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Yang L, Pijuan-Galito S, Rho HS, Vasilevich AS, Eren AD, Ge L, Habibović P, Alexander MR, de Boer J, Carlier A, van Rijn P, Zhou Q. High-Throughput Methods in the Discovery and Study of Biomaterials and Materiobiology. Chem Rev 2021; 121:4561-4677. [PMID: 33705116 PMCID: PMC8154331 DOI: 10.1021/acs.chemrev.0c00752] [Citation(s) in RCA: 64] [Impact Index Per Article: 21.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2020] [Indexed: 02/07/2023]
Abstract
The complex interaction of cells with biomaterials (i.e., materiobiology) plays an increasingly pivotal role in the development of novel implants, biomedical devices, and tissue engineering scaffolds to treat diseases, aid in the restoration of bodily functions, construct healthy tissues, or regenerate diseased ones. However, the conventional approaches are incapable of screening the huge amount of potential material parameter combinations to identify the optimal cell responses and involve a combination of serendipity and many series of trial-and-error experiments. For advanced tissue engineering and regenerative medicine, highly efficient and complex bioanalysis platforms are expected to explore the complex interaction of cells with biomaterials using combinatorial approaches that offer desired complex microenvironments during healing, development, and homeostasis. In this review, we first introduce materiobiology and its high-throughput screening (HTS). Then we present an in-depth of the recent progress of 2D/3D HTS platforms (i.e., gradient and microarray) in the principle, preparation, screening for materiobiology, and combination with other advanced technologies. The Compendium for Biomaterial Transcriptomics and high content imaging, computational simulations, and their translation toward commercial and clinical uses are highlighted. In the final section, current challenges and future perspectives are discussed. High-throughput experimentation within the field of materiobiology enables the elucidation of the relationships between biomaterial properties and biological behavior and thereby serves as a potential tool for accelerating the development of high-performance biomaterials.
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Affiliation(s)
- Liangliang Yang
- University
of Groningen, W. J. Kolff Institute for Biomedical Engineering and
Materials Science, Department of Biomedical Engineering, University Medical Center Groningen, A. Deusinglaan 1, 9713 AV Groningen, The Netherlands
| | - Sara Pijuan-Galito
- School
of Pharmacy, Biodiscovery Institute, University
of Nottingham, University Park, Nottingham NG7 2RD, U.K.
| | - Hoon Suk Rho
- Department
of Instructive Biomaterials Engineering, MERLN Institute for Technology-Inspired
Regenerative Medicine, Maastricht University, 6229 ER Maastricht, The Netherlands
| | - Aliaksei S. Vasilevich
- Department
of Biomedical Engineering, Eindhoven University
of Technology, 5600 MB Eindhoven, The Netherlands
| | - Aysegul Dede Eren
- Department
of Biomedical Engineering, Eindhoven University
of Technology, 5600 MB Eindhoven, The Netherlands
| | - Lu Ge
- University
of Groningen, W. J. Kolff Institute for Biomedical Engineering and
Materials Science, Department of Biomedical Engineering, University Medical Center Groningen, A. Deusinglaan 1, 9713 AV Groningen, The Netherlands
| | - Pamela Habibović
- Department
of Instructive Biomaterials Engineering, MERLN Institute for Technology-Inspired
Regenerative Medicine, Maastricht University, 6229 ER Maastricht, The Netherlands
| | - Morgan R. Alexander
- School
of Pharmacy, Boots Science Building, University
of Nottingham, University Park, Nottingham NG7 2RD, U.K.
| | - Jan de Boer
- Department
of Biomedical Engineering, Eindhoven University
of Technology, 5600 MB Eindhoven, The Netherlands
| | - Aurélie Carlier
- Department
of Cell Biology-Inspired Tissue Engineering, MERLN Institute for Technology-Inspired
Regenerative Medicine, Maastricht University, 6229 ER Maastricht, The Netherlands
| | - Patrick van Rijn
- University
of Groningen, W. J. Kolff Institute for Biomedical Engineering and
Materials Science, Department of Biomedical Engineering, University Medical Center Groningen, A. Deusinglaan 1, 9713 AV Groningen, The Netherlands
| | - Qihui Zhou
- Institute
for Translational Medicine, Department of Stomatology, The Affiliated
Hospital of Qingdao University, Qingdao
University, Qingdao 266003, China
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2
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Temme JS, Campbell CT, Gildersleeve JC. Factors contributing to variability of glycan microarray binding profiles. Faraday Discuss 2019; 219:90-111. [PMID: 31338503 PMCID: PMC9335900 DOI: 10.1039/c9fd00021f] [Citation(s) in RCA: 26] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/15/2024]
Abstract
Protein-carbohydrate interactions play significant roles in a wide variety of biological systems. Glycan microarrays are commonly utilized to interrogate the selectivity, sensitivity, and breadth of these complex protein-carbohydrate interactions. During the past two decades, numerous distinct glycan microarray platforms have been developed, each assembled from a variety of slide-surface chemistries, glycan-attachment chemistries, glycan presentations, linkers, and glycan densities. Comparative analyses of glycan microarray data have shown that while many protein-carbohydrate interactions behave predictably across microarrays, there are instances when various array formats produce different results. For optimal construction and use of this technology, it is important to understand sources of variances across array platforms. In this study, we performed a systematic comparison of microarray data from 8 lectins across a range of concentrations on the CFG and neoglycoprotein array platforms. While there was good general agreement on the binding specificity of the lectins on the two arrays, there were some cases of large discrepancies. Differences in glycan density and linker composition contributed significantly to variability. The results provide insights for interpreting microarray data and designing future glycan microarrays.
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Affiliation(s)
- J Sebastian Temme
- Chemical Biology Laboratory, Center for Cancer Research, National Cancer Institute, Frederick, MD 21702, USA.
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3
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Lambert A, Yang Z, Cheng W, Lu Z, Liu Y, Cheng Q. Ultrasensitive Detection of Bacterial Protein Toxins on Patterned Microarray via Surface Plasmon Resonance Imaging with Signal Amplification by Conjugate Nanoparticle Clusters. ACS Sens 2018; 3:1639-1646. [PMID: 30084634 DOI: 10.1021/acssensors.8b00260] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Sensitive detection and monitoring of biological interactions in a high throughput, multiplexed array format has numerous advantages. We report here a method to enhance detection sensitivity in surface plasmon resonance (SPR) spectroscopy and SPR imaging via the effect of accumulation of conjugated nanoparticles of varying sizes. Bacterial cholera toxin (CT) was chosen for the demonstration of enhanced immunoassay by SPR. After immobilization of CT on a gold surface, specific recognition is achieved by biotinylated anti-CT. The signal is amplified by the attachment of biotinylated 20 nm AuNP via streptavidin bridge, followed by attachment of 5 nm streptavidin-functionalized Fe3O4NP to the AuNP-biotin surface. The continuous surface binding of two differently sized conjugated nanoparticles effectively increases their packing density on surface and significantly improves SPR detection sensitivity, allowing quantitative measurement of CT at very low concentration. The dense packing of conjugated nanoparticles on the surface was confirmed by atomic force microscopy characterization. SPR imaging of the immunoassay for high-throughput analysis utilized an Au-well microarray that attenuated the background resonance interference on the resulting images. A calibration curve of conjugated nanoparticle binding signal amplification for CT detection based on surface coverage has been obtained that shows a correlation in a range from 6.31 × 10-16 to 2.51 × 10-13 mol/cm2 with the limit of detection of 5.01 × 10-16 mol/cm2. The absolute quantity of detection limit using SPR imaging was 0.25 fmol. The versatile nanoparticles and biotin-streptavidin interaction used here should allow adaptation of this enhancement method to many other systems that include DNA, RNA, peptides, and carbohydrates, opening new avenues for ultrasensitive analysis of biomolecules.
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Affiliation(s)
- Alexander Lambert
- Department of Chemistry, University of California, Riverside, California 92521, United States
| | - Zhanjun Yang
- Department of Chemistry, University of California, Riverside, California 92521, United States
| | - Wei Cheng
- Department of Chemistry, University of California, Riverside, California 92521, United States
| | - Zhenda Lu
- College of Engineering and Applied Science, Nanjing University, Nanjing 210023, China
| | - Ying Liu
- Department of Chemistry, Nanjing University, Nanjing 210023, China
| | - Quan Cheng
- Department of Chemistry, University of California, Riverside, California 92521, United States
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4
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Jeong D, Ahn KS, Lee WY. Label-free impedimetric glycosensor based on β-galactose-functionalized gold electrode for the determination of cholera toxin. J Electroanal Chem (Lausanne) 2017. [DOI: 10.1016/j.jelechem.2017.10.064] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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5
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Taitt CR, Anderson GP, Ligler FS. Evanescent wave fluorescence biosensors: Advances of the last decade. Biosens Bioelectron 2016; 76:103-12. [PMID: 26232145 PMCID: PMC5012222 DOI: 10.1016/j.bios.2015.07.040] [Citation(s) in RCA: 63] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2015] [Revised: 07/15/2015] [Accepted: 07/18/2015] [Indexed: 12/12/2022]
Abstract
Biosensor development has been a highly dynamic field of research and has progressed rapidly over the past two decades. The advances have accompanied the breakthroughs in molecular biology, nanomaterial sciences, and most importantly computers and electronics. The subfield of evanescent wave fluorescence biosensors has also matured dramatically during this time. Fundamentally, this review builds on our earlier 2005 review. While a brief mention of seminal early work will be included, this current review will focus on new technological developments as well as technology commercialized in just the last decade. Evanescent wave biosensors have found a wide array applications ranging from clinical diagnostics to biodefense to food testing; advances in those applications and more are described herein.
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Affiliation(s)
- Chris Rowe Taitt
- Center for Bio/Molecular Science and Engineering, US Naval Research Laboratory, 4555 Overlook Ave SW, Washington, DC 20375-5348, USA
| | - George P Anderson
- Center for Bio/Molecular Science and Engineering, US Naval Research Laboratory, 4555 Overlook Ave SW, Washington, DC 20375-5348, USA
| | - Frances S Ligler
- UNC-Chapel Hill and NC State University Department of Biomedical Engineering, 911 Oval Drive, Raleigh, NC 27695-7115, USA.
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Ahn KS, Lim KR, Jeong D, Lee BY, Kim KS, Lee WY. Fluorescence energy transfer inhibition bioassay for cholera toxin based on galactose-stabilized gold nanoparticles and amine-terminated quantum dots. Microchem J 2016. [DOI: 10.1016/j.microc.2015.07.007] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
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7
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Secondary Structure Determination of Peptides and Proteins After Immobilization. Methods Mol Biol 2015; 1352:35-50. [PMID: 26490466 DOI: 10.1007/978-1-4939-3037-1_4] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/22/2023]
Abstract
The presentation of immobilized peptides and other small biomolecules attached to surfaces can be greatly affected by the attachment chemistry and linking moieties, resulting in altered activity and specificity. For this reason, it is critical to understand how the various aspects of surface immobilization-underlying substrate properties, tether structure, and site of linkage-affect the secondary and quaternary structures of the immobilized species. Here, we present methods for attaching cysteine-containing peptides to quartz surfaces and determining the secondary structure of surface-immobilized peptides. We specifically show that, even when covalently immobilized, changes in peptide conformation can still occur, with measurement occurring in real time.
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Bulard E, Bouchet-Spinelli A, Chaud P, Roget A, Calemczuk R, Fort S, Livache T. Carbohydrates as new probes for the identification of closely related Escherichia coli strains using surface plasmon resonance imaging. Anal Chem 2015; 87:1804-11. [PMID: 25578984 DOI: 10.1021/ac5037704] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Prevention of foodborne diseases depends highly on our ability to control rapidly and accurately a possible contamination of food. So far, standard procedures for bacterial detection require time-consuming bacterial cultures on plates before the pathogens can be detected and identified. We present here an innovative biochip, based on direct differential carbohydrate recognitions of five closely related Escherichia coli strains, including the enterohemorragic E. coli O157:H7. Our device relies on efficient grafting of simple carbohydrates on a gold surface and on the monitoring of their interactions with bacteria during their culture using surface plasmon resonance imaging. We show that each of the bacteria interacts in a different way with the carbohydrate chip. This allows the detection and discrimination of the tested bacterial strains in less than 10 h from an initial bacterial concentration of 10(2) CFU·mL(-1). This is an improvement over previously described systems in terms of cost, easiness to use, and stability. Easily conceived and easily regenerated, this tool is promising for the future of food safety.
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Affiliation(s)
- Emilie Bulard
- Univ. Grenoble Alpes, INAC-SPRAM , F-38000 Grenoble, France
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9
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Wang L, Cummings RD, Smith DF, Huflejt M, Campbell CT, Gildersleeve JC, Gerlach JQ, Kilcoyne M, Joshi L, Serna S, Reichardt NC, Parera Pera N, Pieters RJ, Eng W, Mahal LK. Cross-platform comparison of glycan microarray formats. Glycobiology 2014; 24:507-17. [PMID: 24658466 DOI: 10.1093/glycob/cwu019] [Citation(s) in RCA: 99] [Impact Index Per Article: 9.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023] Open
Abstract
Carbohydrates participate in almost every aspect of biology from protein sorting to modulating cell differentiation and cell-cell interactions. To date, the majority of data gathered on glycan expression has been obtained via analysis with either anti-glycan antibodies or lectins. A detailed understanding of the specificities of these reagents is critical to the analysis of carbohydrates in biological systems. Glycan microarrays are increasingly used to determine the binding specificity of glycan-binding proteins (GBPs). In this study, six different glycan microarray platforms with different modes of glycan presentation were compared using five well-known lectins; concanavalin A, Helix pomatia agglutinin, Maackia amurensis lectin I, Sambucus nigra agglutinin and wheat germ agglutinin. A new method (universal threshold) was developed to facilitate systematic comparisons across distinct array platforms. The strongest binders of each lectin were identified using the universal threshold across all platforms while identification of weaker binders was influenced by platform-specific factors including presentation of determinants, array composition and self-reported thresholding methods. This work compiles a rich dataset for comparative analysis of glycan array platforms and has important implications for the implementation of microarrays in the characterization of GBPs.
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Affiliation(s)
- Linlin Wang
- Biomedical Chemistry Institute, New York University Department of Chemistry, 100 Washington Square East, Room 1001, New York, NY 10003, USA
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10
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Ngundi MM, Kulagina NV, Anderson GP, Taitt CR. Nonantibody-based recognition: alternative molecules for detection of pathogens. Expert Rev Proteomics 2014; 3:511-24. [PMID: 17078765 DOI: 10.1586/14789450.3.5.511] [Citation(s) in RCA: 58] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Abstract
Immunoassays have been well established for many years as the cornerstone of detection technologies. These assays are sensitive, selective and, in general, highly resistant to interference from complex sample matrices when compared with nucleic acid-based tests. However, both antibody- and nucleic acid-based detection systems require a priori knowledge of the target and development of specific reagents; multiplexed assays can become increasingly problematic when attempting to detect a plethora of different targets, the identities of which are unknown. In an effort to circumvent many of the limitations inherent in these conventional assays, other recognition reagents are being explored as alternatives, or indeed as adjuncts, to antibodies for pathogen and toxin detection. This article will review a number of different recognition systems ranging in complexity from small molecules, such as nucleic-acid aptamers, carbohydrates and peptides, to systems as highly complicated as whole cells and organisms. All of these alternative systems have tremendous potential to achieve superior sensitivity, selectivity, and stability, but are also subject to their own limitations, which are also discussed. In short, while in its infancy, this field holds great promise for the development of rapid, fieldable assays that are highly complementary to existing antibody- and nucleic acid-based technologies.
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Affiliation(s)
- Miriam M Ngundi
- US Food and Drug Administration, N29 RM418 HFM-434 8800 Rockville Pike, Bethesda, MD 20892, USA.
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11
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Quantitative detection of Vibrio cholera toxin by real-time and dynamic cytotoxicity monitoring. J Clin Microbiol 2013; 51:3968-74. [PMID: 24048535 DOI: 10.1128/jcm.01959-13] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
We report here the quantitative detection of Vibrio cholerae toxin (CT) in isolates and stool specimens by dynamic monitoring of the full course of CT-mediated cytotoxicity in a real-time cell analysis (RTCA) system. Four cell lines, including Y-1 mouse adrenal tumor cells, Chinese hamster ovary (CHO) cells, small intestine epithelial (FHs74Int) cells, and mouse adrenal gland (PC12-Adh) cells, were evaluated for their suitability for CT-induced cytotoxicity testing. Among them, the Y-1 line was demonstrated to be the most sensitive for CT-mediated cytotoxicity, with limits of detection of 7.0 pg/ml for purified CT and 0.11 ng/ml for spiked CT in pooled negative stool specimens. No CT-mediated cytotoxicity was observed for nontoxigenic V. cholerae, non-V. cholerae species, or non-V. cholerae enterotoxins. The CT-RTCA assay was further validated with 100 stool specimens consecutively collected from patients with diarrhea and 200 V. cholerae isolates recovered from patients and the environment, in comparison to a reference using three detection methods. The CT-RTCA assay had sensitivities and specificities of 97.5% and 100.0%, respectively, for V. cholerae isolates and 90.0% and 97.2% for stool specimens. For stool specimens spiked with CT concentrations ranging from 3.5 pg/ml to 1.8 ng/ml, the inoculation-to-detection time was 1.12 ± 0.38 h, and the values were inversely correlated with CT concentrations (ρ = -1; P = 0.01). The results indicate that the CT-RTCA assay with the Y-1 cell line provides a rapid and sensitive tool for the quantitative detection of CT activities in clinical specimens.
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Abstract
In the last decade, carbohydrate microarrays have been core technologies for analyzing carbohydrate-mediated recognition events in a high-throughput fashion. A number of methods have been exploited for immobilizing glycans on the solid surface in a microarray format. This microarray-based technology has been widely employed for rapid analysis of the glycan binding properties of lectins and antibodies, the quantitative measurements of glycan-protein interactions, detection of cells and pathogens, identification of disease-related anti-glycan antibodies for diagnosis, and fast assessment of substrate specificities of glycosyltransferases. This review covers the construction of carbohydrate microarrays, detection methods of carbohydrate microarrays and their applications in biological and biomedical research.
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Affiliation(s)
- Sungjin Park
- National Creative Research Initiative Center for Biofunctional Molecules, Department of Chemistry, Yonsei University, Seoul 120-749, Korea
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13
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HUEBNER M, WUTZ K, SZKOLA A, NIESSNER R, SEIDEL M. A Glyco-chip for the Detection of Ricin by an Automated Chemiluminescence Read-out System. ANAL SCI 2013; 29:461-6. [DOI: 10.2116/analsci.29.461] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Affiliation(s)
- Maria HUEBNER
- Chair of Analytical Chemistry and Institute of Hydrochemistry, Technical University of Munich
| | - Klaus WUTZ
- Chair of Analytical Chemistry and Institute of Hydrochemistry, Technical University of Munich
| | - Agathe SZKOLA
- Chair of Analytical Chemistry and Institute of Hydrochemistry, Technical University of Munich
| | - Reinhard NIESSNER
- Chair of Analytical Chemistry and Institute of Hydrochemistry, Technical University of Munich
| | - Michael SEIDEL
- Chair of Analytical Chemistry and Institute of Hydrochemistry, Technical University of Munich
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Kirsch J, Siltanen C, Zhou Q, Revzin A, Simonian A. Biosensor technology: recent advances in threat agent detection and medicine. Chem Soc Rev 2013; 42:8733-68. [DOI: 10.1039/c3cs60141b] [Citation(s) in RCA: 313] [Impact Index Per Article: 28.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
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15
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Kim CS, Seo JH, Cha HJ. Functional interaction analysis of GM1-related carbohydrates and Vibrio cholerae toxins using carbohydrate microarray. Anal Chem 2012; 84:6884-90. [PMID: 22770420 DOI: 10.1021/ac301511t] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
The development of analytical tools is important for understanding the infection mechanisms of pathogenic bacteria or viruses. In the present work, a functional carbohydrate microarray combined with a fluorescence immunoassay was developed to analyze the interactions of Vibrio cholerae toxin (ctx) proteins and GM1-related carbohydrates. Ctx proteins were loaded onto the surface-immobilized GM1 pentasaccharide and six related carbohydrates, and their binding affinities were detected immunologically. The analysis of the ctx-carbohydrate interactions revealed that the intrinsic selectivity of ctx was GM1 pentasaccharide ≫ GM2 tetrasaccharide > asialo GM1 tetrasaccharide ≥ GM3trisaccharide, indicating that a two-finger grip formation and the terminal monosaccharides play important roles in the ctx-GM1 interaction. In addition, whole cholera toxin (ctxAB(5)) had a stricter substrate specificity and a stronger binding affinity than only the cholera toxin B subunit (ctxB). On the basis of the quantitative analysis, the carbohydrate microarray showed the sensitivity of detection of the ctxAB(5)-GM1 interaction with a limit-of-detection (LOD) of 2 ng mL(-1) (23 pM), which is comparable to other reported high sensitivity assay tools. In addition, the carbohydrate microarray successfully detected the actual toxin directly secreted from V. cholerae, without showing cross-reactivity to other bacteria. Collectively, these results demonstrate that the functional carbohydrate microarray is suitable for analyzing toxin protein-carbohydrate interactions and can be applied as a biosensor for toxin detection.
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Affiliation(s)
- Chang Sup Kim
- Department of Chemical Engineering, Pohang University of Science and Technology, Pohang 790-784, Korea
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16
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Zhang Z, Li P, Hu X, Zhang Q, Ding X, Zhang W. Microarray technology for major chemical contaminants analysis in food: current status and prospects. SENSORS (BASEL, SWITZERLAND) 2012; 12:9234-52. [PMID: 23012541 PMCID: PMC3444099 DOI: 10.3390/s120709234] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/08/2012] [Revised: 06/14/2012] [Accepted: 06/15/2012] [Indexed: 01/11/2023]
Abstract
Chemical contaminants in food have caused serious health issues in both humans and animals. Microarray technology is an advanced technique suitable for the analysis of chemical contaminates. In particular, immuno-microarray approach is one of the most promising methods for chemical contaminants analysis. The use of microarrays for the analysis of chemical contaminants is the subject of this review. Fabrication strategies and detection methods for chemical contaminants are discussed in detail. Application to the analysis of mycotoxins, biotoxins, pesticide residues, and pharmaceutical residues is also described. Finally, future challenges and opportunities are discussed.
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Affiliation(s)
- Zhaowei Zhang
- Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan 430062, China; E-Mails: (Z.Z.); (X.H.); (Q.Z.); (X.D.); (W.Z.)
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Wuhan 430062, China
- Key Laboratory of Detection for Mycotoxins, Ministry of Agriculture, Wuhan 430062, China
- Laboratory of Risk Assessment for Oilseeds Products, Ministry of Agriculture, Wuhan 430062, China
| | - Peiwu Li
- Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan 430062, China; E-Mails: (Z.Z.); (X.H.); (Q.Z.); (X.D.); (W.Z.)
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Wuhan 430062, China
- Key Laboratory of Detection for Mycotoxins, Ministry of Agriculture, Wuhan 430062, China
- Laboratory of Risk Assessment for Oilseeds Products, Ministry of Agriculture, Wuhan 430062, China
| | - Xiaofeng Hu
- Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan 430062, China; E-Mails: (Z.Z.); (X.H.); (Q.Z.); (X.D.); (W.Z.)
- Key Laboratory of Biology and Genetic Improvement of Oil Crops, Ministry of Agriculture, Wuhan 430062, China
| | - Qi Zhang
- Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan 430062, China; E-Mails: (Z.Z.); (X.H.); (Q.Z.); (X.D.); (W.Z.)
- Key Laboratory of Detection for Mycotoxins, Ministry of Agriculture, Wuhan 430062, China
| | - Xiaoxia Ding
- Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan 430062, China; E-Mails: (Z.Z.); (X.H.); (Q.Z.); (X.D.); (W.Z.)
- Laboratory of Risk Assessment for Oilseeds Products, Ministry of Agriculture, Wuhan 430062, China
| | - Wen Zhang
- Oil Crops Research Institute of the Chinese Academy of Agricultural Sciences, Wuhan 430062, China; E-Mails: (Z.Z.); (X.H.); (Q.Z.); (X.D.); (W.Z.)
- Quality Inspection and Test Center for Oilseeds Products, Ministry of Agriculture, Wuhan 430062, China
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Narla SN, Sun XL. Glyco-macroligand microarray with controlled orientation and glycan density. LAB ON A CHIP 2012; 12:1656-1663. [PMID: 22422059 DOI: 10.1039/c2lc21224b] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/31/2023]
Abstract
We report a new type of glycan microarray, namely, oriented and density-controlled glyco-macroligand microarray based on end-point immobilization of glycopolymer that was accompanied with boronic acid (BA) ligands in different sizes as detachable "temporary molecular spacers". Briefly, an O-cyanate chain-end functionalized lactose-containing glycopolymer was pre-complexed with polyacrylamide-BA, lysozyme-BA, and bovine serum albumin (BSA)-BA conjugates as macromolecular spacers first and then immobilized onto an amine-functionalized glass slide via isourea bond formation both at pH 10.3, respectively. Subsequently, the macromolecular spacers were detached from the immobilized glycopolymers at pH 7.4 so as to afford the oriented and density controlled glycopolymer microarrays. The spaced glycopolymer microarray showed enhanced lectin (Arachis hypogaea) binding compared to a non-spaced one. Among them, the polyacrylamide-BA spaced glycopolymer showed the highest level of lectin binding compared to lysozyme-BA- and BSA-BA-spaced glycopolymers. Furthermore, SPR results confirmed the same trend of density-dependent lectin binding as the glycoarray. This glyco-macroligand microarray platform permits variations of glycan density in the polymer, glycopolymer density and its orientation on the microarray surface and thus will provide a versatile tool for profiling glycan recognition for both basic biological research and practical applications.
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Affiliation(s)
- Satya Nandana Narla
- Department of Chemistry, Cleveland State University, Cleveland, OH 44115, USA
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18
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Safina G. Application of surface plasmon resonance for the detection of carbohydrates, glycoconjugates, and measurement of the carbohydrate-specific interactions: A comparison with conventional analytical techniques. A critical review. Anal Chim Acta 2012; 712:9-29. [DOI: 10.1016/j.aca.2011.11.016] [Citation(s) in RCA: 53] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2011] [Revised: 10/07/2011] [Accepted: 11/04/2011] [Indexed: 12/16/2022]
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Zhang J, Zhou X. Novel 3-dimensional dendrimer platform for glycolipid microarray. Biosens Bioelectron 2011; 28:355-61. [PMID: 21820887 PMCID: PMC3163748 DOI: 10.1016/j.bios.2011.07.044] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2011] [Revised: 07/04/2011] [Accepted: 07/18/2011] [Indexed: 12/11/2022]
Abstract
Glycolipids are important biological molecules that modulate cellular recognitions and pathogen adhesions. In this paper, we report a sensitive glycolipid microarray for non-covalently immobilizing glycolipids on a microarray substrate and we perform a set of immunoassays to explore glycolipid-protein interactions. This substrate utilizes a three-dimensional hydrazide-functionalized dendrimer monolayer attached onto a microscopic glass surface, which possesses the characteristics to adsorb glycoliplids non-covalently and facilitates multivalent attributes on the substrate surface. In the proof-of-concept experiments, gangliosides such as GM1, FucGM1, GM3, GD1b, GT1b, and GQ1b, and a lipoarabinomannan were tested on the substrate and interrogated with toxins and antibodies. The resulting glycolipid microarrays exhibited hypersensitivity and specificity for detection of glycolipid-protein interactions. In particular, a robust and specific binding of a pentameric cholera toxin B subunit to the GM1 glycolipid spotted on the array has demonstrated its superiority in sensitivity and specificity. In addition, this glycolipid microarray substrate was used to detect lipoarabinomannan in buffer within a limit-of-detection of 125 ng/mL. Furthermore, Mycobacterium tuberculosis (Mtb) Lipoarabinomannan was tested in human urine specimens on this platform, which can effectively identify urine samples either infected or not infected with Mtb. The results of this work suggest the possibility of using this glycolipid microarray platform to fabricate glycoconjugate microarrays, which includes free glycans and glycolipids and potential application in detection of pathogen and toxin.
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Affiliation(s)
- Jian Zhang
- ADA Technologies Inc., 8100 Shaffer Parkway, Suite 130, Littleton, CO 80127, USA.
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20
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Guo Z, Ren J, Wang J, Wang E. Single-walled carbon nanotubes based quenching of free FAM-aptamer for selective determination of ochratoxin A. Talanta 2011; 85:2517-21. [PMID: 21962677 DOI: 10.1016/j.talanta.2011.08.015] [Citation(s) in RCA: 123] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2011] [Revised: 07/30/2011] [Accepted: 08/04/2011] [Indexed: 11/19/2022]
Abstract
Ochratoxin A, a toxin produced by Aspergillus ochraceus and Penicillium verrucosum, is one of the most abundant food-contaminating mycotoxins in the world. It has been classified by the International Agency for Research on Cancer (IARC) as a possible human carcinogen. In this paper, a sensitive and selective fluorescent aptasensor for ochratoxin A (OTA) detection was constructed, utilizing single-walled carbon nanotubes (SWNTs) as quencher which can quench the fluorescence of free unfolded toxin-specific aptamer attached with FAM (carboxyfluorescein). Without any coating materials as compared to graphene-oxide based sensor, we obtained the detection limit of our sensing platform based on SWNTs to be 24.1 nM with a linear detection range from 25 nM to 200 nM. This technique responded specifically to OTA without interference from other analogues (N-acetyl-L-phenylalanine, warfarin and OTB). It has also been verified for real sample application by testing 1% beer containing buffer solution spiked with a series of concentration of OTA.
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Affiliation(s)
- Zhijun Guo
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin 130022, China
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21
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Taitt CR, Shriver-Lake LC, Anderson GP, Ligler FS. Surface modification and biomolecule immobilization on polymer spheres for biosensing applications. Methods Mol Biol 2011; 726:77-94. [PMID: 21424444 DOI: 10.1007/978-1-61779-052-2_6] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/02/2023]
Abstract
Microspheres and nanospheres are being used in many of today's biosensing applications for automated sample processing, flow cytometry, signal amplification in microarrays, and labeling in multiplexed analyses. The surfaces of the spheres/particles need to be modified with proteins and other biomolecules to be used in these sensing applications. This chapter contains protocols to modify carboxyl- and amine-coated polymer spheres with proteins and peptides.
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Affiliation(s)
- Chris R Taitt
- Center for Bio/Molecular Science and Engineering, U.S. Naval Research Laboratory, Washington, DC, USA
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22
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Sheng L, Ren J, Miao Y, Wang J, Wang E. PVP-coated graphene oxide for selective determination of ochratoxin A via quenching fluorescence of free aptamer. Biosens Bioelectron 2011; 26:3494-9. [PMID: 21334186 DOI: 10.1016/j.bios.2011.01.032] [Citation(s) in RCA: 174] [Impact Index Per Article: 13.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/29/2010] [Revised: 01/06/2011] [Accepted: 01/24/2011] [Indexed: 11/27/2022]
Abstract
In this paper, we developed a simple method to detect fungi toxin (ochratoxin A) produced by Aspergillus Ochraceus and Penicillium verrucosumm, utilizing graphene oxide as quencher which can quench the fluorescence of FAM (carboxyfluorescein) attached to toxin-specific aptamer. By optimizing the experimental conditions, we obtained the detection limit of our sensing platform based on bare graphene oxide to be 1.9 μM with a linear detection range from 2 μM to 35 μM. Selectivity of this sensing platform has been carefully investigated; the results showed that this sensor specifically responded to ochratoxin A without interference from other structure analogues (N-acetyl-l-phenylalanine and warfarin) and with only limited interference from ochratoxin B. Experimental data showed that ochratoxin A as well as other structure analogues could adsorb onto the graphene oxide. As compared to the non-protected graphene oxide based biosensor, PVP-protected graphene oxide reveals much lower detection limit (21.8 nM) by two orders of magnitude under the optimized ratio of graphene oxide to PVP concentration. This sensor has also been challenged by testing 1% red wine containing buffer solution spiked with a series of concentration of ochratoxin A.
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Affiliation(s)
- Linfeng Sheng
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun, Jilin 130022, China
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Zhang Y, Li Q, Rodriguez LG, Gildersleeve JC. An array-based method to identify multivalent inhibitors. J Am Chem Soc 2010; 132:9653-62. [PMID: 20583754 PMCID: PMC2923827 DOI: 10.1021/ja100608w] [Citation(s) in RCA: 73] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Abstract
Carbohydrate-protein interactions play a critical role in a variety of biological processes, and agonists/antagonists of these interactions are useful as biological probes and therapeutic agents. Most carbohydrate-binding proteins achieve tight binding through formation of a multivalent complex. Therefore, both ligand structure and presentation contribute to recognition. Since there are many potential combinations of structure, spacing, and orientation to consider and the optimal one cannot be predicted, high-throughput approaches for analyzing carbohydrate-protein interactions and designing inhibitors are appealing. In this report, we develop a strategy to vary neoglycoprotein density on a surface of a glycan array. This feature of presentation was combined with variations in glycan structure and glycan density to produce an array with approximately 600 combinations of glycan structure and presentation. The unique array platform allows one to distinguish between different types of multivalent complexes on the array surface. To illustrate the advantages of this format, it was used to rapidly identify multivalent probes for various lectins. The new array was first tested with several plant lectins, including concanavalin A (conA), Vicia villosa isolectin B4 (VVL-B(4)), and Ricinus communis agglutinin (RCA120). Next, it was used to rapidly identify potent multivalent inhibitors of Pseudomonas aeruginosa lectin I (PA-IL), a key protein involved in opportunistic infections of P. aeruginosa , and mouse macrophage galactose-type lectin (mMGL-2), a protein expressed on antigen presenting cells that may be useful as a vaccine targeting receptor. An advantage of the approach is that structural information about the lectin/receptor is not required to obtain a multivalent inhibitor/probe.
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Affiliation(s)
- Yalong Zhang
- Chemical Biology Laboratory, National Cancer Institute, 376 Boyles Street, Building 376, Frederick, Maryland, 21702
| | - Qian Li
- Chemical Biology Laboratory, National Cancer Institute, 376 Boyles Street, Building 376, Frederick, Maryland, 21702
| | - Luis G. Rodriguez
- Optical Microscopy and Analysis Laboratory, SAIC-Frederick, Inc., Advanced Technology Program, NCI-Frederick, Frederick, Maryland, 21702
| | - Jeffrey C. Gildersleeve
- Chemical Biology Laboratory, National Cancer Institute, 376 Boyles Street, Building 376, Frederick, Maryland, 21702
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24
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Kawasaki T, Ohyama T, Hirata A, Nokihara K. Fingerprint-Detection of Sugar-Binding Proteins Generated by Labeled Structured Glycopeptides Arrays. BULLETIN OF THE CHEMICAL SOCIETY OF JAPAN 2010. [DOI: 10.1246/bcsj.20100009] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
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25
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Oyelaran O, Gildersleeve JC. Glycan arrays: recent advances and future challenges. Curr Opin Chem Biol 2009; 13:406-13. [PMID: 19625207 PMCID: PMC2749919 DOI: 10.1016/j.cbpa.2009.06.021] [Citation(s) in RCA: 185] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2009] [Accepted: 06/22/2009] [Indexed: 12/14/2022]
Abstract
Carbohydrate arrays, also referred to as glycan arrays, are composed of various oligosaccharides and/or polysaccharides immobilized on a solid support in a spatially defined arrangement. This technology provides a powerful, high-throughput approach to examining carbohydrate-macromolecule interactions, and glycan arrays have had a significant impact on the field of glycobiology. This review focuses on recent advances in glycan array technology, limitations, and opportunities for improvement. In particular, new methods for the production of natural glycan arrays and chemoenzymatic approaches are greatly expanding the diversity of structures on arrays. Since multivalent complex formation is generally required to achieve tight binding, methods to evaluate and modulate presentation are vital for enhancing the capabilities of this technology.
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Affiliation(s)
- Oyindasola Oyelaran
- Laboratory of Medicinal Chemistry, Center for Cancer Research, NCI, 376 Boyles Street, Frederick, MD 21702
| | - Jeffrey C. Gildersleeve
- Laboratory of Medicinal Chemistry, Center for Cancer Research, NCI, 376 Boyles Street, Frederick, MD 21702
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26
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Oyelaran O, Li Q, Farnsworth D, Gildersleeve JC. Microarrays with varying carbohydrate density reveal distinct subpopulations of serum antibodies. J Proteome Res 2009; 8:3529-38. [PMID: 19366269 DOI: 10.1021/pr9002245] [Citation(s) in RCA: 133] [Impact Index Per Article: 8.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
Antigen arrays have become important tools for profiling complex mixtures of proteins such as serum antibodies. These arrays can be used to better understand immune responses, discover new biomarkers, and guide the development of vaccines. Nevertheless, they are not perfect and improved array designs would enhance the information derived from this technology. In this study, we describe and evaluate a strategy for varying antigen density on an array and then use the array to study binding of lectins, monoclonal antibodies, and serum antibodies. To vary density, neoglycoproteins containing differing amounts of carbohydrate were synthesized and used to make a carbohydrate microarray with variations in both structure and density. We demonstrate that this method provides variations in density on the array surface within a range that is relevant for biological recognition events. The array was used to evaluate density dependent binding properties of three lectins (Vicia villosa lectin B4, Helix pomatia agglutinin, and soybean agglutinin) and three monoclonal antibodies (HBTn-1, B1.1, and Bric111) that bind the tumor-associated Tn antigen. In addition, serum antibodies were profiled from 30 healthy donors. The results show that variations in antigen density are required to detect the full spectrum of antibodies that bind a particular antigen and can be used to reveal differences in antibody populations between individuals that are not detectable using a single antigen density.
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Affiliation(s)
- Oyindasola Oyelaran
- Laboratory of Medicinal Chemistry, National Cancer Institute, 376 Boyles Street, Building 376, Frederick, Maryland 21702, USA
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27
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Koo OK, Liu Y, Shuaib S, Bhattacharya S, Ladisch MR, Bashir R, Bhunia AK. Targeted Capture of Pathogenic Bacteria Using a Mammalian Cell Receptor Coupled with Dielectrophoresis on a Biochip. Anal Chem 2009; 81:3094-101. [DOI: 10.1021/ac9000833] [Citation(s) in RCA: 58] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Ok Kyung Koo
- Molecular Food Microbiology Laboratory, Department of Food Science, and School of Computer and Electrical Engineering, Purdue University, West Lafayette, Indiana 47907, Micro and Nanotechnology Laboratory, Department of Electrical and Computer Engineering & Bioengineering, University of Illinois at Urbana−Champaign, Urbana, Illinois 61801, Department of Mechanical Engineering, Indian Institute of Technology, Kanpur, India, and Department of Agricultural and Biological Engineering, and Weldon School of
| | - YiShao Liu
- Molecular Food Microbiology Laboratory, Department of Food Science, and School of Computer and Electrical Engineering, Purdue University, West Lafayette, Indiana 47907, Micro and Nanotechnology Laboratory, Department of Electrical and Computer Engineering & Bioengineering, University of Illinois at Urbana−Champaign, Urbana, Illinois 61801, Department of Mechanical Engineering, Indian Institute of Technology, Kanpur, India, and Department of Agricultural and Biological Engineering, and Weldon School of
| | - Salamat Shuaib
- Molecular Food Microbiology Laboratory, Department of Food Science, and School of Computer and Electrical Engineering, Purdue University, West Lafayette, Indiana 47907, Micro and Nanotechnology Laboratory, Department of Electrical and Computer Engineering & Bioengineering, University of Illinois at Urbana−Champaign, Urbana, Illinois 61801, Department of Mechanical Engineering, Indian Institute of Technology, Kanpur, India, and Department of Agricultural and Biological Engineering, and Weldon School of
| | - Shantanu Bhattacharya
- Molecular Food Microbiology Laboratory, Department of Food Science, and School of Computer and Electrical Engineering, Purdue University, West Lafayette, Indiana 47907, Micro and Nanotechnology Laboratory, Department of Electrical and Computer Engineering & Bioengineering, University of Illinois at Urbana−Champaign, Urbana, Illinois 61801, Department of Mechanical Engineering, Indian Institute of Technology, Kanpur, India, and Department of Agricultural and Biological Engineering, and Weldon School of
| | - Michael R. Ladisch
- Molecular Food Microbiology Laboratory, Department of Food Science, and School of Computer and Electrical Engineering, Purdue University, West Lafayette, Indiana 47907, Micro and Nanotechnology Laboratory, Department of Electrical and Computer Engineering & Bioengineering, University of Illinois at Urbana−Champaign, Urbana, Illinois 61801, Department of Mechanical Engineering, Indian Institute of Technology, Kanpur, India, and Department of Agricultural and Biological Engineering, and Weldon School of
| | - Rashid Bashir
- Molecular Food Microbiology Laboratory, Department of Food Science, and School of Computer and Electrical Engineering, Purdue University, West Lafayette, Indiana 47907, Micro and Nanotechnology Laboratory, Department of Electrical and Computer Engineering & Bioengineering, University of Illinois at Urbana−Champaign, Urbana, Illinois 61801, Department of Mechanical Engineering, Indian Institute of Technology, Kanpur, India, and Department of Agricultural and Biological Engineering, and Weldon School of
| | - Arun K. Bhunia
- Molecular Food Microbiology Laboratory, Department of Food Science, and School of Computer and Electrical Engineering, Purdue University, West Lafayette, Indiana 47907, Micro and Nanotechnology Laboratory, Department of Electrical and Computer Engineering & Bioengineering, University of Illinois at Urbana−Champaign, Urbana, Illinois 61801, Department of Mechanical Engineering, Indian Institute of Technology, Kanpur, India, and Department of Agricultural and Biological Engineering, and Weldon School of
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28
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Banerjee P, Bhunia AK. Mammalian cell-based biosensors for pathogens and toxins. Trends Biotechnol 2009; 27:179-88. [DOI: 10.1016/j.tibtech.2008.11.006] [Citation(s) in RCA: 85] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2008] [Revised: 11/12/2008] [Accepted: 11/17/2008] [Indexed: 10/21/2022]
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Abstract
Optical biosensors have begun to move from the laboratory to the point of use. This trend will be accelerated by new concepts for molecular recognition, integration of microfluidics and optics, simplified fabrication technologies, improved approaches to biosensor system integration, and dramatically increased awareness of the applicability of sensor technology to improve public health and environmental monitoring. Examples of innovations are identified that will lead to smaller, faster, cheaper optical biosensor systems with capacity to provide effective and actionable information.
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Affiliation(s)
- Frances S Ligler
- Naval Research Laboratory, Center for Bio/Molecular Science and Engineering, 455 Overlook Avenue South West, Washington, DC 20375, USA
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30
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Protein Microarrays for the Detection of Biothreats. MICROARRAYS 2009. [PMCID: PMC7122912 DOI: 10.1007/978-0-387-72719-6_8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Although protein microarrays have proven to be an important tool in proteomics research, the technology is emerging as useful for public health and defense applications. Recent progress in the measurement and characterization of biothreat agents is reviewed in this chapter. Details concerning validation of various protein microarray formats, from contact-printed sandwich assays to supported lipid bilayers, are presented. The reviewed technologies have important implications for in vitro characterization of toxin–ligand interactions, serotyping of bacteria, screening of potential biothreat inhibitors, and as core components of biosensors, among others, research and engineering applications.
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31
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Shriver-Lake LC, Charles PT, Taitt CR. Immobilization of biomolecules onto silica and silica-based surfaces for use in planar array biosensors. Methods Mol Biol 2009; 504:419-440. [PMID: 19159109 DOI: 10.1007/978-1-60327-569-9_23] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
Several methods are described in which a biological recognition molecule--a critical element in any biosensor--is immobilized onto a silica or silica-based sensing substrate. Although several variations are described, the methods for covalent immobilization share a common theme and are generally composed of three steps: modification of the surface to add specific functional groups (using appropriate silanes or an amine or carboxyl-containing hydrogel), covalent attachment of a crosslinker through one of its reactive moieties, and finally, covalent linking of the biomolecule (recognition element) to the remaining reactive moiety of the crosslinker. One final method is presented in which the surface is modified with a highly hydrophobic silane and a glycolipid recognition element immobilized, essentially irreversibly, by hydrophobic interactions. All of the methods described have been successfully used to immobilize biological recognition molecules onto sensing surfaces, with full functionality in biosensor-binding assays.
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Affiliation(s)
- Lisa C Shriver-Lake
- Center for Bio/Molecular Science & Engineering, US Naval Research Laboratory, Washington, DC, USA
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32
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Taitt CR, Shriver-Lake LC, Ngundi MM, Ligler FS. Array Biosensor for Toxin Detection: Continued Advances. SENSORS 2008; 8:8361-8377. [PMID: 27873991 PMCID: PMC3791022 DOI: 10.3390/s8128361] [Citation(s) in RCA: 49] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/31/2008] [Revised: 11/26/2008] [Accepted: 12/09/2008] [Indexed: 11/17/2022]
Abstract
The following review focuses on progress made in the last five years with the NRL Array Biosensor, a portable instrument for rapid and simultaneous detection of multiple targets. Since 2003, the Array Biosensor has been automated and miniaturized for operation at the point-of-use. The Array Biosensor has also been used to demonstrate (1) quantitative immunoassays against an expanded number of toxins and toxin indicators in food and clinical fluids, and (2) the efficacy of semi-selective molecules as alternative recognition moieties. Blind trials, with unknown samples in a variety of matrices, have demonstrated the versatility, sensitivity, and reliability of the automated system.
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Affiliation(s)
- Chris Rowe Taitt
- Center for Bio/Molecular Science & Engineering, Naval Research Laboratory, Code 6900, Washington, DC 20375-5348, USA.
| | - Lisa C Shriver-Lake
- Center for Bio/Molecular Science & Engineering, Naval Research Laboratory, Code 6900, Washington, DC 20375-5348, USA.
| | - Miriam M Ngundi
- Food and Drug Administration, N29 RM418 HFM-434, 8800 Rockville Pike, Bethesda, MD 20892, USA.
| | - Frances S Ligler
- Center for Bio/Molecular Science & Engineering, Naval Research Laboratory, Code 6900, Washington, DC 20375-5348, USA.
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33
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Cholera toxin subunit B detection in microfluidic devices. Anal Bioanal Chem 2008; 393:177-86. [DOI: 10.1007/s00216-008-2364-6] [Citation(s) in RCA: 38] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/16/2008] [Revised: 08/18/2008] [Accepted: 08/20/2008] [Indexed: 11/26/2022]
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35
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Biosensors and bio-based methods for the separation and detection of foodborne pathogens. ADVANCES IN FOOD AND NUTRITION RESEARCH 2008; 54:1-44. [PMID: 18291303 DOI: 10.1016/s1043-4526(07)00001-0] [Citation(s) in RCA: 92] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
The safety of our food supply is always a major concern to consumers, food producers, and regulatory agencies. A safer food supply improves consumer confidence and brings economic stability. The safety of foods from farm-to-fork through the supply chain continuum must be established to protect consumers from debilitating, sometimes fatal episodes of pathogen outbreaks. The implementation of preventive strategies like hazard analysis critical control points (HACCP) assures safety but its full utility will not be realized unless supportive tools are fully developed. Rapid, sensitive, and accurate detection methods are such essential tools that, when integrated with HACCP, will improve safety of products. Traditional microbiological methods are powerful, error-proof, and dependable but these lengthy, cumbersome methods are often ineffective because they are not compatible with the speed at which the products are manufactured and the short shelf life of products. Automation in detection methods is highly desirable, but is not achievable with traditional methods. Therefore, biosensor-based tools offer the most promising solutions and address some of the modern-day needs for fast and sensitive detection of pathogens in real time or near real time. The application of several biosensor tools belonging to the categories of optical, electrochemical, and mass-based tools for detection of foodborne pathogens is reviewed in this chapter. Ironically, geometric growth in biosensor technology is fueled by the imminent threat of bioterrorism through food, water, and air and by the funding through various governmental agencies.
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36
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Maynard JA, Myhre R, Roy B. Microarrays in infection and immunity. Curr Opin Chem Biol 2007; 11:306-15. [PMID: 17500025 PMCID: PMC7108391 DOI: 10.1016/j.cbpa.2007.01.727] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2007] [Accepted: 01/08/2007] [Indexed: 01/21/2023]
Abstract
Over the past decade, microarrays have revolutionized the scientific world as dramatically as the internet has changed everyday life. From the initial applications of DNA microarrays to uncover gene expression patterns that are diagnostic and prognostic of cancer, understanding the interplay between immune responses and disease has been a prime application of this technology. More recent efforts have moved beyond genetic analysis to functional analysis of the molecules involved, including identification of immunodominant antigens and peptides as well as the role of post-translational glycosylation. Here, we focus on recent applications of microarray technology in understanding the detailed chemical biology of immune responses to disease in an effort to guide development of vaccines and other protective therapies.
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Affiliation(s)
- Jennifer A Maynard
- Department of Chemical Engineering and Materials Science, University of Minnesota, Minneapolis, MN 55455, USA.
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37
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Schofield CL, Field RA, Russell DA. Glyconanoparticles for the colorimetric detection of cholera toxin. Anal Chem 2007; 79:1356-61. [PMID: 17297934 DOI: 10.1021/ac061462j] [Citation(s) in RCA: 146] [Impact Index Per Article: 8.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Cholera continues to represent a major threat to human health, particularly in developing countries. Death can be readily avoided when medical treatment is rapidly administered. In order to provide a means of detecting the bacterially secreted toxin, we have developed a simple, yet rapid, bioassay for the cholera toxin. The colorimetric bioassay is based on a specifically synthesized lactose derivative that is self-assembled onto gold nanoparticles of 16 nm diameter. In solution the lactose-stabilized nanoparticles are red in color due to the intense surface plasmon absorption band centered at 524 nm. Cholera toxin (added as the B-subunit) (CTB) binds to the lactose derivative and induces aggregation of the nanoparticles. Upon aggregation, the surface plasmon absorption band broadens and red shifts such that the nanoparticle solution appears a deep purple color. The selectivity of the bioassay stems from the thiolated lactose derivative that mimics the GM(1) ganglioside--the receptor to which cholera toxin binds in the small intestine. Consequently, added metal ions, anions, and a protein, at relevant concentrations, do not induce nonspecific aggregation of the nanoparticles. The simple color change of the bioassay provides a selective means to detect and quantify the cholera toxin within 10 min. The theoretical limit of detection of the bioassay was determined to be 54 nM (3 microg/mL) for CTB. The stability of the lactose-stabilized nanoparticles was established by freeze-drying and then resuspending the particles in water and subsequently measuring CTB in biologically relevant electrolyte solutions. This colorimetric bioassay provides a new tool for the direct measurement of cholera toxin.
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Affiliation(s)
- Claire L Schofield
- School of Chemical Sciences and Pharmacy, University of East Anglia, Norwich, Norfolk NR4 7TJ, U.K
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38
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Ligler FS, Sapsford KE, Golden JP, Shriver-Lake LC, Taitt CR, Dyer MA, Barone S, Myatt CJ. The array biosensor: portable, automated systems. ANAL SCI 2007; 23:5-10. [PMID: 17213615 DOI: 10.2116/analsci.23.5] [Citation(s) in RCA: 111] [Impact Index Per Article: 6.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
With recent advances in surface chemistry, microfluidics, and data analysis, there are ever increasing reports of array-based methods for detecting and quantifying multiple targets. However, only a few systems have been described that require minimal preparation of complex samples and possess a means of quantitatively assessing matrix effects. The NRL Array Biosensor has been developed with the goal of rapid and sensitive detection of multiple targets from multiple samples analyzed simultaneously. A key characteristic of this system is its two-dimensional configuration, which allows controls and standards to be analyzed in parallel with unknowns. Although the majority of our work has focused on instrument automation and immunoassay development, we have recently initiated efforts to utilize alternative recognition molecules, such as peptides and sugars, for detection of a wider variety of targets. The array biosensor has demonstrated utility for a variety of applications, including food safety, disease diagnosis, monitoring immune response, and homeland security, and is presently being transitioned to the commercial sector for manufacturing.
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Affiliation(s)
- Frances S Ligler
- Center for Bio/Molecular Science & Engineering, Washington, DC 20375, USA.
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39
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Rapid detection of Escherichia coli O157:H7 spiked into food matrices. Anal Chim Acta 2007; 584:66-71. [DOI: 10.1016/j.aca.2006.11.021] [Citation(s) in RCA: 45] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/25/2006] [Revised: 10/26/2006] [Accepted: 11/07/2006] [Indexed: 11/18/2022]
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40
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Pei Z, Yu H, Theurer M, Waldén A, Nilsson P, Yan M, Ramström O. Photogenerated carbohydrate microarrays. Chembiochem 2007; 8:166-8. [PMID: 17154195 PMCID: PMC4492527 DOI: 10.1002/cbic.200600447] [Citation(s) in RCA: 55] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2006] [Indexed: 01/17/2023]
Affiliation(s)
- Zhichao Pei
- KTH–Royal Institute of Technology, Department of Chemistry, Teknikringen 30, 10044 Stockholm (Sweden), Fax: (+46) 8-7912333
| | - Hui Yu
- KTH–Royal Institute of Technology, Department of Chemistry, Teknikringen 30, 10044 Stockholm (Sweden), Fax: (+46) 8-7912333
| | - Matthias Theurer
- KTH–Royal Institute of Technology, Department of Chemistry, Teknikringen 30, 10044 Stockholm (Sweden), Fax: (+46) 8-7912333
| | - Annelie Waldén
- KTH–Royal Institute of Technology, Department of Biotechnology, AlbaNova University Center, 10691, Stockholm (Sweden)
| | - Peter Nilsson
- KTH–Royal Institute of Technology, Department of Biotechnology, AlbaNova University Center, 10691, Stockholm (Sweden)
| | - Mingdi Yan
- Department of Chemistry, Portland State University, PO Box 751, Portland, OR 97207-0751 (USA), Fax: (+1) 503-725-9525
| | - Olof Ramström
- KTH–Royal Institute of Technology, Department of Chemistry, Teknikringen 30, 10044 Stockholm (Sweden), Fax: (+46) 8-7912333
- Department of Chemistry, Portland State University, PO Box 751, Portland, OR 97207-0751 (USA), Fax: (+1) 503-725-9525
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Kulagina NV, Shaffer KM, Anderson GP, Ligler FS, Taitt CR. Antimicrobial peptide-based array for Escherichia coli and Salmonella screening. Anal Chim Acta 2006; 575:9-15. [PMID: 17723565 DOI: 10.1016/j.aca.2006.05.082] [Citation(s) in RCA: 90] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2006] [Revised: 05/12/2006] [Accepted: 05/22/2006] [Indexed: 11/23/2022]
Abstract
Numerous bacteria, plants, and higher organisms produce antimicrobial peptides (AMPs) as part of their innate immune system, providing a chemical defense mechanism against microbial invasion. Many AMPs exert their antimicrobial activity by binding to components of the microbe's surface and disrupting the membrane. The goal of this study was to incorporate AMPs into screening assays for detection of pathogenic species. Surface-immobilized AMPs such as polymyxins B and E could be used to detect Salmonella typhimurium and Escherichia coli O157:H7 in two assay formats: direct and sandwich. Both types of assay confirmed that the peptides were immobilized in active form and could bind cells in a concentration-dependent manner. Cell binding to the AMPs was peptide-density dependent. This method for monitoring pathogen binding was extended to include other cationic AMPs such as cecropin A, magainin I and parasin. Detection limits (LODs) for E. coli O157:H7 and S. typhimurium obtained with AMPs during sandwich assays were in the ranges of 5x10(4) to 5x10(5) and 1x10(5) to 5x10(6)cells mL(-1), respectively. The different AMPs showed significantly different affinities for the two bacterial species; the potential for classification of pathogens based on different binding patterns to AMPs is discussed.
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Affiliation(s)
- Nadezhda V Kulagina
- Center for Bio/Molecular Science & Engineering, Code 6900, Naval Research Laboratory, Washington, DC 20375-5348, USA
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42
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Manimala JC, Roach TA, Li Z, Gildersleeve JC. High-Throughput Carbohydrate Microarray Analysis of 24 Lectins. Angew Chem Int Ed Engl 2006; 45:3607-10. [PMID: 16639753 DOI: 10.1002/anie.200600591] [Citation(s) in RCA: 145] [Impact Index Per Article: 8.1] [Reference Citation Analysis] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023]
Affiliation(s)
- Joseph C Manimala
- Laboratory of Medicinal Chemistry, Center for Cancer Research, NCI-Frederick, 376 Boyles St., 376/109, Frederick, MD 21702, USA
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43
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Manimala JC, Roach TA, Li Z, Gildersleeve JC. High-Throughput Carbohydrate Microarray Analysis of 24 Lectins. Angew Chem Int Ed Engl 2006. [DOI: 10.1002/ange.200600591] [Citation(s) in RCA: 31] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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44
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Kreutzberger J. Protein microarrays: a chance to study microorganisms? Appl Microbiol Biotechnol 2006; 70:383-90. [PMID: 16489452 PMCID: PMC7080167 DOI: 10.1007/s00253-006-0312-y] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2005] [Revised: 12/23/2005] [Accepted: 12/24/2005] [Indexed: 11/30/2022]
Abstract
Within the last 5 years, protein microarrays have been developed and applied to multiple approaches: identification of protein-protein interactions or protein-small molecule interactions, cancer profiling, detection of microorganisms and toxins, and identification of antibodies due to allergens, autoantigens, and pathogens. Protein microarrays are small size (typically in the microscopy slide format) planar analytical devices with probes arranged in high density to provide the ability to screen several hundred to thousand known substrates (e.g., proteins, peptides, antibodies) simultaneously. Due to their small size, only minute amounts of spotted probes and analytes (e.g., serum) are needed; this is a particularly important feature, for these are limited or expensive. In this review, different types of protein microarrays are reviewed: protein microarrays (PMAs), with spotted proteins or peptides; antibody microarrays (AMAs), with spotted antibodies or antibody fragments (e.g., scFv); reverse phase protein microarrays (RPMAs), a special form of PMA where crude protein mixtures (e.g., cell lysates, fractions) are spotted; and nonprotein microarrays (NPMAs) where macromolecules other than proteins and nucleic acids (e.g., carbohydrates, monosaccharides, lipopolysaccharides) are spotted. In this study, exemplary experiments for all types of protein arrays are discussed wherever applicable with regard to investigations of microorganisms.
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Affiliation(s)
- Jürgen Kreutzberger
- Department Lehrach, Max Planck Institute for molecular Genetics, Berlin, Germany.
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45
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Ngundi MM, Taitt CR, Ligler FS. Simultaneous determination of kinetic parameters for the binding of cholera toxin to immobilized sialic acid and monoclonal antibody using an array biosensor. Biosens Bioelectron 2006; 22:124-30. [PMID: 16431098 DOI: 10.1016/j.bios.2005.12.007] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/14/2005] [Revised: 11/26/2005] [Accepted: 12/06/2005] [Indexed: 11/20/2022]
Abstract
Interactions between protein toxins and carbohydrate receptors are often semi-selective processes and the kinetic parameters that define the binding of a receptor to different toxins may vary with each interaction. In this study, we have determined the affinity constants for binding of cholera toxin (CT) to immobilized sialic acid and to anti-CT antibody (as a simultaneous reference) by measuring real-time binding processes using an array biosensor. N-Acetylneuraminic acid (Neu5Ac), a member of the sialic acid family, was covalently immobilized onto maleimide-activated planar waveguides via a thiol-terminated linker attached to the anomeric carbon of the sugar. Control antibodies were immobilized using two different approaches: covalent attachment onto maleimide-activated slides via the thiol on cysteine residues and non-covalent attachment using a biotin-NeutrAvidin linkage. Cy5-labeled CT was flowed over the immobilized receptors and the fluorescent intensity of the bound CT-receptor complex was recorded as a function of time. The association constants for CT binding to covalently attached Neu5Ac, to covalently attached anti-CT monoclonal antibody, and to antibody tethered by biotin-NeutrAvidin interactions were determined to be 1.3 x 10(8), 2.1 x 10(8) and 5.7 x 10(8)M(-1), respectively.
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Affiliation(s)
- Miriam M Ngundi
- Center for Bio/Molecular Science & Engineering, Naval Research Laboratory, Washington, DC 20375, USA
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