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Liu Y, Qin R, Jia X. Design and construction of an artificial labor-division consortium for phenanthrene degradation with three-functional modules. CHEMOSPHERE 2024:143439. [PMID: 39357657 DOI: 10.1016/j.chemosphere.2024.143439] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/30/2023] [Revised: 09/25/2024] [Accepted: 09/28/2024] [Indexed: 10/04/2024]
Abstract
Polycyclic Aromatic Hydrocarbons (PAHs) are highly toxic organic pollutants. Phenanthrene often serves as a model compound for studying PAHs biodegradation. In this work, we firstly engineered Escherichia coli M01 containing seven phenanthrene degradation genes and combined it with existing engineered strains E. coli M2 and M3 to form an artificial three-bacteria consortium, named M0123, which exhibited a degradation ratio of 64.66% for 100 mg/L of phenanthrene over 8 days. Subsequently, we constructed engineered Pseudomonas putida KTRL02 which could produce 928.49 mg/L rhamnolipids and integrated it with M0123, forming a four-bacteria consortium with an impressive 81.62% phenanthrene degradation ratio. Assessment of extracellular adenosine levels during the degradation process indicated high cellular energy demand in the four-bacteria consortium. Then, we introduced Bacillus subtilis RH33, a riboflavin-producing strain, as an energy-supplying bacterium, to create a five-bacteria consortium, which exhibited an 88.19% degradation ratio for phenanthrene. The NADH/NAD+ ratio in the five-bacteria consortium during the degradation process was monitored, which was consistently higher than that of the four-bacteria consortium over the eight-day period, indicating a higher overall intracellular reduction capacity. Furthermore, the five-bacteria consortium displayed good tolerance to phenanthrene, even achieving a degradation ratio of 79.38% for 500 mg/L of phenanthrene. This study demonstrates that designing and constructing artificial consortia from the functional perspective and various angles can effectively enhance the degradation of phenanthrene after the addition of the energy-supplying bacterium.. This study demonstrates that designing and constructing artificial labor-division consortia from the functional perspective and various angles can effectively enhance the degradation of phenanthrene.
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Affiliation(s)
- Yiyang Liu
- Department of Biochemical Engineering, School of Chemical Engineering and Technology, Tianjin University, Tianjin 300072, China
| | - Ruolin Qin
- Department of Biochemical Engineering, School of Chemical Engineering and Technology, Tianjin University, Tianjin 300072, China
| | - Xiaoqiang Jia
- Department of Biochemical Engineering, School of Chemical Engineering and Technology, Tianjin University, Tianjin 300072, China; Frontier Science Center for Synthetic Biology and Key Laboratory of Systems Bioengineering (MOE), School of Chemical Engineering and Technology, Tianjin University, Tianjin 300350, China.
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Liu ZS, Wang KH, Han Q, Jiang CY, Liu SJ, Li DF. Sphingobium sp. SJ10-10 encodes a not-yet-reported chromate reductase and the classical Rieske dioxygenases to simultaneously degrade PAH and reduce chromate. JOURNAL OF HAZARDOUS MATERIALS 2024; 475:134889. [PMID: 38878436 DOI: 10.1016/j.jhazmat.2024.134889] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/13/2024] [Revised: 05/28/2024] [Accepted: 06/10/2024] [Indexed: 06/27/2024]
Abstract
Both polycyclic aromatic hydrocarbons (PAHs) and heavy metals persist in the environment and are toxic to organisms. Their co-occurrence makes any of them difficult to remove during bioremediation and poses challenges to environmental management and public health. Microorganisms capable of effectively degrading PAHs and detoxifying heavy metals concurrently are required to improve the bioremediation process. In this study, we isolated a new strain, Sphingobium sp. SJ10-10, from an abandoned coking plant and demonstrated its capability to simultaneously degrade 92.6 % of 75 mg/L phenanthrene and reduce 90 % of 3.5 mg/L hexavalent chromium [Cr(VI)] within 1.5 days. Strain SJ10-10 encodes Rieske non-heme iron ring-hydroxylating oxygenases (RHOs) to initiate PAH degradation. Additionally, a not-yet-reported protein referred to as Sphingobium chromate reductase (SchR), with low sequence identity to known chromate reductases, was identified to reduce Cr(VI). SchR is distributed across different genera and can be classified into two classes: one from Sphingobium members and the other from non-Sphingobium species. The widespread presence of SchR in those RHO-containing Sphingobium members suggests that they are excellent candidates for bioremediation. In summary, our study demonstrates the simultaneous removal of PAHs and Cr(VI) by strain SJ10-10 and provides valuable insights into microbial strategies for managing complex pollutant mixtures.
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Affiliation(s)
- Ze-Shen Liu
- State Key Laboratory of Microbial Resources and Environmental Microbiology Research Center at Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China
| | - Ke-Huan Wang
- State Key Laboratory of Microbial Resources and Environmental Microbiology Research Center at Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China
| | - Qun Han
- State Key Laboratory of Microbial Resources and Environmental Microbiology Research Center at Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China
| | - Cheng-Ying Jiang
- State Key Laboratory of Microbial Resources and Environmental Microbiology Research Center at Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China
| | - Shuang-Jiang Liu
- State Key Laboratory of Microbial Resources and Environmental Microbiology Research Center at Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China.
| | - De-Feng Li
- State Key Laboratory of Microbial Resources and Environmental Microbiology Research Center at Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China.
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3
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Witczak A, Mituniewicz-Małek A, Dmytrów I. Analysis of the Influence of Lactiplantibacillus plantarum and Lacticaseibacillus rhamnosus Strains on Changes in the Hexachlorobenzene Content in Fermented Mare Milk during Refrigerated Storage. Molecules 2024; 29:528. [PMID: 38276605 PMCID: PMC10820736 DOI: 10.3390/molecules29020528] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2023] [Revised: 01/17/2024] [Accepted: 01/19/2024] [Indexed: 01/27/2024] Open
Abstract
(1) Background: Hexachlorobenzene (HCB) is a persistent organic pollutant that is possibly carcinogenic to humans. It is still found in the environment, humans and animals, and in foods, including milk and dairy products; (2) Methods: The influence of the probiotic cultures Lacticaseibacillus rhamnosus LCR and Lactiplantibacillus plantarum subsp. plantarum LP on the possibility of effecting the biodegradation of HCB in dairy products fermented from mare milk was investigated, taking into account the product storage time (maximum 21 days). HCB content was determined using the GC/MS method; (3) Results: A strong negative Pearson correlation (p < 0.05) was found between HCB concentration and the refrigeration storage time of the fermented beverages. The highest HCB reduction was observed in milk fermented with both Lacticaseibacillus rhamnosus LCR and Lactiplantibacillus plantarum subsp. plantarum LP (78.77%), while the lowest was noted when only Lactiplantibacillus plantarum subsp. plantarum LP was used (73.79%); (4) Conclusions: This pilot study confirmed that probiotics commonly used to give products health-promoting properties can also contribute to reducing the content of undesirable substances, and the bacterial cultures used might provide an alternative method for reducing HCB residues in fermented drinks.
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Affiliation(s)
- Agata Witczak
- Department of Toxicology, Dairy Technology and Food Storage, Faculty of Food Sciences and Fisheries, West Pomeranian University of Technology, 70-310 Szczecin, Poland; (A.M.-M.); (I.D.)
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4
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Liu H, Zhang L, Wang W, Hu H, Ouyang X, Xu P, Tang H. An Intelligent Synthetic Bacterium for Chronological Toxicant Detection, Biodegradation, and Its Subsequent Suicide. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2023; 10:e2304318. [PMID: 37705081 PMCID: PMC10625131 DOI: 10.1002/advs.202304318] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/28/2023] [Revised: 08/24/2023] [Indexed: 09/15/2023]
Abstract
Modules, toolboxes, and synthetic biology systems may be designed to address environmental bioremediation. However, weak and decentralized functional modules require complex control. To address this issue, an integrated system for toxicant detection and biodegradation, and subsequent suicide in chronological order without exogenous inducers is constructed. Salicylic acid, a typical pollutant in industrial wastewater, is selected as an example to demonstrate this design. Biosensors are optimized by regulating the expression of receptors and reporters to get 2-fold sensitivity and 6-fold maximum output. Several stationary phase promoters are compared, and promoter Pfic is chosen to express the degradation enzyme. Two concepts for suicide circuits are developed, with the toxin/antitoxin circuit showing potent lethality. The three modules are coupled in a stepwise manner. Detection and biodegradation, and suicide are sequentially completed with partial attenuation compared to pre-integration, except for biodegradation, being improved by the replacements of ribosome binding site. Finally, a long-term stability test reveals that the engineered strain maintained its function for ten generations. The study provides a novel concept for integrating and controlling functional modules that can accelerate the transition of synthetic biology from conceptual to practical applications.
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Affiliation(s)
- Huan Liu
- State Key Laboratory of Microbial MetabolismJoint International Research Laboratory of Metabolic and Developmental Sciences, and School of Life Sciences and BiotechnologyShanghai Jiao Tong UniversityShanghaiP. R. China
| | - Lige Zhang
- State Key Laboratory of Microbial MetabolismJoint International Research Laboratory of Metabolic and Developmental Sciences, and School of Life Sciences and BiotechnologyShanghai Jiao Tong UniversityShanghaiP. R. China
| | - Weiwei Wang
- State Key Laboratory of Microbial MetabolismJoint International Research Laboratory of Metabolic and Developmental Sciences, and School of Life Sciences and BiotechnologyShanghai Jiao Tong UniversityShanghaiP. R. China
| | - Haiyang Hu
- State Key Laboratory of Microbial MetabolismJoint International Research Laboratory of Metabolic and Developmental Sciences, and School of Life Sciences and BiotechnologyShanghai Jiao Tong UniversityShanghaiP. R. China
| | - Xingyu Ouyang
- State Key Laboratory of Microbial MetabolismJoint International Research Laboratory of Metabolic and Developmental Sciences, and School of Life Sciences and BiotechnologyShanghai Jiao Tong UniversityShanghaiP. R. China
| | - Ping Xu
- State Key Laboratory of Microbial MetabolismJoint International Research Laboratory of Metabolic and Developmental Sciences, and School of Life Sciences and BiotechnologyShanghai Jiao Tong UniversityShanghaiP. R. China
| | - Hongzhi Tang
- State Key Laboratory of Microbial MetabolismJoint International Research Laboratory of Metabolic and Developmental Sciences, and School of Life Sciences and BiotechnologyShanghai Jiao Tong UniversityShanghaiP. R. China
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Wang Q. Degradation behaviors and accumulative effects of coexisting chlorobenzene congeners on the dechlorination of hexachlorobenzene in soil by nanoscale zero-valent iron. ENVIRONMENTAL GEOCHEMISTRY AND HEALTH 2023; 45:3971-3983. [PMID: 36629959 DOI: 10.1007/s10653-023-01479-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/04/2022] [Accepted: 01/04/2023] [Indexed: 06/01/2023]
Abstract
It is well known that many chlorinated organic pollutants can be dechlorinated by nanoscale zero-valent iron. However, in the real chlorinated organic compounds contaminated soil, the congeners of high- and low-chlorinated isomer often coexist and their dechlorination behaviors are poorly known, such as hexachlorobenzene (HCB). In this work, the degradation behaviors of three coexisting chlorobenzene congeners pentachlorobenzene (PeCB), 1,2,4,5-tetrachlorobenzene (1,2,4,5-TeCB) and 1,2,4-trichlorobenzene (1,2,4-TCB) and the influence of initial pH and reaction temperature on the dechlorination of HCB in HCB-contaminated soil by nanoscale zero-valent iron were studied. The amount and extent of accumulated coexisting chlorobenzenes was analyzed under different environmental conditions. The results indicate that nanoscale zero-valent iron can improve the degradation efficiency of highly toxic chlorinated benzenes and reduce the accumulative effects of highly toxic chlorinated benzenes on dechlorination of HCB. The accumulative effects of three coexisting chlorobenzene congeners on the dechlorination of HCB were ranked as follows: 1,2,4-TCB > 1,2,4,5-TeCB > PeCB.
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Affiliation(s)
- Qi Wang
- Beijing Key Laboratory for Risk Modeling and Remediation of Contaminated Sites, National Engineering Research Center of Urban Environmental Pollution Control, Beijing Municipal Research Institute of Eco-Environmental Protection, Beijing, 100037, China.
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Ruomeng B, Meihao O, Siru Z, Shichen G, Yixian Z, Junhong C, Ruijie M, Yuan L, Gezhi X, Xingyu C, Shiyi Z, Aihui Z, Fang B. Degradation strategies of pesticide residue: From chemicals to synthetic biology. Synth Syst Biotechnol 2023; 8:302-313. [PMID: 37122957 PMCID: PMC10130697 DOI: 10.1016/j.synbio.2023.03.005] [Citation(s) in RCA: 7] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2022] [Revised: 03/16/2023] [Accepted: 03/20/2023] [Indexed: 04/04/2023] Open
Abstract
The past 50 years have witnessed a massive expansion in the demand and application of pesticides. However, pesticides are difficult to be completely degraded without intervention hence the pesticide residue could pose a persistent threat to non-target organisms in many aspects. To aim at the problem of the abuse of pesticide products and excessive pesticide residues in the environment, chemical and biological degradation methods are widely developed but are scaled and insufficient to solve such a pollution. In recent years, bio-degradative tools instructed by synthetic biological principles have been further studied and have paved a way for pesticide degradation. Combining the customized design strategy and standardized assembly mode, the engineering bacteria for multi-dimensional degradation has become an effective tool for pesticide residue degradation. This review introduces the mechanisms and hazards of different pesticides, summarizes the methods applied in the degradation of pesticide residues, and discusses the advantages, applications, and prospects of synthetic biology in degrading pesticide residues.
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Gangan MS, Naughton KL, Boedicker JQ. Utilizing a divalent metal ion transporter to control biogenic nanoparticle synthesis. J Ind Microbiol Biotechnol 2023; 50:kuad020. [PMID: 37587013 PMCID: PMC10481092 DOI: 10.1093/jimb/kuad020] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2023] [Accepted: 08/15/2023] [Indexed: 08/18/2023]
Abstract
Biogenic synthesis of inorganic nanomaterials has been demonstrated for both wild and engineered bacterial strains. In many systems the nucleation and growth of nanomaterials is poorly controlled and requires concentrations of heavy metals toxic to living cells. Here, we utilized the tools of synthetic biology to engineer a strain of Escherichia coli capable of synthesizing cadmium sulfide nanoparticles from low concentrations of reactants with control over the location of synthesis. Informed by simulations of bacterially-assisted nanoparticle synthesis, we created a strain of E. coli expressing a broad-spectrum divalent metal transporter, ZupT, and a synthetic CdS nucleating peptide. Expression of ZupT in the outer membrane and placement of the nucleating peptide in the periplasm focused synthesis within the periplasmic space and enabled sufficient nucleation and growth of nanoparticles at sub-toxic levels of the reactants. This strain synthesized internal CdS quantum dot nanoparticles with spherical morphology and an average diameter of approximately 3.3 nm. ONE-SENTENCE SUMMARY Expression of a metal ion transporter regulates synthesis of cadmium sulfide nanoparticles in bacteria.
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Affiliation(s)
- Manasi Subhash Gangan
- Department of Physics and Astronomy, University of Southern California, Los Angeles, CA 90089, USA
| | - Kyle L Naughton
- Department of Physics and Astronomy, University of Southern California, Los Angeles, CA 90089, USA
| | - James Q Boedicker
- Department of Physics and Astronomy, University of Southern California, Los Angeles, CA 90089, USA
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Neto SLM, Coelho GD, Ballaminut N, Matheus DR, Thomaz DV, Machado KMG. Application of Deconica castanella ligninolytic enzymatic system in the degradation of hexachlorobenzene in soil. Biotechnol Appl Biochem 2022; 69:2437-2444. [PMID: 34837656 DOI: 10.1002/bab.2293] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/23/2021] [Accepted: 11/23/2021] [Indexed: 12/27/2022]
Abstract
Hexachlorobenzene (HCB) is a pollutant still found in the environment despite being widely banned. Considering that basidiomycetes are useful to degrade a variety of organochlorinated pollutants, we therefore report the influence of HCB on the ligninolytic enzymatic system of Deconica castanella. The inoculum was prepared with sugarcane bagasse and soybean flour and was added in soil with and without HCB (2000 mg kg soil-1 ), 5% emulsion containing soybean oil and Tween 20 at proportion 9:1, v:v; with 70% moisture at 25°C. Fungal biomass was quantified by widely acknowledged growth biomarker ergosterol. The extraction of the enzymatic complex was performed and laccase, Mn-dependent peroxidase (MnP), and lignin peroxidase (LiP) activities were determined. Furthermore, HCB and its metabolites were quantified by gas chromatography and chlorides by potentiometric titration. Results evidenced that HCB did not interfere in fungal growth, though the only detected enzymatic activity was laccase. MnP and Lip were not detected during D. castanella growth in soil. The peak of laccase enzymatic activity occurred in the presence of HCB. In addition, the laccase exhibited thermostability. Therefore, we hereby shed light on the role of laccase in the degradation of HCB by an efficient low-cost and environmentally safe detoxification mechanism.
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Affiliation(s)
- Sergio Luiz Moreira Neto
- Phytotaxonomy Division, Mycology Section, Institute of Botany of the Secretariat of the Environment of the State of São Paulo, São Paulo, SP, Brazil
| | - Glauciane Danusa Coelho
- Academic Unit of Biotechnology Engineering and Bioprocesses, Center for Sustainable Development of the Semi-Arid, Federal University of Campina Grande, Sumé, PB, Brazil
| | - Nara Ballaminut
- Phytotaxonomy Division, Mycology Section, Institute of Botany of the Secretariat of the Environment of the State of São Paulo, São Paulo, SP, Brazil
| | - Dácio Roberto Matheus
- Center for Engineering, Modeling and Applied Social Sciences, Federal University of ABC, Santo André, SP, Brazil
| | - Douglas Vieira Thomaz
- Faculty of Pharmacy, Federal University of Goias, Setor Leste Universitário, Goiânia, GO, Brazil
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Wang Y, Li G, Wang Q, Chen X, Sun C. The kinetic reaction of anaerobic microbial chloerobenzenes degradation in contaminated soil. CHEMICAL ENGINEERING JOURNAL ADVANCES 2022. [DOI: 10.1016/j.ceja.2022.100414] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/31/2022] Open
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10
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Possible Processes and Mechanisms of Hexachlorobenzene Decomposition by the Selected Comamonas testosteroni Bacterial Strains. Processes (Basel) 2022. [DOI: 10.3390/pr10112170] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022] Open
Abstract
Background: The bacterial destructing activity toward pesticides has been the focus of research in the last few decades. Hexachlorobenzene is included in the organochlorine pesticides group that are prohibited for use. However, large hexachlorobenzene amounts are still concentrated in the soil, stressing the relevance of research on hexachlorobenzene-destroying bacteria. Methods: The ability to destroy hexachlorobenzene by Comamonas testosteroni UCM B-400, B-401, B-213 strains was investigated and established. Bacteria were cultivated (7 days at 28 °C) in mineral Luria-Bertrani (LB) medium with three hexachlorobenzene doses: 10, 20, 50 mg/L. The hexachlorobenzene concentrations were recorded by a gas chromatography method. Results: The results showed that C. testosteroni UCM B-400, B-401 have high destructive activity toward hexachlorobenzene. The highest (50 mg/L) initial concentration decreased to 41.5 and 43.8%, respectively, for C. testosteroni UCM B-400, B-401. The unadapted C. testosteroni UCM B-213 was tolerant to hexachlorobenzene (cell titers after cultivating with 10.0, 20.0, 50.0 mg/mL were higher compared to initial titer), but had a low-destructing activity level (two times less than B-400 and B-401). Conclusions: Bacterial strains C. testosteroni UCM B-400, B-401 can be seen as a potential soil bioremediation from hexachlorobenzene pollution.
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Zhang G, Yang X, Zhao Z, Xu T, Jia X. Artificial Consortium of Three E. coli BL21 Strains with Synergistic Functional Modules for Complete Phenanthrene Degradation. ACS Synth Biol 2022; 11:162-175. [PMID: 34914358 DOI: 10.1021/acssynbio.1c00349] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Polycyclic aromatic hydrocarbons (PAHs) are highly toxic and persistent organic pollutions that can accumulate in the environment. In this study, an aromatic ring cleavage module, a salicylic acid synthesis module, and a catechol metabolism module were respectively constructed in three Escherichia coli BL21 strains. Subsequently, the engineered strains were cocultured as an artificial consortium for the biodegradation of phenanthrene, a typical PHA. Single factor experiments and response surface methodology were used to identify the optimal degradation conditions, including an inoculation interval of 6 h, inoculation ratio of 1:1:1, and IPTG concentration of 2 mM. Under these conditions, the 7-day degradation ratio of 100 mg/L phenanthrene reached 72.67%. Moreover, the engineered Escherichia coli BL21 strains showed good phenanthrene degradation ability at substrate concentrations 10 mg/L up to 500 mg/L. Enzyme activity assays combined with gas chromatography-mass spectrometry measurements confirmed that the three engineered strains behaved as a synergistic consortium in the phenanthrene degradation process. Based on the analysis of the key metabolites, the engineered bacteria were supplemented at 7-day intervals in batches so that each engineered strain maintained its optimal degradation ability. The 21-day degradation ratio finally reached 90.66%, which was much higher than what was observed with simultaneous inoculation. These findings suggest that the three engineered strains with separate modules constructed in this study offer an attractive solution for removing PAHs from the environment.
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Affiliation(s)
- Guangbao Zhang
- Department of Biochemical Engineering, School of Chemical Engineering and Technology, Tianjin University, Tianjin 300072, China
| | - Xiaohui Yang
- Department of Biochemical Engineering, School of Chemical Engineering and Technology, Tianjin University, Tianjin 300072, China
| | - Zhenhua Zhao
- Department of Biochemical Engineering, School of Chemical Engineering and Technology, Tianjin University, Tianjin 300072, China
| | - Tao Xu
- Department of Biochemical Engineering, School of Chemical Engineering and Technology, Tianjin University, Tianjin 300072, China
| | - Xiaoqiang Jia
- Department of Biochemical Engineering, School of Chemical Engineering and Technology, Tianjin University, Tianjin 300072, China
- Frontier Science Center for Synthetic Biology and Key Laboratory of Systems Bioengineering (MOE), School of Chemical Engineering and Technology, Tianjin University, Tianjin 300350, China
- Collaborative Innovation Center of Chemical Science and Engineering (Tianjin), Tianjin 300072, China
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de Santana Mota WJ, de Oliveira Santiago Santos G, Resende Dória A, Rubens Dos Reis Souza M, Krause LC, Salazar-Banda GR, Barrios Eguiluz KI, López JA, Hernández-Macedo ML. Enhanced HCB removal using bacteria from mangrove as post-treatment after electrochemical oxidation using a laser-prepared Ti/RuO 2-IrO 2-TiO 2 anode. CHEMOSPHERE 2021; 279:130875. [PMID: 34134435 DOI: 10.1016/j.chemosphere.2021.130875] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/29/2020] [Revised: 04/29/2021] [Accepted: 05/08/2021] [Indexed: 06/12/2023]
Abstract
The environmental persistence of hexachlorobenzene (HCB) is a challenge that promotes studies for efficient treatment alternatives to minimize its environmental impact. Here, we evaluated the HCB removal by electrochemical, biological, and combined approaches. The electrochemical treatment of 4 μM HCB solutions was performed using a synthesized Ti/RuO2-IrO2-TiO2 anode, while the biological treatment using mangrove-isolated bacteria was at 24, 48, and 72 h. The HCB degradability was assessed by analyzing chemical oxygen demand (COD), microbial growth capacity in media supplemented with HCB as the only carbon source, gas chromatography, and ecotoxicity assay after treatments. The synthesized anode showed a high voltammetric charge and catalytic activity, favoring the HCB biodegradability. All bacterial isolates exhibited the ability to metabolize HCB, especially Bacillus sp. and Micrococcus luteus. The HCB degradation efficiency of the combined electrochemical-biological treatment was evidenced by a high COD removal percentage, the non-HCB detection by gas chromatography, and a decrease in ecotoxicity tested with lettuce seeds. The combination of electrochemical pretreatment with microorganism degradation was efficient to remove HCB, thereby opening up prospects for in situ studies of areas contaminated by this recalcitrant compound.
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Affiliation(s)
- Wanessa Jeane de Santana Mota
- Molecular Biology Laboratory, Research and Technology Institute - ITP, Aracaju, SE, Brazil; Industrial Biotechnology Graduation, Universidade Tiradentes, 49032-490, Aracaju, Brazil
| | - Gessica de Oliveira Santiago Santos
- Electrochemistry and Nanotechnology Laboratory, Research and Technology Institute - ITP, Aracaju, SE, Brazil; Processes Engineering Graduation - PEP, Universidade Tiradentes, 49032-490, Aracaju, SE, Brazil
| | - Aline Resende Dória
- Electrochemistry and Nanotechnology Laboratory, Research and Technology Institute - ITP, Aracaju, SE, Brazil; Processes Engineering Graduation - PEP, Universidade Tiradentes, 49032-490, Aracaju, SE, Brazil
| | - Michel Rubens Dos Reis Souza
- Materials Synthesis and Chromatography Laboratory, Research and Technology Institute - ITP, Aracaju, SE, Brazil; Industrial Biotechnology Graduation, Universidade Tiradentes, 49032-490, Aracaju, Brazil
| | - Laiza Canielas Krause
- Materials Synthesis and Chromatography Laboratory, Research and Technology Institute - ITP, Aracaju, SE, Brazil; Industrial Biotechnology Graduation, Universidade Tiradentes, 49032-490, Aracaju, Brazil
| | - Giancarlo Richard Salazar-Banda
- Electrochemistry and Nanotechnology Laboratory, Research and Technology Institute - ITP, Aracaju, SE, Brazil; Processes Engineering Graduation - PEP, Universidade Tiradentes, 49032-490, Aracaju, SE, Brazil
| | - Katlin Ivon Barrios Eguiluz
- Electrochemistry and Nanotechnology Laboratory, Research and Technology Institute - ITP, Aracaju, SE, Brazil; Processes Engineering Graduation - PEP, Universidade Tiradentes, 49032-490, Aracaju, SE, Brazil.
| | - Jorge A López
- Molecular Biology Laboratory, Research and Technology Institute - ITP, Aracaju, SE, Brazil; Industrial Biotechnology Graduation, Universidade Tiradentes, 49032-490, Aracaju, Brazil
| | - María Lucila Hernández-Macedo
- Molecular Biology Laboratory, Research and Technology Institute - ITP, Aracaju, SE, Brazil; Industrial Biotechnology Graduation, Universidade Tiradentes, 49032-490, Aracaju, Brazil
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Sharma B, Shukla P. Futuristic avenues of metabolic engineering techniques in bioremediation. Biotechnol Appl Biochem 2020; 69:51-60. [PMID: 33242354 DOI: 10.1002/bab.2080] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2020] [Accepted: 11/22/2020] [Indexed: 12/15/2022]
Abstract
Bioremediation is a promising technology for the treatment of environmental contaminants and paving new avenues for the betterment of the environment. Over the last some years, several approaches have been employed to optimize the genetic machinery of microorganisms relevant to bioremediation. Metabolic engineering is one of them that provides a new insight for bioremediation. This review envisages the critical role of these techniques toward exploring the possibilities of the creation of a new pathway, leading to pathway expansion to new substrates by assembling of catabolic modules from different origins in the same microbial cell. The recombinant DNA technology and gene editing tools were also explored for the construction of metabolically engineered microbial strains for the degradation of complex pollutants. Moreover, the importance of CRISPR-Cas system for knock-in and knock-out of genes was described by using recent studies. Further, the idea of the cocultivation of more than one metabolic engineered microbial communities is also discussed, which can be crucial in the bioremediation of multiple and complex pollutants. Finally, this review also elucidates the effective application of metabolic engineering in bioremediation through these techniques and tools.
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Affiliation(s)
- Babita Sharma
- Enzyme Technology and Protein Bioinformatics Laboratory, Department of Microbiology, Maharshi Dayanand University, Rohtak, Haryana, India
| | - Pratyoosh Shukla
- Enzyme Technology and Protein Bioinformatics Laboratory, Department of Microbiology, Maharshi Dayanand University, Rohtak, Haryana, India
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Sharma B, Shukla P. Designing synthetic microbial communities for effectual bioremediation: A review. BIOCATAL BIOTRANSFOR 2020. [DOI: 10.1080/10242422.2020.1813727] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Affiliation(s)
- Babita Sharma
- Enzyme Technology and Protein Bioinformatics Laboratory, Department of Microbiology, Maharshi Dayanand University, Haryana, India
| | - Pratyoosh Shukla
- Enzyme Technology and Protein Bioinformatics Laboratory, Department of Microbiology, Maharshi Dayanand University, Haryana, India
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15
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Garbou AM, Liu M, Zou S, Yestrebsky CL. Degradation kinetics of hexachlorobenzene over zero-valent magnesium/graphite in protic solvent system and modeling of degradation pathways using density functional theory. CHEMOSPHERE 2019; 222:195-204. [PMID: 30708153 DOI: 10.1016/j.chemosphere.2019.01.134] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/23/2018] [Revised: 12/23/2018] [Accepted: 01/23/2019] [Indexed: 06/09/2023]
Abstract
Hexachlorobenzene (HCB), like many chlorinated organic compounds, has accumulated in the environment from agricultural and industrial activity. Because of its health risks and adverse impact on various ecosystems, remediation of this contaminant is of vital concern. The objective of this study is to evaluate the proficiency of activated magnesium metal in a protic solvent system to accomplish reductive dechlorination of HCB. Experimental results were compared with those predicted by quantum chemical calculations based on Density Functional Theory (DFT). Multivariate analysis detected complete degradation of HCB within 30 min at room temperature, the reaction having a rate constant of 0.222 min-1. Dechlorination was hypothesized to proceed via an ionic mechanism; the main dechlorination pathways of HCB in 1:1 ethanol:ethyl lactate were HCB → PCBz → 1,2,4,5-TCB; 1,2,3,5-TCB → 1,2,4-TriCB; 1,3,5-TriCB → 1,4-DiCB; 1,3-DiCB. The direct relationship between the decreasing number of Cl substituents and dechlorination reaction kinetics agrees with the ΔG values predicted by the computational model. This methodology shows promise for the development of a practical and sustainable field application for the remediation of other chlorinated aromatic compounds.
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Affiliation(s)
- Amel M Garbou
- Environmental Chemistry Laboratory, University of Central Florida, 4000 Central Florida Blvd., Orlando, FL 32816, United States
| | - Muqiong Liu
- Department of Chemistry, University of Central Florida, 4000 Central Florida Blvd., Orlando, FL 32816, United States
| | - Shengli Zou
- Department of Chemistry, University of Central Florida, 4000 Central Florida Blvd., Orlando, FL 32816, United States
| | - Cherie L Yestrebsky
- Environmental Chemistry Laboratory, University of Central Florida, 4000 Central Florida Blvd., Orlando, FL 32816, United States.
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16
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Study on supercritical water oxidation of o-dichlorobenzene in a quartz micro-reactor with in situ microscope and Raman spectroscopy. CHEMICAL PAPERS 2019. [DOI: 10.1007/s11696-018-00676-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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17
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Benckiser G. Plastics, Micro- and Nanomaterials, and Virus-Soil Microbe-Plant Interactions in the Environment. PLANT NANOBIONICS 2019. [DOI: 10.1007/978-3-030-12496-0_4] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
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18
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Flood JJ, Copley SD. Genome-Wide Analysis of Transcriptional Changes and Genes That Contribute to Fitness during Degradation of the Anthropogenic Pollutant Pentachlorophenol by Sphingobium chlorophenolicum. mSystems 2018; 3:e00275-18. [PMID: 30505947 PMCID: PMC6247019 DOI: 10.1128/msystems.00275-18] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2018] [Accepted: 11/01/2018] [Indexed: 12/02/2022] Open
Abstract
Pentachlorophenol (PCP) is a highly toxic pesticide that was first introduced in the 1930s. The alphaproteobacterium Sphingobium chlorophenolicum, which was isolated from PCP-contaminated sediment, has assembled a metabolic pathway capable of completely degrading PCP. This pathway produces four toxic intermediates, including a chlorinated benzoquinone that is a potent alkylating agent and three chlorinated hydroquinones that react with O2 to produce reactive oxygen species (ROS). RNA-seq analysis revealed that PCP causes a global stress response that resembles responses to proton motive force uncoupling and membrane disruption, while surprisingly, little of the response resembles the responses expected to be produced by the PCP degradation intermediates. Tn-seq was used to identify genes important for fitness in the presence of PCP. By comparing the genes that are important for fitness in wild-type S. chlorophenolicum and a non-PCP-degrading mutant, we identified genes that are important only when the PCP degradation intermediates are produced. These include genes encoding two enzymes that are likely to be involved in protection against ROS. In addition to these enzymes, the endogenous levels of other enzymes that protect cells from oxidative stress appear to mitigate the toxic effects of the chlorinated benzoquinone and hydroquinone metabolites of PCP. The combination of RNA-seq and Tn-seq results identify important mechanisms for defense against the toxicity of PCP. IMPORTANCE Phenolic compounds such as pentachlorophenol (PCP), triclosan, and 2,4-dichlorophenoxyacetic acid (2,4-D) represent a common class of anthropogenic biocides. Despite the novelty of these compounds, many can be degraded by microbes isolated from contaminated sites. However, degradation of this class of chemicals often generates toxic intermediates, which may contribute to their recalcitrance to biodegradation. We have addressed the stresses associated with degradation of PCP by Sphingobium chlorophenolicum by examining the transcriptional response after PCP exposure and identifying genes necessary for growth during both exposure to and degradation of PCP. This work identifies some of the mechanisms that protect cells from this toxic compound and facilitate its degradation. This information could be used to engineer strains capable of improved biodegradation of PCP or similar phenolic pollutants.
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Affiliation(s)
- Jake J. Flood
- Department of Molecular, Cellular and Developmental Biology, University of Colorado Boulder, Boulder, Colorado, USA
- Cooperative Institute for Environmental Sciences, University of Colorado Boulder, Boulder, Colorado, USA
| | - Shelley D. Copley
- Department of Molecular, Cellular and Developmental Biology, University of Colorado Boulder, Boulder, Colorado, USA
- Cooperative Institute for Environmental Sciences, University of Colorado Boulder, Boulder, Colorado, USA
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19
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Chellamuthu P, Tran F, Silva KPT, Chavez MS, El-Naggar MY, Boedicker JQ. Engineering bacteria for biogenic synthesis of chalcogenide nanomaterials. Microb Biotechnol 2018; 12:161-172. [PMID: 30369058 PMCID: PMC6302716 DOI: 10.1111/1751-7915.13320] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2018] [Accepted: 09/10/2018] [Indexed: 11/30/2022] Open
Abstract
Microbes naturally build nanoscale structures, including structures assembled from inorganic materials. Here, we combine the natural capabilities of microbes with engineered genetic control circuits to demonstrate the ability to control biological synthesis of chalcogenide nanomaterials in a heterologous host. We transferred reductase genes from both Shewanella sp. ANA-3 and Salmonella enterica serovar Typhimurium into a heterologous host (Escherichia coli) and examined the mechanisms that regulate the properties of biogenic nanomaterials. Expression of arsenate reductase genes and thiosulfate reductase genes in E. coli resulted in the synthesis of arsenic sulfide nanomaterials. In addition to processing the starting materials via redox enzymes, cellular components also nucleated the formation of arsenic sulfide nanomaterials. The shape of the nanomaterial was influenced by the bacterial culture, with the synthetic E. coli strain producing nanospheres and conditioned media or cultures of wild-type Shewanella sp. producing nanofibres. The diameter of these nanofibres also depended on the biological context of synthesis. These results demonstrate the potential for biogenic synthesis of nanomaterials with controlled properties by combining the natural capabilities of wild microbes with the tools from synthetic biology.
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Affiliation(s)
- Prithiviraj Chellamuthu
- Department of Physics and Astronomy, University of Southern California, Los Angeles, CA, USA.,Department of Biological Sciences, University of Southern California, Los Angeles, CA, USA
| | - Frances Tran
- Department of Physics and Astronomy, University of Southern California, Los Angeles, CA, USA.,Department of Biological Sciences, University of Southern California, Los Angeles, CA, USA
| | - Kalinga Pavan T Silva
- Department of Physics and Astronomy, University of Southern California, Los Angeles, CA, USA
| | - Marko S Chavez
- Department of Physics and Astronomy, University of Southern California, Los Angeles, CA, USA
| | - Mohamed Y El-Naggar
- Department of Physics and Astronomy, University of Southern California, Los Angeles, CA, USA.,Department of Biological Sciences, University of Southern California, Los Angeles, CA, USA.,Department of Chemistry, University of Southern California, Los Angeles, CA, USA
| | - James Q Boedicker
- Department of Physics and Astronomy, University of Southern California, Los Angeles, CA, USA.,Department of Biological Sciences, University of Southern California, Los Angeles, CA, USA
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20
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Katayama Y, Aoyagi M, Matsumoto T, Harada H, Simion AM, Egashira N, Mitoma Y, Simion C. Hydrodehalogenation of hexachloro- and hexabromobenzene by metallic calcium in ethanol, in the presence of Rh/C catalyst. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2017; 24:591-597. [PMID: 27743324 DOI: 10.1007/s11356-016-7785-8] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/09/2016] [Accepted: 09/26/2016] [Indexed: 06/06/2023]
Abstract
Both hexachlorobenzene and hexabromobenzene were successfully hydrodehalogenated to the monohalogenated derivative and ultimately to benzene (which was subsequently reduced to cyclohexane) using a mixture of metallic Ca, ethanol, and Rh/C, by simple stirring in diethyl ether, at room or mild temperature (60 °C). Various experiments were performed in order to assess the role of the solvent and Rh/C catalyst, as well as for elucidating the reaction pathway.
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Affiliation(s)
- Yumi Katayama
- Department of Biological System Sciences, Graduate School of Comprehensive Scientific Research, Prefectural University of Hiroshima, 562 Nanatsuka-Cho, Shobara City, Hiroshima, 727-0023, Japan
| | - Mitsuru Aoyagi
- Department of Environmental Sciences, Prefectural University of Hiroshima, 562 Nanatsuka-Cho, Shobara City, Hiroshima, 727-0023, Japan
| | - Takuya Matsumoto
- Department of Environmental Sciences, Prefectural University of Hiroshima, 562 Nanatsuka-Cho, Shobara City, Hiroshima, 727-0023, Japan
| | - Hiroyuki Harada
- Department of Environmental Sciences, Prefectural University of Hiroshima, 562 Nanatsuka-Cho, Shobara City, Hiroshima, 727-0023, Japan
| | - Alina M Simion
- Department of Organic Chemistry, Politehnica University of Bucharest, 060042, Bucharest, Romania
| | - Naoyoshi Egashira
- Department of Environmental Sciences, Prefectural University of Hiroshima, 562 Nanatsuka-Cho, Shobara City, Hiroshima, 727-0023, Japan
| | - Yoshiharu Mitoma
- Department of Environmental Sciences, Prefectural University of Hiroshima, 562 Nanatsuka-Cho, Shobara City, Hiroshima, 727-0023, Japan.
| | - Cristian Simion
- Department of Organic Chemistry, Politehnica University of Bucharest, 060042, Bucharest, Romania.
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Song Y, Li Y, Zhang W, Wang F, Bian Y, Boughner LA, Jiang X. Novel Biochar-Plant Tandem Approach for Remediating Hexachlorobenzene Contaminated Soils: Proof-of-Concept and New Insight into the Rhizosphere. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2016; 64:5464-71. [PMID: 27327363 DOI: 10.1021/acs.jafc.6b01035] [Citation(s) in RCA: 39] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
Abstract
Volatilization of semi/volatile persistent organic pollutants (POPs) from soils is a major source of global POPs emission. This proof-of-concept study investigated a novel biochar-plant tandem approach to effectively immobilize and then degrade POPs in soils using hexachlorobenzene (HCB) as a model POP and ryegrass (Lolium perenne L.) as a model plant growing in soils amended with wheat straw biochar. HCB dissipation was significantly enhanced in the rhizosphere and near rhizosphere soils, with the greatest dissipation in the 2 mm near rhizosphere. This enhanced HCB dissipation likely resulted from (i) increased bioavailability of immobilized HCB and (ii) enhanced microbial activities, both of which were induced by ryegrass root exudates. As a major component of ryegrass root exudates, oxalic acid suppressed HCB sorption to biochar and stimulated HCB desorption from biochar and biochar-amended soils, thus increasing the bioavailability of HCB. High-throughput sequencing results revealed that the 2 mm near rhizosphere soil showed the lowest bacterial diversity due to the increased abundance of some genera (e.g., Azohydromonas, Pseudomonas, Fluviicola, and Sporocytophaga). These bacteria were likely responsible for the enhanced degradation of HCB as their abundance was exponentially correlated with HCB dissipation. The results from this study suggest that the biochar-plant tandem approach could be an effective strategy for remediating soils contaminated with semi/volatile organic contaminants.
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Affiliation(s)
- Yang Song
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences , 71 East Beijing Road, Nanjing 210008, PR China
| | - Yang Li
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences , 71 East Beijing Road, Nanjing 210008, PR China
| | | | - Fang Wang
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences , 71 East Beijing Road, Nanjing 210008, PR China
| | - Yongrong Bian
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences , 71 East Beijing Road, Nanjing 210008, PR China
| | | | - Xin Jiang
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences , 71 East Beijing Road, Nanjing 210008, PR China
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