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Shulunov VR. Rapid Parallel Search Technology with Scanning Electron Microscope and Artificial Neural Network. SMART SCIENCE 2022. [DOI: 10.1080/23080477.2022.2092671] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
Affiliation(s)
- Vyacheslav R Shulunov
- Institute of Physical Materials Science, Siberian Branch of the Russian Academy of Sciences, Ulan-Ude, Russia
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2
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Petrenko VA, Gillespie JW, De Plano LM, Shokhen MA. Phage-Displayed Mimotopes of SARS-CoV-2 Spike Protein Targeted to Authentic and Alternative Cellular Receptors. Viruses 2022; 14:v14020384. [PMID: 35215976 PMCID: PMC8879608 DOI: 10.3390/v14020384] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2021] [Revised: 02/08/2022] [Accepted: 02/10/2022] [Indexed: 12/11/2022] Open
Abstract
The evolution of the SARS-CoV-2 virus during the COVID-19 pandemic was accompanied by the emergence of new heavily mutated viral variants with increased infectivity and/or resistance to detection by the human immune system. To respond to the urgent need for advanced methods and materials to empower a better understanding of the mechanisms of virus’s adaptation to human host cells and to the immuno-resistant human population, we suggested using recombinant filamentous bacteriophages, displaying on their surface foreign peptides termed “mimotopes”, which mimic the structure of viral receptor-binding sites on the viral spike protein and can serve as molecular probes in the evaluation of molecular mechanisms of virus infectivity. In opposition to spike-binding antibodies that are commonly used in studying the interaction of the ACE2 receptor with SARS-CoV-2 variants in vitro, phage spike mimotopes targeted to other cellular receptors would allow discovery of their role in viral infection in vivo using cell culture, tissue, organs, or the whole organism. Phage mimotopes of the SARS-CoV-2 Spike S1 protein have been developed using a combination of phage display and molecular mimicry concepts, termed here “phage mimicry”, supported by bioinformatics methods. The key elements of the phage mimicry concept include: (1) preparation of a collection of p8-type (landscape) phages, which interact with authentic active receptors of live human cells, presumably mimicking the binding interactions of human coronaviruses such as SARS-CoV-2 and its variants; (2) discovery of closely related amino acid clusters with similar 3D structural motifs on the surface of natural ligands (FGF1 and NRP1), of the model receptor of interest FGFR and the S1 spike protein; and (3) an ELISA analysis of the interaction between candidate phage mimotopes with FGFR3 (a potential alternative receptor) in comparison with ACE2 (the authentic receptor).
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Affiliation(s)
- Valery A. Petrenko
- Department of Pathobiology, College of Veterinary Medicine, Auburn University, Auburn, AL 36849, USA
- Correspondence: (V.A.P.); (J.W.G.); Tel.: +1-334-844-2897 (V.A.P.); +1-334-844-2625 (J.W.G.)
| | - James W. Gillespie
- Department of Pathobiology, College of Veterinary Medicine, Auburn University, Auburn, AL 36849, USA
- Correspondence: (V.A.P.); (J.W.G.); Tel.: +1-334-844-2897 (V.A.P.); +1-334-844-2625 (J.W.G.)
| | - Laura Maria De Plano
- Department of Chemical, Biological, Pharmaceutical and Environmental Sciences, University of Messina, 98122 Messina, Italy;
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3
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Recent Advances in Two-Dimensional Transition Metal Dichalcogenide Nanocomposites Biosensors for Virus Detection before and during COVID-19 Outbreak. JOURNAL OF COMPOSITES SCIENCE 2021. [DOI: 10.3390/jcs5070190] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
The deadly Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) outbreak has become one of the most challenging pandemics in the last century. Clinical diagnosis reports a high infection rate within a large population and a rapid mutation rate upon every individual infection. The polymerase chain reaction has been a powerful and gold standard molecular diagnostic technique over the past few decades and hence a promising tool to detect the SARS-CoV-2 nucleic acid sequences. However, it can be costly and involved in complicated processes with a high demand for on-site tests. This pandemic emphasizes the critical need for designing cost-effective and fast diagnosis strategies to prevent a potential viral source by ultrasensitive and selective biosensors. Two-dimensional (2D) transition metal dichalcogenide (TMD) nanocomposites have been developed with unique physical and chemical properties crucial for building up nucleic acid and protein biosensors. In this review, we cover various types of 2D TMD biosensors available for virus detection via the mechanisms of photoluminescence/optical, field-effect transistor, surface plasmon resonance, and electrochemical signals. We summarize the current state-of-the-art applications of 2D TMD nanocomposite systems for sensing proteins/nucleic acid from different types of lethal viruses. Finally, we identify and discuss the advantages and limitations of TMD-based nanocomposites biosensors for viral recognition.
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4
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O'Connell L, Marcoux PR, Roupioz Y. Strategies for Surface Immobilization of Whole Bacteriophages: A Review. ACS Biomater Sci Eng 2021; 7:1987-2014. [PMID: 34038088 DOI: 10.1021/acsbiomaterials.1c00013] [Citation(s) in RCA: 20] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Abstract
Bacteriophage immobilization is a key unit operation in emerging biotechnologies, enabling new possibilities for biodetection of pathogenic microbes at low concentration, production of materials with novel antimicrobial properties, and fundamental research on bacteriophages themselves. Wild type bacteriophages exhibit extreme binding specificity for a single species, and often for a particular subspecies, of bacteria. Since their specificity originates in epitope recognition by capsid proteins, which can be altered by chemical or genetic modification, their binding specificity may also be redirected toward arbitrary substrates and/or a variety of analytes in addition to bacteria. The immobilization of bacteriophages on planar and particulate substrates is thus an area of active and increasing scientific interest. This review assembles the knowledge gained so far in the immobilization of whole phage particles, summarizing the main chemistries, and presenting the current state-of-the-art both for an audience well-versed in bioconjugation methods as well as for those who are new to the field.
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Affiliation(s)
- Larry O'Connell
- Université Grenoble Alpes, CEA, LETI, F38054 Grenoble, France.,Université Grenoble Alpes, CNRS, CEA, IRIG, SyMMES, 38000 Grenoble, France
| | | | - Yoann Roupioz
- Université Grenoble Alpes, CNRS, CEA, IRIG, SyMMES, 38000 Grenoble, France
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5
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Landscape Phage: Evolution from Phage Display to Nanobiotechnology. Viruses 2018; 10:v10060311. [PMID: 29880747 PMCID: PMC6024655 DOI: 10.3390/v10060311] [Citation(s) in RCA: 35] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/11/2018] [Revised: 06/01/2018] [Accepted: 06/05/2018] [Indexed: 02/07/2023] Open
Abstract
The development of phage engineering technology has led to the construction of a novel type of phage display library-a collection of nanofiber materials with diverse molecular landscapes accommodated on the surface of phage particles. These new nanomaterials, called the "landscape phage", serve as a huge resource of diagnostic/detection probes and versatile construction materials for the preparation of phage-functionalized biosensors and phage-targeted nanomedicines. Landscape-phage-derived probes interact with biological threat agents and generate detectable signals as a part of robust and inexpensive molecular recognition interfaces introduced in mobile detection devices. The use of landscape-phage-based interfaces may greatly improve the sensitivity, selectivity, robustness, and longevity of these devices. In another area of bioengineering, landscape-phage technology has facilitated the development and testing of targeted nanomedicines. The development of high-throughput phage selection methods resulted in the discovery of a variety of cancer cell-associated phages and phage proteins demonstrating natural proficiency to self-assemble into various drug- and gene-targeting nanovehicles. The application of this new "phage-programmed-nanomedicines" concept led to the development of a number of cancer cell-targeting nanomedicine platforms, which demonstrated anticancer efficacy in both in vitro and in vivo experiments. This review was prepared to attract the attention of chemical scientists and bioengineers seeking to develop functionalized nanomaterials and use them in different areas of bioscience, medicine, and engineering.
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6
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Liu P, Han L, Wang F, Li X, Petrenko VA, Liu A. Sensitive colorimetric immunoassay of Vibrio parahaemolyticus based on specific nonapeptide probe screening from a phage display library conjugated with MnO 2 nanosheets with peroxidase-like activity. NANOSCALE 2018; 10:2825-2833. [PMID: 29362753 DOI: 10.1039/c7nr06633c] [Citation(s) in RCA: 44] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Pathogen detection continues to receive significant attention due to the harmful effects of pathogens on public health. Herein, specific nonapeptide-fusion proteins pVIII (pVIII fusion) were isolated from phage VQTVQIGSD (designated by the sequence of a fused foreign peptide), which was specifically screened from the f8/9 landscape phage library against Vibrio parahaemolyticus (V. parahaemolyticus) in a high-throughput way. The as-prepared V. parahaemolyticus-specific recognition element is cheaper and more available than antibodies. Further, a highly sensitive colorimetric immunoassay for V. parahaemolyticus was established using pVIII fusion as capture probes coupled with protein-templated MnO2 nanosheets (NSs) as signal probes. In the presence of a target bacterium, V. parahaemolyticus, a sandwich-type complex of pVIII fusion-V. parahaemolyticus-MnO2 NS@pVIII fusion was formed through specific recognition of pVIII fusion and V. parahaemolyticus. The signal probes (MnO2 NSs) could catalyze the reaction of 3,3',5,5'-tetramethylbenzidine and H2O2 to generate a colorimetric change. The proposed V. parahaemolyticus detection method demonstrated a wide detection range (20-104 colony-forming units (CFU) mL-1), low limit of detection (15 CFU mL-1), excellent selectivity, and high reliability for real marine samples, showing potential application in marine microbiological detection and control.
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Affiliation(s)
- Pei Liu
- Institute for Biosensing, and College of Chemistry & Chemical Engineering, Qingdao University, Qingdao 266071, China.
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7
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Guliy ОI, Zaitsev BD, Borodina IA, Shikhabudinov АМ, Teplykh AA, Staroverov SA, Fomin AS. The biological acoustic sensor to record the interactions of the microbial cells with the phage antibodies in conducting suspensions. Talanta 2017; 178:569-576. [PMID: 29136863 DOI: 10.1016/j.talanta.2017.09.076] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/29/2017] [Revised: 09/20/2017] [Accepted: 09/28/2017] [Indexed: 12/22/2022]
Abstract
The acoustic biological sensor for the analysis of the bacterial cells in conducting suspension was developed. The sensor represented the two channel delay line based on the piezoelectric plate of Y-X lithium niobate thick of 0.2mm. Two pairs of the interdigital transducers (IDT) for the excitation and reception of shear horizontal acoustic wave of zero order (SH0) in each channel were deposited by the method of photolithography. One channel of the delay line was electrically shorted by the deposition of thin aluminum film between IDTs. The second channel remained as electrically open. The liquid container with the volume of 5ml was fixed on the plate surface between IDTs by the glue, which did not cause the additional insertion loss. For the first time the influence of the conductivity of the cell suspension on the registration of the specific and nonspecific interactions of the bacterial cells with phage-antibodies (phage-Abs) was studied by means of the developed sensor. The dependencies of the change in insertion loss and phase of the output signal on the conductivity of the buffer solution at specific/nonspecific interactions for the electrically open and shorted channels of the delay line were obtained. It was shown that the sensor successfully registered the interactions of microbial cells with phage-Abs in the range of the conductivity of 2-20 μS/cm on the model samples A. brasilense Sp245 - specific phage-Abs. The sensor in the time regime of the operation fast reacted on the specific/nonspecific interaction and the time of the stabilization of the output parameters did not exceed 10min.
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Affiliation(s)
- О I Guliy
- Institute of Biochemistry & Physiology of Plants & Microorganisms RAS, 13 Prospect Enthusiastic, Saratov 410049, Russia; Saratov State Agrarian University, Saratov 410012, Russia; Scientific Research Veterinary Institute, Saratov 410028, Russia.
| | - B D Zaitsev
- Kotel'nikov Institute of Radio Engineering and Electronics RAS, Saratov Branch, Saratov 410019, Russia
| | - I A Borodina
- Kotel'nikov Institute of Radio Engineering and Electronics RAS, Saratov Branch, Saratov 410019, Russia
| | - А М Shikhabudinov
- Kotel'nikov Institute of Radio Engineering and Electronics RAS, Saratov Branch, Saratov 410019, Russia
| | - A A Teplykh
- Kotel'nikov Institute of Radio Engineering and Electronics RAS, Saratov Branch, Saratov 410019, Russia
| | - S A Staroverov
- Scientific Research Veterinary Institute, Saratov 410028, Russia
| | - A S Fomin
- Institute of Biochemistry & Physiology of Plants & Microorganisms RAS, 13 Prospect Enthusiastic, Saratov 410049, Russia; Scientific Research Veterinary Institute, Saratov 410028, Russia
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8
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Benito-Peña E, Valdés MG, Glahn-Martínez B, Moreno-Bondi MC. Fluorescence based fiber optic and planar waveguide biosensors. A review. Anal Chim Acta 2016; 943:17-40. [PMID: 27769374 PMCID: PMC7094704 DOI: 10.1016/j.aca.2016.08.049] [Citation(s) in RCA: 67] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2016] [Revised: 08/25/2016] [Accepted: 08/29/2016] [Indexed: 12/21/2022]
Abstract
The application of optical biosensors, specifically those that use optical fibers and planar waveguides, has escalated throughout the years in many fields, including environmental analysis, food safety and clinical diagnosis. Fluorescence is, without doubt, the most popular transducer signal used in these devices because of its higher selectivity and sensitivity, but most of all due to its wide versatility. This paper focuses on the working principles and configurations of fluorescence-based fiber optic and planar waveguide biosensors and will review biological recognition elements, sensing schemes, as well as some major and recent applications, published in the last ten years. The main goal is to provide the reader a general overview of a field that requires the joint collaboration of researchers of many different areas, including chemistry, physics, biology, engineering, and material science.
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Affiliation(s)
- Elena Benito-Peña
- Department of Analytical Chemistry, Faculty of Chemistry, Complutense University, 28040 Madrid, Spain
| | - Mayra Granda Valdés
- Department of Analytical Chemistry, Faculty of Chemistry, University of La Habana, 10400 La Habana, Cuba
| | - Bettina Glahn-Martínez
- Department of Analytical Chemistry, Faculty of Chemistry, Complutense University, 28040 Madrid, Spain
| | - Maria C Moreno-Bondi
- Department of Analytical Chemistry, Faculty of Chemistry, Complutense University, 28040 Madrid, Spain.
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9
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Guliy OI, Zaitsev BD, Borodina IA, Teplykh AA, Ignatov OV. An acoustic method for the analysis of bacterial cells. Biophysics (Nagoya-shi) 2016. [DOI: 10.1134/s0006350916040138] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
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10
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11
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Tan Y, Tian T, Liu W, Zhu Z, J Yang C. Advance in phage display technology for bioanalysis. Biotechnol J 2016; 11:732-45. [PMID: 27061133 DOI: 10.1002/biot.201500458] [Citation(s) in RCA: 53] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/27/2015] [Revised: 01/30/2016] [Accepted: 03/15/2016] [Indexed: 11/06/2022]
Abstract
Phage display technology has emerged as a powerful tool for target gene expression and target-specific ligand selection. It is widely used to screen peptides, proteins and antibodies with the advantages of simplicity, high efficiency and low cost. A variety of targets, including ions, small molecules, inorganic materials, natural and biological polymers, nanostructures, cells, bacteria, and even tissues, have been demonstrated to generate specific binding ligands by phage display. Phages and target-specific ligands screened by phage display have been widely used as affinity reagents in therapeutics, diagnostics and biosensors. In this review, comparisons of different types of phage display systems are first presented. Particularly, microfluidic-based phage display, which enables screening with high throughput, high efficiency and integration, is highlighted. More importantly, we emphasize the advances in biosensors based on phages or phage-derived probes, including nonlytic phages, lytic phages, peptides or proteins screened by phage display, phage assemblies and phage-nanomaterial complexes. However, more efficient and higher throughput phage display methods are still needed to meet an explosion in demand for bioanalysis. Furthermore, screening of cyclic peptides and functional peptides will be the hotspot in bioanalysis.
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Affiliation(s)
- Yuyu Tan
- State Key Laboratory of Physical Chemistry of Solid Surfaces, The MOE Key Laboratory of Spectrochemical Analysis & Instrumentation, Collaborative Innovation Center of Chemistry for Energy Materials, Key Laboratory for Chemical Biology of Fujian Province, Department of Chemical Biology, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, China
| | - Tian Tian
- State Key Laboratory of Physical Chemistry of Solid Surfaces, The MOE Key Laboratory of Spectrochemical Analysis & Instrumentation, Collaborative Innovation Center of Chemistry for Energy Materials, Key Laboratory for Chemical Biology of Fujian Province, Department of Chemical Biology, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, China
| | - Wenli Liu
- State Key Laboratory of Physical Chemistry of Solid Surfaces, The MOE Key Laboratory of Spectrochemical Analysis & Instrumentation, Collaborative Innovation Center of Chemistry for Energy Materials, Key Laboratory for Chemical Biology of Fujian Province, Department of Chemical Biology, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, China
| | - Zhi Zhu
- State Key Laboratory of Physical Chemistry of Solid Surfaces, The MOE Key Laboratory of Spectrochemical Analysis & Instrumentation, Collaborative Innovation Center of Chemistry for Energy Materials, Key Laboratory for Chemical Biology of Fujian Province, Department of Chemical Biology, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, China.
| | - Chaoyong J Yang
- State Key Laboratory of Physical Chemistry of Solid Surfaces, The MOE Key Laboratory of Spectrochemical Analysis & Instrumentation, Collaborative Innovation Center of Chemistry for Energy Materials, Key Laboratory for Chemical Biology of Fujian Province, Department of Chemical Biology, College of Chemistry and Chemical Engineering, Xiamen University, Xiamen, China
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12
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Peltomaa R, López-Perolio I, Benito-Peña E, Barderas R, Moreno-Bondi MC. Application of bacteriophages in sensor development. Anal Bioanal Chem 2015; 408:1805-28. [DOI: 10.1007/s00216-015-9087-2] [Citation(s) in RCA: 44] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2015] [Revised: 09/24/2015] [Accepted: 09/28/2015] [Indexed: 12/19/2022]
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13
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Ren L, Robertson WD, Reimer R, Heinze C, Schneider C, Eggert D, Truschow P, Hansen NO, Kroetz P, Zou J, Miller RJD. Towards instantaneous cellular level bio diagnosis: laser extraction and imaging of biological entities with conserved integrity and activity. NANOTECHNOLOGY 2015; 26:284001. [PMID: 26111866 DOI: 10.1088/0957-4484/26/28/284001] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/25/2023]
Abstract
The prospect for spatial imaging with mass spectroscopy at the level of the cell requires new means of cell extraction to conserve molecular structure. To this aim, we demonstrate a new laser extraction process capable of extracting intact biological entities with conserved biological function. The method is based on the recently developed picosecond infrared laser (PIRL), designed specifically to provide matrix-free extraction by selectively exciting the water vibrational modes under the condition of ultrafast desorption by impulsive vibrational excitation (DIVE). The basic concept is to extract the constituent protein structures on the fastest impulsive limit for ablation to avoid excessive thermal heating of the proteins and to use strongly resonant 1-photon conditions to avoid multiphoton ionization and degradation of the sample integrity. With various microscope imaging and biochemical analysis methods, nanoscale single protein molecules, viruses, and cells in the ablation plume are found to be morphologically and functionally identical with their corresponding controls. This method provides a new means to resolve chemical activity within cells and is amenable to subcellular imaging with near-field approaches. The most important finding is the conserved nature of the extracted biological material within the laser ablation plume, which is fully consistent with in vivo structures and characteristics.
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Affiliation(s)
- L Ren
- Max Planck Institute for the Structure and Dynamics of Matter, Luruper Chaussee 149, 22761 Hamburg, Germany
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14
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Wong PT, Tang S, Tang K, Coulter A, Mukherjee J, Gam K, Baker JR, Choi SK. A lipopolysaccharide binding heteromultivalent dendrimer nanoplatform for Gram negative cell targeting. J Mater Chem B 2015; 3:1149-1156. [DOI: 10.1039/c4tb01690d] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
Heteromultivalent design of PAMAM dendrimer by conjugation with polymyxin B (PMB) ligand and excess auxiliary ethanolamine (EA) branches led to lipopolysaccharide (LPS) avidity two orders of magnitude greater than free PMB.
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Affiliation(s)
- Pamela T. Wong
- Michigan Nanotechnology Institute for Medicine and Biological Sciences
- University of Michigan
- Ann Arbor
- USA
- Department of Internal Medicine
| | - Shengzhuang Tang
- Michigan Nanotechnology Institute for Medicine and Biological Sciences
- University of Michigan
- Ann Arbor
- USA
- Department of Internal Medicine
| | - Kenny Tang
- Michigan Nanotechnology Institute for Medicine and Biological Sciences
- University of Michigan
- Ann Arbor
- USA
| | - Alexa Coulter
- Michigan Nanotechnology Institute for Medicine and Biological Sciences
- University of Michigan
- Ann Arbor
- USA
| | - Jhindan Mukherjee
- Michigan Nanotechnology Institute for Medicine and Biological Sciences
- University of Michigan
- Ann Arbor
- USA
- Department of Internal Medicine
| | - Kristina Gam
- Michigan Nanotechnology Institute for Medicine and Biological Sciences
- University of Michigan
- Ann Arbor
- USA
| | - James R. Baker
- Michigan Nanotechnology Institute for Medicine and Biological Sciences
- University of Michigan
- Ann Arbor
- USA
- Department of Internal Medicine
| | - Seok Ki Choi
- Michigan Nanotechnology Institute for Medicine and Biological Sciences
- University of Michigan
- Ann Arbor
- USA
- Department of Internal Medicine
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15
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Ye XM, Guntupalli R, Lakshmanan RS, Chin BA, Hu J. Comparative study of thermal stability of magnetostrictive biosensor between two kinds of biorecognition elements. MATERIALS SCIENCE & ENGINEERING. C, MATERIALS FOR BIOLOGICAL APPLICATIONS 2014; 41:78-82. [PMID: 24907740 DOI: 10.1016/j.msec.2014.04.030] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/07/2014] [Revised: 03/19/2014] [Accepted: 04/07/2014] [Indexed: 10/25/2022]
Abstract
Magnetostrictive biosensors specific to Salmonella typhimurium were prepared by immobilizing antibody or phage as biorecognition elements onto the magnetostrictive sensor platform. The sensors were stored at temperatures of 25 °C (room temperature), 45 °C and 65 °C, respectively, and the ability to bind S. typhimurium was detected by testing the resonant frequency shift using a HP network analyzer after exposure to 1 mL of 1×10(9) cfu/mL of S. typhimurium at a predetermined schedule. The binding of S. typhimurium to biosensors was confirmed by Scanning Electron Microscopy (SEM). The results showed that there existed an initial sudden drop in the average density of S. typhimurium bound to the biosensor surface versus duration at different temperatures for the two kinds of recognition elements, and the binding ability to S. typhimurium of phage-immobilized biosensors was much better than that of antibody-immobilized biosensors, with longevity longer than 30 days at all tested temperatures, though decreasing gradually over the testing period. While the longevity of antibody-immobilized biosensors was only about 30, 8 and 5 days at room temperature (25 °C), 45 °C and 65 °C, respectively. Meanwhile, the activation energy of the two kinds of biosensors was investigated, and it was found that phage immobilized sensors showed much higher activation energy than antibody immobilized sensors, which resulted in less dependency on temperature and thus having much better thermal stability than antibody immobilized sensors.
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Affiliation(s)
- Xue-mei Ye
- School of Materials Science and Engineering, Changzhou University, Changzhou 213164, PR China
| | - R Guntupalli
- Materials Research and Education Center, Auburn University, AL 36849, USA
| | - R S Lakshmanan
- Materials Research and Education Center, Auburn University, AL 36849, USA
| | - Bryan A Chin
- Materials Research and Education Center, Auburn University, AL 36849, USA
| | - Jing Hu
- School of Materials Science and Engineering, Changzhou University, Changzhou 213164, PR China; Materials Research and Education Center, Auburn University, AL 36849, USA.
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16
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Martelet A, L’Hostis G, Tavares P, Brasilès S, Fenaille F, Rozand C, Theretz A, Gervasi G, Tabet JC, Ezan E, Junot C, Muller BH, Becher F. Bacterial Detection Using Unlabeled Phage Amplification and Mass Spectrometry through Structural and Nonstructural Phage Markers. J Proteome Res 2014; 13:1450-65. [DOI: 10.1021/pr400991t] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Affiliation(s)
- Armelle Martelet
- bioMérieux S.A., 376, Chemin de
l’Orme, 69280 Marcy-l’Etoile, France
- CEA,
iBiTec-S, SPI, Laboratoire d’Etude du Métabolisme des
Médicaments (LEMM), Bâtiment 136, 91191 Gif-sur-Yvette, France
| | - Guillaume L’Hostis
- bioMérieux S.A., 376, Chemin de
l’Orme, 69280 Marcy-l’Etoile, France
- CEA,
iBiTec-S, SPI, Laboratoire d’Etude du Métabolisme des
Médicaments (LEMM), Bâtiment 136, 91191 Gif-sur-Yvette, France
| | - Paulo Tavares
- CNRS UPR3296 and
IFR 115, Unité de Virologie Moléculaire et Structurale
(VMS), Bâtiment 14B, CNRS, 91198 Gif-sur-Yvette, France
| | - Sandrine Brasilès
- CNRS UPR3296 and
IFR 115, Unité de Virologie Moléculaire et Structurale
(VMS), Bâtiment 14B, CNRS, 91198 Gif-sur-Yvette, France
| | - François Fenaille
- CEA,
iBiTec-S, SPI, Laboratoire d’Etude du Métabolisme des
Médicaments (LEMM), Bâtiment 136, 91191 Gif-sur-Yvette, France
| | - Christine Rozand
- bioMérieux S.A., 376, Chemin de
l’Orme, 69280 Marcy-l’Etoile, France
| | - Alain Theretz
- bioMérieux S.A., 376, Chemin de
l’Orme, 69280 Marcy-l’Etoile, France
| | - Gaspard Gervasi
- bioMérieux S.A., 376, Chemin de
l’Orme, 69280 Marcy-l’Etoile, France
| | - Jean-Claude Tabet
- Université Pierre et Marie Curie (Paris 6), UMR 7201,
Equipe de Spectrométrie de Masse, Institut Parisien de Chimie
Moléculaire, 4
place Jussieu, 75005 Paris, France
| | - Eric Ezan
- CEA, Service de Biochimie et Toxicologie Nucléaire (SBTN), BP 17171, 30207 Bagnols-sur-Cèze, France
| | - Christophe Junot
- CEA,
iBiTec-S, SPI, Laboratoire d’Etude du Métabolisme des
Médicaments (LEMM), Bâtiment 136, 91191 Gif-sur-Yvette, France
| | - Bruno H. Muller
- bioMérieux S.A., 376, Chemin de
l’Orme, 69280 Marcy-l’Etoile, France
- CEA,
iBiTec-S, SPI, Laboratoire d’Etude du Métabolisme des
Médicaments (LEMM), Bâtiment 136, 91191 Gif-sur-Yvette, France
| | - François Becher
- CEA,
iBiTec-S, SPI, Laboratoire d’Etude du Métabolisme des
Médicaments (LEMM), Bâtiment 136, 91191 Gif-sur-Yvette, France
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17
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Park MK, Weerakoon KA, Oh JH, Chin BA. The analytical comparison of phage-based magnetoelastic biosensor with TaqMan-based quantitative PCR method to detect Salmonella Typhimurium on cantaloupes. Food Control 2013. [DOI: 10.1016/j.foodcont.2013.02.026] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
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18
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Affiliation(s)
- Scott Banta
- Department of Chemical Engineering, Columbia University, New York, NY 10027;
| | - Kevin Dooley
- Department of Chemical Engineering, Columbia University, New York, NY 10027;
| | - Oren Shur
- Department of Chemical Engineering, Columbia University, New York, NY 10027;
- Current affiliation: Boston Consulting Group, New York, NY 10022
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19
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Lin M, Pei H, Yang F, Fan C, Zuo X. Applications of gold nanoparticles in the detection and identification of infectious diseases and biothreats. ADVANCED MATERIALS (DEERFIELD BEACH, FLA.) 2013; 25:3490-6. [PMID: 23977699 PMCID: PMC7159368 DOI: 10.1002/adma.201301333] [Citation(s) in RCA: 55] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/03/2023]
Abstract
The situation of infectious diseases and biothreats all over the world remains serious. The effective identification of such diseases plays a very important role. In recent years, gold nanoparticles have been widely used in biosensor design to improve the performance for the detection of infectious diseases and biothreats. Here, recent advances of gold-nanoparticle-based biosensors in this field are summarized.
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Affiliation(s)
- Meihua Lin
- Division of Physical Biology and Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai, 201800, China
| | - Hao Pei
- Division of Physical Biology and Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai, 201800, China
| | - Fan Yang
- Division of Physical Biology and Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai, 201800, China
| | - Chunhai Fan
- Division of Physical Biology and Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai, 201800, China
| | - Xiaolei Zuo
- Division of Physical Biology and Bioimaging Center, Shanghai Synchrotron Radiation Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai, 201800, China
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20
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Henry M, Debarbieux L. Tools from viruses: bacteriophage successes and beyond. Virology 2012; 434:151-61. [PMID: 23063405 DOI: 10.1016/j.virol.2012.09.017] [Citation(s) in RCA: 45] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2012] [Revised: 09/14/2012] [Accepted: 09/20/2012] [Indexed: 01/21/2023]
Abstract
Viruses are ubiquitous and can infect any of the three existing cellular lineages (Archaea, Bacteria and Eukarya). Despite the persisting negative public perception of these entities, scientists learnt how to domesticate some of them. The study of molecular mechanisms essential to the completion of viral cycles has greatly contributed to deciphering fundamental processes in biology. Nowadays, viruses have entered the biotechnological era and numerous applications have already been developed. Viral-derived tools are used to manipulate genetic information, detect, diagnose, control and cure infectious diseases, or even design new structural assemblies. With the recent advances in the field of metagenomics, an overwhelming amount of information on novel viruses has become available. As current tools have been historically developed from a limited number of viruses, the potential of discoveries from new archaeal, bacterial and eukaryotic viruses may be limited only by our understanding of the multiple facets of viral cycles.
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Affiliation(s)
- Marine Henry
- Institut Pasteur, Molecular Biology of the Gene in Extremophiles Unit, Department of Microbiology, F-75015 Paris, France
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21
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The effect of incubation time for Salmonella Typhimurium binding to phage-based magnetoelastic biosensors. Food Control 2012. [DOI: 10.1016/j.foodcont.2012.01.061] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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22
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Guo X. Surface plasmon resonance based biosensor technique: a review. JOURNAL OF BIOPHOTONICS 2012; 5:483-501. [PMID: 22467335 DOI: 10.1002/jbio.201200015] [Citation(s) in RCA: 170] [Impact Index Per Article: 14.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/04/2012] [Revised: 03/10/2012] [Accepted: 03/11/2012] [Indexed: 05/12/2023]
Abstract
Optical Surface plasmon resonance (SPR) biosensors represent the most advanced and developed optical label-free biosensor technology. Optical SPR biosensors are a powerful detection and analysis tool that has vast applications in environmental protection, biotechnology, medical diagnostics, drug screening, food safety and security. This article reviews the recent development of SPR biosensor techniques, including bulk SPR and localized SPR (LSPR) biosensors, for detecting interactions between an analyte of interest in solution and a biomolecular recognition. The concepts of bulk and localized SPs and the working principles of both sensing techniques are introduced. Major sensing advances on biorecognition elements, measurement formats, and sensing platforms are presented. Finally, the discussions on both biosensor techniques as well as comparison of both SPR sensing techniques are made.
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Affiliation(s)
- Xiaowei Guo
- School of Electrical Engineering and Computer Science, and College of Engineering, Seoul National University, 599 Gwanangno, Gwanak-gu, Seoul 151-744, South Korea.
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23
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Chai Y, Li S, Horikawa S, Park MK, Vodyanoy V, Chin BA. Rapid and sensitive detection of Salmonella Typhimurium on eggshells by using wireless biosensors. J Food Prot 2012; 75:631-6. [PMID: 22488049 DOI: 10.4315/0362-028x.jfp-11-339] [Citation(s) in RCA: 64] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
This article presents rapid, sensitive, direct detection of Salmonella Typhimurium on eggshells by using wireless magnetoelastic (ME) biosensors. The biosensor consists of a freestanding, strip-shaped ME resonator as the signal transducer and the E2 phage as the biomolecular recognition element that selectively binds with Salmonella Typhimurium. This ME biosensor is a type of mass-sensitive biosensor that can be wirelessly actuated into mechanical resonance by an externally applied timevarying magnetic field. When the biosensor binds with Salmonella Typhimurium, the mass of the sensor increases, resulting in a decrease in the sensor's resonant frequency. Multiple E2 phage-coated biosensors (measurement sensors) were placed on eggshells spiked with Salmonella Typhimurium of various concentrations (1.6 to 1.6 × 10(7) CFU/cm(2)). Control sensors without phage were also used to compensate for environmental effects and nonspecific binding. After 20 min in a humidity-controlled chamber (95%) to allow binding of the bacteria to the sensors to occur, the resonant frequency of the sensors was wirelessly measured and compared with their initial resonant frequency. The resonant frequency change of the measurement sensors was found to be statistically different from that of the control sensors down to 1.6 × 10(2) CFU/cm(2), the detection limit for this work. In addition, scanning electron microscopy imaging verified that the measured resonant frequency changes were directly related to the number of bound cells on the sensor surface. The total assay time of the presented methodology was approximately 30 min, facilitating rapid detection of Salmonella Typhimurium without any preceding sampling procedures.
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Affiliation(s)
- Yating Chai
- Materials Research and Education Center, Auburn University, Auburn, AL 36849, USA.
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24
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Dudak FC, Kılıç N, Demir K, Yaşar F, Boyacı İH. Enhancing the affinity of SEB-binding peptides by repeating their sequence. Biopolymers 2011; 98:145-54. [DOI: 10.1002/bip.22012] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/04/2011] [Revised: 09/29/2011] [Accepted: 11/04/2011] [Indexed: 11/08/2022]
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25
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Detection of Salmonella typhimurium Grown Directly on Tomato Surface Using Phage-Based Magnetoelastic Biosensors. FOOD BIOPROCESS TECH 2011. [DOI: 10.1007/s11947-011-0708-2] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
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26
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Direct detection of Salmonella typhimurium on fresh produce using phage-based magnetoelastic biosensors. Biosens Bioelectron 2010; 26:1313-9. [DOI: 10.1016/j.bios.2010.07.029] [Citation(s) in RCA: 139] [Impact Index Per Article: 9.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2010] [Revised: 07/06/2010] [Accepted: 07/09/2010] [Indexed: 11/22/2022]
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27
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Dudak FC, Soykut EA, Oğuz ME, Yaşar F, Boyaci IH. Thermodynamic and structural analysis of interactions between peptide ligands and SEB. J Mol Recognit 2010; 23:369-78. [PMID: 19941320 DOI: 10.1002/jmr.1003] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Abstract
Staphylococcal enterotoxin B (SEB) is an exotoxin produced by Staphylococcus aureus and commonly associated with food poisoning. In this study, SEB-binding peptides were identified by screening a phage displayed peptide library. The binding of peptides to SEB was tested with isothermal titration calorimetry (ITC) and of the five selected peptides, three showed affinity to SEB, with one measured to have the highest affinity constant (10(5) M(-1)). ITC revealed that the interaction of peptide ligands with SEB was driven entropically and the binding was dominated by hydrophobic interactions. Circular dichroism (CD) measurements and molecular dynamics (MD) simulations, together, give a structural insight into the interaction of peptides with SEB. While SEB binding peptides showed random coil structure before binding, after complex formation they had more ordered structures. The peptide with highest affinity to SEB showed stable conformation during MD simulation. Taken together, our approach about thermodynamic and structural characterization of peptide ligands can be used to develop aptamers, with high affinity and selectivity, for biosensor applications.
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Affiliation(s)
- Fahriye Ceyda Dudak
- Department of Food Engineering, Hacettepe University, Beytepe 06800, Ankara, Turkey
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28
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Skottrup PD. Small biomolecular scaffolds for improved biosensor performance. Anal Biochem 2010; 406:1-7. [PMID: 20599637 DOI: 10.1016/j.ab.2010.06.042] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2010] [Revised: 06/18/2010] [Accepted: 06/26/2010] [Indexed: 12/18/2022]
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29
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Lavilla M, De Luis R, Pérez MD, Calvo M, Sánchez L. Selection of high affine peptide ligands for detection of Clostridium Tyrobutyricum spores. J Microbiol Methods 2009; 79:214-9. [DOI: 10.1016/j.mimet.2009.09.008] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/26/2009] [Revised: 09/04/2009] [Accepted: 09/08/2009] [Indexed: 10/20/2022]
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30
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Abstract
Electron microscopy, considered by some to be an old technique, is still on the forefront of both clinical viral diagnoses and viral ultrastructure and pathogenesis studies. In the diagnostic setting, it is particularly valuable in the surveillance of emerging diseases and potential bioterrorism viruses. In the research arena, modalities such as immunoelectron microscopy, cryo-electron microscopy, and electron tomography have demonstrated how viral structural components fit together, attach to cells, assimilate during replication, and associate with the cellular machinery during replication and egression. These studies provide information for treatment and vaccine strategies.
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Affiliation(s)
- Cynthia S Goldsmith
- Infectious Disease Pathology Branch, Centers for Disease Control and Prevention, Atlanta, GA 30333, USA.
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31
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32
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Dover JE, Hwang GM, Mullen EH, Prorok BC, Suh SJ. Recent advances in peptide probe-based biosensors for detection of infectious agents. J Microbiol Methods 2009; 78:10-9. [PMID: 19394369 DOI: 10.1016/j.mimet.2009.04.008] [Citation(s) in RCA: 55] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/04/2008] [Revised: 04/10/2009] [Accepted: 04/14/2009] [Indexed: 10/20/2022]
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33
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Sefah K, Phillips JA, Xiong X, Meng L, Van Simaeys D, Chen H, Martin J, Tan W. Nucleic acid aptamers for biosensors and bio-analytical applications. Analyst 2009; 134:1765-75. [PMID: 19684896 DOI: 10.1039/b905609m] [Citation(s) in RCA: 160] [Impact Index Per Article: 10.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Oligonucleotides were once considered only functional as molecules for the storage of genetic information. However, the discovery of RNAzymes, and later, DNAzymes, unravelled the innate potential of oligonucleotides in many other biological applications. In the last two decades, these applications have been further expanded through the introduction of Systematic Evolution of Ligands by EXponential enrichment (SELEX) which has generated, by repeated rounds of in vitro selection, a type of molecular probe termed aptamers. Aptamers are oligonucleic acid (or peptide) molecules that can bind to various molecular targets and are viewed as complements to antibodies. Aptamers have found applications in many areas, such as bio-technology, medicine, pharmacology, microbiology, and analytical chemistry, including chromatographic separation and biosensors. In this review, we focus on the use of aptamers in the development of biosensors. Coupled with their ability to bind a variety of targets, the robust nature of oligonucleotides, in terms of synthesis, storage, and wide range of temperature stability and chemical manipulation, makes them highly suitable for biosensor design and engineering. Among the many design strategies, we discuss three general paradigms that have appeared most frequently in the literature: structure-switching, enzyme-based, and aptazyme-based designs.
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Affiliation(s)
- Kwame Sefah
- Center for Research at Bio/nano Interface, Department of Chemistry, Shands Cancer Center, UF Genetics Institute, University of Florida, Gainesville, FL 32611-7200, USA
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34
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Abstract
Viruses have recently proven useful for the detection of target analytes such as explosives, proteins, bacteria, viruses, spores, and toxins with high selectivity and sensitivity. Bacteriophages (often shortened to phages), viruses that specifically infect bacteria, are currently the most studied viruses, mainly because target-specific nonlytic phages (and the peptides and proteins carried by them) can be identified by using the well-established phage display technique, and lytic phages can specifically break bacteria to release cell-specific marker molecules such as enzymes that can be assayed. In addition, phages have good chemical and thermal stability, and can be conjugated with nanomaterials and immobilized on a transducer surface in an analytical device. This Review focuses on progress made in the use of phages in chemical and biological sensors in combination with traditional analytical techniques. Recent progress in the use of virus-nanomaterial composites and other viruses in sensing applications is also highlighted.
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Affiliation(s)
- Chuanbin Mao
- Department of Chemistry & Biochemistry, University of Oklahoma, Norman, OK 73019, USA.
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35
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Petrenko V. Evolution of phage display: from bioactive peptides to bioselective nanomaterials. Expert Opin Drug Deliv 2008; 5:825-36. [PMID: 18712993 DOI: 10.1517/17425247.5.8.825] [Citation(s) in RCA: 76] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/04/2023]
Abstract
BACKGROUND New phage-derived biorecognition nanomaterials have emerged recently as a result of the in-depth study of the genetics and structure of filamentous phage and the evolution of phage display technology. OBJECTIVE This review focuses on the progress made in the development of these new nanomaterials and discusses the prospects of using phage as a bioselectable molecular recognition interface in medical and technical devices. METHODS The author used data obtained both in his research group and sourced using Science Citation Index (Web of Science) search resources. RESULTS/CONCLUSION The merging of phage display technologies with nanotechnology over the past few years has proved promising and has already shown its vitality and productivity by contributing vigorously to different areas of medicine and technology, such as medical diagnostics and monitoring, molecular imaging, targeted drug and gene delivery, vaccine development, as well as bone and tissue repair.
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Affiliation(s)
- Va Petrenko
- Auburn University, Department of Pathobiology, AL 36849, USA.
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36
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Huang S, Yang H, Lakshmanan R, Johnson M, Chen I, Wan J, Wikle H, Petrenko V, Barbaree J, Cheng Z, Chin B. The effect of salt and phage concentrations on the binding sensitivity of magnetoelastic biosensors forBacillus anthracisdetection. Biotechnol Bioeng 2008; 101:1014-21. [DOI: 10.1002/bit.21995] [Citation(s) in RCA: 30] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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37
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Identification and characterization of Bacillus anthracis spores by multiparameter flow cytometry. Appl Environ Microbiol 2008; 74:5220-3. [PMID: 18586967 DOI: 10.1128/aem.00369-08] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
In response to the need for methods that can rapidly detect potentially virulent Bacillus anthracis spores, we developed a two-color flow cytometric assay capable of simultaneously identifying B. anthracis spores and the presence of spore-associated protective antigen, a virulence marker for strains harboring the pXO1 plasmid.
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38
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Abstract
Bacteriophages (phages) have been used for therapy of bacterial infections, for genetic research, as tools for the discovery of specific target binding proteins and for vaccine development. The aim of this article is to present advances in genetic and chemical engineering of filamentous bacteriophages that facilitated their application for therapeutic purposes. We review studies where phages were applied for in vivo imaging, as gene delivery vehicles and as drug carriers. Target specificity is based on peptides or proteins displayed on the phage coat. The cargo may be a packaged gene incorporated into the phage genome for gene delivery applications, or imaging agents or cytotoxic drugs chemically conjugated at high density onto the phage coat. We believe that the combination of those separately developed methodologies would result in clinical applications of phage-based therapeutics.
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Affiliation(s)
- Iftach Yacoby
- Tel Aviv University, Department of Molecular Microbiology and Biotechnology, Green Building, Room 202, Ramat Aviv 69978, Israel
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39
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Soykut EA, Dudak FC, Boyaci IH. Selection of staphylococcal enterotoxin B (SEB)-binding peptide using phage display technology. Biochem Biophys Res Commun 2008; 370:104-8. [PMID: 18359289 PMCID: PMC7117543 DOI: 10.1016/j.bbrc.2008.03.065] [Citation(s) in RCA: 25] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2008] [Accepted: 03/08/2008] [Indexed: 11/17/2022]
Abstract
In this study, peptides were selected to recognize staphylococcal enterotoxin B (SEB) which cause food intoxication and can be used as a biological war agent. By using commercial M13 phage library, single plaque isolation of 38 phages was done and binding affinities were investigated with phage-ELISA. The specificities of the selected phage clones showing high affinity to SEB were checked by using different protein molecules which can be found in food samples. Furthermore, the affinities of three selected phage clones were determined by using surface plasmon resonance (SPR) sensors. Sequence analysis was realized for three peptides showing high binding affinity to SEB and WWRPLTPESPPA, MNLHDYHRLFWY, and QHPQINQTLYRM amino acid sequences were obtained. The peptide sequence with highest affinity to SEB was synthesized with solid phase peptide synthesis technique and thermodynamic constants of the peptide-SEB interaction were determined by using isothermal titration calorimetry (ITC) and compared with those of antibody-SEB interaction. The binding constant of the peptide was determined as 4.2+/-0.7 x 10(5)M(-1) which indicates a strong binding close to that of antibody.
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Affiliation(s)
- Esra Acar Soykut
- Department of Food Engineering, Hacettepe University, Beytepe 06532, Ankara, Turkey
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40
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Petrenko VA. Landscape Phage as a Molecular Recognition Interface for Detection Devices. MICROELECTRONICS JOURNAL 2008; 39:202-207. [PMID: 19190724 PMCID: PMC2565273 DOI: 10.1016/j.mejo.2006.11.007] [Citation(s) in RCA: 30] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/22/2023]
Abstract
Filamentous phages are thread-shaped bacterial viruses. Their outer coat is a tube formed by thousands equal copies of the major coat protein pVIII. Libraries of random peptides fused to pVIII domains were used for selection of phages probes specific for a panel of test antigens and biological threat agents. Because the viral carrier in the phage borne bio-selective probes is infective, they can be cloned individually and propagated indefinitely without needs of their chemical synthesis or reconstructing. As a new bioselective material, landscape phages combine unique characteristics of affinity reagents and self assembling proteins. Biorecognition layers formed by the phage-derived probes bind biological agents with high affinity and specificity and generate detectable signals in analytical platforms. The performance of phage-derived materials as biorecognition interface was illustrated by detection of Bacillus anthracis spores and Salmonella typhimurium cells. With further refinement, the phage-derived analytical platforms for detecting and monitoring of numerous threat agents may be developed, since phage interface against any bacteria, virus or toxin may be readily selected from the landscape phage libraries. As an interface in the field-use detectors, they may be superior to antibodies, since they are inexpensive, highly specific and strong binders, resistant to high temperatures and environmental stresses.
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41
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Lakshmanan RS, Guntupalli R, Hu J, Kim DJ, Petrenko VA, Barbaree JM, Chin BA. Phage immobilized magnetoelastic sensor for the detection of Salmonella typhimurium. J Microbiol Methods 2007; 71:55-60. [PMID: 17765344 DOI: 10.1016/j.mimet.2007.07.012] [Citation(s) in RCA: 63] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/07/2007] [Revised: 07/24/2007] [Accepted: 07/24/2007] [Indexed: 10/23/2022]
Abstract
In this article, a phage-based magnetoelastic sensor for the detection of Salmonella typhimurium is reported. Filamentous bacteriophage specific to S. typhimurium was used as a biorecognition element in order to ensure specific and selective binding of bacteria onto the sensor surface. Phage was immobilized onto the surface of the sensors by physical adsorption. The phage immobilized magnetoelastic sensors were exposed to S. typhimurium cultures with different concentrations ranging from 5x10(1) to 5x10(8) cfu/ml, and the corresponding changes in resonance frequency response of the sensor were studied. It was experimentally established that the sensitivity of the magnetoelastic sensors was higher for sensors with smaller physical dimensions. An increase in sensitivity from 159 Hz/decade for a 2 mm sensor to 770 Hz/decade for a 1 mm sensor was observed. Scanning electron microscopy (SEM) analysis of previously assayed biosensors provided visual verification of frequency changes that were caused by S. typhimurium binding to phage immobilized on the sensor surface. The detection limit on the order of 10(3) cfu/ml was obtained for a sensor with dimensions 1x0.2x0.015 mm.
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Affiliation(s)
- Ramji S Lakshmanan
- Materials Research and Education center, Auburn University, Alabama 36849, USA
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42
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Bikker FJ, Mars-Groenendijk RH, Noort D, Fidder A, van der Schans GP. Detection of sulfur mustard adducts in human callus by phage antibodies. Chem Biol Drug Des 2007; 69:314-20. [PMID: 17539823 DOI: 10.1111/j.1747-0285.2007.00504.x] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/17/2023]
Abstract
As part of a research program to develop novel methods for diagnosis of sulfur mustard exposure in the human skin the suitability of phage display was explored. Phage display is a relative new method that enables researchers to quickly evaluate a huge range of potentially useful antibodies, thereby bypassing the more costly and time-consuming hybridoma technique. The Tomlinson I and J phage libraries were used to select phage antibodies exhibiting affinity for sulfur mustard adducts on keratins, isolated from human callus. Two kinds of phage antibodies were obtained: antibodies recognizing keratin and antibodies recognizing keratin which was exposed to sulfur mustard. These phage antibodies retained activity after repeated culturing and culturing in larger volumes. For the first time antibody phage display was successfully applied for immunodiagnostics of a chemical warfare agent.
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Affiliation(s)
- Floris J Bikker
- TNO Defence, Security and Safety, PO Box 45, 2280 AA Rijswijk, The Netherlands.
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43
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Bikker FJ, Mars-Groenendijk RH, Noort D, Fidder A, van der Schans GP. Detection of Sulfur Mustard Adducts in Human Callus by Phage Antibodies. Chem Biol Drug Des 2007. [DOI: 10.1111/j.1747-0825.2007.00504.x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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44
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Ibrahim SF, van den Engh G. Flow cytometry and cell sorting. ADVANCES IN BIOCHEMICAL ENGINEERING/BIOTECHNOLOGY 2007; 106:19-39. [PMID: 17728993 DOI: 10.1007/10_2007_073] [Citation(s) in RCA: 70] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/02/2022]
Abstract
Flow cytometry and cell sorting are well-established technologies in clinical diagnostics and biomedical research. Heterogeneous mixtures of cells are placed in suspension and passed single file across one or more laser interrogation points. Light signals emitted from the particles are collected and correlated to entities such as cell morphology, surface and intracellular protein expression, gene expression, and cellular physiology. Based on user-defined parameters, individual cells can then be diverted from the fluid stream and collected into viable, homogeneous fractions at exceptionally high speeds and a purity that approaches 100%. As such, the cell sorter becomes the launching point for numerous downstream studies. Flow cytometry is a cornerstone in clinical diagnostics, and cheaper, more versatile machines are finding their way into widespread and varied uses. In addition, advances in computing and optics have led to a new generation of flow cytometers capable of processing cells at orders of magnitudes faster than their predecessors, and with staggering degrees of complexity, making the cytometer a powerful discovery tool in biotechnology. This chapter will begin with a discussion of basic principles of flow cytometry and cell sorting, including a technical description of factors that contribute to the performance of these instruments. The remaining sections will then be divided into clinical- and research-based applications of flow cytometry and cell sorting, highlighting salient studies that illustrate the versatility of this indispensable technology.
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Affiliation(s)
- Sherrif F Ibrahim
- Department of Dermatology, University of Rochester, 601 Elmwood Avenue, Rochester, NY 14642, USA.
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Hearty S, Leonard P, Quinn J, O'Kennedy R. Production, characterisation and potential application of a novel monoclonal antibody for rapid identification of virulent Listeria monocytogenes. J Microbiol Methods 2006; 66:294-312. [PMID: 16457899 DOI: 10.1016/j.mimet.2005.12.009] [Citation(s) in RCA: 62] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/29/2005] [Revised: 12/14/2005] [Accepted: 12/19/2005] [Indexed: 12/01/2022]
Abstract
A panel of hybridomas was produced using intact Listeria monocytogenes serotype 1/2a cells as the immunogen. An IgG2a monoclonal antibody (mAb) 'mAb2B3' was isolated that reacted with L. monocytogenes but not with a representative panel of related Listeria spp. and non-Listeria spp. Binding activity was greatest against L. monocytogenes serotype 1/2a and was significantly enhanced when cells were prepared in Listeria enrichment broth (LEB). The reactive epitope was deduced, by immunoblot analysis, to be a surface localised protein of approximately 80 kilodaltons (kDa), putatively assumed to be internalin A (InlA). Recombinant InlA protein was subsequently expressed in Escherischia coli. When crude E. coli cell lysates were subjected to immunoblot analysis, it was demonstrated that the mAb bound specifically to the heterologously expressed recombinant InlA protein, thus confirming the specificity of the mAb. The mAb was further evaluated in a series of enzyme-linked-immunosorbent assay (ELISA)-based formats and in a surface plasmon resonance (SPR)-based biosensor platform. Both configurations were capable of differential identification of virulent L. monocytogenes at concentrations greater than or equal to 1x10(7) cells/ml. Notwithstanding the apparent insensitivity, the results indicate that InlA could be exploited as a marker for highly specific confirmatory identification of pathogenic L. monocytogenes following primary enrichment of suspect food samples, using the anti-InlA antibody 'mAb2B3', described herein.
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Affiliation(s)
- Stephen Hearty
- School of Biotechnology, Dublin City University, Dublin 9, Ireland
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Vivekananda J, Kiel JL. Anti-Francisella tularensis DNA aptamers detect tularemia antigen from different subspecies by Aptamer-Linked Immobilized Sorbent Assay. J Transl Med 2006; 86:610-8. [PMID: 16550191 DOI: 10.1038/labinvest.3700417] [Citation(s) in RCA: 78] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022] Open
Abstract
Aptamers are powerful candidates for molecular detection of targets due to their unique recognition properties. These affinity probes can be used to recognize and bind to their targets in the various types of assays that are currently used to detect and capture molecules of interest. They are short single-stranded (ss) oligonucleotides composed of DNA or RNA sequences that are selected in vitro based on their affinity and specificity for the target. Using combinatorial oligonucleotide libraries, we have selected ssDNA aptamers that bind to Francisella tularensis subspecies (subsp) japonica bacterial antigen. F. tularensis is an intracellular, nonmotile, nonsporulating, Gram-negative bacterial pathogen that causes tularemia in man and animals. Just as antibodies have been used to detect specific targets in varying formats, it is possible that nucleic acid-binding species or aptamers could be used to specifically detect biomolecules. Aptamers offer advantages over antibody-based affinity molecules in production, regeneration and stability due to their unique chemical properties. We have successfully isolated a set of 25 unique DNA sequences that specifically bind to F. tularensis subspecies japonica. When tested in a sandwich Aptamer-Linked Immobilized Sorbent Assay (ALISA) and dot blot analysis, the aptamer cocktail exhibited specificity in its ability to bind only to tularemia bacterial antigen from subspecies japonica, holarctica (also known as palaearctica) and tularensis but not to Bartonella henselae. Moreover, there is no binding observed either to pure chicken albumin or chicken lysozyme. Thus, it appears that this novel antitularemia aptamer cocktail may find application as a detection reagent for a potential biological warfare agent like F. tularensis.
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Affiliation(s)
- Jeevalatha Vivekananda
- Air Force Research Laboratory, HEPC, 2486 Gillingham Dr, Bldg 175 E, Brooks City-Base, TX 78235, USA.
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Yemini M, Levi Y, Yagil E, Rishpon J. Specific electrochemical phage sensing for Bacillus cereus and Mycobacterium smegmatis. Bioelectrochemistry 2006; 70:180-4. [PMID: 16725377 DOI: 10.1016/j.bioelechem.2006.03.014] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2005] [Indexed: 10/24/2022]
Abstract
The rapid and reliable detection of pathogenic microorganisms is an important issue for the safety and security of our society. Here we describe the use of a sensitive, inexpensive, amperometric, phage-based biosensor for the detection of extremely low concentrations of Bacillus cereus and Mycobacterium smegmatis as models for Bacillus anthracis (the causative agent of anthrax) and for Mycobacterium tuberculosis (the causative agent of tuberculosis), respectively. The detection procedure developed here enabled the determination of bacteria at a low concentration of 10 viable cells/mL within 8 h. This experimental setup allows the simultaneous analysis of up to eight independent samples, using disposable screen-printed electrodes.
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Affiliation(s)
- Miri Yemini
- Department of Molecular Microbiology and Biotechnology, George S. Wise Faculty of Life Sciences, Tel Aviv University, Tel Aviv 69978, Israel
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Lim DV, Simpson JM, Kearns EA, Kramer MF. Current and developing technologies for monitoring agents of bioterrorism and biowarfare. Clin Microbiol Rev 2005; 18:583-607. [PMID: 16223949 PMCID: PMC1265906 DOI: 10.1128/cmr.18.4.583-607.2005] [Citation(s) in RCA: 218] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
Recent events have made public health officials acutely aware of the importance of rapidly and accurately detecting acts of bioterrorism. Because bioterrorism is difficult to predict or prevent, reliable platforms to rapidly detect and identify biothreat agents are important to minimize the spread of these agents and to protect the public health. These platforms must not only be sensitive and specific, but must also be able to accurately detect a variety of pathogens, including modified or previously uncharacterized agents, directly from complex sample matrices. Various commercial tests utilizing biochemical, immunological, nucleic acid, and bioluminescence procedures are currently available to identify biological threat agents. Newer tests have also been developed to identify such agents using aptamers, biochips, evanescent wave biosensors, cantilevers, living cells, and other innovative technologies. This review describes these current and developing technologies and considers challenges to rapid, accurate detection of biothreat agents. Although there is no ideal platform, many of these technologies have proved invaluable for the detection and identification of biothreat agents.
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Affiliation(s)
- Daniel V Lim
- Department of Biology, Center for Biological Defense, University of South Florida, Tampa, FL 33620-5200, USA.
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Sorokulova IB, Olsen EV, Chen IH, Fiebor B, Barbaree JM, Vodyanoy VJ, Chin BA, Petrenko VA. Landscape phage probes for Salmonella typhimurium. J Microbiol Methods 2005; 63:55-72. [PMID: 15893394 DOI: 10.1016/j.mimet.2005.02.019] [Citation(s) in RCA: 84] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2004] [Revised: 02/17/2005] [Accepted: 02/23/2005] [Indexed: 11/28/2022]
Abstract
We selected from landscape phage library probes that bind preferentially Salmonella typhimurium cells compared with other Enterobacteriaceae. The specificity of the phage probes for S. typhimurium was analyzed by the phage-capture test, the enzyme-linked immunosorbent assay (ELISA), and the precipitation test. Interaction of representative probes with S. typhimurium was characterized by fluorescence-activated cell sorting (FACS), and fluorescent, optical and electron microscopy. The results show that the landscape phage library is a rich source of specific and robust probes for S. typhimurium suitable for long-term use in continuous monitoring devices and biosorbents.
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Affiliation(s)
- Iryna B Sorokulova
- Department of Pathobiology, Auburn University, 252 Greene Hall, College of Veterinary Medicine, Auburn, AL 36849, USA
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Olsen EV, Sorokulova IB, Petrenko VA, Chen IH, Barbaree JM, Vodyanoy VJ. Affinity-selected filamentous bacteriophage as a probe for acoustic wave biodetectors of Salmonella typhimurium. Biosens Bioelectron 2005; 21:1434-42. [PMID: 16085408 DOI: 10.1016/j.bios.2005.06.004] [Citation(s) in RCA: 102] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/06/2005] [Revised: 06/06/2005] [Accepted: 06/13/2005] [Indexed: 10/25/2022]
Abstract
Proof-in-concept biosensors were prepared for the rapid detection of Salmonella typhimurium in solution, based on affinity-selected filamentous phage prepared as probes physically adsorbed to piezoelectric transducers. Quantitative deposition studies indicated that approximately 3 x 10(10)phage particles/cm(2) could be irreversibly adsorbed for 1 h at room temperature to prepare working biosensors. The quality of phage deposition was monitored by fluorescent microscopy. Specific-bacterial binding resulted in resonance frequency changes of prepared sensors, which were evaluated using linear regression analysis. Sensors possessed a rapid response time of <180 s, had a low-detection limit of 10(2)cells/ml and were linear over a range of 10(1)-10(7)cells/ml with a sensitivity of 10.9 Hz per order of magnitude of S. typhimurium concentration. Viscosity effects due to increasing bacterial concentration and non-specific binding were not significant to the piezoelectric platform as confirmed by dose-response analysis. Phage-bacterial binding was confirmed by fluorescence and scanning electron microscopy. Overall, phage may constitute effective bioreceptors for use with analytical platforms for detecting and monitoring bacterial agents, including use in food products and possibly biological warfare applications.
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Affiliation(s)
- Eric V Olsen
- Department of Biological Sciences, Auburn University, 101 Life Sciences Bldg., AL 36849, USA
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