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Acharya PB, George A, Shrivastav PS. A Status Update on the Development of Polymer and Metal-Based Graphene Electrochemical Sensors for Detection and Quantitation of Bisphenol A. Crit Rev Anal Chem 2022; 54:669-690. [PMID: 35776701 DOI: 10.1080/10408347.2022.2094197] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
The detection and quantitation of bisphenol A (BPA) in the environment and food products has been a subject of considerable interest. BPA, a diphenylmethane derivative is a well-known industrial raw material with wide range of applications. It is a well-known endocrine disruptor and acts as an estrogen mimic. BPA is an environmental health concern and its accumulation in hydro-geological cycles is a matter of serious ecological peril. This review basically assesses various chemically modified electrodes composed of diverse components that have been employed to recognize BPA in different matrices. Electrochemical sensors prepared using graphene materials in combination with metals and polymers for selective detection of BPA have been discussed extensively. The emphasis is on detection of BPA in various samples encountered in routine use such as plastic bottles, receipts, baby feed bottles, milk samples, mineralized water, tissue paper, DVDs, and others. Although research in this field is in the exploratory stage, deeper insights into fundamental studies of sensing systems, fast analysis of real samples and validation of sensors are some of the factors that need major impetus. It is expected that chemically modified electrode-based sensing systems will soon take over as a viable option for monitoring diverse pollutants.
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Affiliation(s)
- Prachi B Acharya
- Department of Chemistry, School of Sciences, Gujarat University, Ahmedabad, Gujarat, India
| | - Archana George
- Department of Chemistry, School of Sciences, Gujarat University, Ahmedabad, Gujarat, India
| | - Pranav S Shrivastav
- Department of Chemistry, School of Sciences, Gujarat University, Ahmedabad, Gujarat, India
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2
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Cruz N, Abernathy GA, Dichosa AEK, Kumar A. The Age of Next-Generation Therapeutic-Microbe Discovery: Exploiting Microbe-Microbe and Host-Microbe Interactions for Disease Prevention. Infect Immun 2022; 90:e0058921. [PMID: 35384688 PMCID: PMC9119102 DOI: 10.1128/iai.00589-21] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Humans are considered "superorganisms," harboring a diverse microbial collective that outnumbers human cells 10 to 1. Complex and gravely understudied host- and microbe-microbe interactions-the product of millions of years of host-microbe coevolution-govern the superorganism in almost every aspect of life functions and overall well-being. Abruptly disrupting these interactions via extrinsic factors has undesirable consequences for the host. On the other hand, supplementing commensal or beneficial microbes may mitigate perturbed interactions or enhance the interactive relationships that ultimately benefit all parties. Hence, immense efforts have focused on dissecting the innumerable host- and microbe-microbe relationships to characterize if a "positive" or "negative" interaction is at play and to exploit such behavior for broader implications. For example, microbiome research has worked to identify and isolate naturally antipathogenic microbes that may offer therapeutic potential either in a direct, one-on-one application or by leveraging its unique metabolic properties. However, the discovery and isolation of such desired therapeutic microbes from complex microbiota have proven challenging. Currently, there is no conventional technique to universally and functionally screen for these microbes. With this said, we first describe in this review the historical (probiotics) and current (fecal microbiota or defined consortia) perspectives on therapeutic microbes, present the discoveries of therapeutic microbes through exploiting microbe-microbe and host-microbe interactions, and detail our team's efforts in discovering therapeutic microbes via our novel microbiome screening platform. We conclude this minireview by briefly discussing challenges and possible solutions with therapeutic microbes' applications and paths ahead for discovery.
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Affiliation(s)
- Nathan Cruz
- B-10: Biosecurity and Public Health Group, Bioscience Division, Los Alamos National Laboratory, Los Alamos, New Mexico, USA
| | - George A. Abernathy
- B-10: Biosecurity and Public Health Group, Bioscience Division, Los Alamos National Laboratory, Los Alamos, New Mexico, USA
| | - Armand E. K. Dichosa
- B-10: Biosecurity and Public Health Group, Bioscience Division, Los Alamos National Laboratory, Los Alamos, New Mexico, USA
| | - Anand Kumar
- B-10: Biosecurity and Public Health Group, Bioscience Division, Los Alamos National Laboratory, Los Alamos, New Mexico, USA
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Ahn HT, Jang IS, Dang TV, Kim YH, Lee DH, Choi HS, Yu BJ, Kim MI. Effective Cryopreservation of a Bioluminescent Auxotrophic Escherichia coli-Based Amino Acid Array to Enable Long-Term Ready-to-Use Applications. BIOSENSORS-BASEL 2021; 11:bios11080252. [PMID: 34436054 PMCID: PMC8393857 DOI: 10.3390/bios11080252] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/02/2021] [Revised: 07/24/2021] [Accepted: 07/25/2021] [Indexed: 11/16/2022]
Abstract
Amino acid arrays comprising bioluminescent amino acid auxotrophic Escherichia coli are effective systems to quantitatively determine multiple amino acids. However, there is a need to develop a method for convenient long-term preservation of the array to enable its practical applications. Here, we reported a potential strategy to efficiently maintain cell viability within the portable array. The method involves immobilization of cells within agarose gel supplemented with an appropriate cryoprotectant in individual wells of a 96-well plate, followed by storage under freezing conditions. Six cryoprotectants, namely dimethyl sulfoxide, glycerol, ethylene glycol, polyethylene glycol, sucrose, and trehalose, were tested in the methionine (Met) auxotroph-based array. Carbohydrate-type cryoprotectants (glycerol, sucrose, and trehalose) efficiently preserved the linearity of determination of Met concentration. In particular, the array with 5% trehalose exhibited the best performance. The Met array with 5% trehalose could determine Met concentration with high linearity (R2 value = approximately 0.99) even after storage at −20 °C for up to 3 months. The clinical utilities of the Met and Leu array, preserved at −20 °C for 3 months, were also verified by successfully quantifying Met and Leu in spiked blood serum samples for the diagnosis of the corresponding metabolic diseases. This long-term preservation protocol enables the development of a ready-to-use bioluminescent E. coli-based amino acid array to quantify multiple amino acids and can replace the currently used laborious analytical methods.
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Affiliation(s)
- Hee Tae Ahn
- Department of BioNano Technology, Gachon University, 1342 Seongnamdae-ro, Sujeong-gu, Seongnam 13120, Korea; (H.T.A.); (T.V.D.); (D.H.L.)
| | - In Seung Jang
- Green and Sustainable Materials R&D Department, Research Institute of Clean Manufacturing System, Korea Institute of Industrial Technology (KITECH), Cheonan 31056, Korea; (I.S.J.); (Y.H.K.); (H.S.C.)
| | - Thinh Viet Dang
- Department of BioNano Technology, Gachon University, 1342 Seongnamdae-ro, Sujeong-gu, Seongnam 13120, Korea; (H.T.A.); (T.V.D.); (D.H.L.)
| | - Yi Hyang Kim
- Green and Sustainable Materials R&D Department, Research Institute of Clean Manufacturing System, Korea Institute of Industrial Technology (KITECH), Cheonan 31056, Korea; (I.S.J.); (Y.H.K.); (H.S.C.)
| | - Dong Hoon Lee
- Department of BioNano Technology, Gachon University, 1342 Seongnamdae-ro, Sujeong-gu, Seongnam 13120, Korea; (H.T.A.); (T.V.D.); (D.H.L.)
| | - Hyeun Seok Choi
- Green and Sustainable Materials R&D Department, Research Institute of Clean Manufacturing System, Korea Institute of Industrial Technology (KITECH), Cheonan 31056, Korea; (I.S.J.); (Y.H.K.); (H.S.C.)
| | - Byung Jo Yu
- Green and Sustainable Materials R&D Department, Research Institute of Clean Manufacturing System, Korea Institute of Industrial Technology (KITECH), Cheonan 31056, Korea; (I.S.J.); (Y.H.K.); (H.S.C.)
- Correspondence: (B.J.Y.); (M.I.K.); Tel.: +82-41-589-8456 (B.J.Y.); +82-31-750-8563 (M.I.K.)
| | - Moon Il Kim
- Department of BioNano Technology, Gachon University, 1342 Seongnamdae-ro, Sujeong-gu, Seongnam 13120, Korea; (H.T.A.); (T.V.D.); (D.H.L.)
- Correspondence: (B.J.Y.); (M.I.K.); Tel.: +82-41-589-8456 (B.J.Y.); +82-31-750-8563 (M.I.K.)
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Baya G, Muhindi S, Ngendahimana V, Caguiat J. Potential Whole-Cell Biosensors for Detection of Metal Using MerR Family Proteins from Enterobacter sp. YSU and Stenotrophomonas maltophilia OR02. MICROMACHINES 2021; 12:mi12020142. [PMID: 33572806 PMCID: PMC7911910 DOI: 10.3390/mi12020142] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/07/2021] [Revised: 01/24/2021] [Accepted: 01/27/2021] [Indexed: 01/15/2023]
Abstract
Cell-based biosensors harness a cell's ability to respond to the environment by repurposing its sensing mechanisms. MerR family proteins are activator/repressor switches that regulate the expression of bacterial metal resistance genes and have been used in metal biosensors. Upon metal binding, a conformational change switches gene expression from off to on. The genomes of the multimetal resistant bacterial strains, Stenotrophomonas maltophilia Oak Ridge strain 02 (S. maltophilia 02) and Enterobacter sp. YSU, were recently sequenced. Sequence analysis and gene cloning identified three mercury resistance operons and three MerR switches in these strains. Transposon mutagenesis and sequence analysis identified Enterobacter sp. YSU zinc and copper resistance operons, which appear to be regulated by the protein switches, ZntR and CueR, respectively. Sequence analysis and reverse transcriptase polymerase chain reaction (RT-PCR) showed that a CueR switch appears to activate a S. maltophilia 02 copper transport gene in the presence of CuSO4 and HAuCl4·3H2O. In previous studies, genetic engineering replaced metal resistance genes with the reporter genes for β-galactosidase, luciferase or the green fluorescence protein (GFP). These produce a color change of a reagent, produce light, or fluoresce in the presence of ultraviolet (UV) light, respectively. Coupling these discovered operons with reporter genes has the potential to create whole-cell biosensors for HgCl2, ZnCl2, CuSO4 and HAuCl4·3H2O.
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Affiliation(s)
- Georgina Baya
- Department of Biological and Chemical Sciences, Youngstown State University, Youngstown, OH 44555, USA;
| | - Stephen Muhindi
- Department of Biological Sciences, University of Toledo, Toledo, OH 43606, USA;
| | - Valentine Ngendahimana
- Biology Department, Lone Star College-CyFair, 9191 Barker Cypress Rd, Cypress, TX 77433, USA;
| | - Jonathan Caguiat
- Department of Biological and Chemical Sciences, Youngstown State University, Youngstown, OH 44555, USA;
- Correspondence: ; Tel.: +1-330-941-2063
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Zamfir LG, Puiu M, Bala C. Advances in Electrochemical Impedance Spectroscopy Detection of Endocrine Disruptors. SENSORS (BASEL, SWITZERLAND) 2020; 20:E6443. [PMID: 33187314 PMCID: PMC7697587 DOI: 10.3390/s20226443] [Citation(s) in RCA: 27] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/01/2020] [Revised: 11/01/2020] [Accepted: 11/09/2020] [Indexed: 01/18/2023]
Abstract
Endocrine disruptors (EDs) are contaminants that may mimic or interfere with the body's hormones, hampering the normal functions of the endocrine system in humans and animals. These substances, either natural or man-made, are involved in development, breeding, and immunity, causing a wide range of diseases and disorders. The traditional detection methods such as enzyme linked immunosorbent assay (ELISA) and chromatography are still the golden techniques for EDs detection due to their high sensitivity, robustness, and accuracy. Nevertheless, they have the disadvantage of being expensive and time-consuming, requiring bulky equipment or skilled personnel. On the other hand, early stage detection of EDs on-the-field requires portable devices fulfilling the Affordable, Sensitive, Specific, User-friendly, Rapid and Robust, Equipment free, Deliverable to end users (ASSURED) norms. Electrochemical impedance spectroscopy (EIS)-based sensors can be easily implemented in fully automated, sample-to-answer devices by integrating electrodes in microfluidic chips. The latest achievements on EIS-based sensors are discussed and critically assessed.
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Affiliation(s)
- Lucian-Gabriel Zamfir
- R&D Center LaborQ, University of Bucharest, 4-12 Regina Elisabeta Blvd., 030018 Bucharest, Romania; (L.-G.Z.); (M.P.)
| | - Mihaela Puiu
- R&D Center LaborQ, University of Bucharest, 4-12 Regina Elisabeta Blvd., 030018 Bucharest, Romania; (L.-G.Z.); (M.P.)
| | - Camelia Bala
- R&D Center LaborQ, University of Bucharest, 4-12 Regina Elisabeta Blvd., 030018 Bucharest, Romania; (L.-G.Z.); (M.P.)
- Department of Analytical Chemistry, University of Bucharest, 4-12 Regina Elisabeta Blvd., 030018 Bucharest, Romania
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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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7
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Li X, Feng H, Li Z, Shi Y, Tian J, Zhao C, Yu M, Liu Z, Li H, Shi B, Wang Q, Li L, Wang D, Zhu L, Liu R, Li Z. High-Throughput Identification and Screening of Single Microbial Cells by Nanobowl Array. ACS APPLIED MATERIALS & INTERFACES 2019; 11:44933-44940. [PMID: 31675212 DOI: 10.1021/acsami.9b08662] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
High-throughput screening and fast identification of single bacterial cells are crucial for clinical diagnosis, bioengineering, and fermentation engineering. Although single-cell technologies have been developed extensively in recent years, the single-cell technologies for bacteria still need further exploration. In this study, we demonstrate an identification and screening technology for single bacterial cells based on a large-scale nanobowl array, which is well-ordered and size-adjustable for use with different kinds of bacteria. When the culture medium with monodispersed bacteria was placed on the nanobowl array, it successfully enabled loading of single bacterium into a single nanobowl. Because of the limitative size and depth of the nanobowls, mixture of different bacteria species could be screened according to their sizes. In addition, with the help of a low electrical current, the bacteria can be further screened according to their intrinsic surface charges. If combined with micromanipulation technology, high-throughput single bacterial selection can be achieved in future.
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Affiliation(s)
- Xiuyan Li
- Beijing Institute of Graphic Communication , Beijing 102600 , P. R. China
| | - Hongqing Feng
- CAS Center for Excellence in Nanoscience, Beijing Key Laboratory of Micro-nano Energy and Sensor , Beijing Institute of Nanoenergy and Nanosystems, Chinese Academy of Sciences , Beijing 100083 , P. R. China
- School of Nanoscience and Technology , University of Chinese Academy of Sciences , Beijing 100049 , P. R. China
| | - Zhe Li
- CAS Center for Excellence in Nanoscience, Beijing Key Laboratory of Micro-nano Energy and Sensor , Beijing Institute of Nanoenergy and Nanosystems, Chinese Academy of Sciences , Beijing 100083 , P. R. China
- School of Nanoscience and Technology , University of Chinese Academy of Sciences , Beijing 100049 , P. R. China
| | - Yue Shi
- Beijing Institute of Graphic Communication , Beijing 102600 , P. R. China
| | - Jingjing Tian
- CAS Center for Excellence in Nanoscience, Beijing Key Laboratory of Micro-nano Energy and Sensor , Beijing Institute of Nanoenergy and Nanosystems, Chinese Academy of Sciences , Beijing 100083 , P. R. China
- School of Nanoscience and Technology , University of Chinese Academy of Sciences , Beijing 100049 , P. R. China
| | - Chaochao Zhao
- CAS Center for Excellence in Nanoscience, Beijing Key Laboratory of Micro-nano Energy and Sensor , Beijing Institute of Nanoenergy and Nanosystems, Chinese Academy of Sciences , Beijing 100083 , P. R. China
- School of Nanoscience and Technology , University of Chinese Academy of Sciences , Beijing 100049 , P. R. China
| | - Min Yu
- School of Stomatology and Medicine , Foshan University , Foshan 528000 , P. R. China
| | - Zhuo Liu
- CAS Center for Excellence in Nanoscience, Beijing Key Laboratory of Micro-nano Energy and Sensor , Beijing Institute of Nanoenergy and Nanosystems, Chinese Academy of Sciences , Beijing 100083 , P. R. China
| | - Hu Li
- CAS Center for Excellence in Nanoscience, Beijing Key Laboratory of Micro-nano Energy and Sensor , Beijing Institute of Nanoenergy and Nanosystems, Chinese Academy of Sciences , Beijing 100083 , P. R. China
| | - Bojing Shi
- CAS Center for Excellence in Nanoscience, Beijing Key Laboratory of Micro-nano Energy and Sensor , Beijing Institute of Nanoenergy and Nanosystems, Chinese Academy of Sciences , Beijing 100083 , P. R. China
| | - Qian Wang
- Beijing Institute of Graphic Communication , Beijing 102600 , P. R. China
| | - Luhai Li
- Beijing Institute of Graphic Communication , Beijing 102600 , P. R. China
| | - Dongshu Wang
- State Key Laboratory of Pathogen and Biosecurity , Beijing Institute of Biotechnology , Beijing 100071 , P. R. China
| | - Li Zhu
- State Key Laboratory of Pathogen and Biosecurity , Beijing Institute of Biotechnology , Beijing 100071 , P. R. China
| | - Ruping Liu
- Beijing Institute of Graphic Communication , Beijing 102600 , P. R. China
| | - Zhou Li
- CAS Center for Excellence in Nanoscience, Beijing Key Laboratory of Micro-nano Energy and Sensor , Beijing Institute of Nanoenergy and Nanosystems, Chinese Academy of Sciences , Beijing 100083 , P. R. China
- School of Nanoscience and Technology , University of Chinese Academy of Sciences , Beijing 100049 , P. R. China
- Center on Nanoenergy Research, School of Physical Science and Technology , Guangxi University , Nanning 530004 , P. R. China
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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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9
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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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Nakamura H. Current status of water environment and their microbial biosensor techniques - Part II: Recent trends in microbial biosensor development. Anal Bioanal Chem 2018; 410:3967-3989. [PMID: 29736704 DOI: 10.1007/s00216-018-1080-0] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2018] [Revised: 04/07/2018] [Accepted: 04/12/2018] [Indexed: 12/20/2022]
Abstract
In Part I of the present review series, I presented the current state of the water environment by focusing on Japanese cases and discussed the need to further develop microbial biosensor technologies for the actual water environment. I comprehensively present trends after approximately 2010 in microbial biosensor development for the water environment. In the first section, after briefly summarizing historical studies, recent studies on microbial biosensor principles are introduced. In the second section, recent application studies for the water environment are also introduced. Finally, I conclude the present review series by describing the need to further develop microbial biosensor technologies. Graphical abstract Current water pollution indirectly occurs by anthropogenic eutrophication (Part I). Recent trends in microbial biosensor development for water environment are described in part II of the present review series.
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Affiliation(s)
- Hideaki Nakamura
- Department of Liberal Arts, Tokyo University of Technology, 1404-1 Katakura, Hachioji, Tokyo, 192-0982, Japan.
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11
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Creation of antifouling microarrays by photopolymerization of zwitterionic compounds for protein assay and cell patterning. Biosens Bioelectron 2017; 102:63-69. [PMID: 29125973 DOI: 10.1016/j.bios.2017.11.001] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/29/2017] [Revised: 10/17/2017] [Accepted: 11/01/2017] [Indexed: 11/20/2022]
Abstract
Nonspecific binding or adsorption of biomolecules presents as a major obstacle to higher sensitivity, specificity and reproducibility in microarray technology. We report herein a method to fabricate antifouling microarray via photopolymerization of biomimetic betaine compounds. In brief, carboxybetaine methacrylate was polymerized as arrays for protein sensing, while sulfobetaine methacrylate was polymerized as background. With the abundant carboxyl groups on array surfaces and zwitterionic polymers on the entire surfaces, this microarray allows biomolecular immobilization and recognition with low nonspecific interactions due to its antifouling property. Therefore, low concentration of target molecules can be captured and detected by this microarray. It was proved that a concentration of 10ngmL-1 bovine serum albumin in the sample matrix of bovine serum can be detected by the microarray derivatized with anti-bovine serum albumin. Moreover, with proper hydrophilic-hydrophobic designs, this approach can be applied to fabricate surface-tension droplet arrays, which allows surface-directed cell adhesion and growth. These light controllable approaches constitute a clear improvement in the design of antifouling interfaces, which may lead to greater flexibility in the development of interfacial architectures and wider application in blood contact microdevices.
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12
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Microfluidics Engineering: Recent Trends, Valorization, and Applications. ARABIAN JOURNAL FOR SCIENCE AND ENGINEERING 2017. [DOI: 10.1007/s13369-017-2662-4] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
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13
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McCormick SC, Kriel FH, Ivask A, Tong Z, Lombi E, Voelcker NH, Priest C. The Use of Microfluidics in Cytotoxicity and Nanotoxicity Experiments. MICROMACHINES 2017. [PMCID: PMC6190054 DOI: 10.3390/mi8040124] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]
Abstract
Many unique chemical compounds and nanomaterials are being developed, and each one requires a considerable range of in vitro and/or in vivo toxicity screening in order to evaluate their safety. The current methodology of in vitro toxicological screening on cells is based on well-plate assays that require time-consuming manual handling or expensive automation to gather enough meaningful toxicology data. Cost reduction; access to faster, more comprehensive toxicity data; and a robust platform capable of quantitative testing, will be essential in evaluating the safety of new chemicals and nanomaterials, and, at the same time, in securing the confidence of regulators and end-users. Microfluidic chips offer an alternative platform for toxicity screening that has the potential to transform both the rates and efficiency of nanomaterial testing, as reviewed here. The inherent advantages of microfluidic technologies offer high-throughput screening with small volumes of analytes, parallel analyses, and low-cost fabrication.
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Affiliation(s)
- Scott C. McCormick
- Future Industries Institute, University of South Australia, Mawson Lakes Blvd., Mawson Lakes, 5098 SA, Australia; (S.C.M.); (F.H.K.); (A.I.); (Z.T.); (E.L.); (N.H.V.)
| | - Frederik H. Kriel
- Future Industries Institute, University of South Australia, Mawson Lakes Blvd., Mawson Lakes, 5098 SA, Australia; (S.C.M.); (F.H.K.); (A.I.); (Z.T.); (E.L.); (N.H.V.)
| | - Angela Ivask
- Future Industries Institute, University of South Australia, Mawson Lakes Blvd., Mawson Lakes, 5098 SA, Australia; (S.C.M.); (F.H.K.); (A.I.); (Z.T.); (E.L.); (N.H.V.)
| | - Ziqiu Tong
- Future Industries Institute, University of South Australia, Mawson Lakes Blvd., Mawson Lakes, 5098 SA, Australia; (S.C.M.); (F.H.K.); (A.I.); (Z.T.); (E.L.); (N.H.V.)
- Monash Institute of Pharmaceutical Sciences, Monash University, Parkville, 3052 VIC, Australia
| | - Enzo Lombi
- Future Industries Institute, University of South Australia, Mawson Lakes Blvd., Mawson Lakes, 5098 SA, Australia; (S.C.M.); (F.H.K.); (A.I.); (Z.T.); (E.L.); (N.H.V.)
| | - Nicolas H. Voelcker
- Future Industries Institute, University of South Australia, Mawson Lakes Blvd., Mawson Lakes, 5098 SA, Australia; (S.C.M.); (F.H.K.); (A.I.); (Z.T.); (E.L.); (N.H.V.)
- Monash Institute of Pharmaceutical Sciences, Monash University, Parkville, 3052 VIC, Australia
| | - Craig Priest
- Future Industries Institute, University of South Australia, Mawson Lakes Blvd., Mawson Lakes, 5098 SA, Australia; (S.C.M.); (F.H.K.); (A.I.); (Z.T.); (E.L.); (N.H.V.)
- Correspondence: ; Tel.: +61-8-8302-5146
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Zhang Z, Ju E, Bing W, Wang Z, Ren J, Qu X. Chemically individual armoured bioreporter bacteria used for the in vivo sensing of ultra-trace toxic metal ions. Chem Commun (Camb) 2017; 53:8415-8418. [DOI: 10.1039/c7cc03794e] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/02/2023]
Abstract
A chemically engineered mesoporous silica armour is developed for simultaneously improving bioreporter bacterial vitality and shielding infectivity.
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Affiliation(s)
- Zhijun Zhang
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resource Utilization
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun
- China
| | - Enguo Ju
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resource Utilization
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun
- China
| | - Wei Bing
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resource Utilization
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun
- China
| | - Zhenzhen Wang
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resource Utilization
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun
- China
| | - Jinsong Ren
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resource Utilization
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun
- China
| | - Xiaogang Qu
- Laboratory of Chemical Biology and State Key Laboratory of Rare Earth Resource Utilization
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun
- China
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15
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van der Meer JR. Towards improved biomonitoring tools for an intensified sustainable multi-use environment. Microb Biotechnol 2016; 9:658-65. [PMID: 27468753 PMCID: PMC4993185 DOI: 10.1111/1751-7915.12395] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2016] [Accepted: 07/10/2016] [Indexed: 11/28/2022] Open
Abstract
The increasing use of our environment for multiple contrasting activities (e.g. fisheries, tourism) will have to be accompanied by improved monitoring of environmental quality, to avoid transboundary conflicts and ensure long-term sustainable intensified usage. Biomonitoring approaches are appropriate for this, since they can integrate biological effects of environmental exposure rather than measure individual compound concentrations. Recent advances in biomonitoring concepts and tools focus on single-cell assays and purified biological components that can be miniaturized and integrated in automated systems. Despite these advances, we are still very far from being able to deploy bioassays routinely in environmental monitoring, mostly because of lack of experience in interpreting responses and insufficient robustness of the biosensors for their environmental application. Further future challenges include broadening the spectrum of detectable compounds by biosensors, accelerate response times and combining sample pretreatment strategies with bioassays.
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16
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Courbet A, Endy D, Renard E, Molina F, Bonnet J. Detection of pathological biomarkers in human clinical samples via amplifying genetic switches and logic gates. Sci Transl Med 2016; 7:289ra83. [PMID: 26019219 DOI: 10.1126/scitranslmed.aaa3601] [Citation(s) in RCA: 143] [Impact Index Per Article: 17.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Whole-cell biosensors have several advantages for the detection of biological substances and have proven to be useful analytical tools. However, several hurdles have limited whole-cell biosensor application in the clinic, primarily their unreliable operation in complex media and low signal-to-noise ratio. We report that bacterial biosensors with genetically encoded digital amplifying genetic switches can detect clinically relevant biomarkers in human urine and serum. These bactosensors perform signal digitization and amplification, multiplexed signal processing with the use of Boolean logic gates, and data storage. In addition, we provide a framework with which to quantify whole-cell biosensor robustness in clinical samples together with a method for easily reprogramming the sensor module for distinct medical detection agendas. Last, we demonstrate that bactosensors can be used to detect pathological glycosuria in urine from diabetic patients. These next-generation whole-cell biosensors with improved computing and amplification capacity could meet clinical requirements and should enable new approaches for medical diagnosis.
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Affiliation(s)
- Alexis Courbet
- Sys2Diag FRE3690-CNRS/ALCEDIAG, Cap Delta, 34090 Montpellier, France
| | - Drew Endy
- Department of Bioengineering, Stanford University, Stanford, CA 94305, USA
| | - Eric Renard
- Sys2Diag FRE3690-CNRS/ALCEDIAG, Cap Delta, 34090 Montpellier, France. Department of Bioengineering, Stanford University, Stanford, CA 94305, USA. Department of Endocrinology, Diabetes, Nutrition, Montpellier University Hospital; INSERM 1411 Clinical Investigation Center; Institute of Functional Genomics, CNRS UMR 5203, INSERM U661, University of Montpellier, 34090 Montpellier, France. Centre de Biochimie Structurale, INSERM U1054, CNRS UMR5048, University of Montpellier, 29 Rue de Navacelles, 34090 Montpellier, France
| | - Franck Molina
- Sys2Diag FRE3690-CNRS/ALCEDIAG, Cap Delta, 34090 Montpellier, France.
| | - Jérôme Bonnet
- Sys2Diag FRE3690-CNRS/ALCEDIAG, Cap Delta, 34090 Montpellier, France. Department of Bioengineering, Stanford University, Stanford, CA 94305, USA. Department of Endocrinology, Diabetes, Nutrition, Montpellier University Hospital; INSERM 1411 Clinical Investigation Center; Institute of Functional Genomics, CNRS UMR 5203, INSERM U661, University of Montpellier, 34090 Montpellier, France. Centre de Biochimie Structurale, INSERM U1054, CNRS UMR5048, University of Montpellier, 29 Rue de Navacelles, 34090 Montpellier, France.
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Jouanneau S, Durand MJ, Lahmar A, Thouand G. Main Technological Advancements in Bacterial Bioluminescent Biosensors Over the Last Two Decades. ADVANCES IN BIOCHEMICAL ENGINEERING/BIOTECHNOLOGY 2015:101-116. [PMID: 26475467 DOI: 10.1007/10_2015_333] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
Abstract
Environmental quality assessment is an extensive field of research due to the permanent increase of the stringency imposed by the legislative framework. To complete the wide panel of measurement methods, essentially based on physicochemical tools, some scientists focused on the development of alternative biological methods such as those based on the use of bioluminescent bacteria biosensors. The first report dedicated to the development of such biosensors dates back to 1967 and describes an analytical system designed to address the problem of air toxicity assessment. Nevertheless the available technologies in the photosensitive sensors field were not mature enough and, as a result, limited biosensor development possibilities. For about 20 years, the wide democratisation of photosensors coupled with advances in the genetic engineering field have allowed the expansion of the scope of possibilities of bioluminescent bacterial biosensors, allowing a significant emergence of these biotechnologies. This chapter retraces the history of the main technological evolutions that bacterial bioluminescent biosensors have known over the last two decades. Graphical Abstract.
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Affiliation(s)
- S Jouanneau
- University of Nantes, UMR CNRS GEPEA 6144, 18 Bd Gaston Defferre, Nantes, 85000, La Roche sur Yon, France.
| | - M J Durand
- University of Nantes, UMR CNRS GEPEA 6144, 18 Bd Gaston Defferre, Nantes, 85000, La Roche sur Yon, France
| | - A Lahmar
- University of Nantes, UMR CNRS GEPEA 6144, 18 Bd Gaston Defferre, Nantes, 85000, La Roche sur Yon, France
| | - G Thouand
- University of Nantes, UMR CNRS GEPEA 6144, 18 Bd Gaston Defferre, Nantes, 85000, La Roche sur Yon, France
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18
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Recent Advances in Genetic Technique of Microbial Report Cells and Their Applications in Cell Arrays. BIOMED RESEARCH INTERNATIONAL 2015; 2015:182107. [PMID: 26436087 PMCID: PMC4576000 DOI: 10.1155/2015/182107] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/23/2015] [Accepted: 08/26/2015] [Indexed: 11/21/2022]
Abstract
Microbial cell arrays have attracted consistent attention for their ability to provide unique global data on target analytes at low cost, their capacity for readily detectable and robust cell growth in diverse environments, their high degree of convenience, and their capacity for multiplexing via incorporation of molecularly tailored reporter cells. To highlight recent progress in the field of microbial cell arrays, this review discusses research on genetic engineering of reporter cells, technologies for patterning live cells on solid surfaces, cellular immobilization in different polymers, and studies on their application in environmental monitoring, disease diagnostics, and other related fields. On the basis of these results, we discuss current challenges and future prospects for novel microbial cell arrays, which show promise for use as potent tools for unraveling complex biological processes.
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Zhao X, Dong T. Measurement and analysis of Vibrio fischeri cell-based microfluidic device for personal health monitoring. ANNUAL INTERNATIONAL CONFERENCE OF THE IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY. IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY. ANNUAL INTERNATIONAL CONFERENCE 2015; 2013:2433-6. [PMID: 24110218 DOI: 10.1109/embc.2013.6610031] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
Abstract
The cell-based microfluidic chip was designed and fabricated as a low-cost detector to continuously monitor toxicants in drinking water or human urine samples, which is expected to be an important component of a household health monitoring system in the future. The bioluminescent bacterium, Vibrio Fischeri, was selected to validate the function of device. Water samples and Vibrio fischeri cells were mixed and encapsulated into droplets in air flow, which can guarantee sufficient oxygen supply for cells in droplets. Preliminary tests were performed using copper ion (Cu(2+)) as the model toxicant. The droplet system was measured and analyzed at various flow rates in different observation chambers. Both deionized water and human urine samples were tested in the cell-based device. Interestingly, a strong relation between the R.L.U. (Relative Luminescence Units) in the observation chamber and the minute concentration of toxicant (Cu(2+)) was found using deionized water as solvent, whereas the relation was insignificant using human urine as solvent. This study showed the Vibrio fischeri cell-based device might be reliably employed as an early-warning system for the safety of drinking water. However, Vibrio fischeri is not competent to detect dangerous materials in a complex biofluid. With the replacement of cell sensors, the microfluidic device might be functional to analyze urine samples in theory.
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20
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Wegener J. Cell-Based Microarrays for In Vitro Toxicology. ANNUAL REVIEW OF ANALYTICAL CHEMISTRY (PALO ALTO, CALIF.) 2015; 8:335-358. [PMID: 26077916 DOI: 10.1146/annurev-anchem-071213-020051] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
DNA/RNA and protein microarrays have proven their outstanding bioanalytical performance throughout the past decades, given the unprecedented level of parallelization by which molecular recognition assays can be performed and analyzed. Cell microarrays (CMAs) make use of similar construction principles. They are applied to profile a given cell population with respect to the expression of specific molecular markers and also to measure functional cell responses to drugs and chemicals. This review focuses on the use of cell-based microarrays for assessing the cytotoxicity of drugs, toxins, or chemicals in general. It also summarizes CMA construction principles with respect to the cell types that are used for such microarrays, the readout parameters to assess toxicity, and the various formats that have been established and applied. The review ends with a critical comparison of CMAs and well-established microtiter plate (MTP) approaches.
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Affiliation(s)
- Joachim Wegener
- Institute for Analytical Chemistry, University of Regensburg, D-93053 Regensburg, Germany;
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21
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Detection of 2,4-dinitrotoluene and 2,4,6-trinitrotoluene by an Escherichia coli bioreporter: performance enhancement by directed evolution. Appl Microbiol Biotechnol 2015; 99:7177-88. [DOI: 10.1007/s00253-015-6607-0] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2015] [Revised: 04/02/2015] [Accepted: 04/12/2015] [Indexed: 11/26/2022]
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Gao C, Weisman D, Lan J, Gou N, Gu AZ. Toxicity mechanisms identification via gene set enrichment analysis of time-series toxicogenomics data: impact of time and concentration. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2015; 49:4618-26. [PMID: 25785649 PMCID: PMC6321746 DOI: 10.1021/es505199f] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/02/2023]
Abstract
The advance in high-throughput "toxicogenomics" technologies, which allows for concurrent monitoring of cellular responses globally upon exposure to chemical toxicants, presents promises for next-generation toxicity assessment. It is recognized that cellular responses to toxicants have a highly dynamic nature, and exhibit both temporal complexity and dose-response shifts. Most current gene enrichment or pathway analysis lack the recognition of the inherent correlation within time series data, and may potentially miss important pathways or yield biased and inconsistent results that ignore dynamic patterns and time-sensitivity. In this study, we investigated the application of two score metrics for GSEA (gene set enrichment analysis) to rank the genes that consider the temporal gene expression profile. One applies a novel time series CPCA (common principal components analysis) to generate scores for genes based on their contributions to the common temporal variation among treatments for a given chemical at different concentrations. Another one employs an integrated altered gene expression quantifier-TELI (transcriptional effect level index) that integrates altered gene expression magnitude over the exposure time. By comparing the GSEA results using two different ranking metrics for examining the dynamic responses of reporter cells treated with various dose levels of three model toxicants, mitomycin C, hydrogen peroxide, and lead nitrate, the analysis identified and revealed different toxicity mechanisms of these chemicals that exhibit chemical-specific, as well as time-aware and dose-sensitive nature. The ability, advantages, and disadvantages of varying ranking metrics were discussed. These findings support the notion that toxicity bioassays should account for the cells' complex dynamic responses, thereby implying that both data acquisition and data analysis should look beyond simple traditional end point responses.
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Affiliation(s)
- Ce Gao
- Department of Civil and Environmental Engineering, Northeastern University, Boston, Massachusetts 02115, United States
| | - David Weisman
- Department of Biology, University of Massachusetts, Boston, Massachusetts 02125, United States
| | - Jiaqi Lan
- Department of Civil and Environmental Engineering, Northeastern University, Boston, Massachusetts 02115, United States
| | - Na Gou
- Department of Civil and Environmental Engineering, Northeastern University, Boston, Massachusetts 02115, United States
| | - April Z. Gu
- Department of Civil and Environmental Engineering, Northeastern University, Boston, Massachusetts 02115, United States
- Corresponding Author: Phone: 617-373-3631; fax: 617-373-4419; (A.Z.G.)
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Cerminati S, Soncini FC, Checa SK. A sensitive whole-cell biosensor for the simultaneous detection of a broad-spectrum of toxic heavy metal ions. Chem Commun (Camb) 2015; 51:5917-20. [PMID: 25730473 DOI: 10.1039/c5cc00981b] [Citation(s) in RCA: 35] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Bacterial biosensors are simple, cost-effective and efficient analytical tools for detecting bioavailable heavy metals in the environment. This work presents the design, construction and calibration of a novel whole-cell fluorescent biosensory device that, simultaneously and with high sensitivity, reports the presence of toxic mercury, lead, cadmium and/or gold ions in aqueous samples. This bio-reporter can be easily applied as an immediate alerting tool for detecting the presence of harmful pollutants in drinking water.
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Affiliation(s)
- S Cerminati
- Instituto de Biología Molecular y Celular de Rosario (IBR-CONICET), Facultad de Ciencias Bioquímicas y Farmacéuticas (UNR), Ocampo y Esmeralda, 2000-Rosario, Argentina.
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24
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High-throughput prescreening of pharmaceuticals using a genome-wide bacterial bioreporter array. Biosens Bioelectron 2015; 68:699-704. [PMID: 25668591 DOI: 10.1016/j.bios.2015.01.067] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2014] [Revised: 01/26/2015] [Accepted: 01/28/2015] [Indexed: 11/22/2022]
Abstract
We assessed the applicability of multi-strain bacterial bioreporter bioassays to drug screening. To this end, we investigated the reactions of a panel of 15 luminescent recombinant Escherichia coli bacterial bioreporters to a library of 420 pharmaceuticals. The panel included bacterial bioreporters associated with oxidative stress, DNA damage, heat shock, and efflux of excess metals. Eighty nine drugs elicited a response from at least one of the panel members and formed distinctive clusters, some of which contained closely related drugs. In addition, we tested a group of selected nine drugs against a collection of about 2000 different fluorescent transcriptional reporters that covers the great majority of gene promoters in E. coli. The sets of induced genes were in accord with the in vitro toxicity of the tested drugs, as reflected by the response patterns of the 15-member panel, and provided more insights into their toxicity mechanisms. Facilitated by microplates and robotic systems, all assays were conducted in high-throughput. Our results thus suggest that multi-strain assemblages of bacterial bioreporters have the potential for playing a significant role in drug development alongside current in vitro toxicity tests.
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25
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Blagus T, Zager V, Cemazar M, Sersa G, Kamensek U, Zegura B, Nunic J, Filipic M. A cell-based biosensor system HepG2CDKN1A–DsRed for rapid and simple detection of genotoxic agents. Biosens Bioelectron 2014; 61:102-11. [DOI: 10.1016/j.bios.2014.05.002] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/12/2014] [Revised: 04/29/2014] [Accepted: 05/02/2014] [Indexed: 01/22/2023]
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26
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Gopinath SC, Tang TH, Chen Y, Citartan M, Lakshmipriya T. Bacterial detection: From microscope to smartphone. Biosens Bioelectron 2014; 60:332-42. [DOI: 10.1016/j.bios.2014.04.014] [Citation(s) in RCA: 119] [Impact Index Per Article: 11.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2013] [Revised: 03/13/2014] [Accepted: 04/07/2014] [Indexed: 01/15/2023]
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27
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Genetic regulation of spy gene expression in Escherichia coli in the presence of protein unfolding agent ethanol. Gene 2014; 548:142-8. [PMID: 24999585 DOI: 10.1016/j.gene.2014.07.003] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2014] [Revised: 05/31/2014] [Accepted: 07/03/2014] [Indexed: 11/23/2022]
Abstract
In a living cell, folding of proteins is assisted by molecular chaperones and other folding helpers. In Escherichia coli (E. coli), recently an ATP independent chaperon 'Spy' was discovered which is highly up-regulated in the presence of protein unfolding agents like ethanol, butanol and tannic acid. Two response regulators; BaeR and CpxR have been recognized as transcriptional regulators of spy gene. However, the mechanism of genetic regulation of spy under protein denaturants like ethanol has not been studied in detail so far. Based on a combination of genetic, molecular biology and biochemical experimental data, we propose that BaeR protein is the primary regulator of spy gene in response to ethanol stress in E. coli. In addition, we expanded the experimental spectrum and validated that regulation of spy gene in the presence of zinc and copper metal stress is primarily via BaeR and CpxR regulators respectively. We also performed in-silico analysis to identify the homologs of Spy protein and their cognate regulatory elements in bacterial species belonging to enterobacteriaceae family. Based on the unique ATP-independent chaperone nature and genetic regulation of spy we also propose its importance in biosensor development and facilitated production of properly folded recombinant proteins.
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28
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29
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Whiting JGH, de Lacy Costello B, Adamatzky A. Development and initial testing of a novel slime mould biosensor. ANNUAL INTERNATIONAL CONFERENCE OF THE IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY. IEEE ENGINEERING IN MEDICINE AND BIOLOGY SOCIETY. ANNUAL INTERNATIONAL CONFERENCE 2014; 2014:4042-4045. [PMID: 25570879 DOI: 10.1109/embc.2014.6944511] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
A plurality of whole cell biosensors have been developed using many different cell types. Biosensors incorporate biomolecular components or whole cells to facilitate specific analyte interaction; research documented here presents a novel whole cell biosensor based on the slime mould Physarum polycephalum (PP). The electrical response of PP when exposed to multiple chemicals are measured and quantified in terms of amplitude and frequency response. The PP biosensor is capable of detecting the tested chemicals and individually identifying a large number in terms of a specific shift in either oscillation frequency or amplitude. However, it does exhibit a sensitivity to environmental changes such as light level and temperature which may interfere with the detection of the target analyte but could also be used for wider sensing applications. It is proposed that this novel biosensor is capable of detecting many organic chemicals beyond those presented in this work and that the biosensor may be used for environmental monitoring and toxicity evaluation.
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30
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Roda A, Cevenini L, Borg S, Michelini E, Calabretta MM, Schüler D. Bioengineered bioluminescent magnetotactic bacteria as a powerful tool for chip-based whole-cell biosensors. LAB ON A CHIP 2013; 13:4881-4889. [PMID: 24193113 DOI: 10.1039/c3lc50868d] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
This paper describes the generation of genetically engineered bioluminescent magnetotactic bacteria (BL-MTB) and their integration into a microfluidic analytical device to create a portable toxicity detection system. Magnetospirillum gryphiswaldense strain MSR-1 was bioengineered to constitutively express a red-emitting click beetle luciferase whose bioluminescent signal is directly proportional to bacterial viability. The magnetic properties of these bacteria have been exploited as "natural actuators" to transfer the cells in the chip from the reaction to the detection area, optimizing the chip's analytical performance. A robust and cost-effective biosensor for the evaluation of sample toxicity, named MAGNETOX, based on lens-free contact imaging detection, has been developed. A microfluidic chip has been fabricated using multilayered black and transparent polydimethyl siloxane (PDMS) in which BL-MTB are incubated for 30 min with the sample, then moved by microfluidics, trapped, and concentrated in detection chambers by an array of neodymium-iron-boron magnets. The chip is placed in contact with a cooled CCD via a fiber optic taper to perform quantitative bioluminescence imaging after addition of luciferin substrate. A model toxic compound (dimethyl sulfoxide, DMSO) and a bile acid (taurochenodeoxycholic acid, TCDCA) were used to investigate the analytical performance of the MAGNETOX. Incubation with DMSO and TCDCA drastically reduces the bioluminescent signal in a dose-related manner. The generation of bacteria that are both magnetic and bioluminescent combines the advantages of easy 2D cell handling with ultra sensitive detection, offering undoubted potential to develop cell-based biosensors integrated into microfluidic chips.
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Affiliation(s)
- Aldo Roda
- Laboratory of Analytical and Bioanalytical Chemistry, Department of Chemistry "G. Ciamician", Alma Mater Studiorum-University of Bologna, Via Selmi 2, 40126 Bologna, Italy.
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31
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A microfluidic device for continuous sensing of systemic acute toxicants in drinking water. INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH 2013; 10:6748-63. [PMID: 24300075 PMCID: PMC3881139 DOI: 10.3390/ijerph10126748] [Citation(s) in RCA: 30] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/05/2013] [Revised: 11/18/2013] [Accepted: 11/27/2013] [Indexed: 12/20/2022]
Abstract
A bioluminescent-cell-based microfluidic device for sensing toxicants in drinking water was designed and fabricated. The system employed Vibrio fischeri cells as broad-spectrum sensors to monitor potential systemic cell toxicants in water, such as heavy metal ions and phenol. Specifically, the chip was designed for continuous detection. The chip design included two counter-flow micromixers, a T-junction droplet generator and six spiral microchannels. The cell suspension and water sample were introduced into the micromixers and dispersed into droplets in the air flow. This guaranteed sufficient oxygen supply for the cell sensors. Copper (Cu2+), zinc (Zn2+), potassium dichromate and 3,5-dichlorophenol were selected as typical toxicants to validate the sensing system. Preliminary tests verified that the system was an effective screening tool for acute toxicants although it could not recognize or quantify specific toxicants. A distinct non-linear relationship was observed between the zinc ion concentration and the Relative Luminescence Units (RLU) obtained during testing. Thus, the concentration of simple toxic chemicals in water can be roughly estimated by this system. The proposed device shows great promise for an early warning system for water safety.
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33
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Yang Y, Maxwell A, Zhang X, Wang N, Perkins EJ, Zhang C, Gong P. Differential reconstructed gene interaction networks for deriving toxicity threshold in chemical risk assessment. BMC Bioinformatics 2013; 14 Suppl 14:S3. [PMID: 24268022 PMCID: PMC3851258 DOI: 10.1186/1471-2105-14-s14-s3] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022] Open
Abstract
Background Pathway alterations reflected as changes in gene expression regulation and gene interaction can result from cellular exposure to toxicants. Such information is often used to elucidate toxicological modes of action. From a risk assessment perspective, alterations in biological pathways are a rich resource for setting toxicant thresholds, which may be more sensitive and mechanism-informed than traditional toxicity endpoints. Here we developed a novel differential networks (DNs) approach to connect pathway perturbation with toxicity threshold setting. Methods Our DNs approach consists of 6 steps: time-series gene expression data collection, identification of altered genes, gene interaction network reconstruction, differential edge inference, mapping of genes with differential edges to pathways, and establishment of causal relationships between chemical concentration and perturbed pathways. A one-sample Gaussian process model and a linear regression model were used to identify genes that exhibited significant profile changes across an entire time course and between treatments, respectively. Interaction networks of differentially expressed (DE) genes were reconstructed for different treatments using a state space model and then compared to infer differential edges/interactions. DE genes possessing differential edges were mapped to biological pathways in databases such as KEGG pathways. Results Using the DNs approach, we analyzed a time-series Escherichia coli live cell gene expression dataset consisting of 4 treatments (control, 10, 100, 1000 mg/L naphthenic acids, NAs) and 18 time points. Through comparison of reconstructed networks and construction of differential networks, 80 genes were identified as DE genes with a significant number of differential edges, and 22 KEGG pathways were altered in a concentration-dependent manner. Some of these pathways were perturbed to a degree as high as 70% even at the lowest exposure concentration, implying a high sensitivity of our DNs approach. Conclusions Findings from this proof-of-concept study suggest that our approach has a great potential in providing a novel and sensitive tool for threshold setting in chemical risk assessment. In future work, we plan to analyze more time-series datasets with a full spectrum of concentrations and sufficient replications per treatment. The pathway alteration-derived thresholds will also be compared with those derived from apical endpoints such as cell growth rate.
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Jia K, Eltzov E, Marks RS, Ionescu RE. Bioluminescence enhancement through an added washing protocol enabling a greater sensitivity to carbofuran toxicity. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2013; 96:61-66. [PMID: 23867093 DOI: 10.1016/j.ecoenv.2013.06.013] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/06/2012] [Revised: 06/06/2013] [Accepted: 06/15/2013] [Indexed: 06/02/2023]
Abstract
The effects of carbofuran toxicity on a genetically modified bacterial strain E. coli DPD2794 were enhanced using a new bioluminescent protocol which consisted of three consecutive steps: incubation, washing and luminescence reading. Specifically, in the first step, several concentrations of carbofuran aqueous solutions were incubated with different bacterial suspensions at recorded optical densities for different lengths of time. Thereafter, the resulting bacterial/toxicant mixtures were centrifuged and the aged cellular supernatant replaced with fresh medium. In the final step, the carbofuran- induced bioluminescence to the exposed E. coli DPD2794 bacteria was shown to provide a faster and higher intensity when recorded at a higher temperature at30°C which is not usually used in the literature. It was found that the incubation time and the replacement of aged cellular medium were essential factors to distinguish different concentrations of carbofuran in the bioluminescent assays. From our results, the optimum incubation time for a "light ON" bioluminescence detection of the effect of carbofuran was 6h. Thanks to the replacement of the aged cellular medium, a group of additional peaks starting around 30min were observed and we used the corresponding areas under the curve (AUC) at different contents of carbofuran to produce the calibration curve. Based on the new protocol, a carbofuran concentration of 0.5pg/mL can be easily determined in a microtiter plate bioluminescent assay, while a non-wash protocol provides an unexplainable order of curve evolutionswhich does not allow the user to determine the concentration.
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Affiliation(s)
- Kun Jia
- Laboratoire de Nanotechnologie et d'Instrumentation Optique, Institute Charles Delaunay, Université de technologie de Troyes, UMR-STMR CNRS 6279, 12 rue Marie-Curie CS 42060, 10004 Troyes Cedex, France
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Electrochemical As(III) whole-cell based biochip sensor. Biosens Bioelectron 2013; 47:237-42. [DOI: 10.1016/j.bios.2013.03.011] [Citation(s) in RCA: 58] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2012] [Revised: 02/20/2013] [Accepted: 03/04/2013] [Indexed: 11/18/2022]
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Improved detection of antibiotic compounds by bacterial reporter strains achieved by manipulations of membrane permeability and efflux capacity. Appl Microbiol Biotechnol 2013; 98:2267-77. [PMID: 23963273 DOI: 10.1007/s00253-013-5176-3] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2013] [Revised: 07/20/2013] [Accepted: 08/02/2013] [Indexed: 10/26/2022]
Abstract
The occurrence of pharmaceuticals, including antibacterial compounds, in the environment has been acknowledged as an emerging and troubling issue in environmental safety; their usage is constantly on the rise, and their effects on the environment are only partially understood. Such compounds can accumulate, contaminate the ecosystem, and contribute to the spreading of antibiotic resistance among bacteria, hindering human health. Bioluminescent Escherichia coli reporter strains, engineered to detect antibiotic compounds by fusing the promoter of the global regulator soxS to the Photorhabdus luminescens luxCDABE cassette, were further modified by altering their membrane permeability and efflux capabilities. This was accomplished by introducing several mutations in the efflux system (ΔemrE, ΔacrB, and ΔtolC) and by overexpressing OmpF, a porin located in the outer membrane that allows passive diffusion of molecules. Combinations of these alterations had a cumulative effect in lowering the detection threshold of several antibiotics, in some of the cases to concentrations reported from pharmaceutical-polluted environments.
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Elad T, Belkin S. Broad spectrum detection and "barcoding" of water pollutants by a genome-wide bacterial sensor array. WATER RESEARCH 2013; 47:3782-3790. [PMID: 23726715 DOI: 10.1016/j.watres.2013.04.011] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/31/2012] [Revised: 03/05/2013] [Accepted: 04/09/2013] [Indexed: 06/02/2023]
Abstract
An approach for the rapid detection and classification of a broad spectrum of water pollutants, based on a genome-wide reporter bacterial live cell array, is proposed and demonstrated. An array of ca. 2000 Escherichia coli fluorescent transcriptional reporters was exposed to 25 toxic compounds as well as to unpolluted water, and its responses were recorded after 3 h. The 25 toxic compounds represented 5 pollutant classes: genotoxicants, metals, detergents, alcohols, and monoaromatic hydrocarbons. Identifying unique gene expression patterns, a nearest neighbour-based model detected pollutant presence and predicted class attribution with an estimated accuracy of 87%. Sensitivity and positive predictive values varied among classes, being higher for pollutant classes that were defined by mode of action than for those defined by structure only. Sensitivity for unpolluted water was 0.90 and the positive predictive value was 0.79. All pollutant classes induced the transcription of a statistically significant proportion of membrane associated genes; in addition, the sets of genes responsive to genotoxicants, detergents and alcohols were enriched with genes involved in DNA repair, iron utilization and the translation machinery, respectively. Following further development, a methodology of the type described herein may be suitable for integration in water monitoring schemes in conjunction with existing analytical and biological detection techniques.
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Affiliation(s)
- Tal Elad
- Department of Plant and Environmental Sciences, The Alexander Silberman Institute of Life Sciences, The Hebrew University of Jerusalem, Jerusalem 91904, Israel
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Michelini E, Cevenini L, Calabretta MM, Spinozzi S, Camborata C, Roda A. Field-deployable whole-cell bioluminescent biosensors: so near and yet so far. Anal Bioanal Chem 2013; 405:6155-63. [DOI: 10.1007/s00216-013-7043-6] [Citation(s) in RCA: 48] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2013] [Revised: 04/26/2013] [Accepted: 05/02/2013] [Indexed: 12/24/2022]
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Merulla D, Buffi N, Beggah S, Truffer F, Geiser M, Renaud P, van der Meer JR. Bioreporters and biosensors for arsenic detection. Biotechnological solutions for a world-wide pollution problem. Curr Opin Biotechnol 2013; 24:534-41. [DOI: 10.1016/j.copbio.2012.09.002] [Citation(s) in RCA: 54] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2012] [Revised: 08/17/2012] [Accepted: 09/02/2012] [Indexed: 11/28/2022]
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de León AS, Rodríguez-Hernández J, Cortajarena AL. Honeycomb patterned surfaces functionalized with polypeptide sequences for recognition and selective bacterial adhesion. Biomaterials 2013. [DOI: 10.1016/j.biomaterials.2012.10.074] [Citation(s) in RCA: 40] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
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Peng Lee C, Hsin Chen Y, Hang Wei Z. Fabrication of hexagonally packed cell culture substrates using droplet formation in a T-shaped microfluidic junction. BIOMICROFLUIDICS 2013; 7:14101. [PMID: 24396524 PMCID: PMC3555912 DOI: 10.1063/1.4774315] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/01/2012] [Accepted: 12/17/2012] [Indexed: 05/14/2023]
Abstract
A method is here proposed to fabricate ordered hexagonally packed cell culture substrates with hexagonally arranged cell patterning areas. We generated photo-sensitive polymeric microdroplets in a T-shaped microfluidic junction by an immiscible liquid, and then solidified the collective self-assembled hexagonal droplet array to obtain the cell culture substrate, on which we took the grooves formed between the solidified droplets as the hexagonally arranged cell patterning areas. The most promising advantage of our method is that we can actively tune the droplet size by simply adopting different volumetric flow rates of the two immiscible fluids to form cell culture substrates with differently sized cell patterning areas. Besides, the examination results of the cell culture substrate's characteristics validate whether our method is capable of creating substrates with high spatial uniformity. To verify the cell patterning function of our cell culture substrates, we used the semi-adherent RAW cells to demonstrate the effectiveness of patterning of suspended/adherent cells before/after adhesion. Over 90% cell viability and cell patterning rate suggest that our method may be a promising approach for future applications of cell patterning on biochips.
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Affiliation(s)
- Chiun Peng Lee
- Department of Power Mechanical Engineering, National Tsing Hua University, Taiwan
| | - Yi Hsin Chen
- Department of Power Mechanical Engineering, National Tsing Hua University, Taiwan
| | - Zung Hang Wei
- Department of Power Mechanical Engineering, National Tsing Hua University, Taiwan
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Drogue B, Thomas P, Balvay L, Prigent-Combaret C, Dorel C. Engineering adherent bacteria by creating a single synthetic curli operon. J Vis Exp 2012. [PMID: 23183588 DOI: 10.3791/4176] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022] Open
Abstract
The method described here consists in redesigning E. coli adherence properties by assembling the minimum number of curli genes under the control of a strong and metal-overinducible promoter, and in visualizing and quantifying the resulting gain of bacterial adherence. This method applies appropriate engineering principles of abstraction and standardization of synthetic biology, and results in the BBa_K540000 Biobrick (Best new Biobrick device, engineered, iGEM 2011). The first step consists in the design of the synthetic operon devoted to curli overproduction in response to metal, and therefore in increasing the adherence abilities of the wild type strain. The original curli operon was modified in silico in order to optimize transcriptional and translational signals and escape the "natural" regulation of curli. This approach allowed to test with success our current understanding of curli production. Moreover, simplifying the curli regulation by switching the endogenous complex promoter (more than 10 transcriptional regulators identified) to a simple metal-regulated promoter makes adherence much easier to control. The second step includes qualitative and quantitative assessment of adherence abilities by implementation of simple methods. These methods are applicable to a large range of adherent bacteria regardless of biological structures involved in biofilm formation. Adherence test in 24-well polystyrene plates provides a quick preliminary visualization of the bacterial biofilm after crystal violet staining. This qualitative test can be sharpened by the quantification of the percentage of adherence. Such a method is very simple but more accurate than only crystal violet staining as described previously with both a good repeatability and reproducibility. Visualization of GFP-tagged bacteria on glass slides by fluorescence or laser confocal microscopy allows to strengthen the results obtained with the 24-well plate test by direct observation of the phenomenon.
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Affiliation(s)
- Benoît Drogue
- UMR CNRS 5557 Ecologie Microbienne, Université Lyon 1, Université de Lyon
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Checa SK, Zurbriggen MD, Soncini FC. Bacterial signaling systems as platforms for rational design of new generations of biosensors. Curr Opin Biotechnol 2012; 23:766-72. [DOI: 10.1016/j.copbio.2012.05.003] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2012] [Revised: 05/08/2012] [Accepted: 05/09/2012] [Indexed: 01/30/2023]
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