1
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Good N, Kang-Yun CS, Su MZ, Zytnick AM, Barber CC, Vu HN, Grace JM, Nguyen HH, Zhang W, Skovran E, Fan M, Park DM, Martinez-Gomez NC. Scalable and Consolidated Microbial Platform for Rare Earth Element Leaching and Recovery from Waste Sources. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2024; 58:570-579. [PMID: 38150661 PMCID: PMC10785750 DOI: 10.1021/acs.est.3c06775] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/24/2023] [Revised: 11/13/2023] [Accepted: 11/20/2023] [Indexed: 12/29/2023]
Abstract
Chemical methods for the extraction and refinement of technologically critical rare earth elements (REEs) are energy-intensive, hazardous, and environmentally destructive. Current biobased extraction systems rely on extremophilic organisms and generate many of the same detrimental effects as chemical methodologies. The mesophilic methylotrophic bacterium Methylobacterium extorquens AM1 was previously shown to grow using electronic waste by naturally acquiring REEs to power methanol metabolism. Here we show that growth using electronic waste as a sole REE source is scalable up to 10 L with consistent metal yields without the use of harsh acids or high temperatures. The addition of organic acids increases REE leaching in a nonspecific manner. REE-specific bioleaching can be engineered through the overproduction of REE-binding ligands (called lanthanophores) and pyrroloquinoline quinone. REE bioaccumulation increases with the leachate concentration and is highly specific. REEs are stored intracellularly in polyphosphate granules, and genetic engineering to eliminate exopolyphosphatase activity increases metal accumulation, confirming the link between phosphate metabolism and biological REE use. Finally, we report the innate ability of M. extorquens to grow using other complex REE sources, including pulverized smartphones, demonstrating the flexibility and potential for use as a recovery platform for these critical metals.
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Affiliation(s)
- Nathan
M. Good
- Department
of Plant and Microbial Biology, University
of California, Berkeley, Berkeley, California 94720, United States
| | - Christina S. Kang-Yun
- Physical
and Life Sciences Directorate, Lawrence
Livermore National Laboratory, Livermore, California 94550, United States
| | - Morgan Z. Su
- Department
of Plant and Microbial Biology, University
of California, Berkeley, Berkeley, California 94720, United States
| | - Alexa M. Zytnick
- Department
of Plant and Microbial Biology, University
of California, Berkeley, Berkeley, California 94720, United States
| | - Colin C. Barber
- Department
of Plant and Microbial Biology, University
of California, Berkeley, Berkeley, California 94720, United States
| | - Huong N. Vu
- Department
of Biological Sciences, San José
State University, San José, California 95192, United States
| | - Joseph M. Grace
- Department
of Biological Sciences, San José
State University, San José, California 95192, United States
| | - Hoang H. Nguyen
- Department
of Biological Sciences, San José
State University, San José, California 95192, United States
| | - Wenjun Zhang
- Department
of Chemical and Biomolecular Engineering, University of California, Berkeley, Berkeley, California 94720, United States
| | - Elizabeth Skovran
- Department
of Biological Sciences, San José
State University, San José, California 95192, United States
| | - Maohong Fan
- Department
of Chemical and Biomedical Engineering, University of Wyoming, Laramie, Wyoming 82071, United States
| | - Dan M. Park
- Physical
and Life Sciences Directorate, Lawrence
Livermore National Laboratory, Livermore, California 94550, United States
| | - Norma Cecilia Martinez-Gomez
- Department
of Plant and Microbial Biology, University
of California, Berkeley, Berkeley, California 94720, United States
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2
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Feng G, Mao Y, Xie G, Chen H, Wang J, Mao P, Lv J. Bioremediation of uranium (Ⅵ) using a native strain Halomonas campaniensis ZFSY-04 isolated from uranium mining and milling effluent: Potential and mechanism. CHEMOSPHERE 2024; 346:140646. [PMID: 37944766 DOI: 10.1016/j.chemosphere.2023.140646] [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: 05/02/2023] [Revised: 09/30/2023] [Accepted: 11/06/2023] [Indexed: 11/12/2023]
Abstract
A significant surge in the exploitation of uranium resources has resulted in considerable amounts of radioactive effluents. Thus, efficient and eco-friendly uranium removal strategies need to be explored to ensure ecological safety and resource recovery. In this study, we investigated the resistance of Halomonas campaniensis strain ZFSY-04, isolated from an evaporation pool at a uranium mine site, and its potential mechanism of uranium (Ⅵ) removal. The results showed that the strain exhibited unique uranium tolerance and its growth was not significantly inhibited under a uranium concentration of 700 mg/L. It had a maximum loading capacity of 865.40 mg/g (dry weight), achieved following incubation under uranium concentration of 100 mg/L, pH 6.0, and temperature 30 °C, for 2 h, indicating that the removal of uranium by the strain was efficient and rapid. Combined with kinetic, isothermal, thermodynamic, and microspectral analyses, the mechanism of uranium loading by strain ZFSY-04 was metabolism-dependent and diverse, including, physical and chemical adsorption on the cell surface, extracellular biomineralisation, intracellular bioaccumulation, and biomineralisation. Our results highlight the unique properties of indigenous strains, including high resistance, high efficiency, rapid uranium removal, and various uranium removal strategies, which make it suitable as a new tool for in situ bioremediation and uranium-contaminated environmental resource recovery.
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Affiliation(s)
- Guangwen Feng
- Research Center of Radiation Ecology and Ion Beam Biotechnology, College of Physics Science and Technology, Xinjiang University, Urumqi, Xinjiang, 830017, PR China
| | - Yu Mao
- Research Center of Radiation Ecology and Ion Beam Biotechnology, College of Physics Science and Technology, Xinjiang University, Urumqi, Xinjiang, 830017, PR China
| | - Gen Xie
- Research Center of Radiation Ecology and Ion Beam Biotechnology, College of Physics Science and Technology, Xinjiang University, Urumqi, Xinjiang, 830017, PR China
| | - Henglei Chen
- Research Center of Radiation Ecology and Ion Beam Biotechnology, College of Physics Science and Technology, Xinjiang University, Urumqi, Xinjiang, 830017, PR China
| | - Jun Wang
- Research Center of Radiation Ecology and Ion Beam Biotechnology, College of Physics Science and Technology, Xinjiang University, Urumqi, Xinjiang, 830017, PR China
| | - Peihong Mao
- Research Center of Radiation Ecology and Ion Beam Biotechnology, College of Physics Science and Technology, Xinjiang University, Urumqi, Xinjiang, 830017, PR China
| | - Jie Lv
- College of Life Science and Technology, Xinjiang University, Urumqi, Xinjiang, 830017, PR China.
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3
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He N, Ran M, Hu L, Jiang C, Liu Y. Periplasmic space is the key location for Pb(II) biomineralization by Burkholderia cepacia. JOURNAL OF HAZARDOUS MATERIALS 2023; 445:130465. [PMID: 36436453 DOI: 10.1016/j.jhazmat.2022.130465] [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: 09/17/2022] [Revised: 11/11/2022] [Accepted: 11/22/2022] [Indexed: 06/16/2023]
Abstract
Phosphate solubilizing bacteria (PSB) induced phosphate precipitation is considered as an effective method for Pb(II) removal through the formation of stable Pb(II)-phosphate compound, but the location of end-products is still unclear. Herein, the PSB strain of Burkholderia cepacia (B. cepacia) coupled with the hydroxyapatite (HAP) was used in this study to investigate the Pb(II) removal mechanism and the biomineralization location. The dissolving phosphate of three particle sizes of HAP and Pb(II) resistant capabilities, and the effect factors such as HAP dosage, initial concentrations of Pb(II), pH, temperature, and different treatments were determined. The results indicated that the highest soluble phosphate could reach 224.85 mg/L in a 200 nm HAP medium and the highest removal efficiency of Pb(II) was about 96.32 %. Additionally, it was interesting that Pb(II) was mainly located in the periplasmic space through the cellular distribution experiment, which was further demonstrated by scanning electron microscope (SEM) and transmission electron microscopy (TEM). Besides, the characterization results showed that the functional groups such as amide, hydroxy, carboxy and phosphate played an important role in Pb(II) biomineralization, and the free Pb(II) in aqueous solution could be transformed into pyromorphite through phosphate dissolution, extracellular adsorption/complexation, and intracellular precipitation.
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Affiliation(s)
- Ni He
- School of Minerals Processing and Bioengineering, Key Laboratory of Biohydrometallurgy of Ministry of Education, Central South University, Changsha 410083, China
| | - Maodi Ran
- School of Minerals Processing and Bioengineering, Key Laboratory of Biohydrometallurgy of Ministry of Education, Central South University, Changsha 410083, China
| | - Liang Hu
- School of Minerals Processing and Bioengineering, Key Laboratory of Biohydrometallurgy of Ministry of Education, Central South University, Changsha 410083, China.
| | - Chunyangzi Jiang
- School of Minerals Processing and Bioengineering, Key Laboratory of Biohydrometallurgy of Ministry of Education, Central South University, Changsha 410083, China
| | - Yayuan Liu
- School of Minerals Processing and Bioengineering, Key Laboratory of Biohydrometallurgy of Ministry of Education, Central South University, Changsha 410083, China
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4
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Zarei M, Fatemi F, Ghasemi R, Mir-Derikvand M, Hosseinpour H, Samani TR. The effect of not-anaerobicization and discolored bacteria on uranium reduction by Shewanella sp. RCRI7. Appl Radiat Isot 2023; 192:110551. [PMID: 36508960 DOI: 10.1016/j.apradiso.2022.110551] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/23/2022] [Revised: 10/04/2022] [Accepted: 10/30/2022] [Indexed: 11/11/2022]
Abstract
Shewanella sp. RCRI7 is a native strain capable of reducing uranium in anaerobic conditions. In order to employ this bacterium for the bioremediation, the mutual effects of uranium and the bacteria are studied in two different approaches. The optimal settings for the bacterial proliferation capacity and uranium reduction without anaerobicization of the environment, as well as the related effects of bioremediation and bacterial color under uranium-reducing conditions, have been investigated in this study. Uranium reduction procedure was analyzed using XRD, spectrophotometry and ICP-AES. In addition, the uranium's effect on the population of the first-generation of the bacteria as well as the color and growth of the second-generation were investigated using neobar lam and CFU (Colony Forming Unit), respectively. Uranium toxicity reduced the population of non-anaerobicized bacteria more than the anaerobicized bacteria after one day of incubation, while the amount of uranium extracted by the bacteria was almost the same. In both situations, the bacteria were able to reduce uranium after two weeks of incubation. In addition to the cell counts, uranium toxicity disrupts the growth and development of healthy second-generation anaerobicized bacteria, as created creamy-colored colonies grow slower than red-colored colonies. Furthermore, due to malfunctioning cytochromes, unlike red bacteria, creamy-colored bacteria were unable to extract the optimum amount of uranium. This study reveals that reduced uranium can be produced in a deprived environment without anaerobicization. Creamy-colored Shewanella can remove soluble uranium, however the most effective bacteria have red cytochromes. These findings represent a big step forward in the industrialization of uranium bioremediation.
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Affiliation(s)
- Mahsa Zarei
- Department of Life Science Engineering, Faculty of New Sciences and Technologies, University of Tehran, Tehran, Iran
| | - Faezeh Fatemi
- Nuclear Fuel Cycle Research School, Nuclear Science and Technology Research Institute, Tehran, Iran.
| | - Razieh Ghasemi
- Department of Life Science Engineering, Faculty of New Sciences and Technologies, University of Tehran, Tehran, Iran
| | - Mohammad Mir-Derikvand
- Department of Life Science Engineering, Faculty of New Sciences and Technologies, University of Tehran, Tehran, Iran
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5
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Abdelgalil SA, Kaddah MMY, Duab MEA, Abo-Zaid GA. A sustainable and effective bioprocessing approach for improvement of acid phosphatase production and rock phosphate solubilization by Bacillus haynesii strain ACP1. Sci Rep 2022; 12:8926. [PMID: 35624119 PMCID: PMC9142604 DOI: 10.1038/s41598-022-11448-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/10/2021] [Accepted: 04/25/2022] [Indexed: 11/09/2022] Open
Abstract
There is indeed a tremendous increase in biotechnological production on a global scale, more and more innovative bioprocesses, therefore, require to perform ideally not only in a small lab- but also on large production scales. Efficient microbial process optimization is a significant challenge when accomplishing a variety of sustainable development and bioengineering application objectives. In Egypt's mines, several distinct types of rock phosphate (RP) are utilized as a source of phosphate fertilizers in agriculture. It is more ecologically beneficial to utilize RP bio-solubilization than acidulation. Therefore, this work aimed to strategically scale up the acid phosphatase (ACP) production and RP bio-solubilization by the newly-discovered Bacillus haynesii. The use of consecutive statistical experimental approaches of Plackett-Burman Design (PBD), and Rotatable Central Composite Design (RCCD), followed by pH-uncontrolled cultivation conditions in a 7 L bench-top bioreactor revealed an innovative medium formulation. These approaches substantially improved ACP production, reaching 207.6 U L-1 with an ACP yield coefficient Yp/x of 25.2 and a specific growth rate (µ) of 0.07 h-1. The metals Na, Li, and Mn were the most efficiently released from RP during the solubilization process by B. haynesii. The uncontrolled pH culture condition is the most suitable setting for simultaneously improving the ACP and organic acids production. The most abundant organic acid produced through the cultivation process was lactic acid, followed by glutamic acid and hydroxybenzoic acid isomer. The findings of TGA, DSC, SEM, EDS, FTIR, and XRD analysis emphasize the significant influence of organic acids and ACP activity on the solubilization of RP particles.
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Affiliation(s)
- Soad A Abdelgalil
- Bioprocess Development Department, Genetic Engineering, and Biotechnology Research Institute (GEBRI), City of Scientific Research and Technological Applications, New Borg El-Arab City, Alexandria, 21934, Egypt.
| | - Mohamed M Y Kaddah
- Pharmaceutical and Fermentation Industries Development Center, City of Scientific Research and Technological Applications, New Borg El-Arab City, Alexandria, 21934, Egypt
| | - Mahmoud E A Duab
- Bioprocess Development Department, Genetic Engineering, and Biotechnology Research Institute (GEBRI), City of Scientific Research and Technological Applications, New Borg El-Arab City, Alexandria, 21934, Egypt
| | - Gaber A Abo-Zaid
- Bioprocess Development Department, Genetic Engineering, and Biotechnology Research Institute (GEBRI), City of Scientific Research and Technological Applications, New Borg El-Arab City, Alexandria, 21934, Egypt
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6
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Rogiers T, Van Houdt R, Williamson A, Leys N, Boon N, Mijnendonckx K. Molecular Mechanisms Underlying Bacterial Uranium Resistance. Front Microbiol 2022; 13:822197. [PMID: 35359714 PMCID: PMC8963506 DOI: 10.3389/fmicb.2022.822197] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2021] [Accepted: 01/27/2022] [Indexed: 11/16/2022] Open
Abstract
Environmental uranium pollution due to industries producing naturally occurring radioactive material or nuclear accidents and releases is a global concern. Uranium is hazardous for ecosystems as well as for humans when accumulated through the food chain, through contaminated groundwater and potable water sources, or through inhalation. In particular, uranium pollution pressures microbial communities, which are essential for healthy ecosystems. In turn, microorganisms can influence the mobility and toxicity of uranium through processes like biosorption, bioreduction, biomineralization, and bioaccumulation. These processes were characterized by studying the interaction of different bacteria with uranium. However, most studies unraveling the underlying molecular mechanisms originate from the last decade. Molecular mechanisms help to understand how bacteria interact with radionuclides in the environment. Furthermore, knowledge on these underlying mechanisms could be exploited to improve bioremediation technologies. Here, we review the current knowledge on bacterial uranium resistance and how this could be used for bioremediation applications.
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Affiliation(s)
- Tom Rogiers
- Microbiology Unit, Interdisciplinary Biosciences, Belgian Nuclear Research Centre, SCK CEN, Mol, Belgium
- Center for Microbial Ecology and Technology, Ghent University, Ghent, Belgium
| | - Rob Van Houdt
- Microbiology Unit, Interdisciplinary Biosciences, Belgian Nuclear Research Centre, SCK CEN, Mol, Belgium
| | - Adam Williamson
- Centre Etudes Nucléaires de Bordeaux Gradignan (CENBG), Bordeaux, France
| | - Natalie Leys
- Microbiology Unit, Interdisciplinary Biosciences, Belgian Nuclear Research Centre, SCK CEN, Mol, Belgium
| | - Nico Boon
- Center for Microbial Ecology and Technology, Ghent University, Ghent, Belgium
| | - Kristel Mijnendonckx
- Microbiology Unit, Interdisciplinary Biosciences, Belgian Nuclear Research Centre, SCK CEN, Mol, Belgium
- *Correspondence: Kristel Mijnendonckx,
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7
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Rogiers T, Merroun ML, Williamson A, Leys N, Houdt RV, Boon N, Mijnendonckx K. Cupriavidus metallidurans NA4 actively forms polyhydroxybutyrate-associated uranium-phosphate precipitates. JOURNAL OF HAZARDOUS MATERIALS 2022; 421:126737. [PMID: 34388922 DOI: 10.1016/j.jhazmat.2021.126737] [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: 04/09/2021] [Revised: 07/21/2021] [Accepted: 07/22/2021] [Indexed: 06/13/2023]
Abstract
Cupriavidus metallidurans is a model bacterium to study molecular metal resistance mechanisms and its use for the bioremediation of several metals has been shown. However, its mechanisms for radionuclide resistance are unexplored. We investigated the interaction with uranium and associated cellular response to uranium for Cupriavidus metallidurans NA4. Strain NA4 actively captured 98 ± 1% of the uranium in its biomass after growing 24 h in the presence of 100 µM uranyl nitrate. TEM HAADF-EDX microscopy confirmed intracellular uranium-phosphate precipitates that were mainly associated with polyhydroxybutyrate. Furthermore, whole transcriptome sequencing indicated a complex transcriptional response with upregulation of genes encoding general stress-related proteins and several genes involved in metal resistance. More in particular, gene clusters known to be involved in copper and silver resistance were differentially expressed. This study provides further insights into bacterial interactions with and their response to uranium. Our results could be promising for uranium bioremediation purposes with the multi-metal resistant bacterium C. metallidurans NA4.
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Affiliation(s)
- Tom Rogiers
- Microbiology Unit, Interdisciplinary Biosciences, Belgian Nuclear Research Centre, SCK CEN, Mol, Belgium; Center for Microbial Ecology and Technology (CMET), UGent, Ghent, Belgium.
| | | | - Adam Williamson
- Center for Microbial Ecology and Technology (CMET), UGent, Ghent, Belgium.
| | - Natalie Leys
- Microbiology Unit, Interdisciplinary Biosciences, Belgian Nuclear Research Centre, SCK CEN, Mol, Belgium.
| | - Rob Van Houdt
- Microbiology Unit, Interdisciplinary Biosciences, Belgian Nuclear Research Centre, SCK CEN, Mol, Belgium.
| | - Nico Boon
- Center for Microbial Ecology and Technology (CMET), UGent, Ghent, Belgium.
| | - Kristel Mijnendonckx
- Microbiology Unit, Interdisciplinary Biosciences, Belgian Nuclear Research Centre, SCK CEN, Mol, Belgium.
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8
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Zarei M, Mir-Derikvand M, Hosseinpour H, Samani TR, Ghasemi R, Fatemi F. U (VI) tolerance affects Shewanella sp. RCRI7 biological responses: growth, morphology and bioreduction ability. Arch Microbiol 2021; 204:81. [PMID: 34958431 DOI: 10.1007/s00203-021-02716-6] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2021] [Revised: 10/30/2021] [Accepted: 11/19/2021] [Indexed: 11/27/2022]
Abstract
Native Shewanella sp. RCRI7 is recently counted as an operative bacterium in the uranium bio-reduction. The aim of this study was to investigate the effects of uranium tolerance on the morphology and population of RCRI7, following its potential removal capacity in different time intervals. In this research, the bacterial growth and uranium removal kinetic were evaluated in aerobic TSB medium, uranium-reducing condition (URC), aerobic uranium-containing (AUC) and anaerobic uranium-free (AUF) solution, following evaluations of omcAB gene expressions. In addition, spectrophotometry analyses were performed in URC confirming the bio-reduction mechanism. It was found that the bacteria can grow efficiently in the presence of 0.5 mM uranium anaerobically, unlike AUC and AUF solutions. Since the bacterium's adsorption capacity is quickly saturated, it can be deduced that uranium reduction should be dominant as incubation times proceed up to 84 h in URC. In 92 h incubation, the adsorbed uranium containing unreduced and reduced (U (IV) monomeric), was released to the solution due to either increased pH or bacterial death. In AUC and AUF, improper conditions lead to the reduced bacterial size (coccus-shape formation) and increased bacterial aggregations; however, membrane vesicles produced by the bacteria avoid the uranium incrustation in AUC. In overall, this study implies that Shewanella sp. RCRI7 are well tolerated by uranium under anaerobic conditions and the amount of regenerated uranium increases over time in the reduced form.
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Affiliation(s)
- Mahsa Zarei
- Department of Life Science Engineering, Faculty of New Sciences and Technologies, University of Tehran, Tehran, Iran
| | - Mohammad Mir-Derikvand
- Department of Life Science Engineering, Faculty of New Sciences and Technologies, University of Tehran, Tehran, Iran
| | | | | | - Razieh Ghasemi
- Department of Life Science Engineering, Faculty of New Sciences and Technologies, University of Tehran, Tehran, Iran
| | - Faezeh Fatemi
- Nuclear Fuel Cycle Research School, Nuclear Science and Technology Research Institute, Tehran, Iran.
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9
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Schaefer S, Steudtner R, Hübner R, Krawczyk-Bärsch E, Merroun ML. Effect of Temperature and Cell Viability on Uranium Biomineralization by the Uranium Mine Isolate Penicillium simplicissimum. Front Microbiol 2021; 12:802926. [PMID: 35003034 PMCID: PMC8728092 DOI: 10.3389/fmicb.2021.802926] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2021] [Accepted: 11/22/2021] [Indexed: 11/13/2022] Open
Abstract
The remediation of heavy-metal-contaminated sites represents a serious environmental problem worldwide. Currently, cost- and time-intensive chemical treatments are usually performed. Bioremediation by heavy-metal-tolerant microorganisms is considered a more eco-friendly and comparatively cheap alternative. The fungus Penicillium simplicissimum KS1, isolated from the flooding water of a former uranium (U) mine in Germany, shows promising U bioremediation potential mainly through biomineralization. The adaption of P. simplicissimum KS1 to heavy-metal-contaminated sites is indicated by an increased U removal capacity of up to 550 mg U per g dry biomass, compared to the non-heavy-metal-exposed P. simplicissimum reference strain DSM 62867 (200 mg U per g dry biomass). In addition, the effect of temperature and cell viability of P. simplicissimum KS1 on U biomineralization was investigated. While viable cells at 30°C removed U mainly extracellularly via metabolism-dependent biomineralization, a decrease in temperature to 4°C or use of dead-autoclaved cells at 30°C revealed increased occurrence of passive biosorption and bioaccumulation, as confirmed by scanning transmission electron microscopy. The precipitated U species were assigned to uranyl phosphates with a structure similar to that of autunite, via cryo-time-resolved laser fluorescence spectroscopy. The major involvement of phosphates in U precipitation by P. simplicissimum KS1 was additionally supported by the observation of increased phosphatase activity for viable cells at 30°C. Furthermore, viable cells actively secreted small molecules, most likely phosphorylated amino acids, which interacted with U in the supernatant and were not detected in experiments with dead-autoclaved cells. Our study provides new insights into the influence of temperature and cell viability on U phosphate biomineralization by fungi, and furthermore highlight the potential use of P. simplicissimum KS1 particularly for U bioremediation purposes. ![]()
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Affiliation(s)
- Sebastian Schaefer
- Institute of Resource Ecology, Helmholtz-Zentrum Dresden-Rossendorf, Dresden, Germany
- Sebastian Schaefer,
| | - Robin Steudtner
- Institute of Resource Ecology, Helmholtz-Zentrum Dresden-Rossendorf, Dresden, Germany
| | - René Hübner
- Institute of Ion Beam Physics and Materials Research, Helmholtz-Zentrum Dresden-Rossendorf, Dresden, Germany
| | - Evelyn Krawczyk-Bärsch
- Institute of Resource Ecology, Helmholtz-Zentrum Dresden-Rossendorf, Dresden, Germany
- *Correspondence: Evelyn Krawczyk-Bärsch,
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10
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Li S, Zhu Q, Luo J, Shu Y, Guo K, Xie J, Xiao F, He S. Application Progress of Deinococcus radiodurans in Biological Treatment of Radioactive Uranium-Containing Wastewater. Indian J Microbiol 2021; 61:417-426. [PMID: 34744197 DOI: 10.1007/s12088-021-00969-9] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2021] [Accepted: 08/03/2021] [Indexed: 02/04/2023] Open
Abstract
Radioactive uranium wastewater contains a large amount of radionuclide uranium and other heavy metal ions. The radioactive uranium wastewater discharged into the environment will not only pollute the natural environment, but also threat human health. Therefore, the treatment of radioactive uranium wastewater is a current research focus for many researchers. The treatment in radioactive uranium wastewater mainly includes physical, chemical and biological methods. At present, the using of biological treatment to treat uranium in radioactive uranium wastewater has been gradually shown its superiority and advantages. Deinococcus radiodurans is a famous microorganism with the most radiation resistant to ionizing radiation in the world, and can also resist various other extreme pressures. D. radiodurans can be directly used for the adsorption of uranium in radioactive waste water, and it can also transform other functional genes into D. radiodurans to construct genetically engineered bacteria, and then applied to the treatment of radioactive uranium containing wastewater. Radionuclides uranium in radioactive uranium-containing wastewater treated by D. radiodurans involves a lot of mechanisms. This article reviews currently the application of D. radiodurans that directly or construct genetically engineered bacteria in the treatment of radioactive uranium wastewater and discusses the mechanism of D. radiodurans in bioremediation of uranium. The application of constructing an engineered bacteria of D. radiodurans with powerful functions in uranium-containing wastewater is prospected.
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Affiliation(s)
- Shanshan Li
- School of Public Health, University of South China, Hengyang, 421001 Hunan China
| | - Qiqi Zhu
- School of Public Health, University of South China, Hengyang, 421001 Hunan China
| | - Jiaqi Luo
- School of Chemistry and Chemical Engineering, University of South China, Hengyang, 421001 Hunan China
| | - Yangzhen Shu
- School of Resources Environment and Safety Engineering, University of South China, Hengyang, 421001 Hunan China
| | - Kexin Guo
- School of Public Health, University of South China, Hengyang, 421001 Hunan China
| | - Jingxi Xie
- School of Chemistry and Chemical Engineering, University of South China, Hengyang, 421001 Hunan China
| | - Fangzhu Xiao
- School of Public Health, University of South China, Hengyang, 421001 Hunan China
| | - Shuya He
- School of Public Health, University of South China, Hengyang, 421001 Hunan China
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11
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Sánchez-Castro I, Martínez-Rodríguez P, Abad MM, Descostes M, Merroun ML. Uranium removal from complex mining waters by alginate beads doped with cells of Stenotrophomonas sp. Br8: Novel perspectives for metal bioremediation. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2021; 296:113411. [PMID: 34351286 DOI: 10.1016/j.jenvman.2021.113411] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/26/2021] [Revised: 07/25/2021] [Accepted: 07/26/2021] [Indexed: 06/13/2023]
Abstract
Uranium-containing effluents generated by nuclear energy industry must be efficiently remediated before release to the environment. Currently, numerous microbial-based strategies are being developed for this purpose. In particular, the bacterial strain Stenotrophomonas sp. Br8, isolated from U mill tailings porewaters, has been already shown to efficiently precipitate U(VI) as stable U phosphates mediated by phosphatase activity. However, the upscaling of this strategy should overcome some constraints regarding cell exposure to harsh environmental conditions. In the present study, the immobilization of Br8 biomass in an inorganic matrix was optimized to provide protection to the cells as well as to make the process more convenient for real-scale utilization. The use of biocompatible, highly porous alginate beads for Br8 cells immobilization resulted the best alternative when investigating by a multidisciplinary approach (High-Angle Annular Dark-Field Scanning Transmission Electron Microscopy (HAADF-STEM), Environmental Scanning Electron Microscopy (ESEM), Fourier Transform Infrared Spectroscopy with Attenuated Total Reflectance, etc.) several consolidated entrapment methods. This biomaterial was applied to complex real U mining porewaters (containing 47 mg/L U) in presence of an organic phosphate source (glycerol-2-phosphate) to produce reactive free orthophosphates through Br8 phosphatase activity. Uranium immobilization rates around 98 % were observed after one cycle of 72 h. In terms of U removal ability as a function of biomass, Br8-doped alginate beads were determined to remove up to 1199.5 mg U/g dry biomass over two treatment cycles. Additionally, optimized conditions for storing Br8-doped beads and for a correct application were assessed. Results for U accumulation kinetics and HAADF-STEM/ESEM analyses revealed that U removal by the immobilized cells is a biphasic process combining a first passive U sorption onto bead and/or cell surfaces and a second slow active biomineralization. This work provides new practical insights into the biological and physico-chemical parameters governing a high-efficient U bioremediation process based on the phosphatase activity of immobilized bacterial cells when applied to complex mining waters under laboratory conditions.
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Affiliation(s)
- Iván Sánchez-Castro
- Department of Microbiology, University of Granada, Campus Fuentenueva s/n, 18071, Granada, Spain.
| | - Pablo Martínez-Rodríguez
- Department of Microbiology, University of Granada, Campus Fuentenueva s/n, 18071, Granada, Spain
| | - María M Abad
- Centro de Instrumentación Científica (CIC), University of Granada, Campus Fuentenueva, Granada, Spain
| | | | - Mohamed Larbi Merroun
- Department of Microbiology, University of Granada, Campus Fuentenueva s/n, 18071, Granada, Spain
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12
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Abdelgalil SA, Soliman NA, Abo-Zaid GA, Abdel-Fattah YR. Biovalorization of raw agro-industrial waste through a bioprocess development platform for boosting alkaline phosphatase production by Lysinibacillus sp. strain APSO. Sci Rep 2021; 11:17564. [PMID: 34475429 PMCID: PMC8413444 DOI: 10.1038/s41598-021-96563-6] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2021] [Accepted: 08/12/2021] [Indexed: 11/09/2022] Open
Abstract
This study highlighted the exploitation of mathematical models for optimizing the growth conditions that give the highest phosphatase productivity from a newfound Lysinibacillus sp. strain APSO isolated from a slime sample. Mathematical models facilitate data interpretation and provide a strategy to solve fermentation problems. Alkaline phosphatase (ALP) throughput was enhanced by 16.5-fold compared to basal medium based on a sequential optimization strategy that depended on two-level Plackett–Burman design and central composite design. The additional improvement for volumetric productivity and specific production yield was followed in a 7 L bench-top bioreactor to evaluate microbial growth kinetics under controlled and uncontrolled pH conditions. The pH-controlled batch cultivation condition neither supported cell growth nor enhanced ALP productivity. In contrast, the uncontrolled pH batch cultivation condition provided the highest ALP output (7119.4 U L−1) and specific growth rate (µ = 0.188 h−1) at 15 h from incubation time, which was augmented > 20.75-fold compared to the basal medium. To the authors’ knowledge, this study is the second report that deals with how to reduce the production cost of the ALP production process via utilization of agro-industrial waste, such as molasses and food waste (eggshell), as a nutrimental source for the improvement of the newfound Lysinibacillus sp. strain APSO ALP throughput.
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Affiliation(s)
- Soad A Abdelgalil
- Bioprocess Development Department, Genetic Engineering and Biotechnology Research Institute (GEBRI), City for Scientific Research and Technological Applications, New Borg El-Arab City, Universities and Research Institutes Zone, Alexandria, 21934, Egypt.
| | - Nadia A Soliman
- Bioprocess Development Department, Genetic Engineering and Biotechnology Research Institute (GEBRI), City for Scientific Research and Technological Applications, New Borg El-Arab City, Universities and Research Institutes Zone, Alexandria, 21934, Egypt
| | - Gaber A Abo-Zaid
- Bioprocess Development Department, Genetic Engineering and Biotechnology Research Institute (GEBRI), City for Scientific Research and Technological Applications, New Borg El-Arab City, Universities and Research Institutes Zone, Alexandria, 21934, Egypt
| | - Yasser R Abdel-Fattah
- Bioprocess Development Department, Genetic Engineering and Biotechnology Research Institute (GEBRI), City for Scientific Research and Technological Applications, New Borg El-Arab City, Universities and Research Institutes Zone, Alexandria, 21934, Egypt
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13
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Banala UK, Indradyumna Das NP, Toleti SR. Uranium sequestration abilities of Bacillus bacterium isolated from an alkaline mining region. JOURNAL OF HAZARDOUS MATERIALS 2021; 411:125053. [PMID: 33453672 DOI: 10.1016/j.jhazmat.2021.125053] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/11/2020] [Revised: 12/29/2020] [Accepted: 01/04/2021] [Indexed: 06/12/2023]
Abstract
The present study elaborates uranium sequestration by bacteria from alkaline wastewaters. In the investigation, a few bacterial strains were isolated from alkaline uranium mine water and were tested for uranium sequestration properties 16S rRNA analysis assigned the 10 bacterial isolates to 4 genera of Actinobacteria and Firmicutes. Among all the isolates tested, the strain Bacillus aryabhattai (TP03) has shown superior sequestration capacity at 5 and 10 mg/L U in 1 mM carbonate-bicarbonate buffer at pH 9.2. At low uranium concentrations (5 mg/L as uranyl carbonate), the strain could sequester ~70% of the uranium in 6 h with a loading capacity of 4.3 mg U/g dry bacterial biomass. Increase in carbonate-bicarbonate buffer concentrations and pH reduced the sequestration capacity. Scanning electron microscopy and energy dispersive X-ray fluorescence spectroscopy studies indicated the presence of uranium with the bacterial biomass. Fourier transform infra-red spectroscopy results confirmed the uranium sequestration by cell membrane phosphate, amide, and carboxyl functional groups. Transmission electron microscopy study showed uranium presence within the cell cytoplasm, thus supporting the hypothesis on active metabolism-dependent bioaccumulation of uranium. The kinetics study of uranium sequestration was well fitted to the pseudo-second-order model. Overall, this study infers that the isolated alkaliphilic bacteria from the mine waters have significant sequestration property for treating uranium-containing alkaline wastewaters.
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Affiliation(s)
- Uday Kumar Banala
- Radiological and Environmental Safety Division, Indira Gandhi Centre for Atomic Research, Kalpakkam 603102, India; Homi Bhabha National Institute, Anushakti Nagar, Mumbai 400094, India
| | | | - Subba Rao Toleti
- Homi Bhabha National Institute, Anushakti Nagar, Mumbai 400094, India; Water and Steam Chemistry Division, Chemistry Group, Bhabha Atomic Research Centre, Kalpakkam 603102, India.
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14
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Abdelgalil SA, Soliman NA, Abo-Zaid GA, Abdel-Fattah YR. Dynamic consolidated bioprocessing for innovative lab-scale production of bacterial alkaline phosphatase from Bacillus paralicheniformis strain APSO. Sci Rep 2021; 11:6071. [PMID: 33727590 PMCID: PMC7966758 DOI: 10.1038/s41598-021-85207-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2020] [Accepted: 02/25/2021] [Indexed: 11/15/2022] Open
Abstract
To meet the present and forecasted market demand, bacterial alkaline phosphatase (ALP) production must be increased through innovative and efficient production strategies. Using sugarcane molasses and biogenic apatite as low-cost and easily available raw materials, this work demonstrates the scalability of ALP production from a newfound Bacillus paralicheniformis strain APSO isolated from a black liquor sample. Mathematical experimental designs including sequential Plackett–Burman followed by rotatable central composite designs were employed to select and optimize the concentrations of the statistically significant media components, which were determined to be molasses, (NH4)2NO3, and KCl. Batch cultivation in a 7-L stirred-tank bioreactor under uncontrolled pH conditions using the optimized medium resulted in a significant increase in both the volumetric and specific productivities of ALP; the alkaline phosphatase throughput 6650.9 U L−1, and µ = 0.0943 h−1; respectively, were obtained after 8 h that, ameliorated more than 20.96, 70.12 and 94 folds compared to basal media, PBD, and RCCD; respectively. However, neither the increased cell growth nor enhanced productivity of ALP was present under the pH-controlled batch cultivation. Overall, this work presents novel strategies for the statistical optimization and scaling up of bacterial ALP production using biogenic apatite.
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Affiliation(s)
- Soad A Abdelgalil
- Bioprocess Development Department, Genetic Engineering and Biotechnology Research Institute (GEBRI), City for Scientific Research and Technological Applications, Alexandria, Egypt. .,New Borg El-Arab City, Universities and Research Institutes Zone, PostAlexandria, 21934, Egypt.
| | - Nadia A Soliman
- Bioprocess Development Department, Genetic Engineering and Biotechnology Research Institute (GEBRI), City for Scientific Research and Technological Applications, Alexandria, Egypt
| | - Gaber A Abo-Zaid
- Bioprocess Development Department, Genetic Engineering and Biotechnology Research Institute (GEBRI), City for Scientific Research and Technological Applications, Alexandria, Egypt
| | - Yasser R Abdel-Fattah
- Bioprocess Development Department, Genetic Engineering and Biotechnology Research Institute (GEBRI), City for Scientific Research and Technological Applications, Alexandria, Egypt
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15
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Pinel-Cabello M, Jroundi F, López-Fernández M, Geffers R, Jarek M, Jauregui R, Link A, Vílchez-Vargas R, Merroun ML. Multisystem combined uranium resistance mechanisms and bioremediation potential of Stenotrophomonas bentonitica BII-R7: Transcriptomics and microscopic study. JOURNAL OF HAZARDOUS MATERIALS 2021; 403:123858. [PMID: 33264934 DOI: 10.1016/j.jhazmat.2020.123858] [Citation(s) in RCA: 25] [Impact Index Per Article: 8.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/30/2020] [Revised: 07/18/2020] [Accepted: 08/24/2020] [Indexed: 06/12/2023]
Abstract
The potential use of microorganisms in the bioremediation of U pollution has been extensively described. However, a lack of knowledge on molecular resistance mechanisms has become a challenge for the use of these technologies. We reported on the transcriptomic and microscopic response of Stenotrophomonas bentonitica BII-R7 exposed to 100 and 250 μM of U. Results showed that exposure to 100 μM displayed up-regulation of 185 and 148 genes during the lag and exponential phases, respectively, whereas 143 and 194 were down-regulated, out of 3786 genes (>1.5-fold change). Exposure to 250 μM of U showed up-regulation of 68 genes and down-regulation of 290 during the lag phase. Genes involved in cell wall and membrane protein synthesis, efflux systems and phosphatases were up-regulated under all conditions tested. Microscopic observations evidenced the formation of U-phosphate minerals at membrane and extracellular levels. Thus, a biphasic process is likely to occur: the increased cell wall would promote the biosorption of U to the cell surface and its precipitation as U-phosphate minerals enhanced by phosphatases. Transport systems would prevent U accumulation in the cytoplasm. These findings contribute to an understanding of how microbes cope with U toxicity, thus allowing for the development of efficient bioremediation strategies.
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Affiliation(s)
- M Pinel-Cabello
- Department of Microbiology, University of Granada, Campus Fuentenueva s/n, 18071, Granada, Spain.
| | - F Jroundi
- Department of Microbiology, University of Granada, Campus Fuentenueva s/n, 18071, Granada, Spain
| | - M López-Fernández
- Institute of Resource Ecology, Helmholtz-Zentrum Dresden-Rossendorf, Bautzner Landstraße 400, 01328, Dresden, Germany
| | - R Geffers
- Genome Analytics, Helmholtz Centre for Infection Research (HZI), 38124, Braunschweig, Germany
| | - M Jarek
- Genome Analytics, Helmholtz Centre for Infection Research (HZI), 38124, Braunschweig, Germany
| | - R Jauregui
- AgResearch Grasslands Research Centre, Tennent drive, Palmerston North, New Zealand
| | - A Link
- Department of Gastroenterology, Hepatology and Infectious Diseases, University of Magdeburg, Leipziger Str. 44.39120, Magdeburg, Germany
| | - R Vílchez-Vargas
- Department of Gastroenterology, Hepatology and Infectious Diseases, University of Magdeburg, Leipziger Str. 44.39120, Magdeburg, Germany
| | - M L Merroun
- Department of Microbiology, University of Granada, Campus Fuentenueva s/n, 18071, Granada, Spain
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16
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Morrison KD, Zavarin M, Kersting AB, Begg JD, Mason HE, Balboni E, Jiao Y. Influence of Uranium Concentration and pH on U-Phosphate Biomineralization by Caulobacter OR37. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2021; 55:1626-1636. [PMID: 33471994 DOI: 10.1021/acs.est.0c05437] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Uranium contamination of soils and groundwater in the United States represents a significant health risk and will require multiple remediation approaches. Microbial phosphatase activity coupled to the addition of an organic P source has recently been studied as a remediation strategy that provides an extended release of inorganic P (Pi) into U-contaminated sites, resulting in the precipitation of meta-autunite minerals. Previous laboratory- and field-based biomineralization studies have investigated environments with relatively high U concentrations (>20 μM). However, most contaminated sites have much lower U concentrations (<2 μM). The Environmental Protection Agency (EPA) limit for U in drinking water is 0.126 μM. Reaching this regulatory limit becomes challenging as U concentrations approach autunite solubility. We studied the precipitation of U(VI)-phosphate minerals by an environmental isolate of Caulobacter sp. (strain OR37) from an Oak Ridge, Tennessee, U-contaminated site. Abiotic U(VI) solubility experiments reveal that U(VI)-phosphate minerals do not form in the presence of excess Pi (500 μM) when U(VI) concentrations are <1 μM and pH is <5. When OR37 cells are reacted under the same conditions with Pi or glycerol-2-phosphate, U(VI)-phosphate mineral formation was observed, along with the formation of intracellular polyphosphate granules. These results show that bacteria provide supersaturated microenvironments needed for U(VI)-phosphate mineralization while hydrolyzing organic P sources. This provides a pathway to lower U concentrations to below EPA limits for drinking water.
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17
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Kolhe N, Zinjarde S, Acharya C. Removal of uranium by immobilized biomass of a tropical marine yeast Yarrowia lipolytica. JOURNAL OF ENVIRONMENTAL RADIOACTIVITY 2020; 223-224:106419. [PMID: 32950912 DOI: 10.1016/j.jenvrad.2020.106419] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/03/2020] [Revised: 08/08/2020] [Accepted: 09/03/2020] [Indexed: 06/11/2023]
Abstract
A marine yeast, Yarrowia lipolytica isolated from an oil polluted sea water and shown earlier to sequester dissolved uranium (U) at pH 7.5, was utilized in the present study for developing an immobilized-cell process for U removal from aqueous solutions under batch and continuous flow through systems. In batch system, optimum biosorption conditions for U removal were assessed by investigating the effects of biomass dose, initial U concentration, contact time and pH of solution using Y. lipolytica cells immobilized in calcium alginate beads. Appreciable uranium-binding capabilities over a wide pH range (3-9) were observed with the alginate beads bearing yeast cells. Out of Langmuir and Freundlich models employed for describing the sorption equilibrium data under batch mode, uranyl adsorption followed Langmuir approach with satisfactory correlation coefficient higher than 0.9. Uranyl adsorption kinetics by Y. lipolytica entrapped in alginate beads was best described by the pseudo-second-order model. While the environmental scanning electron microscopy established the immobilization and the uniform distribution of Y. lipolytica cells in the alginate beads, the Energy Dispersive X-ray spectroscopy analysis confirmed the deposition of U in the beads following their exposure to uranyl solution. Fixed bed flow-through column comprising of Y. lipolytica biomass immobilized in polyacrylamide matrix displayed high efficacy for continuous removal of uranium at pH 7.5 up to five adsorption-desorption cycles. Adsorbed U by immobilized cells could be significantly desorbed using 0.1 N HCl. Overall, our results present the superior efficiency of immobilized Y. lipolytica biomass for U removal using batch and regenerative approaches.
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Affiliation(s)
- Nilesh Kolhe
- Institute of Bioinformatics and Biotechnology, Savitribai Phule Pune University, Pune 411007, India; Molecular Biology Division, Bhabha Atomic Research Centre, Trombay, Mumbai 400085, India
| | - Smita Zinjarde
- Institute of Bioinformatics and Biotechnology, Savitribai Phule Pune University, Pune 411007, India; Department of Microbiology, Savitribai Phule Pune University, Pune 411007, India
| | - Celin Acharya
- Molecular Biology Division, Bhabha Atomic Research Centre, Trombay, Mumbai 400085, India; Homi Bhabha National Institute, Anushakti Nagar, Trombay, Mumbai 400094, India.
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18
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Mattocks JA, Cotruvo JA. Biological, biomolecular, and bio-inspired strategies for detection, extraction, and separations of lanthanides and actinides. Chem Soc Rev 2020; 49:8315-8334. [PMID: 33057507 DOI: 10.1039/d0cs00653j] [Citation(s) in RCA: 30] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Lanthanides and actinides are elements of ever-increasing technological importance in the modern world. However, the similar chemical and physical properties within these groups make purification of individual elements a challenge. Current industrial standards for the extraction, separation, and purification of these metals from natural sources, recycled materials, and industrial waste are inefficient, relying upon harsh conditions, repetitive steps, and ligands with only modest selectivity. Biological, biomolecular, and bio-inspired strategies towards improving these separations and making them more environmentally sustainable have been researched for many years; however, these methods often have insufficient selectivity for practical application. Recent developments in the understanding of how lanthanides are selectively acquired and used by certain bacteria offer the opportunity for a newer, more efficient take on these designs, as well as the possibility for fundamentally new designs and strategies. Herein, we review current cell-based and biomolecular (primarily small-molecule and protein-based) methods for detection, extraction, and separations of f-block elements. We discuss how the increasing knowledge regarding the selective recognition, uptake, trafficking, and storage of these elements in biological systems has informed and will continue to promote development of novel approaches to achieve these ends.
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Affiliation(s)
- Joseph A Mattocks
- Department of Chemistry, The Pennsylvania State University, University Park, PA 16802, USA.
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19
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Zinicovscaia I, Safonov A, Zelenina D, Ershova Y, Boldyrev K. Evaluation of biosorption and bioaccumulation capacity of cyanobacteria Arthrospira (spirulina) platensis for radionuclides. ALGAL RES 2020. [DOI: 10.1016/j.algal.2020.102075] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2023]
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20
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Gendy S, Chauhan A, Agarwal M, Pathak A, Rathore RS, Jaswal R. Is Long-Term Heavy Metal Exposure Driving Carriage of Antibiotic Resistance in Environmental Opportunistic Pathogens: A Comprehensive Phenomic and Genomic Assessment Using Serratia sp. SRS-8-S-2018. Front Microbiol 2020; 11:1923. [PMID: 32973703 PMCID: PMC7468404 DOI: 10.3389/fmicb.2020.01923] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2020] [Accepted: 07/21/2020] [Indexed: 12/04/2022] Open
Abstract
The carriage of both, heavy metal and antibiotic resistance appears to be a common trait in bacterial communities native to long-term contaminated habitats, including the Savannah River Site (SRS). There is widespread soil contamination at the SRS; a United States Department of Energy (DOE) facility with long-term contamination from past industrial and nuclear weapons production activities. To further evaluate the genomic and metabolic traits that underpin metal and antibiotic resistance, a robust mercury (Hg) and uranium (U)-resistant strain- SRS-8-S-2018, was isolated. Minimum inhibitory concentration of this strain revealed resistance to Hg (10 μg/ml) and U (5 mM), the two main heavy metal contaminants at the SRS. Metabolic assessment of strain SRS-8-S-2018 using Biolog metabolic fingerprinting analysis revealed preference for carbohydrate utilization followed by polymers, amino acids, carboxy acids, and esters; this physiological activity diminished when Hg stress was provided at 1 and 3 μg/ml and completely ceased at 5 μg/ml Hg, indicating that continued release of Hg will have negative metabolic impacts to even those microorganisms that possess high resistance ability. Development of antibiotic resistance in strain SRS-8-S-2018 was evaluated at a functional level using phenomics, which confirmed broad resistance against 70.8% of the 48 antibiotics tested. Evolutionary and adaptive traits of strain SRS-8-S-2018 were further assessed using genomics, which revealed the strain to taxonomically affiliate with Serratia marcescens species, possessing a genome size of 5,323,630 bp, 5,261 proteins (CDS), 55 genes for transfer RNA (tRNA), and an average G + C content of 59.48. Comparative genomics with closest taxonomic relatives revealed 360 distinct genes in SRS-8-S-2018, with multiple functions related to both, antibiotic and heavy metal resistance, which likely facilitates the strain’s survival in a metalliferous soil habitat. Comparisons drawn between the environmentally isolated Serratia SRS-8-S-2018 with 31 other strains revealed a closer functional association with medically relevant isolates suggesting that propensity of environmental Serratia isolates in acquiring virulence traits, as a function of long-term exposure to heavy metals, which is facilitating development, recruitment and proliferation of not only metal resistant genes (MRGs) but antibiotic resistant genes (ARGs), which can potentially trigger future bacterial pathogen outbreaks emanating from contaminated environmental habitats.
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Affiliation(s)
- Sherif Gendy
- School of Allied Health Sciences, Florida A&M University, Tallahassee, FL, United States
| | - Ashvini Chauhan
- Environmental Biotechnology Laboratory, School of the Environment, FSH Science Research Center, Florida A&M University, Tallahassee, FL, United States
| | - Meenakshi Agarwal
- Environmental Biotechnology Laboratory, School of the Environment, FSH Science Research Center, Florida A&M University, Tallahassee, FL, United States
| | - Ashish Pathak
- Environmental Biotechnology Laboratory, School of the Environment, FSH Science Research Center, Florida A&M University, Tallahassee, FL, United States
| | - Rajesh Singh Rathore
- Environmental Biotechnology Laboratory, School of the Environment, FSH Science Research Center, Florida A&M University, Tallahassee, FL, United States
| | - Rajneesh Jaswal
- Environmental Biotechnology Laboratory, School of the Environment, FSH Science Research Center, Florida A&M University, Tallahassee, FL, United States
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21
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Sánchez-Castro I, Martínez-Rodríguez P, Jroundi F, Solari PL, Descostes M, Merroun ML. High-efficient microbial immobilization of solved U(VI) by the Stenotrophomonas strain Br8. WATER RESEARCH 2020; 183:116110. [PMID: 32659540 DOI: 10.1016/j.watres.2020.116110] [Citation(s) in RCA: 32] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/06/2020] [Revised: 06/23/2020] [Accepted: 06/24/2020] [Indexed: 06/11/2023]
Abstract
The environmental impact of uranium released during nuclear power production and related mining activity is an issue of great concern. Innovative environmental-friendly water remediation strategies, like those based on U biomineralization through phosphatase activity, are desirable. Here, we report the great U biomineralization potential of Stenotrophomonas sp. Br8 CECT 9810 over a wide range of physicochemical and biological conditions. Br8 cells exhibited high phosphatase activity which mediated the release of orthophosphate in the presence of glycerol-2-phosphate around pH 6.3. Mobile uranyl ions were bioprecipitated as needle-like fibrils at the cell surface and in the extracellular space, as observed by Scanning Transmission Electron Microscopy (STEM). Extended X-Ray Absorption Fine Structure (EXAFS) and X-Ray Diffraction (XRD) analyses showed the local structure of biogenic U precipitates to be similar to that of meta-autunite. In addition to the active U phosphate biomineralization process, the cells interact with this radionuclide through passive biosorption, removing up to 373 mg of U per g of bacterial dry biomass. The high U biomineralization capacity of the studied strain was also observed under different conditions of pH, temperature, etc. Results presented in this work will help to design efficient U bioremediation strategies for real polluted waters.
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Affiliation(s)
- Iván Sánchez-Castro
- Department of Microbiology, University of Granada, Campus Fuentenueva s/n, 18071, Granada, Spain.
| | - Pablo Martínez-Rodríguez
- Department of Microbiology, University of Granada, Campus Fuentenueva s/n, 18071, Granada, Spain
| | - Fadwa Jroundi
- Department of Microbiology, University of Granada, Campus Fuentenueva s/n, 18071, Granada, Spain
| | - Pier Lorenzo Solari
- Synchrotron SOLEIL, MARS beamline, L'Orme des Merisiers, Saint-Aubin BP 48, 91192, Gif-sur-Yvette Cedex, France
| | | | - Mohamed Larbi Merroun
- Department of Microbiology, University of Granada, Campus Fuentenueva s/n, 18071, Granada, Spain
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22
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Jiang L, Liu X, Yin H, Liang Y, Liu H, Miao B, Peng Q, Meng D, Wang S, Yang J, Guo Z. The utilization of biomineralization technique based on microbial induced phosphate precipitation in remediation of potentially toxic ions contaminated soil: A mini review. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2020; 191:110009. [PMID: 31806252 DOI: 10.1016/j.ecoenv.2019.110009] [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: 09/01/2019] [Revised: 11/12/2019] [Accepted: 11/26/2019] [Indexed: 06/10/2023]
Abstract
In recent years, many studies have been devoted to investigate the application of microbial induced phosphate precipitation (MIPP) process for potentially toxic element polluted soil remediation. MIPP biomineralization technique exhibits a great potential to efficiently remediate polluted soil considering its low cost, green and ecofriendly process, and simple in operation. This paper represented a review on the state of the art of polluted soil remediation based on MIPP technique. Briefly, certain defined criteria on targeted microbe selection was discussed; an overall review on the utilization of MIPP process for toxic ions biomineralization in soil was provided; influencing factors reported in the literature, such as pH, temperature, humic substances, coexisting ions, effective microbial population, and enzyme activity, were then comprehensively reviewed; finally; a special emphasis was given to enhance MIPP remediation performance in soil in future research.
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Affiliation(s)
- Luhua Jiang
- School of Minerals Processing and Bioengineering, Central South University, Changsha, 410083, China; Key Laboratory of Biometallurgy of Ministry of Education, Changsha, 410083, China.
| | - Xueduan Liu
- School of Minerals Processing and Bioengineering, Central South University, Changsha, 410083, China; Key Laboratory of Biometallurgy of Ministry of Education, Changsha, 410083, China.
| | - Huaqun Yin
- School of Minerals Processing and Bioengineering, Central South University, Changsha, 410083, China; Key Laboratory of Biometallurgy of Ministry of Education, Changsha, 410083, China
| | - Yili Liang
- School of Minerals Processing and Bioengineering, Central South University, Changsha, 410083, China; Key Laboratory of Biometallurgy of Ministry of Education, Changsha, 410083, China.
| | - Hongwei Liu
- School of Minerals Processing and Bioengineering, Central South University, Changsha, 410083, China; Key Laboratory of Biometallurgy of Ministry of Education, Changsha, 410083, China
| | - Bo Miao
- School of Minerals Processing and Bioengineering, Central South University, Changsha, 410083, China; Key Laboratory of Biometallurgy of Ministry of Education, Changsha, 410083, China
| | - Qingqing Peng
- The Environmental Monitoring Center of Hunan Province, Changsha, 410004, China
| | - Delong Meng
- School of Minerals Processing and Bioengineering, Central South University, Changsha, 410083, China; Key Laboratory of Biometallurgy of Ministry of Education, Changsha, 410083, China
| | - Siqi Wang
- School of Minerals Processing and Bioengineering, Central South University, Changsha, 410083, China; Key Laboratory of Biometallurgy of Ministry of Education, Changsha, 410083, China
| | - Jiejie Yang
- School of Minerals Processing and Bioengineering, Central South University, Changsha, 410083, China; Key Laboratory of Biometallurgy of Ministry of Education, Changsha, 410083, China
| | - Ziwen Guo
- School of Minerals Processing and Bioengineering, Central South University, Changsha, 410083, China; Key Laboratory of Biometallurgy of Ministry of Education, Changsha, 410083, China
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23
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Shukla SK, Hariharan S, Rao TS. Uranium bioremediation by acid phosphatase activity of Staphylococcus aureus biofilms: Can a foe turn a friend? JOURNAL OF HAZARDOUS MATERIALS 2020; 384:121316. [PMID: 31607578 DOI: 10.1016/j.jhazmat.2019.121316] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/19/2019] [Revised: 09/13/2019] [Accepted: 09/24/2019] [Indexed: 06/10/2023]
Abstract
In this study, Staphylococcus aureus biofilms, which are considered a foe for being pathogenic, were tested for their uranium bioremediation capacity to find out if they can turn out to be a friend. Acid phosphatase activity, which is speculated to aid in bio-precipitation of U(VI) from uranyl nitrate solution, was assayed in biofilms of seven different S. aureus strains. The presence of acid phosphatase enzyme was detected in the biofilms of all S. aureus strains (in the range of 3.1 ± 0.21 to 26.90 ± 2.32 μi.u./g), and found to be higher when compared to that of their planktonic phenotypes. Among all, S. aureus V329 biofilm showed highest biofilm formation ability along with maximum phosphatase activity (26.9 ± 2.32 μi.u./g of biomass). Addition of phosphate enhanced the U(VI) remediation when treated with uranyl nitrate solution. S. aureus V329 biofilm showed significant U tolerance with only a 3-log reduction when exposed to 10 ppm U(VI) for 1 h. When treated in batch mode, V329 biofilm successfully remediated up to 47% of the 10 ppm U(VI). This new approach using the acid phosphatase from the S. aureus V329 biofilm presents an alternative method for the remediation of uranium contamination.
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Affiliation(s)
- Sudhir K Shukla
- Biofouling & Thermal Ecology Section, Water & Steam Chemistry Division, BARC Facilities, Kalpakkam, Tamil Nadu, 603102, India
| | - S Hariharan
- Department of Biotechnology, Sri Venkateswara College of Engineering, Sriperumbudur, Chennai, 602117, India
| | - T Subba Rao
- Biofouling & Thermal Ecology Section, Water & Steam Chemistry Division, BARC Facilities, Kalpakkam, Tamil Nadu, 603102, India; Homi Bhabha National Institute, Mumbai, 400094, India.
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24
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Pathak A, Jaswal R, Chauhan A. Genomic Characterization of a Mercury Resistant Arthrobacter sp. H-02-3 Reveals the Presence of Heavy Metal and Antibiotic Resistance Determinants. Front Microbiol 2020; 10:3039. [PMID: 32010097 PMCID: PMC6978705 DOI: 10.3389/fmicb.2019.03039] [Citation(s) in RCA: 12] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2019] [Accepted: 12/17/2019] [Indexed: 11/18/2022] Open
Abstract
Nuclear production and industrial activities led to widespread contamination of the Department of Energy (DOE) managed Savannah River Site (SRS), located in South Carolina, United States. The H-02 wetland system was constructed in 2007 for the treatment of industrial and storm water runoff from the SRS Tritium Facility. Albeit at low levels, mercury (Hg) has been detected in the soils of the H-02 wetland ecosystem. In anoxic sediments, Hg is typically methylated by anaerobic microbiota, forming the highly neurotoxic methylmercury (MeHg), which biomagnifies across food webs. However, in surficial oxic wetland soils, microbially mediated demethylation and/or volatilization processes can transform Hg2+ into the less toxic Hg0 form which is released into the atmosphere, thus circumventing MeHg formation. To obtain a deeper understanding on bacterial Hg volatilization, a robust Hg-resistant (HgR) bacteria, called as strain H-02-3 was isolated from the H-02 soils. A draft genome sequence of this strain was obtained at a coverage of 700×, which assembled in 44 contigs with an N50 of 171,569 bp. The genomic size of the strain H-02-3 was 4,708,612 bp with a total number of 4,240 genes; phylogenomic analysis revealed the strain as an Arthrobacter species. Comparative genomics revealed the presence of 1100 unique genes in strain H-02-3, representing 26.7% of the total genome; many identified previously as metal resistance genes (MRGs). Specific to Hg-cycling, the presence of mercuric ion reductase (merA), the organomercurial lyase (merB), and the mercuric resistance operon regulatory protein, were identified. By inference, it can be proposed that the organomercurial lyase facilitates the demethylation of MeHg into Hg2+ which is then reduced to Hg0 by MerA in strain H-02-3. Furthermore, gene prediction using resistome analysis of strain H-02-3 revealed the presence of several antibiotic resistance genes (ARGs), that statistically correlated with the presence of metal resistant genes (MRGs), suggesting co-occurrence patterns of MRGs and ARGs in the strain. Overall, this study delineates environmentally beneficial traits that likely facilitates survival of Arthrobacter sp. H-02-3 within the H-02 wetland soil. Finally, this study also highlights the largely ignored public health risk associated with the co-development of ARGs and MRGs in bacteria native to historically contaminated soils.
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Affiliation(s)
- Ashish Pathak
- Environmental Biotechnology Laboratory, School of the Environment, FSH Science Research Center, Florida A&M University, Tallahassee, FL, United States
| | - Rajneesh Jaswal
- Environmental Biotechnology Laboratory, School of the Environment, FSH Science Research Center, Florida A&M University, Tallahassee, FL, United States
| | - Ashvini Chauhan
- Environmental Biotechnology Laboratory, School of the Environment, FSH Science Research Center, Florida A&M University, Tallahassee, FL, United States
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25
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Bower WR, Morris K, Livens FR, Mosselmans JFW, Fallon CM, Fuller AJ, Natrajan L, Boothman C, Lloyd JR, Utsunomiya S, Grolimund D, Ferreira Sanchez D, Jilbert T, Parker J, Neill TS, Law GTW. Metaschoepite Dissolution in Sediment Column Systems-Implications for Uranium Speciation and Transport. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2019; 53:9915-9925. [PMID: 31317743 DOI: 10.1021/acs.est.9b02292] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Metaschoepite is commonly found in U-contaminated environments and metaschoepite-bearing wastes may be managed via shallow or deep disposal. Understanding metaschoepite dissolution and tracking the fate of any liberated U is thus important. Here, discrete horizons of metaschoepite (UO3·nH2O) particles were emplaced in flowing sediment/groundwater columns representative of the UK Sellafield Ltd. site. The column systems either remained oxic or became anoxic due to electron donor additions, and the columns were sacrificed after 6- and 12-months for analysis. Solution chemistry, extractions, and bulk and micro/nano-focus X-ray spectroscopies were used to track changes in U distribution and behavior. In the oxic columns, U migration was extensive, with UO22+ identified in effluents after 6-months of reaction using fluorescence spectroscopy. Unusually, in the electron-donor amended columns, during microbially mediated sulfate reduction, significant amounts of UO2-like colloids (>60% of the added U) were found in the effluents using TEM. XAS analysis of the U remaining associated with the reduced sediments confirmed the presence of trace U(VI), noncrystalline U(IV), and biogenic UO2, with UO2 becoming more dominant with time. This study highlights the potential for U(IV) colloid production from U(VI) solids under reducing conditions and the complexity of U biogeochemistry in dynamic systems.
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Affiliation(s)
- William R Bower
- Centre for Radiochemistry Research, School of Chemistry , The University of Manchester , Manchester , U.K. , M13 9PL
- Research Centre for Radwaste Disposal and Williamson Research Centre, School of Earth and Environmental Sciences , The University of Manchester , Manchester , U.K. , M13 9PL
- Radiochemistry Unit, Department of Chemistry , The University of Helsinki , Helsinki , Finland , 00014
| | - Katherine Morris
- Research Centre for Radwaste Disposal and Williamson Research Centre, School of Earth and Environmental Sciences , The University of Manchester , Manchester , U.K. , M13 9PL
| | - Francis R Livens
- Centre for Radiochemistry Research, School of Chemistry , The University of Manchester , Manchester , U.K. , M13 9PL
- Research Centre for Radwaste Disposal and Williamson Research Centre, School of Earth and Environmental Sciences , The University of Manchester , Manchester , U.K. , M13 9PL
| | | | - Connaugh M Fallon
- Centre for Radiochemistry Research, School of Chemistry , The University of Manchester , Manchester , U.K. , M13 9PL
- Research Centre for Radwaste Disposal and Williamson Research Centre, School of Earth and Environmental Sciences , The University of Manchester , Manchester , U.K. , M13 9PL
- Radiochemistry Unit, Department of Chemistry , The University of Helsinki , Helsinki , Finland , 00014
| | - Adam J Fuller
- Centre for Radiochemistry Research, School of Chemistry , The University of Manchester , Manchester , U.K. , M13 9PL
| | - Louise Natrajan
- Centre for Radiochemistry Research, School of Chemistry , The University of Manchester , Manchester , U.K. , M13 9PL
| | - Christopher Boothman
- Research Centre for Radwaste Disposal and Williamson Research Centre, School of Earth and Environmental Sciences , The University of Manchester , Manchester , U.K. , M13 9PL
| | - Jonathan R Lloyd
- Research Centre for Radwaste Disposal and Williamson Research Centre, School of Earth and Environmental Sciences , The University of Manchester , Manchester , U.K. , M13 9PL
| | - Satoshi Utsunomiya
- Kyushu University , Department of Chemistry , 744 Motooka , Nishi-ku , Fukuoka Japan , 819-0395
| | - Daniel Grolimund
- Swiss Light Source , Paul Scherrer Institute , Villigen , Switzerland , 5232
| | | | - Tom Jilbert
- Ecosystems and Environmental Research Programme, Faculty of Biological and Environmental Sciences , The University of Helsinki , Helsinki , Finland , 00014
| | - Julia Parker
- Diamond Light Source , Harwell Science and Innovation Campus , Didcot , U.K. , OX11 0DE
| | - Thomas S Neill
- Research Centre for Radwaste Disposal and Williamson Research Centre, School of Earth and Environmental Sciences , The University of Manchester , Manchester , U.K. , M13 9PL
| | - Gareth T W Law
- Centre for Radiochemistry Research, School of Chemistry , The University of Manchester , Manchester , U.K. , M13 9PL
- Radiochemistry Unit, Department of Chemistry , The University of Helsinki , Helsinki , Finland , 00014
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26
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Chandwadkar P, Misra HS, Acharya C. Uranium biomineralization induced by a metal tolerant Serratia strain under acid, alkaline and irradiated conditions. Metallomics 2019; 10:1078-1088. [PMID: 29999065 DOI: 10.1039/c8mt00061a] [Citation(s) in RCA: 29] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
It has become increasingly apparent that the environmental microorganisms residing in uranium (U) enriched sites offer the possibility of understanding the biological mechanisms catalyzing the processes important for uranium bioremediation. Here, we present the results of uranium biomineralization over a wide pH range by a metal tolerant Serratia sp. strain OT II 7 isolated from the subsurface soil of a U ore deposit at Domiasiat in India. The Serratia cells actively expressed acid and alkaline phosphatase enzymes which hydrolyzed differential amounts of phosphate from an organophosphate substrate in the presence of uranium between pH 5 to 9. These cells precipitated ∼91% uranium from aqueous solutions supplemented with 1 mM uranyl nitrate at pH 5 within 120 h. More rapid precipitation was observed at pH 7 and 9 wherein the cells removed ∼93-94% of uranium from solutions containing 1 mM uranyl carbonate within 24 h. The aqueous uranyl speciation prevalent under the studied pH conditions influenced the localization of crystalline uranyl phosphate precipitates, which in turn, impacted the cell viability to a great extent. Furthermore, the cells tolerated up to ∼1.6 kGy 60Co gamma radiation and their uranium precipitation abilities at pH 5, 7 and 9 were uncompromised even after exposure to a high dose of ionizing radiation. Overall, this study establishes the ecological adaptation of a natural strain like Serratia in a uranium enriched environment and corroborates its contribution towards uranium immobilization in contaminated subsurfaces through the formation of stable uranyl phosphate minerals over a wide pH range.
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Affiliation(s)
- Pallavi Chandwadkar
- Molecular Biology Division, Bhabha Atomic Research Centre, Trombay, Mumbai-400 085, India.
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27
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Bhakat K, Chakraborty A, Islam E. Characterization of arsenic oxidation and uranium bioremediation potential of arsenic resistant bacteria isolated from uranium ore. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2019; 26:12907-12919. [PMID: 30888619 DOI: 10.1007/s11356-019-04827-6] [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: 09/07/2018] [Accepted: 03/07/2019] [Indexed: 05/10/2023]
Abstract
Arsenic (As) is often found naturally as the co-contaminant in the uranium (U)-contaminated area, obstructing the bioremediation process. Although the U-contaminated environment harbors microorganisms capable of interacting with U which could be exploited in bioremediation. However, they might be unable to perform with their full potential due to As toxicity. Therefore, potential in arsenic resistance and oxidation is greatly desired among the microorganisms for a continued bioremediation process. In this study, arsenic-resistant bacteria were isolated from U ore collected from Bundugurang U mine, characterized and their As oxidation and U removal potentials were determined. 16S rRNA gene sequencing and phylogenetic analysis showed the affiliation of isolated bacteria with Microbacterium, Micrococcus, Shinella, and Bacillus. Except Bacillus sp. EIKU7, Microbacterium sp. EIKU5, Shinella sp. EIKU6, and Micrococcus sp. EIKU8 were found to resist more than 400 mM As(V); however, all the isolates could survive in 8 mM As(III). The isolates were found to readily oxidize As under different culture conditions and are also resistant towards Cd, Cr, Co, Ni, and Zn. All the isolates could remove more than 350 mg U/g dry cells within 48 h which were found to be highly dependent upon the concentration of U, biomass added initially, and on the time of exposure. Ability of the isolates to grow in nitrogen-free medium indicated that they can flourish in the nutrition deprived environment. Therefore, the recovery of isolates with the potent ability to resist and oxidize As from U ore might play an important role in toxic metal bioremediation including U.
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Affiliation(s)
- Kiron Bhakat
- Department of Microbiology, University of Kalyani, Kalyani, West Bengal, 741235, India
| | - Arindam Chakraborty
- Department of Microbiology, University of Kalyani, Kalyani, West Bengal, 741235, India
| | - Ekramul Islam
- Department of Microbiology, University of Kalyani, Kalyani, West Bengal, 741235, India.
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28
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Metagenomics-Guided Survey, Isolation, and Characterization of Uranium Resistant Microbiota from the Savannah River Site, USA. Genes (Basel) 2019; 10:genes10050325. [PMID: 31035394 PMCID: PMC6562407 DOI: 10.3390/genes10050325] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2019] [Revised: 04/19/2019] [Accepted: 04/24/2019] [Indexed: 11/17/2022] Open
Abstract
Despite the recent advancements in culturomics, isolation of the majority of environmental microbiota performing critical ecosystem services, such as bioremediation of contaminants, remains elusive. Towards this end, we conducted a metagenomics-guided comparative assessment of soil microbial diversity and functions present in uraniferous soils relative to those that grew in diffusion chambers (DC) or microbial traps (MT), followed by isolation of uranium (U) resistant microbiota. Shotgun metagenomic analysis performed on the soils used to establish the DC/MT chambers revealed Proteobacterial phyla and Burkholderia genus to be the most abundant among bacteria. The chamber-associated growth conditions further increased their abundances relative to the soils. Ascomycota was the most abundant fungal phylum in the chambers relative to the soils, with Penicillium as the most dominant genus. Metagenomics-based taxonomic findings completely mirrored the taxonomic composition of the retrieved isolates such that the U-resistant bacteria and fungi mainly belonged to Burkholderia and Penicillium species, thus confirming that the chambers facilitated proliferation and subsequent isolation of specific microbiota with environmentally relevant functions. Furthermore, shotgun metagenomic analysis also revealed that the gene classes for carbohydrate metabolism, virulence, and respiration predominated with functions related to stress response, membrane transport, and metabolism of aromatic compounds were also identified, albeit at lower levels. Of major note was the successful isolation of a potentially novel Penicillium species using the MT approach, as evidenced by whole genome sequence analysis and comparative genomic analysis, thus enhancing our overall understanding on the uranium cycling microbiota within the tested uraniferous soils.
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29
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The immobilization mechanism of U(VI) induced by Bacillus thuringiensis 016 and the effects of coexisting ions. Biochem Eng J 2019. [DOI: 10.1016/j.bej.2019.01.013] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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30
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Agarwal M, Pathak A, Rathore RS, Prakash O, Singh R, Jaswal R, Seaman J, Chauhan A. Proteogenomic Analysis of Burkholderia Species Strains 25 and 46 Isolated from Uraniferous Soils Reveals Multiple Mechanisms to Cope with Uranium Stress. Cells 2018; 7:cells7120269. [PMID: 30545132 PMCID: PMC6315756 DOI: 10.3390/cells7120269] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2018] [Revised: 12/05/2018] [Accepted: 12/10/2018] [Indexed: 01/15/2023] Open
Abstract
Two Burkholderia spp. (strains SRS-25 and SRS-46) were isolated from high concentrations of uranium (U) from the U.S. Department of Energy (DOE)-managed Savannah River Site (SRS). SRS contains soil gradients that remain co-contaminated by heavy metals from previous nuclear weapons production activities. Uranium (U) is one of the dominant contaminants within the SRS impacted soils, which can be microbially transformed into less toxic forms. We established microcosms containing strains SRS-25 and SRS-46 spiked with U and evaluated the microbially-mediated depletion with concomitant genomic and proteomic analysis. Both strains showed a rapid depletion of U; draft genome sequences revealed SRS-25 genome to be of approximately 8,152,324 bp, a G + C content of 66.5, containing a total 7604 coding sequences with 77 total RNA genes. Similarly, strain SRS-46 contained a genome size of 8,587,429 bp with a G + C content of 67.1, 7895 coding sequences, with 73 total RNA genes, respectively. An in-depth, genome-wide comparisons between strains 25, 46 and a previously isolated strain from our research (Burkholderia sp. strain SRS-W-2-2016), revealed a common pool of 3128 genes; many were found to be homologues to previously characterized metal resistance genes (e.g., for cadmium, cobalt, and zinc), as well as for transporter, stress/detoxification, cytochromes, and drug resistance functions. Furthermore, proteomic analysis of strains with or without U stress, revealed the increased expression of 34 proteins from strain SRS-25 and 52 proteins from strain SRS-46; similar to the genomic analyses, many of these proteins have previously been shown to function in stress response, DNA repair, protein biosynthesis and metabolism. Overall, this comparative proteogenomics study confirms the repertoire of metabolic and stress response functions likely rendering the ecological competitiveness to the isolated strains for colonization and survival in the heavy metals contaminated SRS soil habitat.
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Affiliation(s)
- Meenakshi Agarwal
- Environmental Biotechnology Laboratory, School of the Environment, 1515 S. Martin Luther King Jr. Blvd., Suite 305B, FSH Science Research Center, Florida A&M University, Tallahassee, FL 32307, USA.
| | - Ashish Pathak
- Environmental Biotechnology Laboratory, School of the Environment, 1515 S. Martin Luther King Jr. Blvd., Suite 305B, FSH Science Research Center, Florida A&M University, Tallahassee, FL 32307, USA.
| | - Rajesh Singh Rathore
- Environmental Biotechnology Laboratory, School of the Environment, 1515 S. Martin Luther King Jr. Blvd., Suite 305B, FSH Science Research Center, Florida A&M University, Tallahassee, FL 32307, USA.
| | - Om Prakash
- National Centre for Microbial Resource, National Centre for Cell Science, Pune 411007, India.
| | - Rakesh Singh
- Translational Science Lab, College of Medicine, Florida State University, Tallahassee, FL 32304, USA.
| | - Rajneesh Jaswal
- Environmental Biotechnology Laboratory, School of the Environment, 1515 S. Martin Luther King Jr. Blvd., Suite 305B, FSH Science Research Center, Florida A&M University, Tallahassee, FL 32307, USA.
| | - John Seaman
- Savannah River Ecology Laboratory, University of Georgia, Aiken, SC 29802, USA.
| | - Ashvini Chauhan
- Environmental Biotechnology Laboratory, School of the Environment, 1515 S. Martin Luther King Jr. Blvd., Suite 305B, FSH Science Research Center, Florida A&M University, Tallahassee, FL 32307, USA.
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31
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Zhang J, Song H, Chen Z, Liu S, Wei Y, Huang J, Guo C, Dang Z, Lin Z. Biomineralization mechanism of U(VI) induced by Bacillus cereus 12-2: The role of functional groups and enzymes. CHEMOSPHERE 2018; 206:682-692. [PMID: 29783053 DOI: 10.1016/j.chemosphere.2018.04.181] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/11/2018] [Revised: 04/26/2018] [Accepted: 04/29/2018] [Indexed: 06/08/2023]
Abstract
Current studies reveal that the biomineralization of U(VI) by anaerobes normally produces nano-sized U(IV) minerals that can easily re-migrate/re-oxidize, while the biomineralization of U(VI) by aerobes has been constrained because the general mechanism has not yet been fully characterized. The biomineralization of U(VI) by Bacillus cereus 12-2 was investigated in this work. The maximum biosorption capability of intact cells was 448.68 mg U/g biomass (dry weight) at pH 5, while a decrease over 60% was induced when phosphate, amino, and especially carboxyl groups were shielded. X-ray diffraction, electron microscopy, and tracing the concentration of soluble intracellular U(VI) demonstrated that extracellular amorphous uranium particles can directly enter cells as solid, and about 10 nm-sized (NH4)(UO2)PO4·3H2O was formed subsequently. It was also revealed that the biosorption capability was not affected by a high uranium concentration, while biomineralization was inhibited, suggesting that a high concentration of heavy metals may inhibit the enzyme activity involved in biomineralization. Besides, U(VI) could trigger the overexpression of proteins with a molecular weight of 22 kD, including various phosphatases, kinases, and other enzymes that are related to metabolism and stimulus response, which may contribute to the intracellular transformation of U(VI) compounds from amorphous to crystalline phase. Taken together, the immobilization of U(VI) by B. cereus 12-2 contains two major steps: (1) fast immobilization of U(VI) on the cell surface as amorphous compounds, in which the carboxyl groups served as the predominant coordination functional groups and (2) transport of amorphous particles to cells directly and enzyme-related formation of uramphite.
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Affiliation(s)
- Jian Zhang
- School of Environment and Energy, South China University of Technology, The Key Laboratory of Pollution Control and Ecosystem Restoration in Industry Clusters (Ministry of Education), Guangdong Engineering and Technology Research Center for Environmental Nanomaterials, Guangzhou, Guangdong 510006, China.
| | - Han Song
- School of Geoscience and Surveying Engineering, China University of Mining & Technology, D11, Xueyuan Road, Haidian District, Beijing 100083, China.
| | - Zhi Chen
- Fujian Provincial Key Laboratory of Soil Environmental Health and Regulation, College of Resources and Environment, Fujian Agriculture and Forestry University, Fuzhou 350002, China.
| | - Shasha Liu
- School of Environment and Energy, South China University of Technology, The Key Laboratory of Pollution Control and Ecosystem Restoration in Industry Clusters (Ministry of Education), Guangdong Engineering and Technology Research Center for Environmental Nanomaterials, Guangzhou, Guangdong 510006, China.
| | - Yali Wei
- School of Environment and Energy, South China University of Technology, The Key Laboratory of Pollution Control and Ecosystem Restoration in Industry Clusters (Ministry of Education), Guangdong Engineering and Technology Research Center for Environmental Nanomaterials, Guangzhou, Guangdong 510006, China.
| | - Jingyi Huang
- School of Environment and Energy, South China University of Technology, The Key Laboratory of Pollution Control and Ecosystem Restoration in Industry Clusters (Ministry of Education), Guangdong Engineering and Technology Research Center for Environmental Nanomaterials, Guangzhou, Guangdong 510006, China.
| | - Chuling Guo
- School of Environment and Energy, South China University of Technology, The Key Laboratory of Pollution Control and Ecosystem Restoration in Industry Clusters (Ministry of Education), Guangdong Engineering and Technology Research Center for Environmental Nanomaterials, Guangzhou, Guangdong 510006, China.
| | - Zhi Dang
- School of Environment and Energy, South China University of Technology, The Key Laboratory of Pollution Control and Ecosystem Restoration in Industry Clusters (Ministry of Education), Guangdong Engineering and Technology Research Center for Environmental Nanomaterials, Guangzhou, Guangdong 510006, China.
| | - Zhang Lin
- School of Environment and Energy, South China University of Technology, The Key Laboratory of Pollution Control and Ecosystem Restoration in Industry Clusters (Ministry of Education), Guangdong Engineering and Technology Research Center for Environmental Nanomaterials, Guangzhou, Guangdong 510006, China.
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32
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Kolhe N, Zinjarde S, Acharya C. Responses exhibited by various microbial groups relevant to uranium exposure. Biotechnol Adv 2018; 36:1828-1846. [PMID: 30017503 DOI: 10.1016/j.biotechadv.2018.07.002] [Citation(s) in RCA: 35] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2018] [Revised: 07/08/2018] [Accepted: 07/09/2018] [Indexed: 11/28/2022]
Abstract
There is a strong interest in knowing how various microbial systems respond to the presence of uranium (U), largely in the context of bioremediation. There is no known biological role for uranium so far. Uranium is naturally present in rocks and minerals. The insoluble nature of the U(IV) minerals keeps uranium firmly bound in the earth's crust minimizing its bioavailability. However, anthropogenic nuclear reaction processes over the last few decades have resulted in introduction of uranium into the environment in soluble and toxic forms. Microbes adsorb, accumulate, reduce, oxidize, possibly respire, mineralize and precipitate uranium. This review focuses on the microbial responses to uranium exposure which allows the alteration of the forms and concentrations of uranium within the cell and in the local environment. Detailed information on the three major bioprocesses namely, biosorption, bioprecipitation and bioreduction exhibited by the microbes belonging to various groups and subgroups of bacteria, fungi and algae is provided in this review elucidating their intrinsic and engineered abilities for uranium removal. The survey also highlights the instances of the field trials undertaken for in situ uranium bioremediation. Advances in genomics and proteomics approaches providing the information on the regulatory and physiologically important determinants in the microbes in response to uranium challenge have been catalogued here. Recent developments in metagenomics and metaproteomics indicating the ecologically relevant traits required for the adaptation and survival of environmental microbes residing in uranium contaminated sites are also included. A comprehensive understanding of the microbial responses to uranium can facilitate the development of in situ U bioremediation strategies.
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Affiliation(s)
- Nilesh Kolhe
- Institute of Bioinformatics and Biotechnology, Savitribai Phule Pune University, Pune 411007, India; Molecular Biology Division, Bhabha Atomic Research Centre, Trombay, Mumbai 400085, India
| | - Smita Zinjarde
- Institute of Bioinformatics and Biotechnology, Savitribai Phule Pune University, Pune 411007, India; Department of Microbiology, Savitribai Phule Pune University, Pune 411007, India.
| | - Celin Acharya
- Molecular Biology Division, Bhabha Atomic Research Centre, Trombay, Mumbai 400085, India; Homi Bhabha National Institute, Anushakti Nagar, Trombay, Mumbai 400094, India.
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33
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Kushwaha S, Marcus AK, Rittmann BE. pH-dependent speciation and hydrogen (H 2 ) control U(VI) respiration by Desulfovibrio vulgaris. Biotechnol Bioeng 2018; 115:1465-1474. [PMID: 29476629 DOI: 10.1002/bit.26579] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2017] [Revised: 02/16/2018] [Accepted: 02/20/2018] [Indexed: 11/06/2022]
Abstract
In situ bioreduction of soluble hexavalent uranium U(VI) to insoluble U(IV) (as UO2 ) has been proposed as a means of preventing U migration in the groundwater. This work focuses on the bioreduction of U(VI) and precipitation of U(IV). It uses anaerobic batch reactors with Desulfovibrio vulgaris, a well-known sulfate, iron, and U(VI) reducer, growing on lactate as the electron donor, in the absence of sulfate, and with a 30-mM bicarbonate buffering. In the absence of sulfate, D. vulgaris reduced >90% of the total soluble U(VI) (1 mM) to form U(IV) solids that were characterized by X-ray diffraction and confirmed to be nano-crystalline uraninite with crystallite size 2.8 ± 0.2 nm. pH values between 6 and 10 had minimal impact on bacterial growth and end-product distribution, supporting that the mono-nuclear, and poly-nuclear forms of U(VI) were equally bioavailable as electron acceptors. Electron balances support that H2 transiently accumulated, but was ultimately oxidized via U(VI) respiration. Thus, D. vulgaris utilized H2 as the electron carrier to drive respiration of U(VI). Rapid lactate utilization and biomass growth occurred only when U(VI) respiration began to draw down the sink of H2 and relieve thermodynamic inhibition of fermentation.
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Affiliation(s)
- Shilpi Kushwaha
- Biodesign Swette Center of Environmental Biotechnology, Arizona State University, Tempe, Arizon
| | - Andrew K Marcus
- Biodesign Swette Center of Environmental Biotechnology, Arizona State University, Tempe, Arizon
| | - Bruce E Rittmann
- Biodesign Swette Center of Environmental Biotechnology, Arizona State University, Tempe, Arizon
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Reed KB, Alper HS. Expanding beyond canonical metabolism: Interfacing alternative elements, synthetic biology, and metabolic engineering. Synth Syst Biotechnol 2018; 3:20-33. [PMID: 29911196 PMCID: PMC5884228 DOI: 10.1016/j.synbio.2017.12.002] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2017] [Revised: 11/08/2017] [Accepted: 12/09/2017] [Indexed: 12/15/2022] Open
Abstract
Metabolic engineering offers an exquisite capacity to produce new molecules in a renewable manner. However, most industrial applications have focused on only a small subset of elements from the periodic table, centered around carbon biochemistry. This review aims to illustrate the expanse of chemical elements that can currently (and potentially) be integrated into useful products using cellular systems. Specifically, we describe recent advances in expanding the cellular scope to include the halogens, selenium and the metalloids, and a variety of metal incorporations. These examples range from small molecules, heteroatom-linked uncommon elements, and natural products to biomining and nanotechnology applications. Collectively, this review covers the promise of an expanded range of elemental incorporations and the future impacts it may have on biotechnology.
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Affiliation(s)
- Kevin B. Reed
- McKetta Department of Chemical Engineering, The University of Texas at Austin, 200E Dean Keeton St. Stop C0400, Austin, TX 78712, USA
| | - Hal S. Alper
- McKetta Department of Chemical Engineering, The University of Texas at Austin, 200E Dean Keeton St. Stop C0400, Austin, TX 78712, USA
- Institute for Cellular and Molecular Biology, The University of Texas at Austin, 2500 Speedway Avenue, Austin, TX 78712, USA
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Physiological and Comparative Genomic Analysis of Arthrobacter sp. SRS-W-1-2016 Provides Insights on Niche Adaptation for Survival in Uraniferous Soils. Genes (Basel) 2018; 9:genes9010031. [PMID: 29324691 PMCID: PMC5793183 DOI: 10.3390/genes9010031] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2017] [Revised: 12/22/2017] [Accepted: 01/05/2018] [Indexed: 11/16/2022] Open
Abstract
Arthrobacter sp. strain SRS-W-1-2016 was isolated on high concentrations of uranium (U) from the Savannah River Site (SRS) that remains co-contaminated by radionuclides, heavy metals, and organics. SRS is located on the northeast bank of the Savannah River (South Carolina, USA), which is a U.S. Department of Energy (DOE) managed ecosystem left historically contaminated from decades of nuclear weapons production activities. Predominant contaminants within the impacted SRS environment include U and Nickel (Ni), both of which can be transformed microbially into less toxic forms via metal complexation mechanisms. Strain SRS-W-1-2016 was isolated from the uraniferous SRS soils on high concentrations of U (4200 μM) and Ni (8500 μM), but rapid growth was observed at much lower concentrations of 500 μM U and 1000 μM Ni, respectively. Microcosm studies established with strain SRS-W-1-2016 revealed a rapid decline in the concentration of spiked U such that it was almost undetectable in the supernatant by 72 h of incubation. Conversely, Ni concentrations remained unchanged, suggesting that the strain removed U but not Ni under the tested conditions. To obtain a deeper understanding of the metabolic potential, a draft genome sequence of strain SRS-W-1-2016 was obtained at a coverage of 90×, assembling into 93 contigs with an N50 contig length of 92,788 bases. The genomic size of strain SRS-W-1-2016 was found to be 4,564,701 bases with a total number of 4327 putative genes. An in-depth, genome-wide comparison between strain SRS-W-1-2016 and its four closest taxonomic relatives revealed 1159 distinct genes, representing 26.7% of its total genome; many associating with metal resistance proteins (e.g., for cadmium, cobalt, and zinc), transporter proteins, stress proteins, cytochromes, and drug resistance functions. Additionally, several gene homologues coding for resistance to metals were identified in the strain, such as outer membrane efflux pump proteins, peptide/nickel transport substrate and ATP-binding proteins, a high-affinity nickel-transport protein, and the spoT gene, which was recently implicated in bacterial resistance towards U. Detailed genome mining analysis of strain SRS-W-1-2016 also revealed the presence of a plethora of secondary metabolite biosynthetic gene clusters likely facilitating resistance to antibiotics, biocides, and metals. Additionally, several gene homologous for the well-known oxygenase enzyme system were also identified, potentially functioning to generate energy via the breakdown of organic compounds and thus enabling the successful colonization and natural attenuation of contaminants by Arthrobacter sp. SRS-W-1-2016 at the SRS site.
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Gallois N, Alpha-Bazin B, Ortet P, Barakat M, Piette L, Long J, Berthomieu C, Armengaud J, Chapon V. Proteogenomic insights into uranium tolerance of a Chernobyl's Microbacterium bacterial isolate. J Proteomics 2017; 177:148-157. [PMID: 29223802 DOI: 10.1016/j.jprot.2017.11.021] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2017] [Revised: 11/15/2017] [Accepted: 11/27/2017] [Indexed: 10/18/2022]
Abstract
Microbacterium oleivorans A9 is a uranium-tolerant actinobacteria isolated from the trench T22 located near the Chernobyl nuclear power plant. This site is contaminated with different radionuclides including uranium. To observe the molecular changes at the proteome level occurring in this strain upon uranyl exposure and understand molecular mechanisms explaining its uranium tolerance, we established its draft genome and used this raw information to perform an in-depth proteogenomics study. High-throughput proteomics were performed on cells exposed or not to 10μM uranyl nitrate sampled at three previously identified phases of uranyl tolerance. We experimentally detected and annotated 1532 proteins and highlighted a total of 591 proteins for which abundances were significantly differing between conditions. Notably, proteins involved in phosphate and iron metabolisms show high dynamics. A large ratio of proteins more abundant upon uranyl stress, are distant from functionally-annotated known proteins, highlighting the lack of fundamental knowledge regarding numerous key molecular players from soil bacteria. BIOLOGICAL SIGNIFICANCE Microbacterium oleivorans A9 is an interesting environmental model to understand biological processes engaged in tolerance to radionuclides. Using an innovative proteogenomics approach, we explored its molecular mechanisms involved in uranium tolerance. We sequenced its genome, interpreted high-throughput proteomic data against a six-reading frame ORF database deduced from the draft genome, annotated the identified proteins and compared protein abundances from cells exposed or not to uranyl stress after a cascade search. These data show that a complex cellular response to uranium occurs in Microbacterium oleivorans A9, where one third of the experimental proteome is modified. In particular, the uranyl stress perturbed the phosphate and iron metabolic pathways. Furthermore, several transporters have been identified to be specifically associated to uranyl stress, paving the way to the development of biotechnological tools for uranium decontamination.
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Affiliation(s)
- Nicolas Gallois
- CEA, CNRS, Aix-Marseille Université, UMR 7265 Biologie Végétale et Microbiologie Environnementales, Laboratoire des Interactions Protéine Métal, 13108 Saint-Paul-lez-Durance, France
| | - Béatrice Alpha-Bazin
- Laboratoire Innovations technologiques pour la Détection et le Diagnostic (Li2D), Service de Pharmacologie et Immunoanalyse (SPI), CEA, INRA, F-30207 Bagnols sur Cèze, France
| | - Philippe Ortet
- CEA, CNRS, Aix-Marseille Université, UMR 7265 Biologie Végétale et Microbiologie Environnementales, Laboratoire d'écologie microbienne de la rhizosphère et d'environnements extrêmes, 13108 Saint-Paul-lez-Durance, France
| | - Mohamed Barakat
- CEA, CNRS, Aix-Marseille Université, UMR 7265 Biologie Végétale et Microbiologie Environnementales, Laboratoire d'écologie microbienne de la rhizosphère et d'environnements extrêmes, 13108 Saint-Paul-lez-Durance, France
| | - Laurie Piette
- CEA, CNRS, Aix-Marseille Université, UMR 7265 Biologie Végétale et Microbiologie Environnementales, Laboratoire des Interactions Protéine Métal, 13108 Saint-Paul-lez-Durance, France
| | - Justine Long
- CEA, CNRS, Aix-Marseille Université, UMR 7265 Biologie Végétale et Microbiologie Environnementales, Laboratoire d'écologie microbienne de la rhizosphère et d'environnements extrêmes, 13108 Saint-Paul-lez-Durance, France
| | - Catherine Berthomieu
- CEA, CNRS, Aix-Marseille Université, UMR 7265 Biologie Végétale et Microbiologie Environnementales, Laboratoire des Interactions Protéine Métal, 13108 Saint-Paul-lez-Durance, France
| | - Jean Armengaud
- Laboratoire Innovations technologiques pour la Détection et le Diagnostic (Li2D), Service de Pharmacologie et Immunoanalyse (SPI), CEA, INRA, F-30207 Bagnols sur Cèze, France.
| | - Virginie Chapon
- CEA, CNRS, Aix-Marseille Université, UMR 7265 Biologie Végétale et Microbiologie Environnementales, Laboratoire des Interactions Protéine Métal, 13108 Saint-Paul-lez-Durance, France
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Kinetics and pH-dependent uranium bioprecipitation by Shewanella putrefaciens under aerobic conditions. J Radioanal Nucl Chem 2017. [DOI: 10.1007/s10967-017-5261-7] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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