1
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Golzar-Ahmadi M, Bahaloo-Horeh N, Pourhossein F, Norouzi F, Schoenberger N, Hintersatz C, Chakankar M, Holuszko M, Kaksonen AH. Pathway to industrial application of heterotrophic organisms in critical metals recycling from e-waste. Biotechnol Adv 2024:108438. [PMID: 39218325 DOI: 10.1016/j.biotechadv.2024.108438] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/26/2024] [Revised: 07/30/2024] [Accepted: 08/27/2024] [Indexed: 09/04/2024]
Abstract
The transition to renewable energies and electric vehicles has triggered an unprecedented demand for metals. Sustainable development of these technologies relies on effectively managing the lifecycle of critical raw materials, including their responsible sourcing, efficient use, and recycling. Metal recycling from electronic waste (e-waste) is of paramount importance owing to ore exceeding amounts of critical elements and high toxicity of heavy metals and organic pollutants in e-waste to the natural ecosystem and human body. Heterotrophic microbes secrete numerous metal-binding biomolecules such as organic acids, amino acids, cyanide, siderophores, peptides, and biosurfactants which can be utilized for eco-friendly and profitable metal recycling. In this review paper, we presented a critical review of heterotrophic organisms in biomining, and current barriers hampering the industrial application of organic acid bioleaching and biocyanide leaching. We also discussed how these challenges can be surmounted with simple methods (e.g., culture media optimization, separation of microbial growth and metal extraction process) and state-of-the-art biological approaches (e.g., artificial microbial community, synthetic biology, metabolic engineering, advanced fermentation strategies, and biofilm engineering). Lastly, we showcased emerging technologies (e.g., artificially synthesized peptides, siderophores, and biosurfactants) derived from heterotrophs with the potential for inexpensive, low-impact, selective and advanced metal recovery from bioleaching solutions.
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Affiliation(s)
- Mehdi Golzar-Ahmadi
- Norman B. Keevil Institute of Mining Engineering, University of British Columbia, Vancouver, Canada
| | | | - Fatemeh Pourhossein
- Research Centre for Health & Life Sciences, Coventry University, Coventry, UK
| | - Forough Norouzi
- Norman B. Keevil Institute of Mining Engineering, University of British Columbia, Vancouver, Canada
| | - Nora Schoenberger
- Helmholtz Institute Freiberg for Resource Technology, Bautzner Landstrasse 400, Dresden, Germany
| | - Christian Hintersatz
- Helmholtz Institute Freiberg for Resource Technology, Bautzner Landstrasse 400, Dresden, Germany
| | - Mital Chakankar
- Helmholtz Institute Freiberg for Resource Technology, Bautzner Landstrasse 400, Dresden, Germany
| | - Maria Holuszko
- Norman B. Keevil Institute of Mining Engineering, University of British Columbia, Vancouver, Canada.
| | - Anna H Kaksonen
- Commonwealth Scientific and Industrial Research Organization (CSIRO) Environment, Western Australia, Australia.
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2
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Maass D, Boelens P, Bloss C, Claus G, Harter S, Günther D, Pollmann K, Lederer F. Identification of yttrium oxide-specific peptides for future recycling of rare earth elements from electronic scrap. Biotechnol Bioeng 2024; 121:1026-1035. [PMID: 38168837 DOI: 10.1002/bit.28629] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/02/2023] [Revised: 11/24/2023] [Accepted: 12/07/2023] [Indexed: 01/05/2024]
Abstract
Yttrium is a heavy rare earth element (REE) that acquires remarkable characteristics when it is in oxide form and doped with other REEs. Owing to these characteristics Y2 O3 can be used in the manufacture of several products. However, a supply deficit of this mineral is expected in the coming years, contributing to its price fluctuation. Thus, developing an efficient, cost-effective, and eco-friendly process to recover Y2 O3 from secondary sources has become necessary. In this study, we used phage surface display to screen peptides with high specificity for Y2 O3 particles. After three rounds of enrichment, a phage expressing the peptide TRTGCHVPRCNTLS (DM39) from the random pVIII phage peptide library Cys4 was found to bind specifically to Y2 O3 , being 531.6-fold more efficient than the wild-type phage. The phage DM39 contains two arginines in the polar side chains, which may have contributed to the interaction between the mineral targets. Immunofluorescence assays identified that the peptide's affinity was strong for Y2 O3 and negligible to LaPO4 :Ce3+ ,Tb3+ . The identification of a peptide with high specificity and affinity for Y2 O3 provides a potentially new strategic approach to recycle this type of material from secondary sources, especially from electronic scrap.
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Affiliation(s)
- Danielle Maass
- Departamento de Ciência e Tecnologia, Instituto de Ciência e Tecnologia, Universidade Federal de São Paulo, São José dos Campos, São Paulo, Brazil
| | | | | | - Gerda Claus
- Department of Biotechnology, Dresden, Germany
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3
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Liao CW, Yeh YW, El-Shall H, Gower LB. Biotechnology Approach to Mineral Separation via Phage Flotation Collectors. ACS APPLIED MATERIALS & INTERFACES 2022; 14:9795-9806. [PMID: 35143175 DOI: 10.1021/acsami.1c22595] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
A long-standing challenge in the mining industry is the separation of mineral particles that have similar surface characteristics for which surfactant-based flotation collectors cannot discriminate. In Florida phosphate mining, this problem occurs in the separation of dolomite [CaMg(CO3)2] contaminants from the desired francolite mineral {a fluorapatite [Ca5(PO4)3(F,OH)]}. In this study, phage display techniques were used to select phage clones with specific binding affinity to francolite, which were then tested in a benchtop bubbler flotation apparatus for their ability to selectively float francolite particles from mixtures containing dolomite. Contact angles measured with the captive bubble technique were used to examine changes in the surface character of the mineral particles upon adsorption of the phage, which showed that the most selective phage led to an increase in the contact angle from 16 to 50°. Although this is below the level considered hydrophobic, the correlation between contact angles and increased flotation recovery suggests that the phage coat proteins are behaving as efficient bioamphiphiles for the attachment of the particles to air bubbles, demonstrating a new and environmentally friendly type of biocollector system. The chemical and physical characteristics of the phage "tail" peptides were evaluated to offer an explanation for the specificity of phage binding. We conclude with a discussion of the potential benefits of this biotechnology approach, even for commodity industries such as mining or other particle separation systems, when costs and sustainability are considered.
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Affiliation(s)
- Chih-Wei Liao
- Department of Materials Science and Engineering, University of Florida, Gainesville, Florida 32611, United States
| | - Ya-Wen Yeh
- Department of Biomedical Engineering, University of Florida, Gainesville, Florida 32611, United States
| | - Hassan El-Shall
- Department of Materials Science and Engineering, University of Florida, Gainesville, Florida 32611, United States
- Particle Engineering Research Center, University of Florida, Gainesville, Florida 32611, United States
| | - Laurie B Gower
- Department of Materials Science and Engineering, University of Florida, Gainesville, Florida 32611, United States
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4
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Paczesny J, Bielec K. Application of Bacteriophages in Nanotechnology. NANOMATERIALS (BASEL, SWITZERLAND) 2020; 10:E1944. [PMID: 33003494 PMCID: PMC7601235 DOI: 10.3390/nano10101944] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/27/2020] [Revised: 09/25/2020] [Accepted: 09/27/2020] [Indexed: 02/06/2023]
Abstract
Bacteriophages (phages for short) are viruses, which have bacteria as hosts. The single phage body virion, is a colloidal particle, often possessing a dipole moment. As such, phages were used as perfectly monodisperse systems to study various physicochemical phenomena (e.g., transport or sedimentation in complex fluids), or in the material science (e.g., as scaffolds). Nevertheless, phages also execute the life cycle to multiply and produce progeny virions. Upon completion of the life cycle of phages, the host cells are usually destroyed. Natural abilities to bind to and kill bacteria were a starting point for utilizing phages in phage therapies (i.e., medical treatments that use phages to fight bacterial infections) and for bacteria detection. Numerous applications of phages became possible thanks to phage display-a method connecting the phenotype and genotype, which allows for selecting specific peptides or proteins with affinity to a given target. Here, we review the application of bacteriophages in nanoscience, emphasizing bio-related applications, material science, soft matter research, and physical chemistry.
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Affiliation(s)
- Jan Paczesny
- Institute of Physical Chemistry of the Polish Academy of Sciences, Kasprzaka 44/52, 01-224 Warsaw, Poland;
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5
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Azizi D, Larachi F, Garnier A, Lagüe P, Levasseur B. Sorption of aqueous amino acid species on sulphidic mineral surfaces—DFT study and insights on biosourced‐reagent mineral flotation. CAN J CHEM ENG 2020. [DOI: 10.1002/cjce.23841] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Affiliation(s)
- Dariush Azizi
- Department of Chemical Engineering Université Laval Québec Québec Canada
| | - Faïçal Larachi
- Department of Chemical Engineering Université Laval Québec Québec Canada
| | - Alain Garnier
- Department of Chemical Engineering Université Laval Québec Québec Canada
| | - Patrick Lagüe
- Department of Biochemistry, Microbiology & Bioinformatics Université Laval Québec Québec Canada
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6
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Sharma RS, Karmakar S, Kumar P, Mishra V. Application of filamentous phages in environment: A tectonic shift in the science and practice of ecorestoration. Ecol Evol 2019; 9:2263-2304. [PMID: 30847110 PMCID: PMC6392359 DOI: 10.1002/ece3.4743] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2017] [Revised: 08/25/2018] [Accepted: 10/30/2018] [Indexed: 02/06/2023] Open
Abstract
Theories in soil biology, such as plant-microbe interactions and microbial cooperation and antagonism, have guided the practice of ecological restoration (ecorestoration). Below-ground biodiversity (bacteria, fungi, invertebrates, etc.) influences the development of above-ground biodiversity (vegetation structure). The role of rhizosphere bacteria in plant growth has been largely investigated but the role of phages (bacterial viruses) has received a little attention. Below the ground, phages govern the ecology and evolution of microbial communities by affecting genetic diversity, host fitness, population dynamics, community composition, and nutrient cycling. However, few restoration efforts take into account the interactions between bacteria and phages. Unlike other phages, filamentous phages are highly specific, nonlethal, and influence host fitness in several ways, which make them useful as target bacterial inocula. Also, the ease with which filamentous phages can be genetically manipulated to express a desired peptide to track and control pathogens and contaminants makes them useful in biosensing. Based on ecology and biology of filamentous phages, we developed a hypothesis on the application of phages in environment to derive benefits at different levels of biological organization ranging from individual bacteria to ecosystem for ecorestoration. We examined the potential applications of filamentous phages in improving bacterial inocula to restore vegetation and to monitor changes in habitat during ecorestoration and, based on our results, recommend a reorientation of the existing framework of using microbial inocula for such restoration and monitoring. Because bacterial inocula and biomonitoring tools based on filamentous phages are likely to prove useful in developing cost-effective methods of restoring vegetation, we propose that filamentous phages be incorporated into nature-based restoration efforts and that the tripartite relationship between phages, bacteria, and plants be explored further. Possible impacts of filamentous phages on native microflora are discussed and future areas of research are suggested to preclude any potential risks associated with such an approach.
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Affiliation(s)
- Radhey Shyam Sharma
- Bioresources and Environmental Biotechnology Laboratory, Department of Environmental StudiesUniversity of DelhiDelhiIndia
| | - Swagata Karmakar
- Bioresources and Environmental Biotechnology Laboratory, Department of Environmental StudiesUniversity of DelhiDelhiIndia
| | - Pankaj Kumar
- Bioresources and Environmental Biotechnology Laboratory, Department of Environmental StudiesUniversity of DelhiDelhiIndia
| | - Vandana Mishra
- Bioresources and Environmental Biotechnology Laboratory, Department of Environmental StudiesUniversity of DelhiDelhiIndia
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7
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Braun R, Bachmann S, Schönberger N, Matys S, Lederer F, Pollmann K. Peptides as biosorbents – Promising tools for resource recovery. Res Microbiol 2018; 169:649-658. [DOI: 10.1016/j.resmic.2018.06.001] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/01/2018] [Revised: 05/25/2018] [Accepted: 06/06/2018] [Indexed: 11/28/2022]
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8
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Bio-recycling of metals: Recycling of technical products using biological applications. Biotechnol Adv 2018; 36:1048-1062. [PMID: 29555455 DOI: 10.1016/j.biotechadv.2018.03.006] [Citation(s) in RCA: 46] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2017] [Revised: 03/05/2018] [Accepted: 03/11/2018] [Indexed: 11/21/2022]
Abstract
The increasing demand of different essential metals as a consequence of the development of new technologies, especially in the so called "low carbon technologies" require the development of innovative technologies that enable an economic and environmentally friendly metal recovery from primary and secondary resources. There is serious concern that the demand of some critical elements might exceed the present supply within a few years, thus necessitating the development of novel strategies and technologies to meet the requirements of industry and society. Besides an improvement of exploitation and processing of ores, the more urgent issue of recycling of strategic metals has to be enforced. However, current recycling rates are very low due to the increasing complexity of products and the low content of certain critical elements, thus hindering an economic metal recovery. On the other hand, increasing environmental consciousness as well as limitations of classical methods require innovative recycling methodologies in order to enable a circular economy. Modern biotechnologies can contribute to solve some of the problems related to metal recycling. These approaches use natural properties of organisms, bio-compounds, and biomolecules to interact with minerals, materials, metals, or metal ions such as surface attachment, mineral dissolution, transformation, and metal complexation. Further, modern genetic approaches, e.g. realized by synthetic biology, enable the smart design of new chemicals. The article presents some recent developments in the fields of bioleaching, biosorption, bioreduction, and bioflotation, and their use for metal recovery from different waste materials. Currently only few of these developments are commercialized. Major limitations are high costs in comparison to conventional methods and low element selectivity. The article discusses future trends to overcome these barriers. Especially interdisciplinary approaches, the combination of different technologies, the inclusion of modern genetic methods, as well as the consideration of existing, yet unexplored natural resources will push innovations in these fields.
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9
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Cetinel S, Shen WZ, Aminpour M, Bhomkar P, Wang F, Borujeny ER, Sharma K, Nayebi N, Montemagno C. Biomining of MoS 2 with Peptide-based Smart Biomaterials. Sci Rep 2018; 8:3374. [PMID: 29463859 PMCID: PMC5820330 DOI: 10.1038/s41598-018-21692-4] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2017] [Accepted: 02/06/2018] [Indexed: 11/09/2022] Open
Abstract
Biomining of valuable metals using a target specific approach promises increased purification yields and decreased cost. Target specificity can be implemented with proteins/peptides, the biological molecules, responsible from various structural and functional pathways in living organisms by virtue of their specific recognition abilities towards both organic and inorganic materials. Phage display libraries are used to identify peptide biomolecules capable of specifically recognizing and binding organic/inorganic materials of interest with high affinities. Using combinatorial approaches, these molecular recognition elements can be converted into smart hybrid biomaterials and harnessed for biotechnological applications. Herein, we used a commercially available phage-display library to identify peptides with specific binding affinity to molybdenite (MoS2) and used them to decorate magnetic NPs. These peptide-coupled NPs could capture MoS2 under a variety of environmental conditions. The same batch of NPs could be re-used multiple times to harvest MoS2, clearly suggesting that this hybrid material was robust and recyclable. The advantages of this smart hybrid biomaterial with respect to its MoS2-binding specificity, robust performance under environmentally challenging conditions and its recyclability suggests its potential application in harvesting MoS2 from tailing ponds and downstream mining processes.
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Affiliation(s)
- Sibel Cetinel
- Ingenuity Lab, 11421 Saskatchewan Drive, T6G 2M9, Edmonton, AB, Canada.,Department of Chemical and Materials Engineering, University of Alberta, T6G 2V4, Edmonton, AB, Canada
| | - Wei-Zheng Shen
- Ingenuity Lab, 11421 Saskatchewan Drive, T6G 2M9, Edmonton, AB, Canada.,Department of Chemical and Materials Engineering, University of Alberta, T6G 2V4, Edmonton, AB, Canada
| | - Maral Aminpour
- Ingenuity Lab, 11421 Saskatchewan Drive, T6G 2M9, Edmonton, AB, Canada.,Department of Chemical and Materials Engineering, University of Alberta, T6G 2V4, Edmonton, AB, Canada
| | - Prasanna Bhomkar
- Ingenuity Lab, 11421 Saskatchewan Drive, T6G 2M9, Edmonton, AB, Canada.,National Institute of Nanotechnology (NINT), University of Alberta, T6G 2M9, Edmonton, AB, Canada
| | - Feng Wang
- Ingenuity Lab, 11421 Saskatchewan Drive, T6G 2M9, Edmonton, AB, Canada.,National Institute of Nanotechnology (NINT), University of Alberta, T6G 2M9, Edmonton, AB, Canada
| | - Elham Rafie Borujeny
- Ingenuity Lab, 11421 Saskatchewan Drive, T6G 2M9, Edmonton, AB, Canada.,Department of Chemical and Materials Engineering, University of Alberta, T6G 2V4, Edmonton, AB, Canada
| | - Kumakshi Sharma
- Ingenuity Lab, 11421 Saskatchewan Drive, T6G 2M9, Edmonton, AB, Canada.,Department of Chemical and Materials Engineering, University of Alberta, T6G 2V4, Edmonton, AB, Canada
| | - Niloofar Nayebi
- Ingenuity Lab, 11421 Saskatchewan Drive, T6G 2M9, Edmonton, AB, Canada.,Department of Chemical and Materials Engineering, University of Alberta, T6G 2V4, Edmonton, AB, Canada
| | - Carlo Montemagno
- Ingenuity Lab, 11421 Saskatchewan Drive, T6G 2M9, Edmonton, AB, Canada. .,Department of Chemical and Materials Engineering, University of Alberta, T6G 2V4, Edmonton, AB, Canada. .,Southern Illinois University, 62901, Carbondale, IL, USA.
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10
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Nayebi N, Cetinel S, Omar SI, Tuszynski JA, Montemagno C. A computational method for selecting short peptide sequences for inorganic material binding. Proteins 2017; 85:2024-2035. [PMID: 28734030 DOI: 10.1002/prot.25356] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2017] [Revised: 07/18/2017] [Accepted: 07/21/2017] [Indexed: 12/14/2022]
Abstract
Discovering or designing biofunctionalized materials with improved quality highly depends on the ability to manipulate and control the peptide-inorganic interaction. Various peptides can be used as assemblers, synthesizers, and linkers in the material syntheses. In another context, specific and selective material-binding peptides can be used as recognition blocks in mining applications. In this study, we propose a new in silico method to select short 4-mer peptides with high affinity and selectivity for a given target material. This method is illustrated with the calcite (104) surface as an example, which has been experimentally validated. A calcite binding peptide can play an important role in our understanding of biomineralization. A practical aspect of calcite is a need for it to be selectively depressed in mining sites.
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Affiliation(s)
- Niloofar Nayebi
- Ingenuity Lab, University of Alberta, Edmonton, Alberta, Canada.,Department of Physics, University of Alberta, Edmonton, Alberta, Canada
| | - Sibel Cetinel
- Ingenuity Lab, University of Alberta, Edmonton, Alberta, Canada.,Department of Chemical and Material Engineering, University of Alberta, Edmonton, Alberta, Canada
| | - Sara Ibrahim Omar
- Department of Oncology, University of Alberta, Edmonton, Alberta, Canada
| | - Jack A Tuszynski
- Department of Physics, University of Alberta, Edmonton, Alberta, Canada.,Department of Oncology, University of Alberta, Edmonton, Alberta, Canada
| | - Carlo Montemagno
- Ingenuity Lab, University of Alberta, Edmonton, Alberta, Canada.,Department of Chemical and Material Engineering, University of Alberta, Edmonton, Alberta, Canada
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11
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Lederer FL, Curtis SB, Bachmann S, Dunbar W, MacGillivray RT. Identification of lanthanum-specific peptides for future recycling of rare earth elements from compact fluorescent lamps. Biotechnol Bioeng 2017; 114:1016-1024. [DOI: 10.1002/bit.26240] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2016] [Revised: 12/09/2016] [Accepted: 12/14/2016] [Indexed: 01/05/2023]
Affiliation(s)
- Franziska L. Lederer
- Centre for Blood Research and Department of Biochemistry and Molecular Biology; University of British Columbia; Vancouver BC Canada
- Department of Processing; Helmholtz-Zentrum Dresden-Rossendorf; Helmholtz Institute Freiberg for Resource Technology; Bautzner Landstrasse 400 Dresden 01328 Germany
| | - Susan B. Curtis
- Norman B. Keevil Institute of Mining Engineering; University of British Columbia; Vancouver BC Canada
| | - Stefanie Bachmann
- Department of Processing; Helmholtz-Zentrum Dresden-Rossendorf; Helmholtz Institute Freiberg for Resource Technology; Bautzner Landstrasse 400 Dresden 01328 Germany
| | - W.Scott Dunbar
- Norman B. Keevil Institute of Mining Engineering; University of British Columbia; Vancouver BC Canada
| | - Ross T.A. MacGillivray
- Centre for Blood Research and Department of Biochemistry and Molecular Biology; University of British Columbia; Vancouver BC Canada
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12
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Biotechnology and the Mine of Tomorrow. Trends Biotechnol 2017; 35:79-89. [DOI: 10.1016/j.tibtech.2016.07.004] [Citation(s) in RCA: 39] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2016] [Revised: 06/29/2016] [Accepted: 07/13/2016] [Indexed: 01/21/2023]
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13
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Curtis S, Lederer FL, Dunbar WS, MacGillivray RT. Identification of mineral-binding peptides that discriminate between chalcopyrite and enargite. Biotechnol Bioeng 2016; 114:998-1005. [DOI: 10.1002/bit.26218] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2016] [Revised: 11/07/2016] [Accepted: 11/07/2016] [Indexed: 11/08/2022]
Affiliation(s)
- Susan Curtis
- Norman B. Keevil Institute of Mining Engineering; University of British Columbia; Vancouver BC Canada
| | - Franziska L. Lederer
- Helmholtz Institute Freiberg for Resource Technology; Department of Processing; Helmholtz-Zentrum Dresden-Rossendorf Dresden Germany
- Department of Biochemistry and Molecular Biology and Centre for Blood Research; University of British Columbia; Vancouver BC Canada
| | - W. Scott Dunbar
- Norman B. Keevil Institute of Mining Engineering; University of British Columbia; Vancouver BC Canada
| | - Ross T.A. MacGillivray
- Department of Biochemistry and Molecular Biology and Centre for Blood Research; University of British Columbia; Vancouver BC Canada
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14
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Novel Biotechnological Approaches for the Recovery of Metals from Primary and Secondary Resources. MINERALS 2016. [DOI: 10.3390/min6020054] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
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15
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Henry KA, Arbabi-Ghahroudi M, Scott JK. Beyond phage display: non-traditional applications of the filamentous bacteriophage as a vaccine carrier, therapeutic biologic, and bioconjugation scaffold. Front Microbiol 2015; 6:755. [PMID: 26300850 PMCID: PMC4523942 DOI: 10.3389/fmicb.2015.00755] [Citation(s) in RCA: 61] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2015] [Accepted: 07/10/2015] [Indexed: 12/23/2022] Open
Abstract
For the past 25 years, phage display technology has been an invaluable tool for studies of protein-protein interactions. However, the inherent biological, biochemical, and biophysical properties of filamentous bacteriophage, as well as the ease of its genetic manipulation, also make it an attractive platform outside the traditional phage display canon. This review will focus on the unique properties of the filamentous bacteriophage and highlight its diverse applications in current research. Particular emphases are placed on: (i) the advantages of the phage as a vaccine carrier, including its high immunogenicity, relative antigenic simplicity and ability to activate a range of immune responses, (ii) the phage's potential as a prophylactic and therapeutic agent for infectious and chronic diseases, (iii) the regularity of the virion major coat protein lattice, which enables a variety of bioconjugation and surface chemistry applications, particularly in nanomaterials, and (iv) the phage's large population sizes and fast generation times, which make it an excellent model system for directed protein evolution. Despite their ubiquity in the biosphere, metagenomics work is just beginning to explore the ecology of filamentous and non-filamentous phage, and their role in the evolution of bacterial populations. Thus, the filamentous phage represents a robust, inexpensive, and versatile microorganism whose bioengineering applications continue to expand in new directions, although its limitations in some spheres impose obstacles to its widespread adoption and use.
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Affiliation(s)
- Kevin A. Henry
- Human Health Therapeutics Portfolio, National Research Council Canada, OttawaON, Canada
| | - Mehdi Arbabi-Ghahroudi
- Human Health Therapeutics Portfolio, National Research Council Canada, OttawaON, Canada
- School of Environmental Sciences, University of Guelph, GuelphON, Canada
- Department of Biology, Carleton University, OttawaON, Canada
| | - Jamie K. Scott
- Department of Molecular Biology and Biochemistry, Simon Fraser University, Burnaby, BCCanada
- Faculty of Health Sciences, Simon Fraser University, BurnabyBC, Canada
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16
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Thermodynamics of Engineered Gold Binding Peptides: Establishing the Structure–Activity Relationships. Biomacromolecules 2014; 15:2369-77. [DOI: 10.1021/bm4019006] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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17
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Seker UOS, Sharma VK, Akhavan S, Demir HV. Engineered peptides for nanohybrid assemblies. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2014; 30:2137-2143. [PMID: 24494655 DOI: 10.1021/la500160p] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
Inspired by biological material synthesis, synthetic biomineralization peptides have been screened through a laboratory evolution using biocombinatorial techniques. In this study, using the fine examples in nature, silica binding peptides and gold binding peptides were fused together to form a hybrid peptide. We designed fusion peptides with different gold binding and silica binding parts. First, we have tested the binding capability of the fusion peptides using quartz crystal microbalance on gold surface and silica surface. Second, S1G1 hybrid peptide enabled assembly of gold nanoparticles on a silica surface was achieved. Finally, nanomaterial synthesis ability of the S1G1 peptide was presented by the formation of a silica film on a gold surface. In this study, we are presenting a hybrid peptide tool for nanohybrid assembly as a promising route for nanotechnology applications.
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Affiliation(s)
- Urartu Ozgur Safak Seker
- Luminous! Center of Excellence for Semiconductor Lighting and Displays, School of Electrical and Electronic Engineering, School of Physical and Mathematical Sciences, Nanyang Technological University , Nanyang Avenue, Singapore 639798, Singapore
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18
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Curtis SB, Dunbar WS, MacGillivray RTA. Bacteriophage-induced aggregation of oil sands tailings. Biotechnol Bioeng 2012; 110:803-11. [PMID: 23055243 DOI: 10.1002/bit.24745] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/04/2012] [Revised: 09/12/2012] [Accepted: 09/24/2012] [Indexed: 11/08/2022]
Abstract
Very large quantities of tailings are produced as a result of processing oil sands. After the sand particles settle out, a dense stable mixture of clay, silt, water with residual bitumen, salts, and organics called mature fine tailings (MFT) can remain in suspension for decades. Research into developing methods that would allow consolidation and sedimentation of the suspended particles is ongoing. We have studied the ability of a filamentous bacteriophage (called VP12 bearing the peptide DSQKTNPS at the N-terminus of the major coat protein pVIII) to aggregate MFT. To understand the biophysical basis of the aggregation, phage-induced aggregation of diluted MFT was measured at room temperature under varying conditions of pH, salt, detergent. Phage at concentrations of 5.0 × 10(11)/mL to 10(12)/mL induced rapid settling of the diluted MFT. The addition of sodium chloride (10 mM) lowered the concentration of phage required to induce aggregation. Since the non-ionic detergents Triton-X 100 and Tween-20, and the ionic detergent sodium deoxycholate had little effect, hydrophobic interactions do not appear to be a major contributor to the phage-induced aggregation of MFT. However, aggregation was prevented at pH values higher than 9.0 suggesting that positively charged amino acid residues are required for MFT aggregation by phage. Genetic engineering of the pVIII peptide sequence indicated that hydrogen bonding also contributes to phage-induced aggregation. In addition, replacing the basic residue lysine with an alanine in the recombinant peptide of VP12 completely prevented phage-induced aggregation. Three other phage displaying different amino acid sequences but all containing a lysine in the same position had variable aggregation efficiencies, ranging from no aggregation to rapid aggregation. We conclude that not only are the functional groups of the amino acids important, but the conformation that is adopted by the variable pVIII peptide is also important for phage-induced MFT aggregation.
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Affiliation(s)
- Susan B Curtis
- Norman B. Keevil Institute of Mining Engineering, University of British Columbia, Vancouver, British Columbia, Canada.
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Singh A, Arutyunov D, Szymanski CM, Evoy S. Bacteriophage based probes for pathogen detection. Analyst 2012; 137:3405-21. [PMID: 22724121 DOI: 10.1039/c2an35371g] [Citation(s) in RCA: 107] [Impact Index Per Article: 8.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Rapid and specific detection of pathogenic bacteria is important for the proper treatment, containment and prevention of human, animal and plant diseases. Identifying unique biological probes to achieve a high degree of specificity and minimize false positives has therefore garnered much interest in recent years. Bacteriophages are obligate intracellular parasites that subvert bacterial cell resources for their own multiplication and production of disseminative new virions, which repeat the cycle by binding specifically to the host surface receptors and injecting genetic material into the bacterial cells. The precision of host recognition in phages is imparted by the receptor binding proteins (RBPs) that are often located in the tail-spike or tail fiber protein assemblies of the virions. Phage host recognition specificity has been traditionally exploited for bacterial typing using laborious and time consuming bacterial growth assays. At the same time this feature makes phage virions or RBPs an excellent choice for the development of probes capable of selectively capturing bacteria on solid surfaces with subsequent quick and automatic detection of the binding event. This review focuses on the description of pathogen detection approaches based on immobilized phage virions as well as pure recombinant RBPs. Specific advantages of RBP-based molecular probes are also discussed.
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Affiliation(s)
- Amit Singh
- Department of Electrical and Computer Engineering, University of Alberta, Edmonton, AB T6G 2V4, Canada.
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Curtis SB, MacGillivray RTA, Dunbar WS. Effects of bacteriophage on the surface properties of chalcopyrite (CuFeS₂), and phage-induced flocculation of chalcopyrite, glacial till, and oil sands tailings. Biotechnol Bioeng 2011; 108:1579-90. [PMID: 21337331 DOI: 10.1002/bit.23097] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2010] [Revised: 01/27/2011] [Accepted: 02/04/2011] [Indexed: 11/08/2022]
Abstract
The binding of mineral-specific phage to the surface of chalcopyrite (CuFeS(2)) was investigated by using X-ray photoelectron spectroscopy and scanning Auger microscopy. These studies confirmed the elemental composition of the minerals and confirmed that bacteriophage were bound to the mineral surface. These techniques also revealed that the phage were not forming a continuous film over the entire surface of the CuFeS(2) particles, but selectively bound to the slimes coating the particles. In addition, the effect of mineral-specific phage binding to the surface of CuFeS(2) was investigated using induction time and zeta potential measurements. Bacteriophage (10(12) /mL) increased the induction time (contact time resulting in 50% particle attachment to a bubble) from ∼7.5 to ∼17 ms and reversed the zeta potential from negative to positive. In the course of performing the zeta potential measurements on particles <45 µm in diameter, phage-induced aggregation was observed. The mechanism of aggregation was explored using a range of pH (3-11) and cation concentrations. Aggregation was observed across the tested pH range and with all cations. Phage also mediated aggregation of glacial till and oil sands tailings in a dose-dependent and particle size-dependent manner. We conclude that binding of bacteriophage to the surface of CuFeS(2) does alter its surface properties.
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Affiliation(s)
- Susan B Curtis
- Norman B. Keevil Institute of Mining Engineering, 517-6350 Stores Road, Vancouver, BC, Canada V6T1Z4
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Maximizing filamentous phage yield during computer-controlled fermentation. Bioprocess Biosyst Eng 2009; 32:773-9. [PMID: 19221805 DOI: 10.1007/s00449-009-0303-3] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2008] [Accepted: 01/29/2009] [Indexed: 10/21/2022]
Abstract
Filamentous phage such as M13 and fd consist of a circular, single-stranded DNA molecule surrounded by several different coat proteins. These phages have been used extensively as vectors in phage display where one of the phage coat proteins is genetically engineered to contain a unique peptide surface loop. Through these peptide sequences, a phage collection can be screened for individual phage that binds to different macromolecules or small organic and inorganic molecules. Here, we use computer-controlled bioreactors to produce large quantities of filamentous phage in the bacterial host Escherichia coli. By measuring phage yield and bacterial growth while changing the growth medium, pH and dissolved oxygen concentration, we found that the optimal conditions for phage yield were NZY medium with pH maintained at 7.4, the dO(2) held at 100% and agitation at 800 rpm. These computer-controlled fermentations result in a minimum of a tenfold higher filamentous phage production compared to standard shake flask conditions.
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