-German Centre for Water and Health Research, Sichuan University, Chengdu 610065, China
| | - Yang Liu
- State Key Laboratory of Hydraulics and Mountain River Engineering, College of Architecture and Environment, Sichuan University, Chengdu 610065, China; Sino-German Centre for Water and Health Research, Sichuan University, Chengdu 610065, China
| | - Gang Yao
- Sino-German Centre for Water and Health Research, Sichuan University, Chengdu 610065, China; Institute of Environmental Engineering, RWTH Aachen University, Germany
| | - Bo Lai
- State Key Laboratory of Hydraulics and Mountain River Engineering, College of Architecture and Environment, Sichuan University, Chengdu 610065, China; Sino-German Centre for Water and Health Research, Sichuan University, Chengdu 610065, China.
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16
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Resuscitation-Promoting Factor Accelerates Enrichment of Highly Active Tetrachloroethene/Polychlorinated Biphenyl-Dechlorinating Cultures. Appl Environ Microbiol 2023; 89:e0195122. [PMID: 36629425 PMCID: PMC9888273 DOI: 10.1128/aem.01951-22] [Citation(s) in RCA: 16] [Impact Index Per Article: 16.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023] Open
Abstract
The anaerobic bioremediation of polychlorinated biphenyls (PCBs) is largely impeded by difficulties in massively enriching PCB dechlorinators in short periods of time. Tetrachloroethene (PCE) is often utilized as an alternative electron acceptor to preenrich PCB-dechlorinating bacteria. In this study, resuscitation promoting factor (Rpf) was used as an additive to enhance the enrichment of the microbial communities involved in PCE/PCBs dechlorination. The results indicated that Rpf accelerates PCE dechlorination 3.8 to 5.4 times faster than control cultures. In Aroclor 1260-fed cultures, the amendment of Rpf enables significantly more rapid and extensive dechlorination of PCBs. The residual high-chlorinated PCB congeners (≥5 Cl atoms) accounted for 36.7% and 59.8% in the Rpf-amended cultures and in the corresponding controls, respectively. This improvement was mainly attributed to the enhanced activity of the removal of meta-chlorines (47.7 mol % versus 14.7 mol %), which did not appear to affect dechlorination pathways. The dechlorinators, including Dehalococcoides in Chloroflexi and Desulfitobacterium in Firmicutes, were greatly enriched via Rpf amendment. The abundance of nondechlorinating populations, including Methanosarcina, Desulfovibrio, and Bacteroides, was also greatly enhanced via Rpf amendment. These results suggest that Rpf serves as an effective additive for the rapid enrichment of active dechlorinating cultures so as to provide a new approach by which to massively cultivate bioinoculants for accelerated in situ anaerobic bioremediation. IMPORTANCE The resuscitation promoting factor (Rpf) of Micrococcus luteus has been reported to resuscitate and stimulate the growth of functional microorganisms that are involved in the aerobic degradation of polychlorinated biphenyls (PCBs). However, few studies have been conducted to investigate the role of Rpf on anaerobic microbial populations. In this study, the enhancement of Rpf on the anaerobic microbial dechlorination of PCE/PCBs was discovered. Additionally, the Rpf-responsive populations underlying the enhanced dechlorination were uncovered. This report reveals the rapid enrichment of active dechlorinating cultures via Rpf amendment, and this sheds light on massively enriching PCB dechlorinators in short periods of time. The enhanced in situ anaerobic bioremediation of PCBs could be expected by supplementing Rpf.
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17
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Han Z, Lin Q, Zhang S, Zhou X, Li S, Sun F, Shen C, Su X. High PCBs mineralization capability of a resuscitated strain Bacillus sp. LS1 and its survival in PCB-contaminated soil. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 856:159224. [PMID: 36206912 DOI: 10.1016/j.scitotenv.2022.159224] [Citation(s) in RCA: 11] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/15/2022] [Revised: 09/30/2022] [Accepted: 09/30/2022] [Indexed: 06/16/2023]
Abstract
Polychlorinated biphenyl (PCB)-degrading strains resuscitated by resuscitation promoting factor (Rpf) enlarged pure degraders to screen effective bio-inoculants for soil bioaugmentation. In this study, whole-genome analysis and PCB-degrading performance of a resuscitated strain LS1 were investigated. Importantly, the persistence and the physiological response of soil-inoculated LS1 were checked. The results indicate that the Bacillus sp. strain LS1 possessed the potential to degrade polycyclic aromatic compounds. LS1 exhibited better performance in degrading PCBs 18 and 52, but lower PCB 77 degradation capability. At PCBs concentration of 10 mg/L, the degradation efficiencies of PCBs 18, 52 and 77 within 96 h were 62.8 %, 59.6 % and 39.8 %, respectively. Combined the bph genes and metabolites detected, as well as the genes found in the genome, the abilities of LS1 for oxidative dehalogenation and mineralization of PCBs via HOPDA-benzoate-protocatechuate-β-ketoadipate pathway were determined. Notably, LS1 can still maintain survival and culturable state after inoculation into PCB-contaminated soil for 70 days. This is the first report to demonstrate the fate of resuscitated strain when used as soil bio-inoculant, which revealed the necessity and feasibility of using resuscitated strains to enhance bioremediation of PCB-contaminated soils.
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Affiliation(s)
- Zhen Han
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Qihua Lin
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Shusheng Zhang
- The Management Center of Wuyanling National Natural Reserve in Zhejiang, Wenzhou 325500, China
| | - Xinru Zhou
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Si Li
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Faqian Sun
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Chaofeng Shen
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China
| | - Xiaomei Su
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China.
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18
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Wu M, Liu Z, Gao H, Gao J, Xu Y, Ou Y. Assessment of bioremediation potential of petroleum-contaminated soils from the shanbei oilfield of China revealed by qPCR and high throughput sequencing. CHEMOSPHERE 2022; 308:136446. [PMID: 36113659 DOI: 10.1016/j.chemosphere.2022.136446] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/18/2022] [Revised: 07/28/2022] [Accepted: 09/10/2022] [Indexed: 06/15/2023]
Abstract
With the crude oil exploration activities in the Shanbei oilfield of China, the risk of soil contamination with crude oil spills has become a major concern. This study aimed at assessing the bioremediation potential of the petroleum polluted soils by investigating the expression of key functional genes decoding alkane and aromatic component degradation using an array of primers and real-time quantitative PCR (qPCR), and the functional microbiomes were determined using a combination of substrate-induced metabolic responses and high throughput sequencing. The results showed that the species that were more inclined to degrade aliphatic fraction of crude oil included Acinetobacter, Stenotrophomonas, Neorhizobium and Olivebacter. And Pseudomonas genus was a highly specific keystone species with the potential to degrade PAH fraction. Both aliphatic and PAH-degrading genes were upregulated when the soil petroleum contents were less than 10,000 mg/kg but downregulated when the oil contents were over 10,000 mg/kg. Bioremediation potential could be feasible for medium pollution with petroleum contents of less than 10,000 mg/kg. Optimization of the niche of Acinetobacter, Stenotrophomonas, Pseudomonas, Neorhizobium and Olivebacter species was beneficial to the biodegradation of refractory hydrocarbon components in the Shanbei plateau oilfield.
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Affiliation(s)
- Manli Wu
- Shaanxi Key Laboratory of Environmental Engineering, Xi'an University of Architecture and Technology, Xi'an, 710055, People's Republic of China; Key Laboratory of Northwest Water Resource, Environment and Ecology, MOE, Xi'an University of Architecture and Technology, Xi'an, 710055, People's Republic of China; College of Environmental and Engineering, Xi'an University of Architecture and Technology, Xi'an, 710055, People's Republic of China.
| | - Zeliang Liu
- Shaanxi Key Laboratory of Environmental Engineering, Xi'an University of Architecture and Technology, Xi'an, 710055, People's Republic of China; Key Laboratory of Northwest Water Resource, Environment and Ecology, MOE, Xi'an University of Architecture and Technology, Xi'an, 710055, People's Republic of China; College of Environmental and Engineering, Xi'an University of Architecture and Technology, Xi'an, 710055, People's Republic of China; Key Laboratory of Soil Environment and Pollution Remediation, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, 210008, China
| | - Huan Gao
- Shaanxi Key Laboratory of Environmental Engineering, Xi'an University of Architecture and Technology, Xi'an, 710055, People's Republic of China; Key Laboratory of Northwest Water Resource, Environment and Ecology, MOE, Xi'an University of Architecture and Technology, Xi'an, 710055, People's Republic of China; College of Environmental and Engineering, Xi'an University of Architecture and Technology, Xi'an, 710055, People's Republic of China
| | - Jinghua Gao
- Shaanxi Key Laboratory of Environmental Engineering, Xi'an University of Architecture and Technology, Xi'an, 710055, People's Republic of China; Key Laboratory of Northwest Water Resource, Environment and Ecology, MOE, Xi'an University of Architecture and Technology, Xi'an, 710055, People's Republic of China; College of Environmental and Engineering, Xi'an University of Architecture and Technology, Xi'an, 710055, People's Republic of China
| | - Yinrui Xu
- Shaanxi Key Laboratory of Environmental Engineering, Xi'an University of Architecture and Technology, Xi'an, 710055, People's Republic of China; Key Laboratory of Northwest Water Resource, Environment and Ecology, MOE, Xi'an University of Architecture and Technology, Xi'an, 710055, People's Republic of China; College of Environmental and Engineering, Xi'an University of Architecture and Technology, Xi'an, 710055, People's Republic of China
| | - Yawen Ou
- Shaanxi Key Laboratory of Environmental Engineering, Xi'an University of Architecture and Technology, Xi'an, 710055, People's Republic of China; Key Laboratory of Northwest Water Resource, Environment and Ecology, MOE, Xi'an University of Architecture and Technology, Xi'an, 710055, People's Republic of China; College of Environmental and Engineering, Xi'an University of Architecture and Technology, Xi'an, 710055, People's Republic of China
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19
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Jamal M, Awadasseid A, Su X. Exploring potential bacterial populations for enhanced anthraquinone dyes biodegradation: a critical review. Biotechnol Lett 2022; 44:1011-1025. [DOI: 10.1007/s10529-022-03279-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/25/2022] [Accepted: 07/04/2022] [Indexed: 11/02/2022]
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20
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Lin Q, Zhou X, Zhang S, Gao J, Xie M, Tao L, Sun F, Shen C, Hashmi MZ, Su X. Oxidative dehalogenation and mineralization of polychlorinated biphenyls by a resuscitated strain Streptococcus sp. SPC0. ENVIRONMENTAL RESEARCH 2022; 207:112648. [PMID: 34990605 DOI: 10.1016/j.envres.2021.112648] [Citation(s) in RCA: 16] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/20/2021] [Revised: 12/20/2021] [Accepted: 12/28/2021] [Indexed: 06/14/2023]
Abstract
Most functional microorganisms cannot be cultivated due to entering a viable but non-culturable (VBNC) state, which limits the characterization and application of polychlorinated biphenyl (PCB)-degrading strains. Resuscitating VBNC bacteria could provide huge candidates for obtaining high-efficient PCB degraders. However, limited studies have focused on the ability of resuscitated strains for PCBs degradation. In the present study, whole-genome analysis of a resuscitated strain SPC0, and its performances in degradation of three prevalent PCB congeners (PCBs 18, 52 and 77) were investigated. The results indicate that the strain SPC0 belonged to the genus Streptococcus, possessed the degradation potential for aromatic xenobiotics. The SPC0 could effectively degrade PCBs 18 and 52, but exhibited lower degradation efficiency of PCB 77. Degradation of PCBs 18 and 52 could be fitted well by zero-order model, whereas the fittest model for PCB 77 degradation was pseudo second-order kinetics. The bph genes expression, chloride ions release and degradation metabolites identification, suggest that SPC0 possessed the capability of oxidative dehalogenation and mineralization of PCBs. Interestingly, SPC0 can degrade PCBs via the bph-encoded biphenyl pathway, and further mineralize metabolite dichlorobenzoate via protocatechuate pathway. This study is the first to show that a strain belonging to genus Streptococcus possessed PCB-degrading capability, which uncovered the powerful potential of resuscitated strains for bioremediation of PCB-contaminated sites.
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Affiliation(s)
- Qihua Lin
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China
| | - Xinru Zhou
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China
| | - Shusheng Zhang
- The Management Center of Wuyanling National Natural Reserve in Zhejiang, Wenzhou, 325500, China
| | - Junliang Gao
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China
| | - Mengqi Xie
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China
| | - Linqin Tao
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China
| | - Faqian Sun
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China
| | - Chaofeng Shen
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China
| | | | - Xiaomei Su
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China.
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21
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Gao C, Zeng YH, Li CY, Li L, Cai ZH, Zhou J. Bisphenol A biodegradation by Sphingonomas sp. YK5 is regulated by acyl-homoserine lactone signaling molecules. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 802:149898. [PMID: 34461476 DOI: 10.1016/j.scitotenv.2021.149898] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/07/2021] [Revised: 08/11/2021] [Accepted: 08/21/2021] [Indexed: 06/13/2023]
Abstract
Microbial degradation is an effective approach for the removal of Bisphenol A (BPA). During the biodegradation process, quorum sensing (QS) is a phenomenon that enables bacteria to coordinate collective behaviors based on cell density-dependent chemical signals. However, whether the degradation of BPA can be facilitated by this QS system (such as acyl-homoserine lactone, AHL) is unclear. To answer this question, the bifunctional Sphingonomas sp. strain YK5 that had BPA-degrading and AHL-producing properties was used. Biochemical analysis revealed that this bacterial strain mainly produced C8-HSL signals. Gene knockout experiments indicated that the AHL-system (LuxI1/LuxI2) was required for efficient BPA degradation. RT-PCR analyses revealed that the AHL system positively regulated the relative expression of genes (bisdA, CYP450, hapA, ligAB, and proB) involved in BPA degradation. Given that AHL signaling may be a common trait among BPA-degrading microorganisms and AHL system can regulate the degradation activity, manipulation of this system may be a valuable strategy to control BPA biodegradation.
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Affiliation(s)
- Chao Gao
- Shenzhen Public Platform for Screening and Application of Marine Microbial Resources, Institute for Ocean Engineering, Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, Guangdong Province, PR China
| | - Yan-Hua Zeng
- Shenzhen Public Platform for Screening and Application of Marine Microbial Resources, Institute for Ocean Engineering, Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, Guangdong Province, PR China
| | - Cheng-Yong Li
- Shenzhen Institute of Guangdong Ocean University, Shenzhen, Guangdong 518114, PR China
| | - Ling Li
- ShenZhen Zhongqi Yihua Enviromental Protection Technology Co. Ltd., Shenzhen, Guangdong 518051, PR China
| | - Zhong-Hua Cai
- Shenzhen Public Platform for Screening and Application of Marine Microbial Resources, Institute for Ocean Engineering, Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, Guangdong Province, PR China
| | - Jin Zhou
- Shenzhen Public Platform for Screening and Application of Marine Microbial Resources, Institute for Ocean Engineering, Shenzhen International Graduate School, Tsinghua University, Shenzhen 518055, Guangdong Province, PR China.
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22
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Cao H, Zhang X, Wang S, Liu J, Han D, Zhao B, Wang H. Insights Into Mechanism of the Naphthalene-Enhanced Biodegradation of Phenanthrene by Pseudomonas sp. SL-6 Based on Omics Analysis. Front Microbiol 2021; 12:761216. [PMID: 34867892 PMCID: PMC8635735 DOI: 10.3389/fmicb.2021.761216] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2021] [Accepted: 10/18/2021] [Indexed: 12/04/2022] Open
Abstract
The existence of polycyclic aromatic hydrocarbons (PAHs) in contaminated environment is multifarious. At present, studies of metabolic regulation focus on the degradation process of single PAH. The global metabolic regulatory mechanisms of microorganisms facing coexisting PAHs are poorly understood, which is the major bottleneck for efficient bioremediation of PAHs pollution. Naphthalene (NAP) significantly enhanced the biodegradation of phenanthrene (PHE) by Pseudomonas sp. SL-6. To explore the underlying mechanism, isobaric tags for relative and absolute quantification (iTRAQ) labeled quantitative proteomics was used to characterize the differentially expressed proteins of SL-6 cultured with PHE or NAP + PHE as carbon source. Through joint analysis of proteome and genome, unique proteins were identified and quantified. The up-regulated proteins mainly concentrated in PAH catabolism, Transporters and Electron transfer carriers. In the process, the regulator NahR, activated by salicylate (intermediate of NAP-biodegradation), up-regulates degradation enzymes (NahABCDE and SalABCDEFGH), which enhances the biodegradation of PHE and accumulation of toxic intermediate–1-hydroxy-2-naphthoic acid (1H2Na); 1H2Na stimulates the expression of ABC transporter, which maintains intracellular physiological activity by excreting 1H2Na; the up-regulation of cytochrome C promotes the above process running smoothly. Salicylate works as a trigger that stimulates cell to respond globally. The conjecture was verified at transcriptional and metabolic levels. These new insights contribute to improving the overall understanding of PAHs-biodegradation processes under complex natural conditions, and promoting the application of microbial remediation technology for PAHs pollution.
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Affiliation(s)
- Hao Cao
- Graduate School, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Xinyu Zhang
- Graduate School, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Shuangyan Wang
- Graduate School, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Jiading Liu
- Graduate School, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Dongfei Han
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Baisuo Zhao
- Graduate School, Chinese Academy of Agricultural Sciences, Beijing, China
| | - Haisheng Wang
- Graduate School, Chinese Academy of Agricultural Sciences, Beijing, China
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23
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Li J, Luo C, Zhang D, Zhao X, Dai Y, Cai X, Zhang G. The catabolic pathways of in situ rhizosphere PAH degraders and the main factors driving PAH rhizoremediation in oil-contaminated soil. Environ Microbiol 2021; 23:7042-7055. [PMID: 34587314 DOI: 10.1111/1462-2920.15790] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2021] [Revised: 09/15/2021] [Accepted: 09/24/2021] [Indexed: 01/21/2023]
Abstract
Rhizoremediation is a potential technique for polycyclic aromatic hydrocarbon (PAH) remediation; however, the catabolic pathways of in situ rhizosphere PAH degraders and the main factors driving PAH rhizoremediation remain unclear. To address these issues, stable-isotope-probing coupled with metagenomics and molecular ecological network analyses were first used to investigate the phenanthrene rhizoremediation by three different prairie grasses in this study. All rhizospheres exhibited a significant increase in phenanthrene removal and markedly modified the diversity of phenanthrene degraders by increasing their populations and interactions with other microbes. Of all the active phenanthrene degraders, Marinobacter and Enterobacteriaceae dominated in the bare and switchgrass rhizosphere respectively; Achromobacter was markedly enriched in ryegrass and tall fescue rhizospheres. Metagenomes of 13 C-DNA illustrated several complete pathways of phenanthrene degradation for each rhizosphere, which clearly explained their unique rhizoremediation mechanisms. Additionally, propanoate and inositol phosphate of carbohydrates were identified as the dominant factors that drove PAH rhizoremediation by strengthening the ecological networks of soil microbial communities. This was verified by the results of rhizospheric and non-rhizospheric treatments supplemented with these two substances, further confirming their key roles in PAH removal and in situ PAH rhizoremediation. Our study offers novel insights into the mechanisms of in situ rhizoremediation at PAH-contaminated sites.
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Affiliation(s)
- Jibing Li
- State Key Laboratory of Organic Geochemistry and Guangdong-Hong Kong-Macao Joint Laboratory for Environmental Pollution and Control, Guangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou, 510640, China.,CAS Center for Excellence in Deep Earth Science, Guangzhou, 510640, China
| | - Chunling Luo
- State Key Laboratory of Organic Geochemistry and Guangdong-Hong Kong-Macao Joint Laboratory for Environmental Pollution and Control, Guangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou, 510640, China.,CAS Center for Excellence in Deep Earth Science, Guangzhou, 510640, China.,Joint Institute of Environmental Research & Education, South China Agricultural University, Guangzhou, 510642, China
| | - Dayi Zhang
- College of New Energy and Environment, Jilin University, Changchun, 130021, China
| | - Xuan Zhao
- State Key Laboratory of Organic Geochemistry and Guangdong-Hong Kong-Macao Joint Laboratory for Environmental Pollution and Control, Guangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou, 510640, China.,University of Chinese Academy of Sciences, Beijing, 100039, China
| | - Yeliang Dai
- State Key Laboratory of Organic Geochemistry and Guangdong-Hong Kong-Macao Joint Laboratory for Environmental Pollution and Control, Guangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou, 510640, China.,University of Chinese Academy of Sciences, Beijing, 100039, China
| | - Xixi Cai
- Guangdong Key Laboratory of Environmental Catalysis and Health Risk Control, School of Environmental Science and Engineering, Institute of Environmental Health and Pollution Control, Guangdong University of Technology, Guangzhou, 510006, China
| | - Gan Zhang
- State Key Laboratory of Organic Geochemistry and Guangdong-Hong Kong-Macao Joint Laboratory for Environmental Pollution and Control, Guangzhou Institute of Geochemistry, Chinese Academy of Sciences, Guangzhou, 510640, China.,CAS Center for Excellence in Deep Earth Science, Guangzhou, 510640, China
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24
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Viable but Nonculturable State of Yeast Candida sp. Strain LN1 Induced by High Phenol Concentrations. Appl Environ Microbiol 2021; 87:e0111021. [PMID: 34232723 DOI: 10.1128/aem.01110-21] [Citation(s) in RCA: 27] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023] Open
Abstract
Microbial degradation plays an important role in environmental remediation. However, most microorganisms' pollutant-degrading capabilities are weakened due to their entry into a viable but nonculturable (VBNC) state. Although there is some evidence for the VBNC state of pollutant-degrading bacteria, limited studies have been conducted to investigate the VBNC state of pollutant degraders among fungi. In this work, the morphological, physiological, and molecular changes of phenol-degrading yeast strain LN1 exposed to high phenol concentrations were investigated. The results confirmed that Candida sp. strain LN1, which possessed a highly efficient capability of degrading 1,000 mg/liter of phenol as well as a high potential for aromatic compound degradation, entered into the VBNC state after 14 h of incubation with 6,000 mg/liter phenol. Resuscitation of VBNC cells can restore their phenol degradation performance. Compared to normal cells, significant dwarfing, surface damage, and physiological changes of VBNC cells were observed. Molecular analysis indicated that downregulated genes were related to the oxidative stress response, xenobiotic degradation, and carbohydrate and energy metabolism, whereas upregulated genes were related to RNA polymerase, amino acid metabolism, and DNA replication and repair. This report revealed that a pollutant-degrading yeast strain entered into the VBNC state under high concentrations of contaminants, providing new insights into its survival status and bioremediation potential under stress. IMPORTANCE The viable but nonculturable (VBNC) state is known to affect the culturability and activity of microorganisms. However, limited studies have been conducted to investigate the VBNC state of other pollutant degraders, such as fungi. In this study, the VBNC state of a phenol-degrading yeast strain was discovered. In addition, comprehensive analyses of the morphological, physiological, and molecular changes of VBNC cells were performed. This study provides new insight into the VBNC state of pollutant degraders and how they restored the activities that were inhibited under stressful conditions. Enhanced bioremediation performance of indigenous microorganisms could be expected by preventing and controlling the formation of the VBNC state.
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25
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Ganesh Kumar A, Hinduja M, Sujitha K, Nivedha Rajan N, Dharani G. Biodegradation of polystyrene by deep-sea Bacillus paralicheniformis G1 and genome analysis. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 774:145002. [PMID: 33609820 DOI: 10.1016/j.scitotenv.2021.145002] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/18/2020] [Revised: 12/11/2020] [Accepted: 12/31/2020] [Indexed: 06/12/2023]
Abstract
Polystyrene (PS) films were subjected to in vitro biodegradation by Bacillus paralicheniformis G1 (MN720578) isolated from 3538 m depth sediments of the Arabian Sea. The growth of the isolate was most favourable at pH 7.5, 30 °C and 4% salinity. A series of batch experiments were conducted to investigate the degradation of PS films up to 60 days. The results of this study indicated that the strain degraded 34% of PS film within 60 days of incubation. The complete genome sequence consists of 4,281,959 bp with 45.88% GC content and encodes 4213 protein coding genes. A high number of genes encoding monooxygenase, dioxygenase, peroxidase, esterase and hydrolase involved in the degradation of synthetic polymers were identified. Also genes associated with flagellum dependent motility, chemotaxis, biofilm formation and siderophores biosynthesis were identified in this deep-sea strain G1. This study suggests that B. paralicheniformis G1 could be a potential species for degradation of PS and its genome analysis provides insight into the molecular basis of biodegradation.
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Affiliation(s)
- A Ganesh Kumar
- Marine Biotechnology Division, National Institute of Ocean Technology, Ministry of Earth Sciences (MoES), Government of India, Chennai 600100, India.
| | - M Hinduja
- Marine Biotechnology Division, National Institute of Ocean Technology, Ministry of Earth Sciences (MoES), Government of India, Chennai 600100, India
| | - K Sujitha
- Marine Biotechnology Division, National Institute of Ocean Technology, Ministry of Earth Sciences (MoES), Government of India, Chennai 600100, India
| | - N Nivedha Rajan
- Marine Biotechnology Division, National Institute of Ocean Technology, Ministry of Earth Sciences (MoES), Government of India, Chennai 600100, India
| | - G Dharani
- Marine Biotechnology Division, National Institute of Ocean Technology, Ministry of Earth Sciences (MoES), Government of India, Chennai 600100, India
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26
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Moriuchi R, Dohra H, Kanesaki Y, Ogawa N. Transcriptome differences between Cupriavidus necator NH9 grown with 3-chlorobenzoate and that grown with benzoate. Biosci Biotechnol Biochem 2021; 85:1546-1561. [PMID: 33720310 DOI: 10.1093/bbb/zbab044] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2021] [Accepted: 03/08/2021] [Indexed: 01/05/2023]
Abstract
RNA-seq analysis of Cupriavidus necator NH9, a 3-chlorobenzoate degradative bacterium, cultured with 3-chlorobenzaote and benzoate, revealed strong induction of genes encoding enzymes in degradation pathways of the respective compound, including the genes to convert 3-chlorobenzaote and benzoate to chlorocatechol and catechol, respectively, and the genes of chlorocatechol ortho-cleavage pathway for conversion to central metabolites. The genes encoding transporters, components of the stress response, flagellar proteins, and chemotaxis proteins showed altered expression patterns between 3-chlorobenzoate and benzoate. Gene Ontology enrichment analysis revealed that chemotaxis-related terms were significantly upregulated by benzoate compared with 3-chlorobenzoate. Consistent with this, in semisolid agar plate assays, NH9 cells showed stronger chemotaxis to benzoate than to 3-chlorobenzoate. These results, combined with the absence of genes related to uptake/chemotaxis for 3-chlorobenzoate located closely to the degradation genes of 3-chlorobenzoate, suggested that NH9 has not fully adapted to the utilization of chlorinated benzoate, unlike benzoate, in nature.
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Affiliation(s)
- Ryota Moriuchi
- Research Institute of Green Science and Technology, Shizuoka University, Shizuoka-shi, Shizuoka, Japan.,The United Graduate School of Agricultural Science, Gifu University, Gifu-shi, Gifu, Japan
| | - Hideo Dohra
- Research Institute of Green Science and Technology, Shizuoka University, Shizuoka-shi, Shizuoka, Japan
| | - Yu Kanesaki
- Research Institute of Green Science and Technology, Shizuoka University, Shizuoka-shi, Shizuoka, Japan
| | - Naoto Ogawa
- The United Graduate School of Agricultural Science, Gifu University, Gifu-shi, Gifu, Japan.,Graduate School of Integrated Science and Technology, Shizuoka University, Shizuoka-shi, Shizuoka, Japan
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27
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Zhang L, Yan J, Xiao Z, Tang S, Chen Y, Sun G, Wang W, Yu Y. Using Vinegar Residue-Based Carrier Materials to Improve the Biodegradation of Phenanthrene in Aqueous Solution. JOURNAL OF NANOSCIENCE AND NANOTECHNOLOGY 2021; 21:3134-3147. [PMID: 33653489 DOI: 10.1166/jnn.2021.19123] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
A large amount of vinegar residue (VR) is generated every year in China, causing serious environmental pollutions. Meanwhile, as a kind of persistent organic pollutants, polycyclic aromatic hydrocarbons (PAHs) ubiquitously exist in environments. With a goal of reusing VR and reducing PAHs pollutions, we herein isolated one B. subtilis strain, ZL09-26, which can degrade phenanthrene and produce biosurfactants. Subsequently, raw VR was dried under different temperatures (50 °C, 80 °C, 100 °C and 120 °C) or pyrolyzed under 350 °C and 700 °C, respectively. After being characterized by various approaches, the treated VR were mixed with ZL09-26 as carriers to degrade phenanthrene. We found that VR dried at 50 °C (VR50) was the best in promoting the growth of ZL09-26 and the degradation of phenanthrene. This result may be attributed to the residual nutrients, suitable porosity and small surface charge of VR50. Our results demonstrate the potential of VR in the biodegradation of phenanthrene, which may be meaningful for developing new VR-based approaches to remove PAHs in aqueous environments.
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Affiliation(s)
- Lei Zhang
- College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing 211816, People's Republic of China
| | - Jinyuan Yan
- College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing 211816, People's Republic of China
| | - Zhixing Xiao
- College of Urban Construction, Nanjing Tech University, Nanjing 211816, People's Republic of China
| | - Susu Tang
- College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing 211816, People's Republic of China
| | - Yunliang Chen
- School of Agricultural Equipment Engineering, Jiangsu University, Zhenjiang 212013, People's Republic of China
| | - Gangzheng Sun
- Research Institute of Petroleum Engineering and Technology, Shengli Oilfield Company, Sinopec, Dongying 257067, People's Republic of China
| | - Weidong Wang
- Research Institute of Petroleum Engineering and Technology, Shengli Oilfield Company, Sinopec, Dongying 257067, People's Republic of China
| | - Yadong Yu
- College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing 211816, People's Republic of China
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28
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Fan J, Jia Y, Xu D, Ye Z, Zhou J, Huang J, Fu Y, Shen C. Anaerobic condition induces a viable but nonculturable state of the PCB-degrading Bacteria Rhodococcus biphenylivorans TG9. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 764:142849. [PMID: 33757234 DOI: 10.1016/j.scitotenv.2020.142849] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/09/2020] [Revised: 10/01/2020] [Accepted: 10/02/2020] [Indexed: 06/12/2023]
Abstract
Significant microbial removal of highly chlorinated polychlorinated biphenyls (PCBs) requires the cooperation of anaerobic and aerobic bacteria. During the sequencing process of anaerobic dechlorination and aerobic degradation of PCBs, aerobic degrading bacteria have to undergo anaerobic stress. However, the survival strategy of aerobic degrading bacteria under anaerobic condition is not well-understood. In this study, the culturable cells of Rhodococcus biphenylivorans TG9 decreased from 108 CFU/mL to values below the detection limit after 60 days of anaerobic stress while the viable cells remained 105-106 cells/mL, indicating that anaerobic condition induced TG9 entering into the viable but nonculturable (VBNC) state. Cell resuscitation was observed when oxygen was supplied further confirming the VBNC state of TG9. The results of single-cell Raman spectroscopy combined with heavy water indicated the significant decrease of metabolic activity after TG9 entering into the VBNC state. Additionally, the degradation ability of TG9 in the VBNC state was also significantly reduced, while it recovered after resuscitation. Our research proved that entering into the VBNC state is a survival strategy of TG9 under anaerobic conditions, and the limited culturability and degrading capacity could be overcome by resuscitation. The present study provides new insights for improving the remediation efficiency of PCBs contamination.
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Affiliation(s)
- Jiahui Fan
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China; Zhejiang Provincial Key Laboratory for Water Pollution Control and Environmental Safety, Hangzhou 310058, China
| | - Yangyang Jia
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China; Zhejiang Provincial Key Laboratory for Water Pollution Control and Environmental Safety, Hangzhou 310058, China
| | - Dongdong Xu
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China; Zhejiang Provincial Key Laboratory for Water Pollution Control and Environmental Safety, Hangzhou 310058, China
| | - Zhe Ye
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China; Zhejiang Provincial Key Laboratory for Water Pollution Control and Environmental Safety, Hangzhou 310058, China
| | - Jiahang Zhou
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China; Zhejiang Provincial Key Laboratory for Water Pollution Control and Environmental Safety, Hangzhou 310058, China
| | - Jionghao Huang
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China; Zhejiang Provincial Key Laboratory for Water Pollution Control and Environmental Safety, Hangzhou 310058, China
| | - Yulong Fu
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China; Zhejiang Provincial Key Laboratory for Water Pollution Control and Environmental Safety, Hangzhou 310058, China
| | - Chaofeng Shen
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou 310058, China; Zhejiang Provincial Key Laboratory for Water Pollution Control and Environmental Safety, Hangzhou 310058, China.
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29
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Mishra S, Lin Z, Pang S, Zhang W, Bhatt P, Chen S. Recent Advanced Technologies for the Characterization of Xenobiotic-Degrading Microorganisms and Microbial Communities. Front Bioeng Biotechnol 2021; 9:632059. [PMID: 33644024 PMCID: PMC7902726 DOI: 10.3389/fbioe.2021.632059] [Citation(s) in RCA: 84] [Impact Index Per Article: 28.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2020] [Accepted: 01/11/2021] [Indexed: 12/16/2022] Open
Abstract
Global environmental contamination with a complex mixture of xenobiotics has become a major environmental issue worldwide. Many xenobiotic compounds severely impact the environment due to their high toxicity, prolonged persistence, and limited biodegradability. Microbial-assisted degradation of xenobiotic compounds is considered to be the most effective and beneficial approach. Microorganisms have remarkable catabolic potential, with genes, enzymes, and degradation pathways implicated in the process of biodegradation. A number of microbes, including Alcaligenes, Cellulosimicrobium, Microbacterium, Micrococcus, Methanospirillum, Aeromonas, Sphingobium, Flavobacterium, Rhodococcus, Aspergillus, Penecillium, Trichoderma, Streptomyces, Rhodotorula, Candida, and Aureobasidium, have been isolated and characterized, and have shown exceptional biodegradation potential for a variety of xenobiotic contaminants from soil/water environments. Microorganisms potentially utilize xenobiotic contaminants as carbon or nitrogen sources to sustain their growth and metabolic activities. Diverse microbial populations survive in harsh contaminated environments, exhibiting a significant biodegradation potential to degrade and transform pollutants. However, the study of such microbial populations requires a more advanced and multifaceted approach. Currently, multiple advanced approaches, including metagenomics, proteomics, transcriptomics, and metabolomics, are successfully employed for the characterization of pollutant-degrading microorganisms, their metabolic machinery, novel proteins, and catabolic genes involved in the degradation process. These technologies are highly sophisticated, and efficient for obtaining information about the genetic diversity and community structures of microorganisms. Advanced molecular technologies used for the characterization of complex microbial communities give an in-depth understanding of their structural and functional aspects, and help to resolve issues related to the biodegradation potential of microorganisms. This review article discusses the biodegradation potential of microorganisms and provides insights into recent advances and omics approaches employed for the specific characterization of xenobiotic-degrading microorganisms from contaminated environments.
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Affiliation(s)
- Sandhya Mishra
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou, China
- Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China
| | - Ziqiu Lin
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou, China
- Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China
| | - Shimei Pang
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou, China
- Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China
| | - Wenping Zhang
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou, China
- Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China
| | - Pankaj Bhatt
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou, China
- Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China
| | - Shaohua Chen
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou, China
- Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China
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30
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Su X, Li S, Xie M, Tao L, Zhou Y, Xiao Y, Lin H, Chen J, Sun F. Enhancement of polychlorinated biphenyl biodegradation by resuscitation promoting factor (Rpf) and Rpf-responsive bacterial community. CHEMOSPHERE 2021; 263:128283. [PMID: 33297227 DOI: 10.1016/j.chemosphere.2020.128283] [Citation(s) in RCA: 38] [Impact Index Per Article: 12.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/18/2019] [Revised: 05/09/2020] [Accepted: 09/05/2020] [Indexed: 06/12/2023]
Abstract
The activities of indigenous bacterial communities in polychlorinated biphenyls (PCBs) contaminated environments is closely related to the efficiency of bioremediation processes. Using resuscitation promoting factor (Rpf) from Micrococcus luteus is a promising method for resuscitation and stimulation of functional bacterial populations under stressful conditions. This study aims to use the Rpf to accelerate the biodegradation of Aroclor 1242, and explore putative PCB degraders which were resuscitated by Rpf addition. The Rpf-responsive bacterial populations were investigated using culture-dependent and culture-independent approaches, respectively. The results confirm that Rpf was capable of enhancing PCB degradation of enriched cultures from PCB-contaminated soils, and improving the activities of cultures with low tolerance to PCBs. High-throughput 16S rRNA analysis displays that the Rpf greatly altered the composition and abundance of bacterial populations in the phylum Proteobacteria. Identification of the resuscitated strains further suggests that the Rpf-responsive population was mostly represented by Sphingomonas and Pseudomonas, which are most likely the key PCB-degraders for enhanced biodegradation of PCBs.
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Affiliation(s)
- Xiaomei Su
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China
| | - Si Li
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China
| | - Mengqi Xie
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China
| | - Linqin Tao
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China
| | - Yan Zhou
- Advanced Environmental Biotechnology Centre, Nanyang Environment and Water Research Institute, Nanyang Technological University, 637141, Singapore; School of Civil and Environmental Engineering, Nanyang Technological University, 639798, Singapore
| | - Yeyuan Xiao
- Department of Civil and Environmental Engineering, Shantou University, Shantou, 515063, China
| | - Hongjun Lin
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China
| | - Jianrong Chen
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China
| | - Faqian Sun
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China.
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31
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Li Y, Chen J, Wang Y, Ma D, Rui W. The effects of the recombinant YeaZ of Vibrio harveyi on the resuscitation and growth of soil bacteria in extreme soil environment. PeerJ 2020; 8:e10342. [PMID: 33391864 PMCID: PMC7759134 DOI: 10.7717/peerj.10342] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2020] [Accepted: 10/20/2020] [Indexed: 11/22/2022] Open
Abstract
Numerous bacteria entered the viable but non-culturable state due to the stresses of dry and salt in soils. YeaZ of Gram-negative bacteria is a resuscitation promoting factor (Rpf) homologous protein could resuscitate bacteria of natural environment in VBNC state. To investigate the promoting effect of YeaZ on the isolation of viable but non-culturable (VBNC) bacteria from soil samples in extreme environments, the recombinant YeaZ of Vibrio harveyi was prepared and added to the soil samples from volcanic soil and saline soil in Northwest China. The study has shown that YeaZ can promote the recovery and growth of soil microorganisms, and the number of cultivable bacteria in volcanic and saline soil has increased from 0.17 × 103 and 2.03 × 103 cfu⋅ml−1 to 1.00 × 103 and 5.55 × 103 cfu⋅ml−1, respectively. The 16S rDNA gene sequencing and phylogenetic analysis showed that YeaZ played an essential role in the increase of composition and diversity of bacteria. A total of 13 bacterial strains were isolated from the volcanic soil samples, which belong to phyla Actinobacteria, Firmicutes and Gamma-proteobacteria. Four species, including Ornithinimicrobium kibberense, Agrococcus citreus, Stenotrophomonas rhizophila and Pseudomonas zhaodongensis were found in the control group, while Micrococcus antarcticus, Kocuria rose, Salinibacterium xinjiangense, Planococcus antarcticus, Ornithinimicrobium kibberense and Pseudomonas zhaodongensis were isolated from the treatment groups (addition of YeaZ). Twenty-one strains were isolated from the saline soil samples, including eight species from the control group and thirteen species from the treatment groups, among which nine species were only found, including Bacillus oceanisediminis, Brevibacillus brevis, Paenibacillus xylanilyticus, Microbacterium maritypicum, B. subtilis, B. alcalophilus, B. niabensis, Oceanimonas doudoroffii and Zobellella taiwanensis. The results suggest that addition of YeaZ to soil samples can promote the recovery of VBNC. This method has the implications for the discovery of VBNC bacteria that have potential environmental functions.
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Affiliation(s)
- Yanlin Li
- School of Petrochemical Engineering, Lanzhou University of Technology, Lanzhou, China.,Chongqing Key Laboratory of Environmental Materials & Remediation Technologies/College of Chemistry and Environmental Engineering, Chongqing University of Arts and Sciences, Chongqing, China
| | - Jixiang Chen
- School of Petrochemical Engineering, Lanzhou University of Technology, Lanzhou, China
| | - Yonggang Wang
- School of life science and engineering, Lanzhou University of Technology, Lanzhou, China
| | - Dan Ma
- School of Petrochemical Engineering, Lanzhou University of Technology, Lanzhou, China
| | - Wenhong Rui
- School of Petrochemical Engineering, Lanzhou University of Technology, Lanzhou, China
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32
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Jia Y, Yu C, Fan J, Fu Y, Ye Z, Guo X, Xu Y, Shen C. Alterations in the Cell Wall of Rhodococcus biphenylivorans Under Norfloxacin Stress. Front Microbiol 2020; 11:554957. [PMID: 33123102 PMCID: PMC7573542 DOI: 10.3389/fmicb.2020.554957] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2020] [Accepted: 09/14/2020] [Indexed: 01/20/2023] Open
Abstract
Many microorganisms can enter a viable but non-culturable (VBNC) state under various environmental stresses, while they can also resuscitate when the surroundings turn to suitable conditions. Cell walls play a vital role in maintaining cellular integrity and protecting cells from ambient threats. Here, we investigated the alterations in the cell wall of Rhodococcus biphenylivorans TG9 at VBNC state under norfloxacin stress and then at resuscitated state in fresh lysogeny broth medium. Electron microscopy analyses presented that TG9 in the VBNC state had a thicker and rougher cell wall than that in exponential phase or resuscitated state. Meanwhile, the results from infrared spectroscopy also showed that its VBNC state has different peptidoglycan structures in the cell wall. Moreover, in the VBNC cells the gene expressions related to cell wall synthesis and remodeling maintain a relatively high level. It indicates that the morphological variations of TG9 at the VBNC state might result from kinetic changes in the cell wall synthesis and remodeling. As a consequence, the alterations in the cell wall of VBNC TG9 may somewhat account for its tolerance mechanisms to antibiotic treatment.
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Affiliation(s)
- Yangyang Jia
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, China
| | - Chungui Yu
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, China
| | - Jiahui Fan
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, China
| | - Yulong Fu
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, China
| | - Zhe Ye
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, China
| | - Xiaoguang Guo
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, China
| | - Ying Xu
- State Key Laboratory of Microbial Metabolism, School of Life Sciences and Biotechnology, Shanghai Jiao Tong University, Shanghai, China
| | - Chaofeng Shen
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, China.,Zhejiang Provincial Key Laboratory for Water Pollution Control and Environmental Safety, Hangzhou, China
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López-Lara LI, Pazos-Rojas LA, López-Cruz LE, Morales-García YE, Quintero-Hernández V, de la Torre J, van Dillewijn P, Muñoz-Rojas J, Baez A. Influence of rehydration on transcriptome during resuscitation of desiccated Pseudomonas putida KT2440. ANN MICROBIOL 2020. [DOI: 10.1186/s13213-020-01596-3] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022] Open
Abstract
Abstract
Purpose
Pseudomonas putida KT2440 is a desiccation-sensitive bacterium that loses culturability after 15 days of air desiccation. We have previously shown that P. putida KT2440 can develop a viable but nonculturable (VBNC) state after being exposed to desiccation stress and eventually recover when desiccated cells are rehydrated for at least 24 h.
Methods
To determine which genes of transport, oxidation-reduction, and transcription processes could be involved in the return of P. putida KT2440 to the culturable state, a transcriptome analysis was carried out comparing the gene expression of non-desiccated samples with samples subjected to desiccation followed by 20 min of rehydration or desiccation followed by 24 h of rehydration.
Results
Desiccation stress triggered a VBNC state of P. putida. The major response was detected after 24 h of rehydration with 148 upregulated and 42 downregulated genes. During the VBNC state, P. putida activated transmembrane transport processes like that of siderophores through a TonB-dependent transporter and putative polyhydric alcohol transport systems. Prolonged rehydration with distilled water resuscitated P. putida KT2440 cells activating the catabolism of phenylalanine/tyrosine to provide energy and carbon for ubiquinone biosynthesis while maintaining a reduced protein synthesis. On the other hand, the interruption of the TonB-dependent receptor gene (PP_1446) increased desiccation survival of the mutant strain.
Conclusion
The activation of the iron transport system (TonB-dependent siderophore receptor) and alcohol transport can be helping the VBNC state of P. putida. Activation of catabolism of phenylalanine/tyrosine and reduced protein synthesis was needed for resuscitation from the VBNC state.
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34
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Dai J, Dong A, Xiong G, Liu Y, Hossain MS, Liu S, Gao N, Li S, Wang J, Qiu D. Production of Highly Active Extracellular Amylase and Cellulase From Bacillus subtilis ZIM3 and a Recombinant Strain With a Potential Application in Tobacco Fermentation. Front Microbiol 2020; 11:1539. [PMID: 32793132 PMCID: PMC7385192 DOI: 10.3389/fmicb.2020.01539] [Citation(s) in RCA: 25] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/05/2020] [Accepted: 06/12/2020] [Indexed: 11/25/2022] Open
Abstract
In this study, a series of bacteria capable of degrading starch and cellulose were isolated from the aging flue-cured tobacco leaves. Remarkably, there was a thermophilic bacterium, Bacillus subtilis ZIM3, that can simultaneously degrade both starch and cellulose at a wide range of temperature and pH values. Genome sequencing, comparative genomics analyses, and enzymatic activity assays showed that the ZIM3 strain expressed a variety of highly active plant biomass-degrading enzymes, such as the amylase AmyE1 and cellulase CelE1. The in vitro and PhoA-fusion assays indicated that these enzymes degrading complex plant biomass into fermentable sugars were secreted into ambient environment to function. Besides, the amylase and cellulase activities were further increased by three- to five-folds by using overexpression. Furthermore, a fermentation strategy was developed and the biodegradation efficiency of the starch and cellulose in the tobacco leaves were improved by 30–48%. These results reveal that B. subtilis ZIM3 and the recombinant strain exhibited high amylase and cellulase activities for efficient biodegradation of starch and cellulose in tobacco and could potentially be applied for industrial tobacco fermentation.
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Affiliation(s)
- Jingcheng Dai
- Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, China
| | - Aijun Dong
- Technology Research Center of China Tobacco Hubei Industry Co., Ltd., Wuhan, China
| | - Guoxi Xiong
- Technology Research Center of China Tobacco Hubei Industry Co., Ltd., Wuhan, China
| | - Yaqi Liu
- Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, China.,College of Fisheries and Life Science, Dalian Ocean University, Dalian, China
| | - Md Shahdat Hossain
- Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, China.,University of Chinese Academy of Sciences, Beijing, China.,National Institute of Biotechnology, Dhaka, Bangladesh
| | - Shuangyuan Liu
- Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, China.,University of Chinese Academy of Sciences, Beijing, China
| | - Na Gao
- Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, China.,University of Chinese Academy of Sciences, Beijing, China
| | - Shuyang Li
- Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, China.,University of Chinese Academy of Sciences, Beijing, China
| | - Jing Wang
- Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, China.,University of Chinese Academy of Sciences, Beijing, China
| | - Dongru Qiu
- Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan, China.,University of Chinese Academy of Sciences, Beijing, China
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35
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Ye Z, Li H, Jia Y, Fan J, Wan J, Guo L, Su X, Zhang Y, Wu WM, Shen C. Supplementing resuscitation-promoting factor (Rpf) enhanced biodegradation of polychlorinated biphenyls (PCBs) by Rhodococcus biphenylivorans strain TG9 T. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2020; 263:114488. [PMID: 32244156 DOI: 10.1016/j.envpol.2020.114488] [Citation(s) in RCA: 33] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/22/2019] [Revised: 03/26/2020] [Accepted: 03/27/2020] [Indexed: 06/11/2023]
Abstract
The biodegradation of polychlorinated biphenyls (PCBs) occurs slowly when the degrading bacteria enter a low activity state, such as a viable but nonculturable (VBNC) state, under unfavorable environmental conditions. The introduction of resuscitation-promoting factor (Rpf) can re-activate VBNC bacteria. This study tested the feasibility of enhancing PCB biodegradation via supplementing Rpf in liquid culture and soil microcosms inoculated with Rhodococcus biphenylivorans strain TG9T. Exogenous Rpf resuscitated TG9T cells that had previously entered the VBNC state after 90 d of nutrient starvation, resulting in the significantly enhanced degradation of PCB by 24.3% over 60 h in liquid medium that originally contained 50 mg L-1 Aroclor 1242. In soil microcosms containing 50 mg kg-1 Aroclor 1242 and inoculated with VBNC TG9T cells, after 49 d of supplementation with Rpf, degradation efficiency of PCB reached 34.2%, which was significantly higher than the control. Our results confirmed that exogenous Rpf resuscitated VBNC TG9T cells by stimulating endogenous expression of rpf gene orthologs. The enhanced PCB-degrading capability was likely due to the increased cell numbers and the strong expression of PCB catabolic genes. This study demonstrated the role of Rpf in enhancing PCB degradation via resuscitating PCB-degrading bacteria, indicating a promising approach for the remediation of PCB contamination.
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Affiliation(s)
- Zhe Ye
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory for Water Pollution Control and Environmental Safety, Hangzhou, 310058, China
| | - Hongxuan Li
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory for Water Pollution Control and Environmental Safety, Hangzhou, 310058, China
| | - Yangyang Jia
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory for Water Pollution Control and Environmental Safety, Hangzhou, 310058, China
| | - Jiahui Fan
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory for Water Pollution Control and Environmental Safety, Hangzhou, 310058, China
| | - Jixing Wan
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory for Water Pollution Control and Environmental Safety, Hangzhou, 310058, China
| | - Li Guo
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory for Water Pollution Control and Environmental Safety, Hangzhou, 310058, China
| | - Xiaomei Su
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua, 321004, China
| | - Yu Zhang
- Environmental Science Research and Design Institute of Zhejiang Province, Hangzhou, 310007, China
| | - Wei-Min Wu
- Department of Civil and Environmental Engineering, William and Cloy Codiga Resource Recovery Center, Center for Sustainable Development & Global Competitiveness, Stanford University, Stanford, CA, 94305-4020, United States
| | - Chaofeng Shen
- Department of Environmental Engineering, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory for Water Pollution Control and Environmental Safety, Hangzhou, 310058, China.
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36
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Ma Q, Liu S, Li S, Hu J, Tang M, Sun Y. Removal of malodorant skatole by two enriched microbial consortia: Performance, dynamic, function prediction and bacteria isolation. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 725:138416. [PMID: 32302841 DOI: 10.1016/j.scitotenv.2020.138416] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/13/2020] [Revised: 03/26/2020] [Accepted: 04/01/2020] [Indexed: 06/11/2023]
Abstract
Malodor emission has become one of the major challenges in animal husbandry. Skatole, one of the most offensive odorous compounds, can cause several diseases to organisms and is resistant to biodegradation. However, the microbial community information for skatole degradation has yet to be reported. In this study, the aerobic sequencing batch reactors with two different inocula were constructed. Both Group N (sample from cattle house) and Group E (sample from goose house) could efficiently degrade skatole after 70 days operation under conditions of pH 7.0-9.0 and temperature 20-40 °C. High-throughput sequencing results showed that the α-diversity in Group N was higher than that in Group E, while neither of them changed during the whole operation process. Bacterial community structures in both groups shifted. Generally, Lactococcus, Pseudomonas and Flavobacterium remarkably reduced, while Arthrobacter became the dominant population. Function prediction results indicated that the xenobiotics biodegradation and metabolism category was significantly up-regulated in Group E but remained unchanged in Group N. On the other hand, culture-dependent technique was applied and ten bacteria were obtained from the sludges. Two strains belonged to Rhodococcus, a minor genus in the communities, were firstly proven to harbor excellent skatole-degrading capacity. This study proved that skatole could be effectively removed by activated sludges, and the non-core bacteria Rhodococcus would be functionally important in the degradation process. These findings provide new insights into our understanding of skatole biotransformation process, and offer valuable bacterial resources for bioremediation application.
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Affiliation(s)
- Qiao Ma
- Institute of Environmental Systems Biology, College of Environmental Science and Engineering, Dalian Maritime University, Dalian 116026, China.
| | - Shengwei Liu
- Institute of Environmental Systems Biology, College of Environmental Science and Engineering, Dalian Maritime University, Dalian 116026, China
| | - Shuzhen Li
- School of Environmental Science and Technology, Dalian University of Technology, Dalian 116024, China
| | - Jiabao Hu
- Institute of Environmental Systems Biology, College of Environmental Science and Engineering, Dalian Maritime University, Dalian 116026, China
| | - Minyi Tang
- Institute of Environmental Systems Biology, College of Environmental Science and Engineering, Dalian Maritime University, Dalian 116026, China
| | - Yeqing Sun
- Institute of Environmental Systems Biology, College of Environmental Science and Engineering, Dalian Maritime University, Dalian 116026, China
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37
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Xu B, Xue R, Zhou J, Wen X, Shi Z, Chen M, Xin F, Zhang W, Dong W, Jiang M. Characterization of Acetamiprid Biodegradation by the Microbial Consortium ACE-3 Enriched From Contaminated Soil. Front Microbiol 2020; 11:1429. [PMID: 32733403 PMCID: PMC7360688 DOI: 10.3389/fmicb.2020.01429] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2020] [Accepted: 06/02/2020] [Indexed: 12/26/2022] Open
Abstract
Microbial consortia are ubiquitous in nature and exhibit several attractive features such as sophisticated metabolic capabilities and strong environmental robustness. This study aimed to decipher the metabolic and ecological characteristics of synergistic interactions in acetamiprid-degrading consortia, suggesting an optimal scheme for bioremediation of organic pollutants. The microbial consortium ACE-3 with excellent acetamiprid-degrading ability was enriched from the soil of an acetamiprid-contaminated site and characterized using high-throughput sequencing (HTS). Consortium ACE-3 was able to completely degrade 50 mg⋅L–1 acetamiprid in 144 h, and was metabolically active at a wide range of pH values (6.0–8.0) and temperatures (20–42°C). Furthermore, plausible metabolic routes of acetamiprid biodegradation by the consortium were proposed based on the identification of intermediate metabolites (Compounds I, II, III and IV). The findings indicated that the consortium ACE-3 has promising potential for the removal and detoxification of pesticides because it produces downstream metabolites (Compounds I and II) that are less toxic to mammals and insects than acetamiprid. Finally, Illumina HTS revealed that β Proteobacteria were the dominant group, accounting for 85.61% of all sequences at the class level. Among the more than 50 genera identified in consortium ACE-3, Sphingobium, Acinetobacter, Afipia, Stenotrophomonas, and Microbacterium were dominant, respectively accounting for 3.07, 10.01, 24.45, and 49.12% of the total population.
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Affiliation(s)
- Bin Xu
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing, China
| | - Rui Xue
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing, China
| | - Jie Zhou
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing, China
| | - Xin Wen
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing, China
| | - Zhoukun Shi
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing, China
| | - Minjiao Chen
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing, China
| | - Fengxue Xin
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing, China.,Jiangsu National Synergetic Innovation Center for Advanced Materials (SICAM), Nanjing Tech University, Nanjing, China
| | - Wenming Zhang
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing, China.,Jiangsu National Synergetic Innovation Center for Advanced Materials (SICAM), Nanjing Tech University, Nanjing, China
| | - Weiliang Dong
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing, China.,Jiangsu National Synergetic Innovation Center for Advanced Materials (SICAM), Nanjing Tech University, Nanjing, China
| | - Min Jiang
- State Key Laboratory of Materials-Oriented Chemical Engineering, College of Biotechnology and Pharmaceutical Engineering, Nanjing Tech University, Nanjing, China.,Jiangsu National Synergetic Innovation Center for Advanced Materials (SICAM), Nanjing Tech University, Nanjing, China
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38
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Meng X, Zhao X, Ding X, Li Y, Cao G, Chu Z, Su X, Liu Y, Chen X, Guo J, Cai Z, Ding X. Integrated Functional Omics Analysis of Flavonoid-Related Metabolism in AtMYB12 Transcript Factor Overexpressed Tomato. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2020; 68:6776-6787. [PMID: 32396374 DOI: 10.1021/acs.jafc.0c01894] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/07/2023]
Abstract
Genetic engineering (GE) technology is widely used in plant modification. However, the results of modification may not exactly meet the expectations. Herein, we propose a new multi-omics method for GE plant evaluation based on the optimized use of the metID algorithm. Using this method, we found that flavonoid accumulation was at the expense of the great sacrifice of l-phenylalanine in GE tomatoes for the first time. Meanwhile, the ceramide series of sphingolipid is synthesized de novo from l-serine, and ceramides are the primary source of vesicles coated with flavonoids and secreted from the endoplasmic reticulum. Therefore, the accumulation of the ceramide series of sphingolipid changed the cell component of intracellular organelles. Furthermore, the improvement of the method allows us to identify more metabolites related to dysregulated pathways.
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Affiliation(s)
- Xuanlin Meng
- College of Plant Protection, State Key Laboratory of Crop Biology, Shandong Agricultural University, Taian, Shandong 271000, People's Republic of China
- Department of Chemistry and State Key Laboratory of Environmental and Biological Analysis, Hong Kong Baptist University, Kowloon Tong, Kowloon, Hong Kong Special Administrative Region of the People's Republic of China
| | - Xingchen Zhao
- Department of Chemistry and State Key Laboratory of Environmental and Biological Analysis, Hong Kong Baptist University, Kowloon Tong, Kowloon, Hong Kong Special Administrative Region of the People's Republic of China
| | - Xiangyu Ding
- College of Plant Protection, State Key Laboratory of Crop Biology, Shandong Agricultural University, Taian, Shandong 271000, People's Republic of China
| | - Yang Li
- College of Plant Protection, State Key Laboratory of Crop Biology, Shandong Agricultural University, Taian, Shandong 271000, People's Republic of China
| | - Guodong Cao
- Department of Chemistry and State Key Laboratory of Environmental and Biological Analysis, Hong Kong Baptist University, Kowloon Tong, Kowloon, Hong Kong Special Administrative Region of the People's Republic of China
| | - Zhaohui Chu
- College of Plant Protection, State Key Laboratory of Crop Biology, Shandong Agricultural University, Taian, Shandong 271000, People's Republic of China
| | - Xiuli Su
- Department of Chemistry and State Key Laboratory of Environmental and Biological Analysis, Hong Kong Baptist University, Kowloon Tong, Kowloon, Hong Kong Special Administrative Region of the People's Republic of China
| | - Yuanchen Liu
- Department of Chemistry and State Key Laboratory of Environmental and Biological Analysis, Hong Kong Baptist University, Kowloon Tong, Kowloon, Hong Kong Special Administrative Region of the People's Republic of China
| | - Xiangfeng Chen
- Key Laboratory for Applied Technology of Sophisticated Analytic Instrument, Qilu University of Technology (Shandong Academy of Science), Jinan, Shandong 250014, People's Republic of China
| | - Jinggong Guo
- Center for Multi-Omics Research, State Key Laboratory of Cotton Biology, Institute of Plant Stress Biology, Henan University, Kaifeng, Henan 475004, People's Republic of China
| | - Zongwei Cai
- Department of Chemistry and State Key Laboratory of Environmental and Biological Analysis, Hong Kong Baptist University, Kowloon Tong, Kowloon, Hong Kong Special Administrative Region of the People's Republic of China
| | - Xinhua Ding
- College of Plant Protection, State Key Laboratory of Crop Biology, Shandong Agricultural University, Taian, Shandong 271000, People's Republic of China
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39
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Pang S, Lin Z, Zhang W, Mishra S, Bhatt P, Chen S. Insights Into the Microbial Degradation and Biochemical Mechanisms of Neonicotinoids. Front Microbiol 2020; 11:868. [PMID: 32508767 PMCID: PMC7248232 DOI: 10.3389/fmicb.2020.00868] [Citation(s) in RCA: 80] [Impact Index Per Article: 20.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/2020] [Accepted: 04/14/2020] [Indexed: 12/22/2022] Open
Abstract
Neonicotinoids are derivatives of synthetic nicotinoids with better insecticidal capabilities, including imidacloprid, nitenpyram, acetamiprid, thiacloprid, thiamethoxam, clothianidin, and dinotefuran. These are mainly used to control harmful insects and pests to protect crops. Their main targets are nicotinic acetylcholine receptors. In the past two decades, the environmental residues of neonicotinoids have enormously increased due to large-scale applications. More and more neonicotinoids remain in the environment and pose severe toxicity to humans and animals. An increase in toxicological and hazardous pollution due to the introduction of neonicotinoids into the environment causes problems; thus, the systematic remediation of neonicotinoids is essential and in demand. Various technologies have been developed to remove insecticidal residues from soil and water environments. Compared with non-bioremediation methods, bioremediation is a cost-effective and eco-friendly approach for the treatment of pesticide-polluted environments. Certain neonicotinoid-degrading microorganisms, including Bacillus, Mycobacterium, Pseudoxanthomonas, Rhizobium, Rhodococcus, Actinomycetes, and Stenotrophomonas, have been isolated and characterized. These microbes can degrade neonicotinoids under laboratory and field conditions. The microbial degradation pathways of neonicotinoids and the fate of several metabolites have been investigated in the literature. In addition, the neonicotinoid-degrading enzymes and the correlated genes in organisms have been explored. However, few reviews have focused on the neonicotinoid-degrading microorganisms along with metabolic pathways and degradation mechanisms. Therefore, this review aimed to summarize the microbial degradation and biochemical mechanisms of neonicotinoids. The potentials of neonicotinoid-degrading microbes for the bioremediation of contaminated sites were also discussed.
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Affiliation(s)
- Shimei Pang
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou, China.,Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China
| | - Ziqiu Lin
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou, China.,Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China
| | - Wenping Zhang
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou, China.,Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China
| | - Sandhya Mishra
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou, China.,Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China
| | - Pankaj Bhatt
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou, China.,Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China
| | - Shaohua Chen
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources, Guangdong Province Key Laboratory of Microbial Signals and Disease Control, Integrative Microbiology Research Centre, South China Agricultural University, Guangzhou, China.,Guangdong Laboratory for Lingnan Modern Agriculture, Guangzhou, China
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40
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Truchado P, Gil MI, Larrosa M, Allende A. Detection and Quantification Methods for Viable but Non-culturable (VBNC) Cells in Process Wash Water of Fresh-Cut Produce: Industrial Validation. Front Microbiol 2020; 11:673. [PMID: 32431672 PMCID: PMC7214806 DOI: 10.3389/fmicb.2020.00673] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/16/2020] [Accepted: 03/24/2020] [Indexed: 11/13/2022] Open
Abstract
The significance of viable but non-culturable (VBNC) cells in the food industry is not well known, mainly because of the lack of suitable detection methodologies to distinguish them from dead cells. The study aimed at the selection of the method to differentiate dead and VBNC cells of Listeria monocytogenes in process wash water (PWW) from the fruit and vegetable industry. Different methodologies were examined including (i) flow cytometry, (ii) viability quantitative polymerase chain reaction (v-qPCR) using an improved version of the propidium monoazide (PMAxx) dye as DNA amplificatory inhibitor, and (iii) v-qPCR combining ethidium monoazide (EMA) and PMAxx. The results showed that the flow cytometry, although previously recommended, was not a suitable methodology to differentiate between dead and VBNC cells in PWW, probably because of the complex composition of the water, causing interferences and leading to an overestimation of the dead cells. Based on results obtained, the v-qPCR combined with EMA and PMAxx was the most suitable technique for the detection and quantification of VBNC cells in PWW. Concentrations of 10 μM EMA and 75 μM PMAxx incubated at 40°C for 40 min followed by a 15-min light exposure inhibited most of the qPCR amplification from dead cells. For the first time, this methodology was validated in an industrial processing line for shredded lettuce washed with chlorine (10 mg/L). The analysis of PWW samples allowed the differentiation of dead and VBNC cells. Therefore, this method can be considered as a rapid and reliable one recommended for the detection of VBNC cells in complex water matrixes such as those of the food industry. However, the complete discrimination of dead and VBNC cells was not achieved, which led to a slight overestimation of the percentage of VBNC cells in PWW, mostly, due to the complex composition of this type of water. More studies are needed to determine the significance of VBNC cells in case of potential cross-contamination of fresh produce during washing.
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Affiliation(s)
- Pilar Truchado
- Research Group on Quality, Safety and Bioactivity of Plant Foods, The Centre of Edafology and Applied Biology of Segura, Spanish National Research Council (CEBAS-CSIC), Murcia, Spain
| | - Maria I. Gil
- Research Group on Quality, Safety and Bioactivity of Plant Foods, The Centre of Edafology and Applied Biology of Segura, Spanish National Research Council (CEBAS-CSIC), Murcia, Spain
| | - Mar Larrosa
- Faculty of Biomedical and Health Sciences, Nutrition, Microbiota and Health Group, Universidad Europea de Madrid, Villaviciosa de Odón, Madrid, Spain
| | - Ana Allende
- Research Group on Quality, Safety and Bioactivity of Plant Foods, The Centre of Edafology and Applied Biology of Segura, Spanish National Research Council (CEBAS-CSIC), Murcia, Spain
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Płociniczak T, Pacwa-Płociniczak M, Kwaśniewski M, Chwiałkowska K, Piotrowska-Seget Z. Response of rhizospheric and endophytic bacterial communities of white mustard (Sinapis alba) to bioaugmentation of soil with the Pseudomonas sp. H15 strain. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2020; 194:110434. [PMID: 32155483 DOI: 10.1016/j.ecoenv.2020.110434] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/12/2019] [Revised: 02/08/2020] [Accepted: 03/03/2020] [Indexed: 06/10/2023]
Abstract
A factor that may significantly increase the efficacy of phytoextraction is soil bioaugmentation with specific bacteria, which can alter the composition of rhizospheric and endophytic bacterial communities. The aim of this study was to compare the effect of soil treatment with living (bioaugmentation) and dead (control) cells of the plant growth-promoting metal-resistant endophytic strain Pseudomonas sp. H15 on the bacterial community composition in the rhizo- and endo-sphere of white mustard during enhanced phytoextraction. The bacterial communities in the rhizosphere were dominated (51.7-68.2%) by Proteobacteria, regardless of the soil treatment or sampling point. A temporary increase in the number of sequences belonging to Gammaproteobacteria (up to 37.3%) was only observed 24 h after the soil treatment with living Pseudomonas sp. H15 cells, whereas for the remaining samples, the relative abundance of this class did not exceed 7.1%. The relative abundance of Proteobacteria in the endosphere of the roots, stems, and leaves of white mustard was higher in the control than in bioaugmented plants. The most pronounced dominance of the Gammaproteobacteria sequences was observed in the stems and leaves of the control plants at the first sampling point, which strongly indicates the ability of the plants to rapidly uptake DNA from soil and translocate it to the aboveground parts of the plants. Additionally, the bioaugmentation of the soil caused a diverse shift in the bacterial communities in the rhizo- and endo-sphere of white mustard compared to control. The most distinct differences, which were dependent on the treatment, were observed in the endosphere of plants at the beginning of the experiment and decreased over time. These results indicate that the rhizo- and endo-biome of white mustard reacts to soil bioaugmentation and may influence the efficiency of bacterial-assisted phytoextraction.
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Affiliation(s)
- Tomasz Płociniczak
- Faculty of Natural Sciences, Institute of Biology, Biotechnology and Environmental Protection, University of Silesia in Katowice, Jagiellońska 28, 40-032, Katowice, Poland.
| | - Magdalena Pacwa-Płociniczak
- Faculty of Natural Sciences, Institute of Biology, Biotechnology and Environmental Protection, University of Silesia in Katowice, Jagiellońska 28, 40-032, Katowice, Poland
| | - Mirosław Kwaśniewski
- Centre for Bioinformatics and Data Analysis, Medical University of Białystok, Waszyngtona 13a, 15-269, Białystok, Poland
| | - Karolina Chwiałkowska
- Centre for Bioinformatics and Data Analysis, Medical University of Białystok, Waszyngtona 13a, 15-269, Białystok, Poland
| | - Zofia Piotrowska-Seget
- Faculty of Natural Sciences, Institute of Biology, Biotechnology and Environmental Protection, University of Silesia in Katowice, Jagiellońska 28, 40-032, Katowice, Poland
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42
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Deng Z, Jiang Y, Chen K, Gao F, Liu X. Petroleum Depletion Property and Microbial Community Shift After Bioremediation Using Bacillus halotolerans T-04 and Bacillus cereus 1-1. Front Microbiol 2020; 11:353. [PMID: 32194536 PMCID: PMC7066087 DOI: 10.3389/fmicb.2020.00353] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2019] [Accepted: 02/18/2020] [Indexed: 11/13/2022] Open
Abstract
Bioremediation of crude oil contaminated environments is an economical, low-maintenance, environmentally friendly technology and has attracted increasing attention in recent years. In the present study, two efficient crude oil degrading bacteria strains were isolated from soils contaminated with crude oil. Phylogenetic analysis suggested they belonged to genus Bacillus, and were designated as Bacillus cereus T-04 and Bacillus halotolerans 1-1. The crude oil depletion of each strain under different conditions was tested. The optimum conditions for both strains' oil degradation was pH 7, 15-20 g/L NaCl concentration, and 5-15 g/L original oil concentration. The crude oil depletion rate could reach to 60-80% after 20 days of treatment. The crude oil bioremediation simulation tests revealed that the bioremediation promoted the depletion of crude oil to a large extent. The inoculum group with inorganic medium showed the highest crude oil depletion (97.5%) while the crude oil depletion of control group was only 26.6% after 180 days of treatment. High-throughput sequencing was used to monitor the changes of microbial community using different treatments. In all groups, Actinobacteria, Proteobacteria, Firmicutes and Bacteroidetes were the dominant phyla. After contaminated with crude oil, the relative abundance of phylum Actinobacteria was dramatically increased and occupied 81.8%. Meanwhile although strains of Bacillus were added in the bioaugmentation groups, the relative abundance of genus Bacillus was not the most abundant genus at the end of simulation tests. The crude oil contamination dramatically decreased the soil microbial diversity and bioremediation could not recover the microbial community in the short term.
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Affiliation(s)
| | | | | | | | - Xiaodong Liu
- College of Life Sciences, Yan’an University, Yan’an, China
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43
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Cai J, Liu J, Pan A, Liu J, Wang Y, Liu J, Sun F, Lin H, Chen J, Su X. Effective decolorization of anthraquinone dye reactive blue 19 using immobilized Bacillus sp. JF4 isolated by resuscitation-promoting factor strategy. WATER SCIENCE AND TECHNOLOGY : A JOURNAL OF THE INTERNATIONAL ASSOCIATION ON WATER POLLUTION RESEARCH 2020; 81:1159-1169. [PMID: 32597403 DOI: 10.2166/wst.2020.201] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Given the highly complex recalcitrant nature of synthetic dyes, biological treatment of textile wastewater using efficient bacterial species is still considered as an environmentally friendly manner. In this study, a reactive blue 19 (RB19)-degrading strain, Bacillus sp. JF4, which was isolated by resuscitation-promoting factor (Rpf) strategy, was immobilized into polyvinyl alcohol-calcium alginate-activated carbon beads (JF4-immobilized beads) for RB19 decolorization. Results suggest that the JF4-immobilized beads, which were capable of simultaneous adsorption and biodegradation, showed a high decolorization activity, while they exhibited better tolerability towards high RB19 concentrations. The JF4-immobilized beads could almost completely decolorize 100 mg/L RB19 within 10 d, while only 92.1% was decolorized by free bacteria within 12 d. Further investigation on the equilibrium and kinetics of the adsorption process suggests that the pseudo-second-order model best fit the adsorption kinetics data, and the Freundlich isotherm was the most suitable for the description of the equilibrium data. Notably, the repeated batch cycles indicated that complete decolorization of 100 mg/L RB19 by JF4-immobilized beads can be maintained for at least three cycles without much reduction in efficiency. These findings suggest that immobilizing Rpf-resuscitated strain into beads was an effective strategy for textile wastewater treatment.
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Affiliation(s)
- Jiafang Cai
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China E-mail:
| | - Jiale Liu
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China E-mail:
| | - Aodong Pan
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China E-mail:
| | - Jinfu Liu
- Juhua Group Corporation, Quzhou 32400, China
| | - Yuyang Wang
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China E-mail:
| | - Jianbo Liu
- College of Environmental Science and Engineering, Hunan University, Changsha 410082, China
| | - Faqian Sun
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China E-mail:
| | - Hongjun Lin
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China E-mail:
| | - Jianrong Chen
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China E-mail:
| | - Xiaomei Su
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China E-mail:
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44
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Ahmad M, Yang Q, Zhang Y, Ling J, Sajjad W, Qi S, Zhou W, Zhang Y, Lin X, Zhang Y, Dong J. The distinct response of phenanthrene enriched bacterial consortia to different PAHs and their degradation potential: a mangrove sediment microcosm study. JOURNAL OF HAZARDOUS MATERIALS 2019; 380:120863. [PMID: 31401251 DOI: 10.1016/j.jhazmat.2019.120863] [Citation(s) in RCA: 42] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/19/2019] [Revised: 05/28/2019] [Accepted: 07/02/2019] [Indexed: 06/10/2023]
Abstract
Understanding the microbial community succession to polycyclic aromatic hydrocarbons (PAHs) and identification of important degrading microbial groups are crucial for the designing of appropriate bioremediation strategies. In the present study, two distinct phenanthrene enriched bacterial consortia were treated against high molecular weight (Pyrene, Benzo (a) pyrene and Benzo (a) fluoranthene) and the response was studied in term of taxonomic variations by using High Throughput Illumina sequencing and qPCR analysis. Overall, the type of PAHs significantly affected the composition and the relative abundance of bacterial communities while no obvious difference was detected between bacterial communities of benzo (a) pyrene and benzo (a) fluoranthene treatments. Genera, Novosphingobium, Pseudomonas, Flavobacterium, Mycobacterium, Hoeflae, and Algoriphagus dominated all PAHs treatment groups indicating that they could be the key PAHs degrading phylotypes. Due to the higher abundance of gram-negative PAH-ring hydroxylating dioxygenase gene than that of gram-positive bacteria in all treated groups, we speculated that gram-negative bacteria may contribute more in the PAH degradation. The studied sediments harbored rich PAHs degrading bacterial assemblages involved in both low and high molecular weight PAHs and these findings provided new insight into the perspective of microbial PAHs bioremediation in the mangrove ecosystem.
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Affiliation(s)
- Manzoor Ahmad
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 510301 Guangzhou, China; University of Chinese Academy of Sciences, 100049 Beijing, China
| | - Qingsong Yang
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 510301 Guangzhou, China; University of Chinese Academy of Sciences, 100049 Beijing, China
| | - Yanying Zhang
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 510301 Guangzhou, China; Tropical Marine Biological Research station in Hainan, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 572000 Sanya, China; University of Chinese Academy of Sciences, 100049 Beijing, China
| | - Juan Ling
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 510301 Guangzhou, China; Tropical Marine Biological Research station in Hainan, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 572000 Sanya, China; University of Chinese Academy of Sciences, 100049 Beijing, China.
| | - Wasim Sajjad
- Department of Biological Sciences, National University of Medical Sciences, 46000 Rawalpindi, Pakistan
| | - Shuhua Qi
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 510301 Guangzhou, China
| | - Weiguo Zhou
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 510301 Guangzhou, China; University of Chinese Academy of Sciences, 100049 Beijing, China
| | - Ying Zhang
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 510301 Guangzhou, China; University of Chinese Academy of Sciences, 100049 Beijing, China
| | - Xiancheng Lin
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 510301 Guangzhou, China; University of Chinese Academy of Sciences, 100049 Beijing, China
| | - Yuhang Zhang
- Guangdong Pharmaceutical University, 510006 Guangzhou, China
| | - Junde Dong
- CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, Guangdong Provincial Key Laboratory of Applied Marine Biology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 510301 Guangzhou, China; Tropical Marine Biological Research station in Hainan, South China Sea Institute of Oceanology, Chinese Academy of Sciences, 572000 Sanya, China; University of Chinese Academy of Sciences, 100049 Beijing, China.
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45
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Su X, Li S, Cai J, Xiao Y, Tao L, Hashmi MZ, Lin H, Chen J, Mei R, Sun F. Aerobic degradation of 3,3',4,4'-tetrachlorobiphenyl by a resuscitated strain Castellaniella sp. SPC4: Kinetics model and pathway for biodegradation. THE SCIENCE OF THE TOTAL ENVIRONMENT 2019; 688:917-925. [PMID: 31726573 DOI: 10.1016/j.scitotenv.2019.06.364] [Citation(s) in RCA: 30] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/01/2019] [Revised: 06/18/2019] [Accepted: 06/22/2019] [Indexed: 05/16/2023]
Abstract
Resuscitated strains which were obtained by addition of resuscitation promoting factor (Rpf) could provide a vast majority of microbial source for obtaining highly efficient polychlorinated biphenyl (PCB)-degrading bacteria. In this study, the Castellaniella sp. strain SPC4 which was resuscitated by Rpf addition showed the highest efficiency in degradation of 3,3',4,4'-tetrachlorobiphenyl (PCB 77) among the resuscitated and non-resuscitated isolates. Further investigations on the PCB 77 degradation capability of the resuscitated strain SPC4 showed that SPC4 could efficiently degrade PCB 77 with maximum degradation rate (qmax) of 0.066/h at about 20 mg/L of PCB 77. The maximum growth rate on PCB 77 was 2.663 × 107 CFU/(mL·h) (0.024/h). The most suitable model of Edward demonstrated that the SPC4 could achieve qmax of 0.9315/h, with substrate-affinity of 11.33 mg/L and substrate-inhibition constants of 11.41 mg/L. Meanwhile, the presence of bphA gene expression and chlorine ions release, together with the identification of metabolites, confirmed that the bph-encoded biphenyl pathway was involved in PCB 77 mineralization by SPC4. This report is the first to demonstrate aerobic degradation of PCB 77 by the resuscitated strain Castellaniella sp. SPC4, indicating excellent potential for PCB bioremediation.
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Affiliation(s)
- Xiaomei Su
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Si Li
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Jiafang Cai
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Yeyuan Xiao
- Department of Civil and Environmental Engineering, Shantou University, Shantou 515063, China
| | - Linqin Tao
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | | | - Hongjun Lin
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Jianrong Chen
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Rongwu Mei
- Environmental Science Research and Design Institute of Zhejiang Province, Hangzhou 310007, China
| | - Faqian Sun
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China.
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46
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Xian HQ, Liu L, Li YH, Yang YN, Yang S. Molecular tagging of biocontrol fungus Trichoderma asperellum and its colonization in soil. J Appl Microbiol 2019; 128:255-264. [PMID: 31541488 DOI: 10.1111/jam.14457] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2018] [Revised: 09/02/2019] [Accepted: 09/16/2019] [Indexed: 11/30/2022]
Abstract
AIMS To conduct molecular tagging of the biocontrol fungus Trichoderma asperellum strain T4 and elucidate its colonization patterns in soil. METHODS AND RESULTS We constructed an expression vector harbouring a hygromycin B-resistant gene (hph) and an efficient green fluorescent protein (egfp) gene. By applying Agrobacterium AGL-1-mediated genetic transformation technology, we conducted molecular tagging of T. asperellum and monitored the colonization dynamics of T. asperellum in soil. The results of tracking five independent transformants of T. asperellum indicated that its expansion rates ranged from 4·7 to 6·8 cm week-1 . After inoculation in soil, the quantities of T. asperellum could be maintained at over 10 × 104 CFU per gram soil in the first year. In the third year after inoculation, the quantities of T. asperellum in soil were still higher than 1 × 103 CFU per gram soil. In addition, molecularly tagged T. asperellum in soil in the second year (i.e. 12 months) after inoculation could still reach the biocontrol effect on cucumber Rhizoctonia rot by more than 74%. CONCLUSION Trichoderma asperellum strain T4 is capable of effectively colonizing in soil and surviving for more than 1 year. SIGNIFICANCE AND IMPACT OF THE STUDY This study has provided the scientific basis for applying T. asperellum as the biocontrol fungus for prevention and control of plant diseases.
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Affiliation(s)
- H-Q Xian
- School of Life Sciences, Qingdao Agricultural University, Shandong Province, China.,Shandong Province Key Laboratory of Applied Mycology, Shandong Province, China
| | - L Liu
- School of Life Sciences, Qingdao Agricultural University, Shandong Province, China
| | - Y-H Li
- School of Life Sciences, Qingdao Agricultural University, Shandong Province, China
| | - Y-N Yang
- School of Life Sciences, Qingdao Agricultural University, Shandong Province, China
| | - S Yang
- School of Life Sciences, Qingdao Agricultural University, Shandong Province, China.,Shandong Province Key Laboratory of Applied Mycology, Shandong Province, China.,Qingdao International Center on Microbes Utilizing Biogas, Qingdao, Shandong Province, China.,Key Laboratory of Systems Bioengineering, Ministry of Education, Tianjin University, Tianjin, China
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47
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Muccee F, Ejaz S. An Investigation of Petrol Metabolizing Bacteria Isolated from Contaminated Soil Samples Collected from Various Fuel Stations. Pol J Microbiol 2019; 68:193-201. [PMID: 31250589 PMCID: PMC7256828 DOI: 10.33073/pjm-2019-019] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/01/2018] [Revised: 01/29/2019] [Accepted: 01/31/2019] [Indexed: 12/11/2022] Open
Abstract
The present study aimed to isolate the high-efficiency petrol metabolizing thermophilic bacteria from petrol contaminated soil samples. Isolation was carried out through enrichment culture, serial dilution and pour plate methods using the petrol supplemented minimal salt media. The isolated bacteria were analyzed to document growth behavior, petrol removal efficiencies, antibiotic resistance profile, and biochemical characteristics. The 16S rRNA based phylogenetic analysis helped to reveal the identity of isolated bacterial species and construct the phylogenetic trees. Total nine bacteria were isolated, out of which three (IUBP2, IUBP3, IUBP5) were identified as Brevibacillus formosus, one (IUBP1) was found similar to Brevibacillus agri, four (IUBP7, IUBP8, IUBP13, and IUBP14) shared homology with Burkholderia lata, and one (IUBP15) with Burkholderia pyrrocinia. All the isolates were fast growing and exhibited considerable petrol degradation potential. The highest petrol removal efficiency (69.5% ± 13.44/6 days) was recorded for the strain IUBP15 at a petrol concentration of 0.1% (v/v). All bacteria studied (100%) were positive for esculinase and phosphatase. Many strains exhibited positive responses for arginine dehydrolase (22%), β-naphthylamidase (11%), β-D-glucosaminide (33%), mannitol (55%), sorbitol (66%) and inulin (88%) fermentation test. While all were sensitive to the antibiotics, some of them were found resistant against chloramphenicol and oxacillin. The remarkable biochemical characteristics and considerable petrol removal potential (40–70%) highlights utilization of the bacteria isolated for petrol bioremediation, mineralization of organophosphates, dairy and food industry, and also as biofertilizers and biocontrol agents.
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Affiliation(s)
- Fatima Muccee
- Department of Biochemistry and Biotechnology , The Islamia University of Bahawalpur , Bahawalpur , Pakistan
| | - Samina Ejaz
- Department of Biochemistry and Biotechnology , The Islamia University of Bahawalpur , Bahawalpur , Pakistan
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48
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Oh S, Choi D. Microbial Community Enhances Biodegradation of Bisphenol A Through Selection of Sphingomonadaceae. MICROBIAL ECOLOGY 2019; 77:631-639. [PMID: 30251120 DOI: 10.1007/s00248-018-1263-4] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/20/2018] [Accepted: 09/16/2018] [Indexed: 06/08/2023]
Abstract
Bisphenol A (BPA) is a common ingredient in plastic wares and epoxy resins that are essential for our daily life. Despite the obvious benefits, BPA may act as an environmental endocrine disruptor, causing metabolic, reproductive, and/or developmental consequences and diseases in humans and other organisms. Although previous studies have yielded progress toward the microbial breakdown of BPA, the work has primarily been focused on pure cultures rather than complex microbial communities. In this study, we examined microbial communities in bioreactors that control the fate of BPA at various levels (up to 5000 μg L-1). Microbial communities rapidly increased removal rates of 500-5000 μg L-1 BPA from 23-29 to 89-99% during the first 2 weeks of the acclimation period, after which > 90% stable removal rates were maintained over 3 months. Biochemical assays demonstrated that BPA was removed by biodegradation, rather than other abiotic removal routes (e.g., adsorption and volatilization). The 16S rRNA gene-based community analysis revealed that 50-5000 μg L-1 of BPA exposure systematically selected for three Sphingomonadaceae species (Sphingobium, Novosphingobium, and Sphingopyxis). The Sphingomonadaceae-enriched communities acclimated to BPA showed a 7.0-L gVSS-1 day-1 BPA degradation rate constant, which is comparable to that (4.1-6.3) of Sphingomonadaceae isolates and is higher than other potential BPA degraders. Taken together, our results advanced the understanding of how microbial communities acclimate to environmentally relevant levels of BPA, gradually enhancing BPA degradation via selective enrichment of a few Sphingomonadaceae populations with higher BPA metabolic activity.
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Affiliation(s)
- Seungdae Oh
- Department of Civil Engineering, Kyung Hee University, Yongin-si, Gyeonggi-do, Republic of Korea.
| | - Donggeon Choi
- Department of Civil Engineering, Kyung Hee University, Yongin-si, Gyeonggi-do, Republic of Korea
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49
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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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50
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Su X, Wang Y, Xue B, Zhang Y, Mei R, Zhang Y, Hashmi MZ, Lin H, Chen J, Sun F. Resuscitation of functional bacterial community for enhancing biodegradation of phenol under high salinity conditions based on Rpf. BIORESOURCE TECHNOLOGY 2018; 261:394-402. [PMID: 29684869 DOI: 10.1016/j.biortech.2018.04.048] [Citation(s) in RCA: 41] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/06/2018] [Revised: 04/08/2018] [Accepted: 04/12/2018] [Indexed: 06/08/2023]
Abstract
This study assumed that key degraders of functional bacterial community were prone to enter into the viable but non-culturable (VBNC) state under high saline phenolic conditions, and resuscitation-promoting factor (Rpf) could strengthen these degraders for better performances. Based on these assumptions, Rpf was used to enhance salt-tolerant phenol-degrading capability of functional populations in activated sludge. Results suggested that Rpf accelerated the start-up process during sludge domestication, and significantly enhanced salt-tolerant phenol-degrading capability. High-throughput sequencing showed that the resuscitation and stimulation functions of Rpf linked mainly to the genus Corynebacterium within the phylum Actinobacteria, and the genera Proteiniphilum and Petrimonas within the phylum Bacteroidete. These key functional populations contributed to better phenol-degrading capabilities under high salinity conditions. This study indicated that Rpf is a promising additive for improving biological treatment performance of saline phenolic wastewater.
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Affiliation(s)
- Xiaomei Su
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Yuyang Wang
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Binbing Xue
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Yunge Zhang
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Rongwu Mei
- Environmental Science Research and Design Institute of Zhejiang Province, Hangzhou 310007, China
| | - Yu Zhang
- Environmental Science Research and Design Institute of Zhejiang Province, Hangzhou 310007, China
| | - Muhammad Zaffar Hashmi
- Department of Meteorology, COMSATS Institute of Information Technology, Islamabad 44000, Pakistan
| | - Hongjun Lin
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Jianrong Chen
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China
| | - Faqian Sun
- College of Geography and Environmental Science, Zhejiang Normal University, Jinhua 321004, China.
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