1
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Rickert SC, Luo SXL, Bahr J, Kohn J, Xue M, Hansen A, Grimme S, Jester SS, Swager TM, Höger S. Flexible Phenanthracene Nanotubes for Explosive Detection. J Am Chem Soc 2024; 146:2986-2996. [PMID: 38263586 DOI: 10.1021/jacs.3c08131] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2024]
Abstract
Phenanthracene nanotubes with arylene-ethynylene-butadiynylene rims and phenanthracene walls are synthesized in a modular bottom-up approach. One of the rims carries hexadecyloxy side chains, mediating the affinity to highly oriented pyrolytic graphite. Molecular dynamics simulations show that the nanotubes are much more flexible than their structural formulas suggest: In 12, the phenanthracene units act as hinges that flip the two macrocycles relative to each other to one of two possible sites, as quantum mechanical models suggest and scanning tunneling microscopy investigations prove. Unexpectedly, both theory and experiment show for 13 that the three phenanthracene hinges are deflected from the upright position, accompanied by a deformation of both macrocycles from their idealized sturdy macroporous geometry. This flexibility together with their affinity to carbon-rich substrates allows for an efficient host-guest chemistry at the solid/gas interface opening the potential for applications in single-walled carbon nanotube-based sensing, and the applicability to build new sensors for the detection of 2,4,6-trinitrotoluene via nitroaromatic markers is shown.
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Affiliation(s)
- Simon C Rickert
- Kekulé-Institut für Organische Chemie und Biochemie der Universität Bonn, Gerhard-Domagk-Str. 1, 53121 Bonn, Germany
| | - Shao-Xiong Lennon Luo
- Department of Chemistry and Institute for Soldier Nanotechnologies, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - Joshua Bahr
- Kekulé-Institut für Organische Chemie und Biochemie der Universität Bonn, Gerhard-Domagk-Str. 1, 53121 Bonn, Germany
| | - Julia Kohn
- Mulliken Center for Theoretical Chemistry, University of Bonn, Beringstr. 4, 53115 Bonn, Germany
| | - Mantian Xue
- Department of Electrical Engineering & Computer Science, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - Andreas Hansen
- Mulliken Center for Theoretical Chemistry, University of Bonn, Beringstr. 4, 53115 Bonn, Germany
| | - Stefan Grimme
- Mulliken Center for Theoretical Chemistry, University of Bonn, Beringstr. 4, 53115 Bonn, Germany
| | - Stefan-S Jester
- Kekulé-Institut für Organische Chemie und Biochemie der Universität Bonn, Gerhard-Domagk-Str. 1, 53121 Bonn, Germany
| | - Timothy M Swager
- Department of Chemistry and Institute for Soldier Nanotechnologies, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - Sigurd Höger
- Kekulé-Institut für Organische Chemie und Biochemie der Universität Bonn, Gerhard-Domagk-Str. 1, 53121 Bonn, Germany
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2
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Asemoloye MD, Marchisio MA. Allosteric-Regulation-Based DNA Circuits in Saccharomyces cerevisiae to Detect Organic Acids and Monitor Hydrocarbon Metabolism In Vitro. Methods Mol Biol 2024; 2760:77-94. [PMID: 38468083 DOI: 10.1007/978-1-0716-3658-9_5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/13/2024]
Abstract
We show the engineering of prokaryotic-transcription-factor-based biosensing devices in Saccharomyces cerevisiae cells for an in vitro detection of common hydrocarbon intermediates/metabolites and potentially, for monitoring of the metabolism of carbon compounds. We employed the bacterial receptor proteins MarR (multiple antibiotic-resistant receptor) and PdhR (pyruvate dehydrogenase-complex regulator) to detect benzoate/salicylate and pyruvate, respectively. The yeast-enhanced green fluorescence protein (yEGFP) was adopted as an output signal. Indeed, the engineered yeast strains showed a strong and dynamic fluorescent output signal in the presence of the input chemicals ranging from 2 fM up to 5 mM. In addition, we describe how to make use of these strains to assess over time the metabolism of complex hydrocarbon compounds due to the hydrocarbon-degrading fungus Trichoderma harzianum (KY488463).
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3
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Dranseike D, Cui Y, Ling AS, Donat F, Bernhard S, Bernero M, Areeckal A, Qin XH, Oakey JS, Dillenburger B, Studart AR, Tibbitt MW. Dual carbon sequestration with photosynthetic living materials. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2023:2023.12.22.572991. [PMID: 38187760 PMCID: PMC10769394 DOI: 10.1101/2023.12.22.572991] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/09/2024]
Abstract
Natural ecosystems offer efficient pathways for carbon sequestration, serving as a resilient approach to remove CO2 from the atmosphere with minimal environmental impact. However, the control of living systems outside of their native environments is often challenging. Here, we engineered a photosynthetic living material for dual CO2 sequestration by immobilizing photosynthetic microorganisms within a printable polymeric network. The carbon concentrating mechanism of the cyanobacteria enabled accumulation of CO2 within the cell, resulting in biomass production. Additionally, the metabolic production of OH- ions in the surrounding medium created an environment for the formation of insoluble carbonates via microbially-induced calcium carbonate precipitation (MICP). Digital design and fabrication of the living material ensured sufficient access to light and nutrient transport of the encapsulated cyanobacteria, which were essential for long-term viability (more than one year) as well as efficient photosynthesis and carbon sequestration. The photosynthetic living materials sequestered approximately 2.5 mg of CO2 per gram of hydrogel material over 30 days via dual carbon sequestration, with 2.2 ± 0.9 mg stored as insoluble carbonates. Over an extended incubation period of 400 days, the living materials sequestered 26 ± 7 mg of CO2 per gram of hydrogel material in the form of stable minerals. These findings highlight the potential of photosynthetic living materials for scalable carbon sequestration, carbon-neutral infrastructure, and green building materials. The simplicity of maintenance, coupled with its scalability nature, suggests broad applications of photosynthetic living materials as a complementary strategy to mitigate CO2 emissions.
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Affiliation(s)
- Dalia Dranseike
- Macromolecular Engineering Laboratory, Department of Mechanical and Process Engineering, ETH Zurich, Zurich, CH
| | - Yifan Cui
- Macromolecular Engineering Laboratory, Department of Mechanical and Process Engineering, ETH Zurich, Zurich, CH
| | - Andrea S. Ling
- Digital Building Technologies, Department of Architecture, ETH Zurich, Zurich, CH
| | - Felix Donat
- Laboratory of Energy Science and Engineering, Department of Mechanical and Process Engineering, ETH Zurich, Zurich, CH
| | - Stéphane Bernhard
- Macromolecular Engineering Laboratory, Department of Mechanical and Process Engineering, ETH Zurich, Zurich, CH
| | - Margherita Bernero
- Institute for Biomechanics, Department of Health Sciences and Technology, ETH Zurich, Zurich, CH
| | - Akhil Areeckal
- Macromolecular Engineering Laboratory, Department of Mechanical and Process Engineering, ETH Zurich, Zurich, CH
| | - Xiao-Hua Qin
- Institute for Biomechanics, Department of Health Sciences and Technology, ETH Zurich, Zurich, CH
| | - John S. Oakey
- Department of Chemical and Biomedical Engineering, University of Wyoming, Laramie, Wyoming, US
| | | | - André R. Studart
- Complex Materials, Department of Materials, ETH Zurich, Zurich, CH
| | - Mark W. Tibbitt
- Macromolecular Engineering Laboratory, Department of Mechanical and Process Engineering, ETH Zurich, Zurich, CH
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4
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Tanniche I, Behkam B. Engineered live bacteria as disease detection and diagnosis tools. J Biol Eng 2023; 17:65. [PMID: 37875910 PMCID: PMC10598922 DOI: 10.1186/s13036-023-00379-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2023] [Accepted: 09/18/2023] [Indexed: 10/26/2023] Open
Abstract
Sensitive and minimally invasive medical diagnostics are essential to the early detection of diseases, monitoring their progression and response to treatment. Engineered bacteria as live sensors are being developed as a new class of biosensors for sensitive, robust, noninvasive, and in situ detection of disease onset at low cost. Akin to microrobotic systems, a combination of simple genetic rules, basic logic gates, and complex synthetic bioengineering principles are used to program bacterial vectors as living machines for detecting biomarkers of diseases, some of which cannot be detected with other sensing technologies. Bacterial whole-cell biosensors (BWCBs) can have wide-ranging functions from detection only, to detection and recording, to closed-loop detection-regulated treatment. In this review article, we first summarize the unique benefits of bacteria as living sensors. We then describe the different bacteria-based diagnosis approaches and provide examples of diagnosing various diseases and disorders. We also discuss the use of bacteria as imaging vectors for disease detection and image-guided surgery. We conclude by highlighting current challenges and opportunities for further exploration toward clinical translation of these bacteria-based systems.
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Affiliation(s)
- Imen Tanniche
- Department of Mechanical Engineering, Virginia Tech, Blacksburg, VA, 24061, USA
| | - Bahareh Behkam
- Department of Mechanical Engineering, Virginia Tech, Blacksburg, VA, 24061, USA.
- School of Biomedical Engineered and Sciences, Virginia Tech, Blacksburg, VA, 24061, USA.
- Center for Engineered Health, Institute for Critical Technology and Applied Science, Virginia Tech, Blacksburg, VA, 24061, USA.
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Naha A, Antony S, Nath S, Sharma D, Mishra A, Biju DT, Madhavan A, Binod P, Varjani S, Sindhu R. A hypothetical model of multi-layered cost-effective wastewater treatment plant integrating microbial fuel cell and nanofiltration technology: A comprehensive review on wastewater treatment and sustainable remediation. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2023; 323:121274. [PMID: 36804140 DOI: 10.1016/j.envpol.2023.121274] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/05/2023] [Revised: 02/05/2023] [Accepted: 02/10/2023] [Indexed: 06/18/2023]
Abstract
Wastewater management has emerged as an uprising concern that demands immediate attention from environmentalists worldwide. Indiscriminate and irrational release of industrial and poultry wastes, sewage, pharmaceuticals, mining, pesticides, fertilizers, dyes and radioactive wastes, contribute immensely to water pollution. This has led to the aggravation of critical health concerns as evident from the uprising trends of antimicrobial resistance, and the presence of xenobiotics and pollutant traces in humans and animals due to the process of biomagnification. Therefore, the development of reliable, affordable and sustainable technologies for the supply of fresh water is the need of the hour. Conventional wastewater treatment often involves physical, chemical, and biological processes to remove solids from the effluent, including colloids, organic matter, nutrients, and soluble pollutants (metals, organics). Synthetic biology has been explored in recent years, incorporating both biological and engineering concepts to refine existing wastewater treatment technologies. In addition to outlining the benefits and drawbacks of the current technologies, this review addresses novel wastewater treatment techniques, especially those using dedicated rational design and engineering of organisms and their constituent parts. Furthermore, the review hypothesizes designing a multi-bedded wastewater treatment plant that is highly cost-efficient, sustainable and requires easy installation and handling. The novel setup envisages removing all the major wastewater pollutants, providing water fit for household, irrigation and storage purposes.
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Affiliation(s)
- Aniket Naha
- Pushpagiri Research Centre, Pushpagiri Institute of Medical Sciences and Research Centre, Thriuvalla-689 101, Kerala, India
| | - Sherly Antony
- Department of Microbiology, Pushpagiri Institute of Medical Sciences and Research Centre, Thiruvalla-689 101, Kerala, India
| | - Soumitra Nath
- Department of Biotechnology, Gurucharan College, Silchar-788004, India
| | - Dhrubjyoti Sharma
- Biological Engineering, Indian Institute of Technology, Gandhinagar, Palaj, Gandhinagar, 382 355 India
| | - Anamika Mishra
- Department of Biotechnology, Vellore Institute of Technology, Vellore, 632 014, India
| | - Devika T Biju
- Department of Biomedical Science, University of Salford, England, M5 4WT, United Kingdom
| | - Aravind Madhavan
- School of Biotechnology, Amrita Vishwa Vidyapeetham, Amritapuri, Kollam-690525, Kerala, India
| | - Parameswaran Binod
- Microbial Processes and Technology Division, CSIR-National Institute for Interdisciplinary Science and Technology (CSIR-NIIST), Thiruvananthapuram 695 019, Kerala, India; Academy of Scientific and Innovative Research (AcSIR), Ghaziabad - 201 002, India
| | - Sunita Varjani
- Gujarat Pollution Control Board, Gandhinagar, Gujarat 382 010, India
| | - Raveendran Sindhu
- Department of Food Technology, T K M Institute of Technology, Kollam-691 505, Kerala, India.
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6
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Kobras CM, Morris SM, Mascher T, Gebhard S. Application of a Bacillus subtilis Whole-Cell Biosensor (P liaI-lux) for the Identification of Cell Wall Active Antibacterial Compounds. Methods Mol Biol 2023; 2601:259-270. [PMID: 36445588 DOI: 10.1007/978-1-0716-2855-3_13] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
Whole-cell biosensors, based on the visualization of a reporter strain's response to a particular stimulus, are a robust and cost-effective means to monitor defined environmental conditions or the presence of chemical compounds. One specific field in which such biosensors are frequently applied is drug discovery, that is, the screening of large numbers of bacterial or fungal strains for the production of antimicrobial compounds. Here, we describe the application of a luminescence-based Bacillus subtilis biosensor for the discovery of cell wall active substances; this article is an update to our previous chapter published in 2017. The system is based on the well-characterized promoter PliaI, which is induced in response to a wide range of conditions that cause cell envelope stress, particularly antibiotics that interfere with the membrane-anchored steps of cell wall biosynthesis. A simple "spot-on-lawn" assay, where colonies of potential producer strains are grown directly on a lawn of the reporter strain, allows for quantitative and time-resolved detection of antimicrobial compounds. Due to the very low technical demands of this procedure, we expect it to be easily applicable to a large variety of candidate producer strains and growth conditions.
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Affiliation(s)
- Carolin Martina Kobras
- Life Sciences Department, Milner Centre for Evolution, University of Bath, Bath, UK
- The Florey Institute for Host-Pathogen Interactions, School of Biosciences, University of Sheffield, Sheffield, UK
| | - Sali May Morris
- Life Sciences Department, Milner Centre for Evolution, University of Bath, Bath, UK
| | - Thorsten Mascher
- Institut für Mikrobiologie, Technische Universität Dresden, Dresden, Germany
| | - Susanne Gebhard
- Life Sciences Department, Milner Centre for Evolution, University of Bath, Bath, UK.
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7
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Smutok O, Katz E. Biosensors: Electrochemical Devices-General Concepts and Performance. BIOSENSORS 2022; 13:44. [PMID: 36671878 PMCID: PMC9855974 DOI: 10.3390/bios13010044] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/07/2022] [Revised: 12/23/2022] [Accepted: 12/26/2022] [Indexed: 06/17/2023]
Abstract
This review provides a general overview of different biosensors, mostly concentrating on electrochemical analytical devices, while briefly explaining general approaches to various kinds of biosensors, their construction and performance. A discussion on how all required components of biosensors are brought together to perform analytical work is offered. Different signal-transducing mechanisms are discussed, particularly addressing the immobilization of biomolecular components in the vicinity of a transducer interface and their functional integration with electronic devices. The review is mostly addressing general concepts of the biosensing processes rather than specific modern achievements in the area.
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8
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Shen Y, Liu C, He H, Zhang M, Wang H, Ji K, Wei L, Mao X, Sun R, Zhou F. Recent Advances in Wearable Biosensors for Non-Invasive Detection of Human Lactate. BIOSENSORS 2022; 12:1164. [PMID: 36551131 PMCID: PMC9776101 DOI: 10.3390/bios12121164] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/01/2022] [Revised: 11/29/2022] [Accepted: 12/09/2022] [Indexed: 06/17/2023]
Abstract
Lactate, a crucial product of the anaerobic metabolism of carbohydrates in the human body, is of enormous significance in the diagnosis and treatment of diseases and scientific exercise management. The level of lactate in the bio-fluid is a crucial health indicator because it is related to diseases, such as hypoxia, metabolic disorders, renal failure, heart failure, and respiratory failure. For critically ill patients and those who need to regularly control lactate levels, it is vital to develop a non-invasive wearable sensor to detect lactate levels in matrices other than blood. Due to its high sensitivity, high selectivity, low detection limit, simplicity of use, and ability to identify target molecules in the presence of interfering chemicals, biosensing is a potential analytical approach for lactate detection that has received increasing attention. Various types of wearable lactate biosensors are reviewed in this paper, along with their preparation, key properties, and commonly used flexible substrate materials including polydimethylsiloxane (PDMS), polyethylene terephthalate (PET), paper, and textiles. Key performance indicators, including sensitivity, linear detection range, and detection limit, are also compared. The challenges for future development are also summarized, along with some recommendations for the future development of lactate biosensors.
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Affiliation(s)
- Yutong Shen
- School of Textile Science and Engineering, Xi’an Polytechnic University, Xi’an 710048, China
- Key Laboratory of Functional Textile Material and Product of the Ministry of Education, Xi’an Polytechnic University, Xi’an 710048, China
- Shaanxi College Engineering Research Center of Functional Micro/Nano Textile Materials, Xi’an Polytechnic University, Xi’an 710048, China
| | - Chengkun Liu
- School of Textile Science and Engineering, Xi’an Polytechnic University, Xi’an 710048, China
- Key Laboratory of Functional Textile Material and Product of the Ministry of Education, Xi’an Polytechnic University, Xi’an 710048, China
- Shaanxi College Engineering Research Center of Functional Micro/Nano Textile Materials, Xi’an Polytechnic University, Xi’an 710048, China
| | - Haijun He
- Engineering Research Center for Knitting Technology of the Ministry of Education, Jiangnan University, Wuxi 214122, China
| | - Mengdi Zhang
- School of Textile Science and Engineering, Xi’an Polytechnic University, Xi’an 710048, China
- Key Laboratory of Functional Textile Material and Product of the Ministry of Education, Xi’an Polytechnic University, Xi’an 710048, China
- Shaanxi College Engineering Research Center of Functional Micro/Nano Textile Materials, Xi’an Polytechnic University, Xi’an 710048, China
| | - Hao Wang
- School of Textile Science and Engineering, Xi’an Polytechnic University, Xi’an 710048, China
- Key Laboratory of Functional Textile Material and Product of the Ministry of Education, Xi’an Polytechnic University, Xi’an 710048, China
- Shaanxi College Engineering Research Center of Functional Micro/Nano Textile Materials, Xi’an Polytechnic University, Xi’an 710048, China
| | - Keyu Ji
- School of Textile Science and Engineering, Xi’an Polytechnic University, Xi’an 710048, China
- Key Laboratory of Functional Textile Material and Product of the Ministry of Education, Xi’an Polytechnic University, Xi’an 710048, China
- Shaanxi College Engineering Research Center of Functional Micro/Nano Textile Materials, Xi’an Polytechnic University, Xi’an 710048, China
| | - Liang Wei
- School of Textile Science and Engineering, Xi’an Polytechnic University, Xi’an 710048, China
- Key Laboratory of Functional Textile Material and Product of the Ministry of Education, Xi’an Polytechnic University, Xi’an 710048, China
- Shaanxi College Engineering Research Center of Functional Micro/Nano Textile Materials, Xi’an Polytechnic University, Xi’an 710048, China
| | - Xue Mao
- School of Textile Science and Engineering, Xi’an Polytechnic University, Xi’an 710048, China
- Key Laboratory of Functional Textile Material and Product of the Ministry of Education, Xi’an Polytechnic University, Xi’an 710048, China
- Shaanxi College Engineering Research Center of Functional Micro/Nano Textile Materials, Xi’an Polytechnic University, Xi’an 710048, China
| | - Runjun Sun
- School of Textile Science and Engineering, Xi’an Polytechnic University, Xi’an 710048, China
- Key Laboratory of Functional Textile Material and Product of the Ministry of Education, Xi’an Polytechnic University, Xi’an 710048, China
- Shaanxi College Engineering Research Center of Functional Micro/Nano Textile Materials, Xi’an Polytechnic University, Xi’an 710048, China
| | - Fenglei Zhou
- Centre for Medical Image Computing, Department of Medical Physics and Biomedical Engineering, University College London, London WC1E 6BT, UK
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9
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Zhou J, Gui Y, Lv X, He J, Xie F, Li J, Cai J. Nanomaterial-Based Fluorescent Biosensor for Food Safety Analysis. BIOSENSORS 2022; 12:1072. [PMID: 36551039 PMCID: PMC9775463 DOI: 10.3390/bios12121072] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/25/2022] [Revised: 11/16/2022] [Accepted: 11/21/2022] [Indexed: 06/17/2023]
Abstract
Food safety issues have become a major threat to public health and have garnered considerable attention. Rapid and effective detection methods are crucial for ensuring food safety. Recently, nanostructured fluorescent materials have shown considerable potential for monitoring the quality and safety of food because of their fascinating optical characteristics at the nanoscale. In this review, we first introduce biomaterials and nanomaterials for food safety analysis. Subsequently, we perform a comprehensive analysis of food safety using fluorescent biosensors based on nanomaterials, including mycotoxins, heavy metals, antibiotics, pesticide residues, foodborne pathogens, and illegal additives. Finally, we provide new insights and discuss future approaches for the development of food safety detection, with the aim of improving fluorescence detection methods for the practical application of nanomaterials to ensure food safety and protect human health.
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Affiliation(s)
- Jiaojiao Zhou
- National R&D Center for Se-Rich Agricultural Products Processing, Hubei Engineering Research Center for Deep Processing of Green Se-Rich Agricultural Products, School of Modern Industry for Selenium Science and Engineering, Wuhan Polytechnic University, Wuhan 430023, China
| | - Yue Gui
- National R&D Center for Se-Rich Agricultural Products Processing, Hubei Engineering Research Center for Deep Processing of Green Se-Rich Agricultural Products, School of Modern Industry for Selenium Science and Engineering, Wuhan Polytechnic University, Wuhan 430023, China
| | - Xuqin Lv
- National R&D Center for Se-Rich Agricultural Products Processing, Hubei Engineering Research Center for Deep Processing of Green Se-Rich Agricultural Products, School of Modern Industry for Selenium Science and Engineering, Wuhan Polytechnic University, Wuhan 430023, China
- Key Laboratory for Deep Processing of Major Grain and Oil, Ministry of Education, Hubei Key Laboratory for Processing and Transformation of Agricultural Products, Wuhan Polytechnic University, Wuhan 430023, China
| | - Jiangling He
- National R&D Center for Se-Rich Agricultural Products Processing, Hubei Engineering Research Center for Deep Processing of Green Se-Rich Agricultural Products, School of Modern Industry for Selenium Science and Engineering, Wuhan Polytechnic University, Wuhan 430023, China
| | - Fang Xie
- National R&D Center for Se-Rich Agricultural Products Processing, Hubei Engineering Research Center for Deep Processing of Green Se-Rich Agricultural Products, School of Modern Industry for Selenium Science and Engineering, Wuhan Polytechnic University, Wuhan 430023, China
| | - Jinjie Li
- Institute of System and Engineering, Beijing 100010, China
| | - Jie Cai
- National R&D Center for Se-Rich Agricultural Products Processing, Hubei Engineering Research Center for Deep Processing of Green Se-Rich Agricultural Products, School of Modern Industry for Selenium Science and Engineering, Wuhan Polytechnic University, Wuhan 430023, China
- Key Laboratory for Deep Processing of Major Grain and Oil, Ministry of Education, Hubei Key Laboratory for Processing and Transformation of Agricultural Products, Wuhan Polytechnic University, Wuhan 430023, China
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10
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Li J, Cui M, Zhao J, Wang J, Fang X. A self-amplifying plasmid based ultrasensitive biosensor for the detection of As(Ⅲ) in water. Biosens Bioelectron 2022; 221:114937. [DOI: 10.1016/j.bios.2022.114937] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2022] [Revised: 11/16/2022] [Accepted: 11/18/2022] [Indexed: 11/24/2022]
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11
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Ma Z, Meliana C, Munawaroh HSH, Karaman C, Karimi-Maleh H, Low SS, Show PL. Recent advances in the analytical strategies of microbial biosensor for detection of pollutants. CHEMOSPHERE 2022; 306:135515. [PMID: 35772520 DOI: 10.1016/j.chemosphere.2022.135515] [Citation(s) in RCA: 17] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/24/2022] [Revised: 05/10/2022] [Accepted: 06/25/2022] [Indexed: 06/15/2023]
Abstract
Microbial biosensor which integrates different types of microorganisms, such as bacteria, microalgae, fungi, and virus have become suitable technologies to address limitations of conventional analytical methods. The main applications of biosensors include the detection of environmental pollutants, pathogenic bacteria and compounds related to illness, and food quality. Each type of microorganisms possesses advantages and disadvantages with different mechanisms to detect the analytes of interest. Furthermore, there is an increasing trend in genetic modifications for the development of microbial biosensors due to potential for high-throughput analysis and portability. Many review articles have discussed the applications of microbial biosensor, but many of them focusing only about bacterial-based biosensor although other microbes also possess many advantages. Additionally, reviews on the applications of all microbes as biosensor especially viral and microbial fuel cell biosensors are also still limited. Therefore, this review summarizes all the current applications of bacterial-, microalgal-, fungal-, viral-based biosensor in regard to environmental, food, and medical-related applications. The underlying mechanism of each microbes to detect the analytes are also discussed. Additionally, microbial fuel cell biosensors which have great potential in the future are also discussed. Although many advantageous microbial-based biosensors have been discovered, other areas such as forensic detection, early detection of bacteria or virus species that can lead to pandemics, and others still need further investigation. With that said, microbial-based biosensors have promising potential for vast applications where the biosensing performance of various microorganisms are presented in this review along with future perspectives to resolve problems related on microbial biosensors.
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Affiliation(s)
- Zengling Ma
- Zhejiang Provincial Key Laboratory for Subtropical Water Environment and Marine Biological Resources Protection, Wenzhou University, Wenzhou, 325035, China.
| | - Catarina Meliana
- Department of Food Science and Nutrition, Faculty of Life Science, Indonesia International Institute of Life Sciences, Jakarta, 13210, Indonesia
| | - Heli Siti Halimatul Munawaroh
- Study Program of Chemistry, Department of Chemistry Education, Universitas Pendidikan Indonesia, Jalan Dr. Setiabudhi 229, Bandung, 40154, Indonesia
| | - Ceren Karaman
- Akdeniz University, Department of Electricity and Energy, Antalya, 07070, Turkey
| | - Hassan Karimi-Maleh
- School of Resources and Environment, University of Electronic Science and Technology of China, P.O. Box 611731, Xiyuan Ave, Chengdu, PR China; Department of Chemical Engineering and Energy, Quchan University of Technology, Quchan, 9477177870, Iran
| | - Sze Shin Low
- Research Centre of Life Science and Healthcare, China Beacons Institute, University of Nottingham Ningbo China, 199 Taikang East Road, Ningbo, 315100, Zhejiang, China.
| | - Pau Loke Show
- Zhejiang Provincial Key Laboratory for Subtropical Water Environment and Marine Biological Resources Protection, Wenzhou University, Wenzhou, 325035, China; Department of Chemical and Environmental Engineering, Faculty of Science and Engineering, University of Nottingham Malaysia, Jalan Broga, 43500 Semenyih, Selangor Darul Ehsan, Malaysia.
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12
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Anand U, Vaishnav A, Sharma SK, Sahu J, Ahmad S, Sunita K, Suresh S, Dey A, Bontempi E, Singh AK, Proćków J, Shukla AK. Current advances and research prospects for agricultural and industrial uses of microbial strains available in world collections. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 842:156641. [PMID: 35700781 DOI: 10.1016/j.scitotenv.2022.156641] [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: 01/17/2022] [Revised: 06/08/2022] [Accepted: 06/08/2022] [Indexed: 06/15/2023]
Abstract
Microorganisms are an important component of the ecosystem and have an enormous impact on human lives. Moreover, microorganisms are considered to have desirable effects on other co-existing species in a variety of habitats, such as agriculture and industries. In this way, they also have enormous environmental applications. Hence, collections of microorganisms with specific traits are a crucial step in developing new technologies to harness the microbial potential. Microbial culture collections (MCCs) are a repository for the preservation of a large variety of microbial species distributed throughout the world. In this context, culture collections (CCs) and microbial biological resource centres (mBRCs) are vital for the safeguarding and circulation of biological resources, as well as for the progress of the life sciences. Ex situ conservation of microorganisms tagged with specific traits in the collections is the crucial step in developing new technologies to harness their potential. Type strains are mainly used in taxonomic study, whereas reference strains are used for agricultural, biotechnological, pharmaceutical research and commercial work. Despite the tremendous potential in microbiological research, little effort has been made in the true sense to harness the potential of conserved microorganisms. This review highlights (1) the importance of available global microbial collections for man and (2) the use of these resources in different research and applications in agriculture, biotechnology, and industry. In addition, an extensive literature survey was carried out on preserved microorganisms from different collection centres using the Web of Science (WoS) and SCOPUS. This review also emphasizes knowledge gaps and future perspectives. Finally, this study provides a critical analysis of the current and future roles of microorganisms available in culture collections for different sustainable agricultural and industrial applications. This work highlights target-specific potential microbial strains that have multiple important metabolic and genetic traits for future research and use.
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Affiliation(s)
- Uttpal Anand
- Department of Life Sciences, Ben-Gurion University of the Negev, Beer-Sheva 84105, Israel
| | - Anukool Vaishnav
- Department of Biotechnology, Institute of Applied Sciences & Humanities, GLA University, Mathura, Uttar Pradesh 281406, India; Department of Plant and Microbial Biology, University of Zürich, Zollikerstrasse 107, CH-8008 Zürich, Switzerland; Plant-Soil Interaction Group, Agroscope (Reckenholz), Reckenholzstrasse 191, 8046 Zürich, Switzerland
| | - Sushil K Sharma
- National Agriculturally Important Microbial Culture Collection (NAIMCC), ICAR-National Bureau of Agriculturally Important Microorganisms (ICAR-NBAIM), Mau 275 103, Uttar Pradesh, India.
| | - Jagajjit Sahu
- GyanArras Academy, Gothapatna, Malipada, Bhubaneswar, Odisha 751029, India
| | - Sarfaraz Ahmad
- Department of Botany, Jai Prakash University, Saran, Chhapra 841301, Bihar, India
| | - Kumari Sunita
- Department of Botany, Faculty of Science, Deen Dayal Upadhyay Gorakhpur University, Gorakhpur, Uttar Pradesh 273009, India
| | - S Suresh
- Department of Chemical Engineering, Maulana Azad National Institute of Technology, Bhopal 462 003, Madhya Pradesh, India
| | - Abhijit Dey
- Department of Life Sciences, Presidency University, 86/1 College Street, Kolkata 700073, West Bengal, India
| | - Elza Bontempi
- INSTM and Chemistry for Technologies Laboratory, Department of Mechanical and Industrial Engineering, University of Brescia, Via Branze, 38, 25123 Brescia, Italy
| | - Amit Kishore Singh
- Department of Botany, Bhagalpur National College, (A Constituent unit of Tilka Manjhi Bhagalpur University), Bhagalpur 812007, Bihar, India
| | - Jarosław Proćków
- Department of Plant Biology, Institute of Environmental Biology, Wrocław University of Environmental and Life Sciences, Kożuchowska 5b, 51-631 Wrocław, Poland.
| | - Awadhesh Kumar Shukla
- Department of Botany, K.S. Saket P.G. College, Ayodhya (affiliated to Dr. Rammanohar Lohia Avadh University, Ayodhya) 224123, Uttar Pradesh, India.
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13
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Hirschi S, Ward TR, Meier WP, Müller DJ, Fotiadis D. Synthetic Biology: Bottom-Up Assembly of Molecular Systems. Chem Rev 2022; 122:16294-16328. [PMID: 36179355 DOI: 10.1021/acs.chemrev.2c00339] [Citation(s) in RCA: 19] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
The bottom-up assembly of biological and chemical components opens exciting opportunities to engineer artificial vesicular systems for applications with previously unmet requirements. The modular combination of scaffolds and functional building blocks enables the engineering of complex systems with biomimetic or new-to-nature functionalities. Inspired by the compartmentalized organization of cells and organelles, lipid or polymer vesicles are widely used as model membrane systems to investigate the translocation of solutes and the transduction of signals by membrane proteins. The bottom-up assembly and functionalization of such artificial compartments enables full control over their composition and can thus provide specifically optimized environments for synthetic biological processes. This review aims to inspire future endeavors by providing a diverse toolbox of molecular modules, engineering methodologies, and different approaches to assemble artificial vesicular systems. Important technical and practical aspects are addressed and selected applications are presented, highlighting particular achievements and limitations of the bottom-up approach. Complementing the cutting-edge technological achievements, fundamental aspects are also discussed to cater to the inherently diverse background of the target audience, which results from the interdisciplinary nature of synthetic biology. The engineering of proteins as functional modules and the use of lipids and block copolymers as scaffold modules for the assembly of functionalized vesicular systems are explored in detail. Particular emphasis is placed on ensuring the controlled assembly of these components into increasingly complex vesicular systems. Finally, all descriptions are presented in the greater context of engineering valuable synthetic biological systems for applications in biocatalysis, biosensing, bioremediation, or targeted drug delivery.
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Affiliation(s)
- Stephan Hirschi
- Institute of Biochemistry and Molecular Medicine, University of Bern, Bühlstrasse 28, 3012 Bern, Switzerland.,Molecular Systems Engineering, National Centre of Competence in Research (NCCR), 4002 Basel, Switzerland
| | - Thomas R Ward
- Department of Chemistry, University of Basel, St. Johanns-Ring 19, 4056 Basel, Switzerland.,Molecular Systems Engineering, National Centre of Competence in Research (NCCR), 4002 Basel, Switzerland
| | - Wolfgang P Meier
- Department of Chemistry, University of Basel, St. Johanns-Ring 19, 4056 Basel, Switzerland.,Molecular Systems Engineering, National Centre of Competence in Research (NCCR), 4002 Basel, Switzerland
| | - Daniel J Müller
- Department of Biosystems Science and Engineering, ETH Zürich, Mattenstrasse 26, 4058 Basel, Switzerland.,Molecular Systems Engineering, National Centre of Competence in Research (NCCR), 4002 Basel, Switzerland
| | - Dimitrios Fotiadis
- Institute of Biochemistry and Molecular Medicine, University of Bern, Bühlstrasse 28, 3012 Bern, Switzerland.,Molecular Systems Engineering, National Centre of Competence in Research (NCCR), 4002 Basel, Switzerland
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14
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Screening of Thiopeptide-Producing Streptomycetes Isolated From the Rhizosphere Soil of Juniperus excelsa. Curr Microbiol 2022; 79:305. [PMID: 36065025 DOI: 10.1007/s00284-022-03004-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2022] [Accepted: 08/16/2022] [Indexed: 11/03/2022]
Abstract
The identification of an increasing number of drug-resistant pathogens has stimulated the development of new therapeutic agents to combat them. Microbial natural products are among the most important elements when it comes to drug discovery. Today, thiopeptide antibiotics are receiving increasing research attention due to their potent activity against Gram-positive bacteria. In this study, we demonstrated the successful use of a whole-cell microbial biosensor (Streptomyces lividans TK24 pMO16) for the specific detection of thiopeptide antibiotics among the native actinomycete strains isolated from the rhizosphere soil of Juniperus excelsa (Bieb.). Among the native strains, two strains of Streptomyces, namely sp. Je 1-79 and Je 1-613, were identified that were capable of producing thiopeptide antibiotics. A multilocus sequence analysis of five housekeeping genes (gyrB, atpD, recA, rpoB, and trpB) classified them as representatives of two different species of the genus Streptomyces. The thiopeptide antibiotics berninamycin A and B were identified in the extracts of the two strains by means of a dereplication analysis. The berninamycin biosynthetic gene cluster was also detected in the genome of the Streptomyces sp. Je 1-79 strain and showed a high level of similarity (93%) with the ber cluster from S. bernensis. Thus, the use of this whole-cell biosensor during the first stage of the screening process could serve to accelerate the specific detection of thiopeptide antibiotics.
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15
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Soudier P, Zúñiga A, Duigou T, Voyvodic PL, Bazi-Kabbaj K, Kushwaha M, Vendrell JA, Solassol J, Bonnet J, Faulon JL. PeroxiHUB: A Modular Cell-Free Biosensing Platform Using H 2O 2 as Signal Integrator. ACS Synth Biol 2022; 11:2578-2588. [PMID: 35913043 DOI: 10.1021/acssynbio.2c00138] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Cell-free systems have great potential for delivering robust, inexpensive, and field-deployable biosensors. Many cell-free biosensors rely on transcription factors responding to small molecules, but their discovery and implementation still remain challenging. Here we report the engineering of PeroxiHUB, an optimized H2O2-centered sensing platform supporting cell-free detection of different metabolites. H2O2 is a central metabolite and a byproduct of numerous enzymatic reactions. PeroxiHUB uses enzymatic transducers to convert metabolites of interest into H2O2, enabling rapid reprogramming of sensor specificity using alternative transducers. We first screen several transcription factors and optimize OxyR for the transcriptional response to H2O2 in a cell-free system, highlighting the need for preincubation steps to obtain suitable signal-to-noise ratios. We then demonstrate modular detection of metabolites of clinical interest─lactate, sarcosine, and choline─using different transducers mined via a custom retrosynthesis workflow publicly available on the SynBioCAD Galaxy portal. We find that expressing the transducer during the preincubation step is crucial for optimal sensor operation. We then show that different reporters can be connected to PeroxiHUB, providing high adaptability for various applications. Finally, we demonstrate that a peroxiHUB lactate biosensor can detect endogenous levels of this metabolite in clinical samples. Given the wide range of enzymatic reactions producing H2O2, the PeroxiHUB platform will support cell-free detection of a large number of metabolites in a modular and scalable fashion.
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Affiliation(s)
- Paul Soudier
- Université Paris-Saclay, INRAE, AgroParisTech, Micalis Institute, 78352 Jouy-en-Josas, France.,Université de Montpellier, INSERM, CNRS, Centre de Biologie Structurale, 34090 Montpellier, France
| | - Ana Zúñiga
- Université de Montpellier, INSERM, CNRS, Centre de Biologie Structurale, 34090 Montpellier, France
| | - Thomas Duigou
- Université Paris-Saclay, INRAE, AgroParisTech, Micalis Institute, 78352 Jouy-en-Josas, France
| | - Peter L Voyvodic
- Université de Montpellier, INSERM, CNRS, Centre de Biologie Structurale, 34090 Montpellier, France
| | - Kenza Bazi-Kabbaj
- Université Paris-Saclay, INRAE, AgroParisTech, Micalis Institute, 78352 Jouy-en-Josas, France
| | - Manish Kushwaha
- Université Paris-Saclay, INRAE, AgroParisTech, Micalis Institute, 78352 Jouy-en-Josas, France
| | - Julie A Vendrell
- Laboratoire de Biologie des Tumeurs Solides, Département de Pathologie et Oncobiologie, CHU Montpellier, Université de Montpellier, 34295 Montpellier, France
| | - Jerome Solassol
- Laboratoire de Biologie des Tumeurs Solides, Département de Pathologie et Oncobiologie, CHU Montpellier, Université de Montpellier, 34295 Montpellier, France.,IRCM, INSERM, Univ Montpellier, ICM, 34298 Montpellier, France
| | - Jerome Bonnet
- Université de Montpellier, INSERM, CNRS, Centre de Biologie Structurale, 34090 Montpellier, France
| | - Jean-Loup Faulon
- Université Paris-Saclay, INRAE, AgroParisTech, Micalis Institute, 78352 Jouy-en-Josas, France
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16
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Wang Z, Bai H, Yu W, Gao Z, Chen W, Yang Z, Zhu C, Huang Y, Lv F, Wang S. Flexible bioelectronic device fabricated by conductive polymer-based living material. SCIENCE ADVANCES 2022; 8:eabo1458. [PMID: 35731871 PMCID: PMC9216517 DOI: 10.1126/sciadv.abo1458] [Citation(s) in RCA: 17] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/17/2022] [Accepted: 05/06/2022] [Indexed: 05/26/2023]
Abstract
Living materials are worked as an inside collaborative system that could naturally respond to changing environmental conditions. The regulation of bioelectronic processes in living materials could be effective for collecting biological signals and detecting biomarkers. Here, we constructed a living material with conjugated polymers poly[3-(3'-N,N,N-triethylamino-1'-propyloxy)-4-methyl-2,5-thiophene chloride] (PMNT) and Shewanella oneidensis MR-1 biofilm. In addition, the living material was integrated as a flexible bioelectronic device for lactate detection in physiological fluids (sweat, urine, and plasma). Owing to the electroconductivity of conjugated polymers, PMNT could optimize the bioelectronic process in the living material. The collected electrical signal could be wirelessly transferred to a portable smartphone for reading and analyzing. Because lactate is also a biomarker for cancer treatment, the flexible bioelectronic device was further used to detect and count the cancer cells. The proof of the bioelectronic device using conductive polymer-based living material exhibits promising applications in the next-generation personal health monitoring systems.
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Affiliation(s)
- Zenghao Wang
- Beijing National Laboratory for Molecular Sciences, Key Laboratory of Organic Solids, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100910, P. R. China
- College of Chemistry, University of Chinese Academy of Sciences, Beijing 100049, P. R. China
| | - Haotian Bai
- Beijing National Laboratory for Molecular Sciences, Key Laboratory of Organic Solids, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100910, P. R. China
| | - Wen Yu
- Beijing National Laboratory for Molecular Sciences, Key Laboratory of Organic Solids, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100910, P. R. China
- College of Chemistry, University of Chinese Academy of Sciences, Beijing 100049, P. R. China
| | - Zhiqiang Gao
- Beijing National Laboratory for Molecular Sciences, Key Laboratory of Organic Solids, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100910, P. R. China
- College of Chemistry, University of Chinese Academy of Sciences, Beijing 100049, P. R. China
| | - Weijian Chen
- Beijing National Laboratory for Molecular Sciences, Key Laboratory of Organic Solids, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100910, P. R. China
| | - Zhiwen Yang
- Beijing National Laboratory for Molecular Sciences, Key Laboratory of Organic Solids, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100910, P. R. China
- College of Chemistry, University of Chinese Academy of Sciences, Beijing 100049, P. R. China
| | - Chuanwei Zhu
- Beijing National Laboratory for Molecular Sciences, Key Laboratory of Organic Solids, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100910, P. R. China
- College of Chemistry, University of Chinese Academy of Sciences, Beijing 100049, P. R. China
| | - Yiming Huang
- Beijing National Laboratory for Molecular Sciences, Key Laboratory of Organic Solids, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100910, P. R. China
| | - Fengting Lv
- Beijing National Laboratory for Molecular Sciences, Key Laboratory of Organic Solids, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100910, P. R. China
| | - Shu Wang
- Beijing National Laboratory for Molecular Sciences, Key Laboratory of Organic Solids, Institute of Chemistry, Chinese Academy of Sciences, Beijing 100910, P. R. China
- College of Chemistry, University of Chinese Academy of Sciences, Beijing 100049, P. R. China
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17
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Sundararaman S, Aravind Kumar J, Deivasigamani P, Devarajan Y. Emerging pharma residue contaminants: Occurrence, monitoring, risk and fate assessment - A challenge to water resource management. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 825:153897. [PMID: 35182637 DOI: 10.1016/j.scitotenv.2022.153897] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/21/2021] [Revised: 01/31/2022] [Accepted: 02/11/2022] [Indexed: 06/14/2023]
Abstract
Water is one of the important gifts to mankind. In recent days the accessibility of pharmaceuticals in the environment is progressively a worldwide concern. The significant wellspring of these contaminations in water assets is drugs for human use or veterinary medications. Intermediates, active metabolites and raw materials present in water from pharmaceutical industry waste because of incomplete sewage treatment systems. Various pharmaceutical components such as analgesic/antipyretics such as Ibuprofen (57.9-104 ng/L), Diclofenac (17-129 ng/L), antibiotics such as Sulfamethoxazole (28.7-124.5 ng/L), Sulfamethazine (29.2-83.9 ng/L), Azithromycin (10-68 ng/L), psychiatric drug such as Carbamazepine (9.3-92.4 ng/L), stimulants such as caffeine greater than 55 ng/L, antidepressants, antihypertensive, contraceptives etc., are present in water resources and have been detected in mg/L to μg/L range. The synergic effects and ecotoxicological hazard assessment must be developed. Studies demonstrate that these drugs might cause morphological, metabolic and sex alterations on sea-going species, and interruption of biodegradation activities. Hazard analysis and assessments are in progress. However, the conventional effluent treatment methods are not sufficient to remove API (active pharmaceutical ingredients) from this water effectively. There is necessitate for continuous monitoring of the pharmaceutical compounds in aquatic ecosystem to save the environment and living form of lives from health hazards. This work highlights the hazards, environmental assessment and the mitigation measures of pharmaceutical pollutants.
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Affiliation(s)
- Sathish Sundararaman
- Department of Chemical Engineering, Sathyabama Institute of Science and Technology, Chennai, India.
| | - J Aravind Kumar
- Department of Biomass and Energy Conversion, Saveetha School of Engineering, SIMATS, Chennai, 602105, Tamilnadu, India
| | - Prabu Deivasigamani
- Department of Chemical Engineering, Sathyabama Institute of Science and Technology, Chennai, India
| | - Yuvarajan Devarajan
- Department of Thermal Engineering, Saveetha School of Engineering, SIMATS, Chennai, Tamilnadu, 602105, India.
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18
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Climate-Resilient Microbial Biotechnology: A Perspective on Sustainable Agriculture. SUSTAINABILITY 2022. [DOI: 10.3390/su14095574] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
Abstract
We designed this review to describe a compilation of studies to enlighten the concepts of plant–microbe interactions, adopted protocols in smart crop farming, and biodiversity to reaffirm sustainable agriculture. The ever-increasing use of agrochemicals to boost crop production has created health hazards to humans and the environment. Microbes can bring up the hidden strength of plants, augmenting disease resistance and yield, hereafter, crops could be grown without chemicals by harnessing microbes that live in/on plants and soil. This review summarizes an understanding of the functions and importance of indigenous microbial communities; host–microbial and microbial–microbial interactions; simplified experimentally controlled synthetic flora used to perform targeted operations; maintaining the molecular mechanisms; and microbial agent application technology. It also analyzes existing problems and forecasts prospects. The real advancement of microbiome engineering requires a large number of cycles to obtain the necessary ecological principles, precise manipulation of the microbiome, and predictable results. To advance this approach, interdisciplinary collaboration in the areas of experimentation, computation, automation, and applications is required. The road to microbiome engineering seems to be long; however, research and biotechnology provide a promising approach for proceeding with microbial engineering and address persistent social and environmental issues.
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19
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Bayesian-based decipherment of in-depth information in bacterial chemical sensing beyond pleasant/unpleasant responses. Sci Rep 2022; 12:2965. [PMID: 35194068 PMCID: PMC8863824 DOI: 10.1038/s41598-022-06732-4] [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: 09/07/2021] [Accepted: 02/04/2022] [Indexed: 11/15/2022] Open
Abstract
Chemical sensing is vital to the survival of all organisms. Bacterial chemotaxis is conducted by multiple receptors that sense chemicals to regulate a single signalling system controlling the transition between the direction (clockwise vs. counterclockwise) of flagellar rotation. Such an integrated system seems better suited to judge chemicals as either favourable or unfavourable, but not for identification purposes though differences in their affinities to the receptors may cause difference in response strength. Here, an experimental setup was developed to monitor behaviours of multiple cells stimulated simultaneously as well as a statistical framework based on Bayesian inferences. Although responses of individual cells varied substantially, ensemble averaging of the time courses seemed characteristic to attractant species, indicating we can extract information of input chemical species from responses of the bacterium. Furthermore, two similar, but distinct, beverages elicited attractant responses of cells with profiles distinguishable with the Bayesian procedure. These results provide a basis for novel bio-inspired sensors that could be used with other cell types to sense wider ranges of chemicals.
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20
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Gopal A, Yan L, Kashif S, Munshi T, Roy VAL, Voelcker NH, Chen X. Biosensors and Point-of-Care Devices for Bacterial Detection: Rapid Diagnostics Informing Antibiotic Therapy. Adv Healthc Mater 2022; 11:e2101546. [PMID: 34850601 DOI: 10.1002/adhm.202101546] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2021] [Revised: 11/20/2021] [Indexed: 02/06/2023]
Abstract
With an exponential rise in antimicrobial resistance and stagnant antibiotic development pipeline, there is, more than ever, a crucial need to optimize current infection therapy approaches. One of the most important stages in this process requires rapid and effective identification of pathogenic bacteria responsible for diseases. Current gold standard techniques of bacterial detection include culture methods, polymerase chain reactions, and immunoassays. However, their use is fraught with downsides with high turnaround time and low accuracy being the most prominent. This imposes great limitations on their eventual application as point-of-care devices. Over time, innovative detection techniques have been proposed and developed to curb these drawbacks. In this review, a systematic summary of a range of biosensing platforms is provided with a strong focus on technologies conferring high detection sensitivity and specificity. A thorough analysis is performed and the benefits and drawbacks of each type of biosensor are highlighted, the factors influencing their potential as point-of-care devices are discussed, and the authors' insights for their translation from proof-of-concept systems into commercial medical devices are provided.
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Affiliation(s)
- Ashna Gopal
- School of Engineering Institute for Bioengineering The University of Edinburgh Edinburgh EH9 3JL UK
| | - Li Yan
- College of Health Science and Environmental Engineering Shenzhen Technology University Shenzhen 518118 China
| | - Saima Kashif
- School of Engineering Institute for Bioengineering The University of Edinburgh Edinburgh EH9 3JL UK
| | - Tasnim Munshi
- School of Chemistry University of Lincoln, Brayford Pool Lincoln Lincolnshire LN6 7TS UK
| | | | - Nicolas H. Voelcker
- Drug Delivery Disposition and Dynamics Monash Institute of Pharmaceutical Sciences Monash University Parkville Victoria VIC 3052 Australia
- Melbourne Centre for Nanofabrication Victorian Node of the Australian National Fabrication Facility Clayton Victoria 3168 Australia
- Commonwealth Scientific and Industrial Research Organisation (CSIRO) Clayton Victoria 3168 Australia
| | - Xianfeng Chen
- School of Engineering Institute for Bioengineering The University of Edinburgh Edinburgh EH9 3JL UK
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21
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Zobkova ZS, Lazareva EG, Semipyatniy VK. Methodological Approach to Designing Fermented Dairy Products with Optimal Biological Value. Foods 2022; 11:114. [PMID: 35010240 PMCID: PMC8750144 DOI: 10.3390/foods11010114] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2021] [Revised: 10/18/2021] [Accepted: 10/21/2021] [Indexed: 11/17/2022] Open
Abstract
The development of food products implies ensuring the optimal composition and ratio of the basic components, as well as their technological compatibility. A priori, the quality of raw materials, the optimal formula of the product and the efficiency of the technological process determine the quality of products, including biological value. The use of whole-cell sensors such as infusoria Tetrahymena pyriformis is most productive for screening biological studies. At present, for a comprehensive assessment there are no data on the use of simplest technology of fermented dairy products and the design of their biological value. The purpose of this research is to develop a methodology for creating whole-milk products of optimal biological value using the express method of biotesting. The research object was yogurt with the ratio of the mass fraction of fat and protein in the range of 0.36 ÷ 1.5, sucrose in the range of 5 ÷ 10%. An express method for determining the relative biological value of fermented dairy products using test organisms and an original methodology for creating whole-milk products of optimal biological value have been developed. A software has been developed to calculate formula of the product optimized for the following indicators: the relative biological value of the product, the cost of raw material and basic materials. The methodology is a tool to assist industry organizations in improving production technologies and quality management systems.
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Affiliation(s)
| | | | - Vladislav K. Semipyatniy
- All-Russian Research Institute of the Dairy Industry, Lusinovskaya Str. 35, 115093 Moscow, Russia; (Z.S.Z.); (E.G.L.)
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22
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23
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Andryukov BG, Lyapun IN, Matosova EV, Somova LM. Biosensor Technologies in Medicine: from Detection of Biochemical Markers to Research into Molecular Targets (Review). Sovrem Tekhnologii Med 2021; 12:70-83. [PMID: 34796021 PMCID: PMC8596237 DOI: 10.17691/stm2020.12.6.09] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/14/2019] [Indexed: 01/21/2023] Open
Abstract
Infections are a major cause of premature death. Fast and accurate laboratory diagnostics of infectious diseases is a key condition for the timely initiation and success of treatment. Potentially, it can reduce morbidity, as well as prevent the outbreak and spread of dangerous epidemics. The traditional methods of laboratory diagnostics of infectious diseases are quite time- and labour-consuming, require expensive equipment and trained personnel, which is crucial within limited resources. The fast biosensor-based methods that combine the diagnostic capabilities of biomedicine with modern technological advances in microelectronics, optoelectronics, and nanotechnology make an alternative. The modern achievements in the development of label-free biosensors make them promising diagnostic tools that combine rapid detection of specific molecular markers, simplicity, ease-of-use, efficiency, accuracy, and cost-effectiveness with the tendency to the development of portable platforms. These qualities exceed the generally accepted standards of microbiological and immunological diagnostics and open up broad prospects for using these analytical systems in clinical practice directly at the site of medical care provision (point-of-care, POC concept). A wide variety of modern biosensor designs are based on the use of diverse formats of analytical and technological strategies, identification of various regulatory and functional molecular markers associated with infectious pathogens. The solution to the existing problems in biosensing will open up great prospects for these rapidly developing diagnostic biotechnologies.
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Affiliation(s)
- B G Andryukov
- Leading Researcher, Laboratory of Molecular Microbiology; G.P. Somov Institute of Epidemiology and Microbiology, 1 Selskaya St., Vladivostok, 690087, Russia
| | - I N Lyapun
- Researcher, Laboratory of Molecular Microbiology; G.P. Somov Institute of Epidemiology and Microbiology, 1 Selskaya St., Vladivostok, 690087, Russia
| | - E V Matosova
- Junior Researcher, Laboratory of Molecular Microbiology; G.P. Somov Institute of Epidemiology and Microbiology, 1 Selskaya St., Vladivostok, 690087, Russia
| | - L M Somova
- Professor, Chief Researcher, Laboratory of Molecular Microbiology G.P. Somov Institute of Epidemiology and Microbiology, 1 Selskaya St., Vladivostok, 690087, Russia
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24
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Mikuła E. Recent Advancements in Electrochemical Biosensors for Alzheimer's Disease Biomarkers Detection. Curr Med Chem 2021; 28:4049-4073. [PMID: 33176635 PMCID: PMC8287894 DOI: 10.2174/0929867327666201111141341] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/23/2020] [Revised: 09/28/2020] [Accepted: 10/07/2020] [Indexed: 02/06/2023]
Abstract
Background It is estimated that the average time between the diagnosis of Alzheimer’s disease (AD) and the patient’s death is 5-9 years. Therefore, both the initial phase of the disease and the preclinical state can be included in the critical period in disease diagnosis. Accordingly, huge progress has recently been observed in biomarker research to identify risk factors for dementia in older people with normal cognitive functions and mild cognitive impairments. Methods Electrochemical biosensors are excellent analytical tools that are used in the detection of AD biomarkers as they are easy to use, portable, and can do analysis in real time. Results This review presents the analytical techniques currently used to determine AD biomarkers in terms of their advantages and disadvantages; the most important clinical biomarkers of AD and their role in the disease. All recently used biorecognition molecules in electrochemical biosensor development, i.e., receptor protein, antibodies, aptamers and nucleic acids, are summarized for the first time. Novel electrochemical biosensors for AD biomarker detection, as ideal analytical platforms for point-of-care diagnostics, are also reviewed. Conclusion The article focuses on various strategies of biosensor chemical surface modifications to immobilize biorecognition molecules, enabling specific, quantitative AD biomarker detection in synthetic and clinical samples. In addition, this is the first review that presents innovative single-platform systems for simultaneous detection of multiple biomarkers and other important AD-associated biological species based on electrochemical techniques. The importance of these platforms in disease diagnosis is discussed.
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Affiliation(s)
- Edyta Mikuła
- Department of Biosensors, Institute of Animal Reproduction and Food Research, Polish Academy of Sciences, Tuwima 10, 10-748 Olsztyn, Poland
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Guo H, Ji J, Sun J, Zhang Y, Sun X. Development of a living mammalian cell-based biosensor for the monitoring and evaluation of synergetic toxicity of cadmium and deoxynivalenol. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 771:144823. [PMID: 33545470 DOI: 10.1016/j.scitotenv.2020.144823] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/22/2020] [Revised: 12/15/2020] [Accepted: 12/21/2020] [Indexed: 06/12/2023]
Abstract
With increased interest in the toxic interactions of multiple toxins, biotoxicity models have to be urgently developed for joint toxicity evaluation. This study aimed to develop an optical biosensor based on living mammary cells for monitoring of cadmium (Cd)/deoxynivalenol (DON) in water and evaluating their combined toxicity. Our previous survey found that DON and Cd appeared simultaneously in various products, and RNA seq revealed that AP-1 participated in combined toxicity of DON+Cd in HT-29 cells. Thus AP-1 site-mCherry-based biosensors were constructed, optimized, and then tested for their applicability and stable fluorescence response activities. DON+Cd2+, DON, and Cd2+ induced dose-dependent fluorescence signal in the biosensors (at environmental exposure levels). The enhanced fluorescence signal suggested that the toxicity of DON+Cd2+ was enhanced compared with that of single toxin. The advantages of the biosensors include: I) The easy and visual screening of multiple toxins on the basis of environmental exposure levels; II) Potential as a broad-spectrum tool for joint toxicity evaluation of DON+Cd; III) Pollution-free and stable fluorescence response; IV) A slight effect on viability.
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Affiliation(s)
- Hongyan Guo
- State Key Laboratory of Food Science and Technology, School of Food Science and Technology, National Engineering Research Center for Functional Food, Synergetic Innovation Center of Food Safety and Quality Control, Jiangnan University, Wuxi, Jiangsu 214122, PR China
| | - Jian Ji
- State Key Laboratory of Food Science and Technology, School of Food Science and Technology, National Engineering Research Center for Functional Food, Synergetic Innovation Center of Food Safety and Quality Control, Jiangnan University, Wuxi, Jiangsu 214122, PR China
| | - Jiadi Sun
- State Key Laboratory of Food Science and Technology, School of Food Science and Technology, National Engineering Research Center for Functional Food, Synergetic Innovation Center of Food Safety and Quality Control, Jiangnan University, Wuxi, Jiangsu 214122, PR China
| | - Yinzhi Zhang
- State Key Laboratory of Food Science and Technology, School of Food Science and Technology, National Engineering Research Center for Functional Food, Synergetic Innovation Center of Food Safety and Quality Control, Jiangnan University, Wuxi, Jiangsu 214122, PR China
| | - Xiulan Sun
- State Key Laboratory of Food Science and Technology, School of Food Science and Technology, National Engineering Research Center for Functional Food, Synergetic Innovation Center of Food Safety and Quality Control, Jiangnan University, Wuxi, Jiangsu 214122, PR China.
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He MY, Lin YJ, Kao YL, Kuo P, Grauffel C, Lim C, Cheng YS, Chou HHD. Sensitive and Specific Cadmium Biosensor Developed by Reconfiguring Metal Transport and Leveraging Natural Gene Repositories. ACS Sens 2021; 6:995-1002. [PMID: 33444502 DOI: 10.1021/acssensors.0c02204] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Abstract
Whole-cell biosensors are useful for monitoring heavy metal toxicity in public health and ecosystems, but their development has been hindered by intrinsic trade-offs between sensitivity and specificity. Here, we demonstrated an effective engineering solution by building a sensitive, specific, and high-response biosensor for carcinogenic cadmium ions. We genetically programmed the metal transport system of Escherichia coli to enrich intracellular cadmium ions and deprive interfering metal species. We then selected 16 cadmium-sensing transcription factors from the GenBank database and tested their reactivity to 14 metal ions in the engineered E. coli using the expression of the green fluorescent protein as the readout. The resulting cadmium biosensor was highly specific and showed a detection limit of 3 nM, a linear increase in fluorescent intensities from 0 to 200 nM, and a maximal 777-fold signal change. Using this whole-cell biosensor, a smartphone, and low-tech equipment, we developed a simple assay capable of measuring cadmium ions at the same concentration range in irrigation water and human urine. This method is user-friendly and cost-effective, making it affordable to screen large amounts of samples for cadmium toxicity in agriculture and medicine. Moreover, our work highlights natural gene repositories as a treasure chest for bioengineering.
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Affiliation(s)
- Mei-Ying He
- Department of Life Science, National Taiwan University, Taipei 106, Taiwan
| | - Yu-Jen Lin
- Department of Life Science, National Taiwan University, Taipei 106, Taiwan
| | - Yi-Ling Kao
- Department of Life Science, National Taiwan University, Taipei 106, Taiwan
| | - Pu Kuo
- Department of Life Science, National Taiwan University, Taipei 106, Taiwan
| | - Cédric Grauffel
- Institute of Biomedical Sciences, Academia Sinica, Taipei 115, Taiwan
| | - Carmay Lim
- Institute of Biomedical Sciences, Academia Sinica, Taipei 115, Taiwan
| | - Yi-Sheng Cheng
- Department of Life Science, National Taiwan University, Taipei 106, Taiwan
- Genome and Systems Biology Degree Program, Academia Sinica and National Taiwan University, Taipei 106, Taiwan
| | - Hsin-Hung David Chou
- Department of Life Science, National Taiwan University, Taipei 106, Taiwan
- Genome and Systems Biology Degree Program, Academia Sinica and National Taiwan University, Taipei 106, Taiwan
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Busnelli MP, Lazzarini Behrmann IC, Ferreira ML, Candal RJ, Ramirez SA, Vullo DL. Metal- Pseudomonas veronii 2E Interactions as Strategies for Innovative Process Developments in Environmental Biotechnology. Front Microbiol 2021; 12:622600. [PMID: 33746918 PMCID: PMC7965972 DOI: 10.3389/fmicb.2021.622600] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2020] [Accepted: 02/08/2021] [Indexed: 11/25/2022] Open
Abstract
The increase of industrial discharges is the first cause of the contamination of water bodies. The bacterial survival strategies contribute to the equilibrium restoration of ecosystems being useful tools for the development of innovative environmental biotechnologies. The aim of this work was to study the Cu(II) and Cd(II) biosensing, removal and recovery, mediated by whole cells, exopolymeric substances (EPS) and biosurfactants of the indigenous and non-pathogenic Pseudomonas veronii 2E to be applied in the development of wastewater biotreatments. An electrochemical biosensor was developed using P. veronii 2E biosorption mechanism mediated by the cell surface associated to bound exopolymeric substances. A Carbon Paste Electrode modified with P. veronii 2E (CPEM) was built using mineral oil, pre-washed graphite power and 24 h-dried cells. For Cd(II) quantification the CPEM was immersed in Cd(II) (1-25 μM), detected by Square Wave Voltammetry. A similar procedure was used for 1-50 μM Cu(II). Regarding Cd(II), removal mediated by immobilized EPS was tested in a 50 ml bioreactor with 0.13 mM Cd(II), pH 7.5. A 54% metal retention by EPS was achieved after 7 h of continuous operation, while a 40% was removed by a control resin. In addition, surfactants produced by P. veronii 2E were studied for recovery of Cd(II) adsorbed on diatomite, obtaining a 36% desorption efficiency at pH 6.5. Cu(II) adsorption from a 1 mM solution was tested using P. veronii 2E purified soluble EPS in 50 mL- batch reactors (pH = 5.5, 32°C). An 80% of the initial Cu(II) was retained using 1.04 g immobilized EPS. Focusing on metal recovery, Cu nanoparticles (NPs) biosynthesis by P. veronii 2E was carried out in Cu(II)-PYG Broth at 25°C for 5 days. Extracellular CuNPs were characterized by UV-Vis spectral analysis while both extracellular and intracellular NPs were analyzed by SEM and TEM techniques. Responses of P. veronii 2E and its products as biosurfactants, bound and soluble EPS allowed Cu(II) and Cd(II) removal, recovery and biosensing resulting in a multiple and versatile tool for sustainable wastewater biotreatments.
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Affiliation(s)
- María Pia Busnelli
- Área Química, Instituto de Ciencias, Universidad Nacional de General Sarmiento, Los Polvorines, Argentina
- Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Buenos Aires, Argentina
| | | | - Maria Laura Ferreira
- Área Química, Instituto de Ciencias, Universidad Nacional de General Sarmiento, Los Polvorines, Argentina
| | - Roberto J. Candal
- Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Buenos Aires, Argentina
- Instituto de Investigación e Ingeniería Ambiental (IIIA), Universidad Nacional de General San Martin, San Martín, Argentina
| | - Silvana A. Ramirez
- Área Química, Instituto de Ciencias, Universidad Nacional de General Sarmiento, Los Polvorines, Argentina
| | - Diana L. Vullo
- Área Química, Instituto de Ciencias, Universidad Nacional de General Sarmiento, Los Polvorines, Argentina
- Consejo Nacional de Investigaciones Científicas y Técnicas (CONICET), Buenos Aires, Argentina
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Wang X, Wei W, Zhao J. Using a Riboswitch Sensor to Detect Co 2+/Ni 2+ Transport in E. coli. Front Chem 2021; 9:631909. [PMID: 33659237 PMCID: PMC7917058 DOI: 10.3389/fchem.2021.631909] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2020] [Accepted: 01/06/2021] [Indexed: 11/14/2022] Open
Abstract
Intracellular concentrations of essential mental ions must be tightly maintained to avoid metal deprivation and toxicity. However, their levels in cells are still difficult to monitor. In this report, the combination of a Co2+Ni2+-specific riboswitch and an engineered downstream mCherry fluorescent protein allowed a highly sensitive and selective whole-cell Co2+/Ni2+ detection process. The sensors were applied to examine the resistance system of Co2+/Ni2+ in E. coli, and the sensors were able to monitor the effects of genetic deletions. These results indicate that riboswitch-based sensors can be employed in the study of related cellular processes.
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Affiliation(s)
- Xiaoying Wang
- State Key Laboratory of Coordination Chemistry, Chemistry and Biomedicine Innovation Center (ChemBIC), School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, China
| | - Wei Wei
- State Key Laboratory of Coordination Chemistry, Chemistry and Biomedicine Innovation Center (ChemBIC), School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, China
- School of Life Sciences, Nanjing University, Nanjing, China
| | - Jing Zhao
- State Key Laboratory of Coordination Chemistry, Chemistry and Biomedicine Innovation Center (ChemBIC), School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, China
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29
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Gul I, Le W, Jie Z, Ruiqin F, Bilal M, Tang L. Recent advances on engineered enzyme-conjugated biosensing modalities and devices for halogenated compounds. Trends Analyt Chem 2021. [DOI: 10.1016/j.trac.2020.116145] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
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30
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Abstract
The relationship between water and energy is a strong one characterized as having integration and coupling as two important features. While energy is responsible for delivering water to the end-users, it needs energy in order to be generated, and water. In this paper, a thorough review is presented regarding the different relationships between water and energy in terms of (i) the significance of the close relationship between water and energy by means of water/energy generation and consumption. Water consumption, water cooling and heating must be taken into account in order to avoid the obstacles related to future use of water for energy generation; (ii) the measuring and monitoring technologies for the energy-water nexus, focusing attention on the variables that are interrelated in the water and energy sectors. In addition, the consequences of finding several parameters, unknown variables and unclear dependencies in measuring of energy usage in the applications of water usage should also be taken into account. Innovative developments including nanotechnology, biotechnology, and wireless networks, as sensor technologies, may resolve the challenges of sensing; (iii) the different key performance indication tools for assessing and quantifying this nexus by analyzing and categorizing recent case studies of the water energy nexus and applicable evaluation methods; and (iv) the different research dimensions conducted on this nexus. Hopefully, this review will contribute to the development of this nexus adding value to the field while reducing duplication efforts.
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31
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Piroozmand F, Mohammadipanah F, Faridbod F. Emerging biosensors in detection of natural products. Synth Syst Biotechnol 2020; 5:293-303. [PMID: 32954023 PMCID: PMC7484522 DOI: 10.1016/j.synbio.2020.08.002] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2020] [Revised: 08/23/2020] [Accepted: 08/25/2020] [Indexed: 01/10/2023] Open
Abstract
Natural products (NPs) are a valuable source in the food, pharmaceutical, agricultural, environmental, and many other industrial sectors. Their beneficial properties along with their potential toxicities make the detection, determination or quantification of NPs essential for their application. The advanced instrumental methods require time-consuming sample preparation and analysis. In contrast, biosensors allow rapid detection of NPs, especially in complex media, and are the preferred choice of detection when speed and high throughput are intended. Here, we review diverse biosensors reported for the detection of NPs. The emerging approaches for improving the efficiency of biosensors, such as microfluidics, nanotechnology, and magnetic beads, are also discussed. The simultaneous use of two detection techniques is suggested as a robust strategy for precise detection of a specific NP with structural complexity in complicated matrices. The parallel detection of a variety of NPs structures or biological activities in a mixture of extract in a single detection phase is among the anticipated future advancements in this field which can be achieved using multisystem biosensors applying multiple flow cells, sensing elements, and detection mechanisms on miniaturized folded chips.
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Affiliation(s)
- Firoozeh Piroozmand
- Pharmaceutical Biotechnology Lab, Department of Microbial Biotechnology, School of Biology and Center of Excellence in Phylogeny of Living Organisms, College of Science, University of Tehran, 14155-6455, Tehran, Iran
| | - Fatemeh Mohammadipanah
- Pharmaceutical Biotechnology Lab, Department of Microbial Biotechnology, School of Biology and Center of Excellence in Phylogeny of Living Organisms, College of Science, University of Tehran, 14155-6455, Tehran, Iran
| | - Farnoush Faridbod
- Center of Excellence in Electrochemistry, School of Chemistry, College of Science, University of Tehran, Tehran, Iran
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32
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Chern M, Garden PM, Baer RC, Galagan JE, Dennis AM. Transcription Factor Based Small‐Molecule Sensing with a Rapid Cell Phone Enabled Fluorescent Bead Assay. Angew Chem Int Ed Engl 2020. [DOI: 10.1002/ange.202007575] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Margaret Chern
- Division of Materials Science and Engineering Boston University Boston MA USA
| | - Padric M. Garden
- Department of Biomedical Engineering Boston University Boston MA USA
| | - R C. Baer
- Department of Microbiology Boston University Boston MA USA
| | - James E. Galagan
- Department of Biomedical Engineering Boston University Boston MA USA
- Department of Microbiology Boston University Boston MA USA
- National Emerging Infectious Diseases Laboratories Boston University Boston MA USA
| | - Allison M. Dennis
- Division of Materials Science and Engineering Boston University Boston MA USA
- Department of Biomedical Engineering Boston University Boston MA USA
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33
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Chern M, Garden PM, Baer RC, Galagan JE, Dennis AM. Transcription Factor Based Small-Molecule Sensing with a Rapid Cell Phone Enabled Fluorescent Bead Assay. Angew Chem Int Ed Engl 2020; 59:21597-21602. [PMID: 32945589 DOI: 10.1002/anie.202007575] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2020] [Indexed: 12/26/2022]
Abstract
Recently, allosteric transcription factors (TFs) were identified as a novel class of biorecognition elements for in vitro sensing, whereby an indicator of the differential binding affinity between a TF and its cognate DNA exhibits dose-dependent responsivity to an analyte. Described is a modular bead-based biosensor design that can be applied to such TF-DNA-analyte systems. DNA-functionalized beads enable efficient mixing and spatial separation, while TF-labeled semiconductor quantum dots serve as bright fluorescent indicators of the TF-DNA bound (on bead) and unbound states. The prototype sensor for derivatives of the antibiotic tetracycline exhibits nanomolar sensitivity with visual detection of bead fluorescence. Facile changes to the sensor enable sensor response tuning without necessitating changes to the biomolecular affinities. Assay components self-assemble, and readout by eye or digital camera is possible within 5 minutes of analyte addition, making sensor use facile, rapid, and instrument-free.
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Affiliation(s)
- Margaret Chern
- Division of Materials Science and Engineering, Boston University, Boston, MA, USA
| | - Padric M Garden
- Department of Biomedical Engineering, Boston University, Boston, MA, USA
| | - R C Baer
- Department of Microbiology, Boston University, Boston, MA, USA
| | - James E Galagan
- Department of Biomedical Engineering, Boston University, Boston, MA, USA.,Department of Microbiology, Boston University, Boston, MA, USA.,National Emerging Infectious Diseases Laboratories, Boston University, Boston, MA, USA
| | - Allison M Dennis
- Division of Materials Science and Engineering, Boston University, Boston, MA, USA.,Department of Biomedical Engineering, Boston University, Boston, MA, USA
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De Rycke E, Stove C, Dubruel P, De Saeger S, Beloglazova N. Recent developments in electrochemical detection of illicit drugs in diverse matrices. Biosens Bioelectron 2020; 169:112579. [PMID: 32947080 DOI: 10.1016/j.bios.2020.112579] [Citation(s) in RCA: 46] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2020] [Revised: 08/20/2020] [Accepted: 08/31/2020] [Indexed: 01/24/2023]
Abstract
Drug abuse is a global problem, requiring an interdisciplinary approach. Discovery, production, trafficking, and consumption of illicit drugs have been constantly growing, leading to heavy consequences for environment, human health, and society in general. Therefore, an urgent need for rapid, sensitive, portable and easy-to-operate detection methods for numerous drugs of interest in diverse matrices, from police samples, biological fluids and hair to sewage water has risen. Electrochemical sensors are promising alternatives to chromatography and spectrometry. Last decades, electrochemical sensing of illegal drugs has experienced a very significant growth, driven by improved transducers and signal amplifiers helping to improve the sensitivity and selectivity. The present review summarizes recent advances (last 10 years) in electrochemical detection of the most prevailing illicit drugs (such as cocaine, heroin, and (meth)amphetamine), their precursors and derivatives in different matrices. Various electrochemical sensors making use of different transducers with their (dis)advantages were discussed, and their sensitivity and applicability were critically compared. In those cases where natural or synthetic recognition elements were included in the sensing system to increase specificity, selected recognition elements, their immobilization, working conditions, and analytical performance were discussed. Finally, an outlook is presented with suggestions and recommendations for future developments.
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Affiliation(s)
- Esther De Rycke
- Centre of Excellence in Mycotoxicology and Public Health, Department of Bioanalysis, Ghent University, Ottergemsesteenweg 460, B-9000 Ghent, Belgium; Polymer Chemistry & Biomaterials Research Group, Department of Organic and Macromolecular Chemistry, Ghent University, Krijgslaan 281, Building S4-Bis, B-9000 Ghent, Belgium.
| | - Christophe Stove
- Laboratory of Toxicology, Ghent University, Ottergemsesteenweg 460, B-9000 Ghent, Belgium
| | - Peter Dubruel
- Polymer Chemistry & Biomaterials Research Group, Department of Organic and Macromolecular Chemistry, Ghent University, Krijgslaan 281, Building S4-Bis, B-9000 Ghent, Belgium
| | - Sarah De Saeger
- Centre of Excellence in Mycotoxicology and Public Health, Department of Bioanalysis, Ghent University, Ottergemsesteenweg 460, B-9000 Ghent, Belgium
| | - Natalia Beloglazova
- Centre of Excellence in Mycotoxicology and Public Health, Department of Bioanalysis, Ghent University, Ottergemsesteenweg 460, B-9000 Ghent, Belgium; Nanotechnology Education and Research Center, South Ural State University, 454080 Chelyabinsk, Russia
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35
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Sonawane JM, Ezugwu CI, Ghosh PC. Microbial Fuel Cell-Based Biological Oxygen Demand Sensors for Monitoring Wastewater: State-of-the-Art and Practical Applications. ACS Sens 2020; 5:2297-2316. [PMID: 32786393 DOI: 10.1021/acssensors.0c01299] [Citation(s) in RCA: 35] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Abstract
Environmental pollution has been a continuous threat to sustainable development and global well-being. It has become a significant concern worldwide to combat the ecological crisis using low-cost innovative technologies. Biological oxygen demand (BOD) is a key indicator to comprehend the quality of water to guarantee environmental safety and human health; however, none of the present technologies are capable of online monitoring of the water at the source. Microbial fuel cells (MFC) are a promising technology for simultaneous power generation and wastewater treatment. MFCs have also been shown in fascinating applications to measure and detect the toxic pollutants present in wastewater. These are the bioreactors where exoelectrogenic microorganisms catalyze the conversion of the inherent chemical energy stored in organic compounds to electrical energy. Sensors employ energy conversion to measure BOD, which is considered an international index for the detection of organic material load present in wastewater. The MFC-based BOD sensors have gone through a wide range of advancement from mediator to mediator-less, double chamber to single-chamber, and large size to miniature. There have been detailed studies to improve the accuracy and reproducibility of the sensors for commercial applications. Additionally, multistage MFC-based BOD biosensors and miniature MFC-BOD sensors have also been ubiquitous in recent years. A considerable amount of work has been carried out to improve the performance of these devices by fabricating the proton exchange membranes and altering catalysts at the cathode. However, there remains a dearth for the fabrication of the devices in aspects like suitable microbes, proton exchange membranes, and cheaper catalysts for cathodes for effective real-time monitoring of wastewater. In this review, an extensive study has been carried out on various MFC-based BOD sensors. The efficiency and drawbacks associated with the different MFC-based BOD sensors have been critically evaluated, and future perspectives for their development have been investigated. The breadth of work compiled in this review will accelerate further research in MFC-based BOD biosensors. It will be of great importance to broad ranges of scientific research and industry.
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Affiliation(s)
- Jayesh M. Sonawane
- Department of Chemical Engineering and Applied Chemistry and Centre for Global Engineering, University of Toronto, 200 College Street, Toronto, Ontario M5S 3E5, Canada
| | - Chizoba I. Ezugwu
- Department of Analytical Chemistry, Physical Chemistry, and Chemical Engineering, University of Alcala, E-28871 Alcalá de Henares, Madrid, Spain
| | - Prakash C. Ghosh
- Department of Energy Science and Engineering, Indian Institute of Technology Bombay, Mumbai, India, 400 076
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Lautenschläger N, Popp PF, Mascher T. Development of a novel heterologous β-lactam-specific whole-cell biosensor in Bacillus subtilis. J Biol Eng 2020; 14:21. [PMID: 32765644 PMCID: PMC7394692 DOI: 10.1186/s13036-020-00243-4] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2020] [Accepted: 07/16/2020] [Indexed: 11/10/2022] Open
Abstract
Background Whole-cell biosensors are a powerful and easy-to-use screening tool for the fast and sensitive detection of chemical compounds, such as antibiotics. β-Lactams still represent one of the most important antibiotic groups in therapeutic use. They interfere with late stages of the bacterial cell wall biosynthesis and result in irreversible perturbations of cell division and growth, ultimately leading to cell lysis. In order to simplify the detection of these antibiotics from solutions, solid media or directly from producing organisms, we aimed at developing a novel heterologous whole-cell biosensor in Bacillus subtilis, based on the β-lactam-induced regulatory system BlaR1/BlaI from Staphylococcus aureus. Results The BlaR1/BlaI system was heterologously expressed in B. subtilis and combined with the luxABCDE operon of Photorhabdus luminescens under control of the BlaR1/BlaI target promoter to measure the output of the biosensor. A combination of codon adaptation, constitutive expression of blaR1 and blaI and the allelic replacement of penP increased the inducer spectrum and dynamic range of the biosensor. β-Lactams from all four classes induced the target promoter PblaZ in a concentration-dependent manner, with a dynamic range of 7- to 53-fold. We applied our biosensor to a set of Streptomycetes soil isolates and demonstrated its potential to screen for the production of β-lactams. In addition to the successful implementation of a highly sensitive β-lactam biosensor, our results also provide the first experimental evidence to support previous suggestions that PenP functions as a β-lactamase in B. subtilis. Conclusion We have successfully established a novel heterologous whole-cell biosensor in B. subtilis that is highly sensitive for a broad spectrum of β-lactams from all four chemical classes. Therefore, it increases the detectable spectrum of compounds with respect to previous biosensor designs. Our biosensor can readily be applied for identifying β-lactams in liquid or on solid media, as well as for identifying potential β-lactam producers.
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Affiliation(s)
- Nina Lautenschläger
- Max Planck Unit for the Science of Pathogens, Berlin, Germany.,Institute of Microbiology, Technische Universität Dresden, Zellescher Weg 20b, 01217 Dresden, Germany
| | - Philipp F Popp
- Institute of Microbiology, Technische Universität Dresden, Zellescher Weg 20b, 01217 Dresden, Germany
| | - Thorsten Mascher
- Institute of Microbiology, Technische Universität Dresden, Zellescher Weg 20b, 01217 Dresden, Germany
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Chen F, Warnock RL, Van der Meer JR, Wegner SV. Bioluminescence-Triggered Photoswitchable Bacterial Adhesions Enable Higher Sensitivity and Dual-Readout Bacterial Biosensors for Mercury. ACS Sens 2020; 5:2205-2210. [PMID: 32583665 DOI: 10.1021/acssensors.0c00855] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
We present a new concept for whole-cell biosensors that couples the response to Hg2+ with bioluminescence and bacterial aggregation. This allows us to use the bacterial aggregation to preconcentrate the bioluminescent bacteria at the substrate surface and increase the sensitivity of Hg2+ detection. This whole-cell biosensor combines a Hg2+-sensitive bioluminescence reporter and light-responsive bacterial cell-cell adhesions. We demonstrate that the blue luminescence in response to Hg2+ is able to photoactivate bacterial aggregation, which provides a second readout for Hg2+ detection. In return, the Hg2+-triggered bacterial aggregation leads to faster sedimentation and more efficient formation of biofilms. At low Hg2+ concentrations, the enrichment of the bacteria in biofilms leads to an up to 10-fold increase in the signal. The activation of photoswitchable proteins with biological light is a new concept in optogenetics, and the presented bacterial biosensor design is transferable to other bioluminescent reporters with particular interest for environmental monitoring.
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Affiliation(s)
- Fei Chen
- Institute of Physiological Chemistry and Pathobiochemistry, University of Münster, 48149 Münster, Germany
| | - Rachel L. Warnock
- Max Planck Institute for Polymer Research, Ackermannweg 10, 55128 Mainz, Germany
| | | | - Seraphine V. Wegner
- Institute of Physiological Chemistry and Pathobiochemistry, University of Münster, 48149 Münster, Germany
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Elcin E, Öktem HA. Immobilization of fluorescent bacterial bioreporter for arsenic detection. JOURNAL OF ENVIRONMENTAL HEALTH SCIENCE & ENGINEERING 2020; 18:137-148. [PMID: 32399227 PMCID: PMC7203266 DOI: 10.1007/s40201-020-00447-2] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/19/2019] [Accepted: 01/14/2020] [Indexed: 05/27/2023]
Abstract
Whole-cell bacterial biosensors hold great promise as a practical complementary approach for in-field detection of arsenic. Although there are various bacterial bioreporter systems for arsenic detection, fewer studies reported the immobilization of arsenic bioreporters. This study aimed at determining immobilization of specific bacterial bioreporter in agar and alginate biopolymers to measure level of arsenite and/or arsenate. To achieve sensitive detection, immobilization parameters of polymer concentration and cell density were evaluated. Moreover, by changing the culture medium, immobilized bioreporter cells in minimal medium can detect arsenite while they can detect both arsenite and arsenate in phosphate-limited minimal medium. When optimal parameters were applied, agar and alginate immobilized bioreporter systems can detect arsenite and arsenate concentrations of 10 μg/l and 200 μg/l within 5 h and 2 h, respectively. The results showed that the immobilized bacterial bioreporter systems are able to determine the concentrations of the two abundant species of arsenic; arsenite and arsenate, as opposed to other studies which reported only arsenite detection. This is the first study describe agar hydrogel and alginate bead immobilization of fluorescent arsenic bacterial bioreporter that can detect both arsenite and arsenate at the safe drinking water limit. Thus, this study will enable further steps to be taken towards developing sensitive and selective portable devices to assess environmental arsenic contamination and prevent acute arsenic toxicity.
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Affiliation(s)
- Evrim Elcin
- Department of Biotechnology, Middle East Technical University, 06800 Ankara, Turkey
| | - Huseyin Avni Öktem
- Department of Biotechnology, Middle East Technical University, 06800 Ankara, Turkey
- Department of Biological Sciences, Middle East Technical University, 06800 Ankara, Turkey
- Nanobiz Technology Inc, Gallium Block: 27/218, METU-Science Park, 06800 Ankara, Turkey
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Zhang X, Cao Y, Liu Y, Liu L, Li J, Du G, Chen J. Development and optimization of N-acetylneuraminic acid biosensors in Bacillus subtilis. Biotechnol Appl Biochem 2020; 67:693-705. [PMID: 32400021 DOI: 10.1002/bab.1942] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2019] [Accepted: 05/10/2020] [Indexed: 02/06/2023]
Abstract
Transcriptional factor (TF)-based metabolite-responsive biosensors are important tools for screening engineered enzymes with desired properties and for the dynamic regulation of biosynthetic pathways. However, TF-based biosensor construction is often constrained by undesired effects of TF-binding site sequence insertion on gene expression and unpredictable optimal TF expression levels. In the present study, a stepwise TF-based biosensor construction approach was developed using an N-acetylneuraminic acid (NeuAc) biosensor for Bacillus subtilis, as a case study. Specifically, 12 promoters with various strengths were selected as the first promoter library. Next, binding site sequences for the NanR were inserted into various positions of the selected promoter sequences to develop the second promoter library, resulting in 6 engineered promoters containing TF-binding site sequences (NanO), without major effects on promoter strength. NanR expression cassettes with different expression levels were further integrated to construct the biosensor library, yielding 9 NeuAc biosensors with efficient repression in the absence of NeuAc. Finally, biosensor activation was characterized by testing fold changes in expression levels of the green fluorescent protein reporter in the presence of NeuAc in vivo, which revealed 61-fold activation when NeuAc was present. The NeuAc biosensor developed in this study can be used for screening engineered enzymes for enhanced NeuAc biosynthesis in B. subtilis.
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Affiliation(s)
- Xiaolong Zhang
- Key Laboratory of Carbohydrate Chemistry and Biotechnology, Ministry of Education, Jiangnan University, Wuxi, People's Republic of China.,Key Laboratory of Industrial Biotechnology, Ministry of Education, Jiangnan University, Wuxi, People's Republic of China
| | - Yanting Cao
- Key Laboratory of Carbohydrate Chemistry and Biotechnology, Ministry of Education, Jiangnan University, Wuxi, People's Republic of China.,Key Laboratory of Industrial Biotechnology, Ministry of Education, Jiangnan University, Wuxi, People's Republic of China
| | - Yanfeng Liu
- Key Laboratory of Carbohydrate Chemistry and Biotechnology, Ministry of Education, Jiangnan University, Wuxi, People's Republic of China.,Key Laboratory of Industrial Biotechnology, Ministry of Education, Jiangnan University, Wuxi, People's Republic of China
| | - Long Liu
- Key Laboratory of Carbohydrate Chemistry and Biotechnology, Ministry of Education, Jiangnan University, Wuxi, People's Republic of China.,Key Laboratory of Industrial Biotechnology, Ministry of Education, Jiangnan University, Wuxi, People's Republic of China
| | - Jianghua Li
- Key Laboratory of Industrial Biotechnology, Ministry of Education, Jiangnan University, Wuxi, People's Republic of China
| | - Guocheng Du
- Key Laboratory of Carbohydrate Chemistry and Biotechnology, Ministry of Education, Jiangnan University, Wuxi, People's Republic of China.,Key Laboratory of Industrial Biotechnology, Ministry of Education, Jiangnan University, Wuxi, People's Republic of China
| | - Jian Chen
- Key Laboratory of Industrial Biotechnology, Ministry of Education, Jiangnan University, Wuxi, People's Republic of China.,National Engineering Laboratory for Cereal Fermentation Technology, Jiangnan University, Wuxi, People's Republic of China
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40
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Bacteria as genetically programmable producers of bioactive natural products. Nat Rev Chem 2020; 4:172-193. [PMID: 37128046 DOI: 10.1038/s41570-020-0176-1] [Citation(s) in RCA: 69] [Impact Index Per Article: 17.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 02/21/2020] [Indexed: 12/17/2022]
Abstract
Next to plants, bacteria account for most of the biomass on Earth. They are found everywhere, although certain species thrive only in specific ecological niches. These microorganisms biosynthesize a plethora of both primary and secondary metabolites, defined, respectively, as those required for the growth and maintenance of cellular functions and those not required for survival but offering a selective advantage for the producer under certain conditions. As a result, bacterial fermentation has long been used to manufacture valuable natural products of nutritional, agrochemical and pharmaceutical interest. The interactions of secondary metabolites with their biological targets have been optimized by millions of years of evolution and they are, thus, considered to be privileged chemical structures, not only for drug discovery. During the last two decades, functional genomics has allowed for an in-depth understanding of the underlying biosynthetic logic of secondary metabolites. This has, in turn, paved the way for the unprecedented use of bacteria as programmable biochemical workhorses. In this Review, we discuss the multifaceted use of bacteria as biological factories in diverse applications and highlight recent advances in targeted genetic engineering of bacteria for the production of valuable bioactive compounds. Emphasis is on current advances to access nature's abundance of natural products.
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Label-Free Biosensors for Laboratory-Based Diagnostics of Infections: Current Achievements and New Trends. BIOSENSORS-BASEL 2020; 10:bios10020011. [PMID: 32059538 PMCID: PMC7169461 DOI: 10.3390/bios10020011] [Citation(s) in RCA: 30] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/02/2020] [Revised: 01/30/2020] [Accepted: 02/08/2020] [Indexed: 01/16/2023]
Abstract
Infections pose a serious global public health problem and are a major cause of premature mortality worldwide. One of the most challenging objectives faced by modern medicine is timely and accurate laboratory-based diagnostics of infectious diseases. Being a key factor of timely initiation and success of treatment, it may potentially provide reduction in incidence of a disease, as well as prevent outbreak and spread of dangerous epidemics. The traditional methods of laboratory-based diagnostics of infectious diseases are quite time- and labor-consuming, require expensive equipment and qualified personnel, which restricts their use in case of limited resources. Over the past six decades, diagnostic technologies based on lateral flow immunoassay (LFIA) have been and remain true alternatives to modern laboratory analyzers and have been successfully used to quickly detect molecular ligands in biosubstrates to diagnose many infectious diseases and septic conditions. These devices are considered as simplified formats of modern biosensors. Recent advances in the development of label-free biosensor technologies have made them promising diagnostic tools that combine rapid pathogen indication, simplicity, user-friendliness, operational efficiency, accuracy, and cost effectiveness, with a trend towards creation of portable platforms. These qualities exceed the generally accepted standards of microbiological and immunological diagnostics and open up a broad range of applications of these analytical systems in clinical practice immediately at the site of medical care (point-of-care concept, POC). A great variety of modern nanoarchitectonics of biosensors are based on the use of a broad range of analytical and constructive strategies and identification of various regulatory and functional molecular markers associated with infectious bacterial pathogens. Resolution of the existing biosensing issues will provide rapid development of diagnostic biotechnologies.
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Plekhanova YV, Reshetilov AN. Microbial Biosensors for the Determination of Pesticides. JOURNAL OF ANALYTICAL CHEMISTRY 2019. [DOI: 10.1134/s1061934819120098] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/31/2022]
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43
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Lee K, Choi S, Kim C, Kang WS, Son W, Bae SC, Oh JW, Lee SK, Cha C. Implementation of Combinatorial Genetic and Microenvironmental Engineering to Microbial-Based Field-Deployable Microbead Biosensors for Highly Sensitive and Remote Chemical Detection. ACS Sens 2019; 4:2716-2723. [PMID: 31512857 DOI: 10.1021/acssensors.9b01183] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
Abstract
Bioreporters, microbial species genetically engineered to provide measurable signals in response to specific chemicals, have been widely investigated as sensors for biomedical and environmental monitoring. More specifically, the bioreporter encapsulated within a biocompatible material, such as a hydrogel that can provide a suitable microenvironment for its prolonged activity as well as efficient scalable production, has been viewed as a more broadly applicable mode of biosensors. In this study, alginate-based microbeads encapsulated with the bacterial bioreporter capable of expressing green fluorescence protein in response to nitro compounds (e.g., trinitrotoluene and dinitrotoluene) are developed as biosensors. To significantly enhance the sensitivity of the microbial-based microbead biosensors, "multifaceted" modification strategies are simultaneously employed: (1) multiple genetic modifications of the bioreporter, (2) tuning the physicomechanical properties of the encapsulating microbeads, (3) controlling the initial cell density within the microbeads, and (4) enrichment of nitro compounds inside microbeads via functional nanomaterials. These microbial and microenvironmental engineering approaches combine to significantly enhance the sensing capability, even allowing highly sensitive remote detection under a low-vapor phase. Thus, the strategy developed herein is expected to contribute to various cell-based biosensors.
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Affiliation(s)
| | | | - Chuntae Kim
- Department of Nano Fusion Technology, Pusan National University, Busan 46241, Korea
| | | | | | | | - Jin-Woo Oh
- Department of Nano Fusion Technology, Pusan National University, Busan 46241, Korea
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Saltepe B, Bozkurt EU, Hacıosmanoğlu N, Şeker UÖŞ. Genetic Circuits To Detect Nanomaterial Triggered Toxicity through Engineered Heat Shock Response Mechanism. ACS Synth Biol 2019; 8:2404-2417. [PMID: 31536326 DOI: 10.1021/acssynbio.9b00291] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
Abstract
Biocompatibility assessment of nanomaterials has been of great interest due to their potential toxicity. However, conventional biocompatibility tests fall short of providing a fast toxicity report. We developed a whole cell based biosensor to track biocompatibility of nanomaterials with the aim of providing fast feedback to engineer them with lower toxicity levels. We engineered promoters of four heat shock response (HSR) proteins utilizing synthetic biology approaches. As an initial design, a reporter coding gene was cloned downstream of the selected promoter regions. Initial results indicated that native heat shock protein (HSP) promoter regions were not very promising to generate signals with low background signals. Introducing riboregulators to native promoters eliminated unwanted background signals almost entirely. Yet, this approach also led to a decrease in expected sensor signal upon stress treatment. Thus, a repression based genetic circuit, inspired by the HSR mechanism of Mycobacterium tuberculosis, was constructed. These genetic circuits could report the toxicity of quantum dot nanoparticles in 1 h. Our designed nanoparticle toxicity sensors can provide quick reports, which can lower the demand for additional experiments with more complex organisms.
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Affiliation(s)
- Behide Saltepe
- UNAM−Institute of Materials Science and Nanotechnology, National Nanotechnology Research Center, Bilkent University, 06800 Ankara, Turkey
- Institute of Materials Science and Nanotechnology, Bilkent University, 06800 Ankara, Turkey
| | - Eray Ulaş Bozkurt
- UNAM−Institute of Materials Science and Nanotechnology, National Nanotechnology Research Center, Bilkent University, 06800 Ankara, Turkey
- Institute of Materials Science and Nanotechnology, Bilkent University, 06800 Ankara, Turkey
| | - Nedim Hacıosmanoğlu
- UNAM−Institute of Materials Science and Nanotechnology, National Nanotechnology Research Center, Bilkent University, 06800 Ankara, Turkey
- Institute of Materials Science and Nanotechnology, Bilkent University, 06800 Ankara, Turkey
| | - Urartu Özgür Şafak Şeker
- UNAM−Institute of Materials Science and Nanotechnology, National Nanotechnology Research Center, Bilkent University, 06800 Ankara, Turkey
- Institute of Materials Science and Nanotechnology, Bilkent University, 06800 Ankara, Turkey
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45
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Patel R, Chudasama R, Solanki R, Patel P, Parmar K, Munshi NS. Structure prediction and molecular docking studies of aromatic hydrocarbon sensing proteins TbuT, HbpR and PhnR to detect priority pollutants. JOURNAL OF ENVIRONMENTAL SCIENCE AND HEALTH. PART A, TOXIC/HAZARDOUS SUBSTANCES & ENVIRONMENTAL ENGINEERING 2019; 55:126-141. [PMID: 31566066 DOI: 10.1080/10934529.2019.1672457] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/29/2019] [Revised: 09/18/2019] [Accepted: 09/20/2019] [Indexed: 06/10/2023]
Abstract
On-line detection of aromatic hydrocarbon pollutants in aqueous environments can be achieved by biosensing strains having fusion of gene responsible for pollutant sensing protein with a reporter gene. Regulatory proteins TbuT, HbpR and PhnR are such proteins for recognizing one-, two-and three-ring aromatic hydrocarbon pollutants respectively, for which the structure is not known till date. Aim of the present study was to predict the structure of proteins and to determine their in-silico interaction with array of pollutants. Structure prediction of proteins was performed using I-TASSER and Phyre2 and refined with ModRefiner and 3DRefine. Total 14 models were obtained for each protein and the best model had more than 95% coverage in Ramachandran plot region. After successful structure prediction, molecular interaction of proteins with respective aromatic hydrocarbon pollutants categorized by United States Environmental Protection Agency was studied using AutoDockVina where the binding energy was found to fall in range of -4.6 to -8.4 kcal/mol. The types of protein-pollutant interaction were analyzed by LigPlus and Discovery Studio 2017 R2 Client which were found to be similar for standard and pollutant compounds. This study enables us to predict the range of pollutants possible to be detected using these regulatory protein-based biosensors.
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Affiliation(s)
- Rushika Patel
- Institute of Science, Nirma University, Ahmedabad, Gujarat, India
| | - Rajesh Chudasama
- Institute of Science, Nirma University, Ahmedabad, Gujarat, India
| | | | - Priya Patel
- Institute of Science, Nirma University, Ahmedabad, Gujarat, India
| | - Krupali Parmar
- Institute of Science, Nirma University, Ahmedabad, Gujarat, India
| | - Nasreen S Munshi
- Institute of Science, Nirma University, Ahmedabad, Gujarat, India
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46
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Brosel-Oliu S, Abramova N, Uria N, Bratov A. Impedimetric transducers based on interdigitated electrode arrays for bacterial detection - A review. Anal Chim Acta 2019; 1088:1-19. [PMID: 31623704 DOI: 10.1016/j.aca.2019.09.026] [Citation(s) in RCA: 32] [Impact Index Per Article: 6.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/08/2019] [Revised: 08/29/2019] [Accepted: 09/10/2019] [Indexed: 01/31/2023]
Abstract
Application of the impedance spectroscopy technique to detection of bacteria has advanced considerably over the last decade. This is reflected by the large amount of publications focused on basic research and applications of impedance biosensors. Employment of modern technologies to significantly reduce dimension of impedimetric devices enable on-chip integration of interdigitated electrode arrays for low-cost and easy-to-use sensors. This review is focused on publications dealing with interdigitated electrodes as a transducer unit and different bacteria detection systems using these devices. The first part of the review deals with the impedance technique principles, paying special attention to the use of interdigitated electrodes, while the main part of this work is focused on applications ranging from bacterial growth monitoring to label-free specific bacteria detection.
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Affiliation(s)
- Sergi Brosel-Oliu
- Departament de Micro-Nano Sistemes, BIOMEMS Group, Institut Microelectrònica de Barcelona (IMB-CNM), CSIC, 08290, Bellaterra, Spain
| | - Natalia Abramova
- Departament de Micro-Nano Sistemes, BIOMEMS Group, Institut Microelectrònica de Barcelona (IMB-CNM), CSIC, 08290, Bellaterra, Spain; Lab. Artificial Sensors Syst., ITMO University, Kronverskiy pr.49, 197101, St.Petersburg, Russia
| | - Naroa Uria
- Departament de Micro-Nano Sistemes, BIOMEMS Group, Institut Microelectrònica de Barcelona (IMB-CNM), CSIC, 08290, Bellaterra, Spain
| | - Andrey Bratov
- Departament de Micro-Nano Sistemes, BIOMEMS Group, Institut Microelectrònica de Barcelona (IMB-CNM), CSIC, 08290, Bellaterra, Spain.
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47
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Using the promoters of MerR family proteins as "rheostats" to engineer whole-cell heavy metal biosensors with adjustable sensitivity. J Biol Eng 2019; 13:70. [PMID: 31452678 PMCID: PMC6702742 DOI: 10.1186/s13036-019-0202-3] [Citation(s) in RCA: 30] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/24/2019] [Accepted: 08/12/2019] [Indexed: 12/30/2022] Open
Abstract
Background Whole cell biosensors provide a simple method for the detection of heavy metals. However, previous designs of them rely primarily on simulation of heavy metal resistance systems of bacteria. Results This study proposes a strategy for the rational design of metal detection circuits based on sensor proteins of the MerR family. Our results indicate the expression level of sensor protein can be used as a "rheostat" for tuning detection sensitivity with parabola curves to represent the relationships between the detection slopes and the sensor protein levels. This circuits design strategy (named as "Parabola Principle"), is used as a guide for the discovery of optimum metal detection circuits, and the design of biosensors with specific metal detection characteristics. For example, visible qualitative Hg (II) biosensors with a threshold of 0.05 mg/L are successfully constructed. Conclusions These results indicate the feasibility of developing a sensor that is much more tunable than what is presented. Graphical abstract
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48
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Olivenza DR, Nicoloff H, Sánchez-Romero MA, Cota I, Andersson DI, Casadesús J. A portable epigenetic switch for bistable gene expression in bacteria. Sci Rep 2019; 9:11261. [PMID: 31375711 PMCID: PMC6677893 DOI: 10.1038/s41598-019-47650-2] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2019] [Accepted: 07/22/2019] [Indexed: 02/04/2023] Open
Abstract
We describe a portable epigenetic switch based on opvAB, a Salmonella enterica operon that undergoes bistable expression under DNA methylation control. A DNA fragment containing the opvAB promoter and the opvAB upstream regulatory region confers bistability to heterologous genes, yielding OFF and ON subpopulations. Bistable expression under opvAB control is reproducible in Escherichia coli, showing that the opvAB switch can be functional in a heterologous host. Subpopulations of different sizes can be produced at will using engineered opvAB variants. Controlled formation of antibiotic-resistant and antibiotic-susceptible subpopulations may allow use of the opvAB switch in the study of bacterial heteroresistance to antibiotics.
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Affiliation(s)
- David R Olivenza
- Departamento de Genética, Facultad de Biología, Universidad de Sevilla, Apartado 1095, 41080, Sevilla, Spain
| | - Hervé Nicoloff
- Department of Medical Biochemistry and Microbiology, Uppsala University, 751 23, Uppsala, Sweden
| | | | - Ignacio Cota
- Departamento de Genética, Facultad de Biología, Universidad de Sevilla, Apartado 1095, 41080, Sevilla, Spain.,Centre for Research in Agricultural Genomics, CSIC-IRTA-UAB-UB, Campus UAB, Bellaterra, 08193, Barcelona, Spain
| | - Dan I Andersson
- Department of Medical Biochemistry and Microbiology, Uppsala University, 751 23, Uppsala, Sweden
| | - Josep Casadesús
- Departamento de Genética, Facultad de Biología, Universidad de Sevilla, Apartado 1095, 41080, Sevilla, Spain.
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Abstract
The microbial fuel cell (MFC) is a promising environmental biotechnology that has been proposed mainly for power production and wastewater treatment. Though small power output constrains its application for directly operating most electrical devices, great progress in its chemical, electrochemical, and microbiological aspects has expanded the applications of MFCs into other areas such as the generation of chemicals (e.g., formate or methane), bioremediation of contaminated soils, water desalination, and biosensors. In recent decades, MFC-based biosensors have drawn increasing attention because of their simplicity and sustainability, with applications ranging from the monitoring of water quality (e.g., biochemical oxygen demand (BOD), toxicants) to the detection of air quality (e.g., carbon monoxide, formaldehyde). In this review, we summarize the status quo of MFC-based biosensors, putting emphasis on BOD and toxicity detection. Furthermore, this review covers other applications of MFC-based biosensors, such as DO and microbial activity. Further, challenges and prospects of MFC-based biosensors are briefly discussed.
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50
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Cui Y, Lai B, Tang X. Microbial Fuel Cell-Based Biosensors. BIOSENSORS-BASEL 2019; 9:bios9030092. [PMID: 31340591 PMCID: PMC6784372 DOI: 10.3390/bios9030092] [Citation(s) in RCA: 43] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/15/2019] [Revised: 07/19/2019] [Accepted: 07/22/2019] [Indexed: 01/05/2023]
Abstract
The microbial fuel cell (MFC) is a promising environmental biotechnology that has been proposed mainly for power production and wastewater treatment. Though small power output constrains its application for directly operating most electrical devices, great progress in its chemical, electrochemical, and microbiological aspects has expanded the applications of MFCs into other areas such as the generation of chemicals (e.g., formate or methane), bioremediation of contaminated soils, water desalination, and biosensors. In recent decades, MFC-based biosensors have drawn increasing attention because of their simplicity and sustainability, with applications ranging from the monitoring of water quality (e.g., biochemical oxygen demand (BOD), toxicants) to the detection of air quality (e.g., carbon monoxide, formaldehyde). In this review, we summarize the status quo of MFC-based biosensors, putting emphasis on BOD and toxicity detection. Furthermore, this review covers other applications of MFC-based biosensors, such as DO and microbial activity. Further, challenges and prospects of MFC-based biosensors are briefly discussed.
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Affiliation(s)
- Yang Cui
- School of Civil Engineering and Architecture, Wuhan University of Technology, Wuhan 430070, China
| | - Bin Lai
- Systems Biotechnology Group, Department of Solar Materials, Helmholtz Centre for Environmental Research-UFZ, 04318 Leipzig, Germany.
| | - Xinhua Tang
- School of Civil Engineering and Architecture, Wuhan University of Technology, Wuhan 430070, China.
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