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Yang HW, Ju SP, Hsieh YT, Yang YC. Design single-stranded DNA aptamer of cluster of differentiation 47 protein by stochastic tunnelling-basin hopping-discrete molecular dynamics method. J Biomol Struct Dyn 2024; 42:3969-3982. [PMID: 37261868 DOI: 10.1080/07391102.2023.2217511] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2023] [Accepted: 05/18/2023] [Indexed: 06/02/2023]
Abstract
The formation of the Cluster of Differentiation 47 (CD47, PDB code: 2JJT)/signal regulatory protein α (SIRPα) complex is very important as it protects healthy cells from immune clearance while promoting macrophage phagocytosis for tumour elimination. Although several antibodies have been developed for cancer therapy, new function-blocking aptamers are still under development. This study aims to design the aptamer AptCD47, which can block the formation of the CD47/SIRPα complex. This study employs the MARTINI coarse-grained (CG) force field and the stochastic tunnelling-basin hopping-discrete molecular dynamics (STUN-BH-DMD) method to identify the most stable AptCD47/CD47 complexes. Coarse-grained molecular dynamics (CGMD) simulations were used to obtain root-mean-square deviation (RMSD) and root-mean-square fluctuation (RMSF) analyses. The results demonstrate that the formation of AptCD47/CD47 complexes renders the CD47 structure more stable than the single CD47 molecule in a water environment. The minimum energy pathway (MEP) obtained by the nudged elastic band (NEB) method indicates that the binding processes of 5'-ATTCAATTCC-3' and 5'-AGTGCAATCT-3' to CD47 are barrierless, which is much lower than the binding barrier of SIRPα to CD47 of about 14.23 kcal/mol. Therefore, these two AptCD47/CD47 complexes can create a high spatial binding barrier for SIRPα, preventing the formation of a stable CD47/SIRPα complex. The proposed numerical process with the MARTINI CG force field can be used to design CD47 aptamers that efficiently block SIRPα from binding to CD47.Communicated by Ramaswamy H. Sarma.
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Affiliation(s)
- Hung-Wei Yang
- Department of Biomedical Engineering, National Cheng Kung University, Tainan City, Taiwan
- Medical Device Innovation Center, National Cheng Kung University, Tainan City, Taiwan
| | - Shin-Pon Ju
- Department of Mechanical and Electro-Mechanical Engineering, National Sun Yat-sen University, Kaohsiung, Taiwan
- Department of Medicinal and Applied Chemistry, Kaohsiung Medical University, Kaohsiung, Taiwan
| | - Yun-Te Hsieh
- Department of Mechanical and Electro-Mechanical Engineering, National Sun Yat-sen University, Kaohsiung, Taiwan
| | - Yung-Cheng Yang
- Department of Mechanical and Electro-Mechanical Engineering, National Sun Yat-sen University, Kaohsiung, Taiwan
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2
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Liu S, Wang Z, Wu S, Cao T, Zhao G. Class-specific recognition and monitoring of environmental steroid estrogens in real water systems utilizing aptamer base substitution mutagenesis approach. JOURNAL OF HAZARDOUS MATERIALS 2024; 462:132704. [PMID: 37839381 DOI: 10.1016/j.jhazmat.2023.132704] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/28/2023] [Revised: 09/21/2023] [Accepted: 10/02/2023] [Indexed: 10/17/2023]
Abstract
The same class of environmental steroid estrogens (SEs) with the highest estrogenic activity share the same chemical core structure and are often found together in the environment, posing significant risks to organismal health and environmental safety due to toxicity accumulation. In this study, a novel method for constructing the group-targeting aptasensor was developed to comprehensively analyze SEs. Through artificial intervention base substitution mutagenesis of adjacent bases T13 and C20 of the aptamer-binding domain recognizing 17β-estradiol, combined with docking calculations, the group-targeting SEs-aptamer for class-specific recognition SEs, such as estrone, estradiol, estriol, and ethinylestradiol were obtained. The binding constant of the SEs-aptamer to the SEs was 108 M-1. The established group-targeting SEs aptasensor exhibited high sensitivity within a concentration range from 0.1 to 10 nM and demonstrated strong interference resistance, as well as high stability and wide pH water applicability. It was further applied to analyze real water samples and monitor changes in SEs concentrations during the removal process by Chlorella pyrenoidosa. These successful applications have demonstrated the excellent ability of this aptasensor to monitor SE in the environment. The method offered a new approach and idea for recognizing and detecting the same class of environmental pollutants in complex systems.
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Affiliation(s)
- Siyao Liu
- School of Chemical Science and Engineering, Key Laboratory of Spine and Spinal Cord Injury Repair and Regeneration, Ministry of Education, Tongji Hospital,Tongji University, Shanghai 200092, People's Republic of China
| | - Zhiming Wang
- School of Chemical Science and Engineering, Key Laboratory of Spine and Spinal Cord Injury Repair and Regeneration, Ministry of Education, Tongji Hospital,Tongji University, Shanghai 200092, People's Republic of China
| | - Siqi Wu
- School of Chemical Science and Engineering, Key Laboratory of Spine and Spinal Cord Injury Repair and Regeneration, Ministry of Education, Tongji Hospital,Tongji University, Shanghai 200092, People's Republic of China
| | - Tongcheng Cao
- School of Chemical Science and Engineering, Key Laboratory of Spine and Spinal Cord Injury Repair and Regeneration, Ministry of Education, Tongji Hospital,Tongji University, Shanghai 200092, People's Republic of China
| | - Guohua Zhao
- School of Chemical Science and Engineering, Key Laboratory of Spine and Spinal Cord Injury Repair and Regeneration, Ministry of Education, Tongji Hospital,Tongji University, Shanghai 200092, People's Republic of China.
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Zhang HL, Lv C, Li ZH, Jiang S, Cai D, Liu SS, Wang T, Zhang KH. Analysis of aptamer-target binding and molecular mechanisms by thermofluorimetric analysis and molecular dynamics simulation. Front Chem 2023; 11:1144347. [PMID: 37228865 PMCID: PMC10204870 DOI: 10.3389/fchem.2023.1144347] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/14/2023] [Accepted: 04/26/2023] [Indexed: 05/27/2023] Open
Abstract
Introduction: Aptamers are valuable for bioassays, but aptamer-target binding is susceptible to reaction conditions. In this study, we combined thermofluorimetric analysis (TFA) and molecular dynamics (MD) simulations to optimize aptamer-target binding, explore underlying mechanisms and select preferred aptamer. Methods: Alpha-fetoprotein (AFP) aptamer AP273 (as the model) was incubated with AFP under various experimental conditions, and melting curves were measured in a real-time PCR system to select the optimal binding conditions. The intermolecular interactions of AP273-AFP were analysed by MD simulations with these conditions to reveal the underlying mechanisms. A comparative study between AP273 and control aptamer AP-L3-4 was performed to validate the value of combined TFA and MD simulation in selecting preferred aptamers. Results: The optimal aptamer concentration and buffer system were easily determined from the dF/dT peak characteristics and the melting temperature (Tm) values on the melting curves of related TFA experiments, respectively. A high Tm value was found in TFA experiments performed in buffer systems with low metal ion strength. The molecular docking and MD simulation analyses revealed the underlying mechanisms of the TFA results, i.e., the binding force and stability of AP273 to AFP were affected by the number of binding sites, frequency and distance of hydrogen bonds, and binding free energies; these factors varied in different buffer and metal ion conditions. The comparative study showed that AP273 was superior to the homologous aptamer AP-L3-4. Conclusion: Combining TFA and MD simulation is efficient for optimizing the reaction conditions, exploring underlying mechanisms, and selecting aptamers in aptamer-target bioassays.
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Affiliation(s)
| | | | | | | | | | | | - Ting Wang
- *Correspondence: Ting Wang, ; Kun-He Zhang,
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4
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Fabrication of an Ag-based SERS nanotag for histamine quantitative detection. Talanta 2023; 256:124256. [PMID: 36641996 DOI: 10.1016/j.talanta.2023.124256] [Citation(s) in RCA: 3] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/06/2022] [Revised: 01/03/2023] [Accepted: 01/05/2023] [Indexed: 01/07/2023]
Abstract
A crucial issue in analytical science and physiology is the detection of histamine with high sensitivity, specificity and credibility, which served as an important neurotransmitter in biofluids. Despite the high sensitivity of surface-enhanced Raman spectroscopy (SERS) at the level of single molecule, there are still challenges in providing high sensitivity for histamine with a small cross section. For the selective detection of histamine using SERS, a highly sensitive sandwich structure substrate combining Fe3O4 and an Ag-based SERS nanotag was developed. The Fe3O4@SiO2-COOH served as a capture component for enriching histamine. Upon functionalized Ag nanoparticles with glycine (Gly) and (3-Aminopheyonyl) boronic acid (APBA), they were then used to connect with histamine and serve as a SERS nanotag, respectively. A linear relationship between the Raman intensity and the histamine concentration was observed over the range 10-4-10-8 M with a limit of detection of 7.24 × 10-9 M. This methodology also exhibited good selectivity in the presence of other neurotransmitters. With our new approach, histamine can be detected sensitively and reliably in fish samples, which indicates the potential prospect of an effective method for analyzing histamine in complex specimens.
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Zhu P, Papadimitriou VA, van Dongen JE, Cordeiro J, Neeleman Y, Santoso A, Chen S, Eijkel JC, Peng H, Segerink LI, Rwei AY. An optical aptasensor for real-time quantification of endotoxin: From ensemble to single-molecule resolution. SCIENCE ADVANCES 2023; 9:eadf5509. [PMID: 36753543 PMCID: PMC9908015 DOI: 10.1126/sciadv.adf5509] [Citation(s) in RCA: 8] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/28/2022] [Accepted: 01/09/2023] [Indexed: 06/18/2023]
Abstract
Endotoxin is a deadly pyrogen, rendering it crucial to monitor with high accuracy and efficiency. However, current endotoxin detection relies on multistep processes that are labor-intensive, time-consuming, and unsustainable. Here, we report an aptamer-based biosensor for the real-time optical detection of endotoxin. The endotoxin sensor exploits the distance-dependent scattering of gold nanoparticles (AuNPs) coupled to a gold nanofilm. This is enabled by the conformational changes of an endotoxin-specific aptamer upon target binding. The sensor can be used in an ensemble mode and single-particle mode under dark-field illumination. In the ensemble mode, the sensor is coupled with a microspectrometer and exhibits high specificity, reliability (i.e., linear concentration to signal profile in logarithmic scale), and reusability for repeated endotoxin measurements. Individual endotoxins can be detected by monitoring the color of single AuNPs via a color camera, achieving single-molecule resolution. This platform can potentially advance endotoxin detection to safeguard medical, food, and pharmaceutical products.
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Affiliation(s)
- Pancheng Zhu
- Department of Chemical Engineering, Delft University of Technology, 2629 HZ, Delft, Netherlands
- State Key Laboratory of Mechanics and Control of Mechanical Structures, Nanjing University of Aeronautics and Astronautics, 210016 Nanjing, China
| | | | - Jeanne E. van Dongen
- BIOS Lab on a Chip Group, MESA+ Institute for Nanotechnology, Technical Medical Centre, Max Planck Institute for Complex Fluid Dynamics, University of Twente, P.O. Box 217, 7500 AE Enschede, Netherlands
| | - Julia Cordeiro
- Department of Chemical Engineering, Delft University of Technology, 2629 HZ, Delft, Netherlands
| | - Yannick Neeleman
- Department of Chemical Engineering, Delft University of Technology, 2629 HZ, Delft, Netherlands
| | - Albert Santoso
- Department of Chemical Engineering, Delft University of Technology, 2629 HZ, Delft, Netherlands
| | - Shuyi Chen
- Department of Chemical Engineering, Delft University of Technology, 2629 HZ, Delft, Netherlands
- Institute of Organic and Polymeric Materials, National Taipei University of Technology, 10608 Taipei, Taiwan
- Research and Development Center for Smart Textile Technology, National Taipei University of Technology, 10608 Taipei, Taiwan
| | - Jan C. T. Eijkel
- BIOS Lab on a Chip Group, MESA+ Institute for Nanotechnology, Technical Medical Centre, Max Planck Institute for Complex Fluid Dynamics, University of Twente, P.O. Box 217, 7500 AE Enschede, Netherlands
| | - Hanmin Peng
- State Key Laboratory of Mechanics and Control of Mechanical Structures, Nanjing University of Aeronautics and Astronautics, 210016 Nanjing, China
| | - Loes I. Segerink
- BIOS Lab on a Chip Group, MESA+ Institute for Nanotechnology, Technical Medical Centre, Max Planck Institute for Complex Fluid Dynamics, University of Twente, P.O. Box 217, 7500 AE Enschede, Netherlands
| | - Alina Y. Rwei
- Department of Chemical Engineering, Delft University of Technology, 2629 HZ, Delft, Netherlands
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Ullah SF, Moreira G, Datta SPA, McLamore E, Vanegas D. An Experimental Framework for Developing Point-of-Need Biosensors: Connecting Bio-Layer Interferometry and Electrochemical Impedance Spectroscopy. BIOSENSORS 2022; 12:938. [PMID: 36354449 PMCID: PMC9688365 DOI: 10.3390/bios12110938] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/03/2022] [Revised: 10/25/2022] [Accepted: 10/25/2022] [Indexed: 06/16/2023]
Abstract
Biolayer interferometry (BLI) is a well-established laboratory technique for studying biomolecular interactions important for applications such as drug development. Currently, there are interesting opportunities for expanding the use of BLI in other fields, including the development of rapid diagnostic tools. To date, there are no detailed frameworks for implementing BLI in target-recognition studies that are pivotal for developing point-of-need biosensors. Here, we attempt to bridge these domains by providing a framework that connects output(s) of molecular interaction studies with key performance indicators used in the development of point-of-need biosensors. First, we briefly review the governing theory for protein-ligand interactions, and we then summarize the approach for real-time kinetic quantification using various techniques. The 2020 PRISMA guideline was used for all governing theory reviews and meta-analyses. Using the information from the meta-analysis, we introduce an experimental framework for connecting outcomes from BLI experiments (KD, kon, koff) with electrochemical (capacitive) biosensor design. As a first step in the development of a larger framework, we specifically focus on mapping BLI outcomes to five biosensor key performance indicators (sensitivity, selectivity, response time, hysteresis, operating range). The applicability of our framework was demonstrated in a study of case based on published literature related to SARS-CoV-2 spike protein to show the development of a capacitive biosensor based on truncated angiotensin-converting enzyme 2 (ACE2) as the receptor. The case study focuses on non-specific binding and selectivity as research goals. The proposed framework proved to be an important first step toward modeling/simulation efforts that map molecular interactions to sensor design.
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Affiliation(s)
- Sadia Fida Ullah
- Division of Glycoscience, Department of Chemistry, School of Engineering Sciences in Chemistry, Biotechnology and Health, KTH Royal Institute of Technology, 106 91 Stockholm, Sweden
- Department of Environmental Engineering and Earth Sciences, Clemson University, Clemson, SC 29634, USA
| | - Geisianny Moreira
- Department of Environmental Engineering and Earth Sciences, Clemson University, Clemson, SC 29634, USA
- Global Alliance for Rapid Diagnostics, Michigan State University, East Lancing, MI 48824, USA
| | - Shoumen Palit Austin Datta
- MIT Auto-ID Labs, Department of Mechanical Engineering, Massachusetts Institute of Technology, 77 Massachusetts Ave, Cambridge, MA 02139, USA
- Medical Device (MDPnP) Interoperability and Cybersecurity Labs, Biomedical Engineering Program, Deparment of Anesthesiology, Massachusetts General Hospital, Harvard Medical School, 65 Landsdowne Street, Cambridge, MA 02139, USA
| | - Eric McLamore
- Department of Environmental Engineering and Earth Sciences, Clemson University, Clemson, SC 29634, USA
- Global Alliance for Rapid Diagnostics, Michigan State University, East Lancing, MI 48824, USA
- Agricultural Sciences, Clemson University, 821 McMillan Rd, Clemson, SC 29631, USA
| | - Diana Vanegas
- Department of Environmental Engineering and Earth Sciences, Clemson University, Clemson, SC 29634, USA
- Global Alliance for Rapid Diagnostics, Michigan State University, East Lancing, MI 48824, USA
- Interdisciplinary Group for Biotechnology Innovation and Ecosocial Change-BioNovo, Universidad del Valle, Cali 76001, Colombia
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Optimization of Gonyautoxin1/4-Binding G-Quadruplex Aptamers by Label-Free Surface-Enhanced Raman Spectroscopy. Toxins (Basel) 2022; 14:toxins14090622. [PMID: 36136560 PMCID: PMC9505997 DOI: 10.3390/toxins14090622] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/18/2022] [Revised: 08/25/2022] [Accepted: 09/03/2022] [Indexed: 11/16/2022] Open
Abstract
Nucleic acids with G-quadruplex (G4) structures play an important role in physiological function, analysis and detection, clinical diagnosis and treatment, and new drug research and development. Aptamers obtained using systematic evolution of ligands via exponential enrichment (SELEX) screening technology do not always have the best affinity or binding specificity to ligands. Therefore, the establishment of a structure-oriented experimental method is of great significance. To study the potential of surface-enhanced Raman spectroscopy (SERS) in aptamer optimization, marine biotoxin gonyautoxin (GTX)1/4 and its G4 aptamer obtained using SELEX were selected. The binding site and the induced fit of the aptamer to GTX1/4 were confirmed using SERS combined with two-dimensional correlation spectroscopy. The intensity of interaction between GTX1/4 and G4 was also quantified by measuring the relative intensity of SERS bands corresponding to intramolecular hydrogen bonds. Furthermore, the interaction between GTX1/4 and optimized aptamers was analyzed. The order of intensity change in the characteristic bands of G4 aptamers was consistent with the order of affinity calculated using microscale thermophoresis and molecular dynamics simulations. SERS provides a rapid, sensitive, and economical post-SELEX optimization of aptamers. It is also a reference for future research on other nucleic acid sequences containing G4 structures.
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Douaki A, Garoli D, Inam AKMS, Angeli MAC, Cantarella G, Rocchia W, Wang J, Petti L, Lugli P. Smart Approach for the Design of Highly Selective Aptamer-Based Biosensors. BIOSENSORS 2022; 12:bios12080574. [PMID: 36004970 PMCID: PMC9405846 DOI: 10.3390/bios12080574] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/04/2022] [Revised: 07/23/2022] [Accepted: 07/25/2022] [Indexed: 11/30/2022]
Abstract
Aptamers are chemically synthesized single-stranded DNA or RNA oligonucleotides widely used nowadays in sensors and nanoscale devices as highly sensitive biorecognition elements. With proper design, aptamers are able to bind to a specific target molecule with high selectivity. To date, the systematic evolution of ligands by exponential enrichment (SELEX) process is employed to isolate aptamers. Nevertheless, this method requires complex and time-consuming procedures. In silico methods comprising machine learning models have been recently proposed to reduce the time and cost of aptamer design. In this work, we present a new in silico approach allowing the generation of highly sensitive and selective RNA aptamers towards a specific target, here represented by ammonium dissolved in water. By using machine learning and bioinformatics tools, a rational design of aptamers is demonstrated. This “smart” SELEX method is experimentally proved by choosing the best five aptamer candidates obtained from the design process and applying them as functional elements in an electrochemical sensor to detect, as the target molecule, ammonium at different concentrations. We observed that the use of five different aptamers leads to a significant difference in the sensor’s response. This can be explained by considering the aptamers’ conformational change due to their interaction with the target molecule. We studied these conformational changes using a molecular dynamics simulation and suggested a possible explanation of the experimental observations. Finally, electrochemical measurements exposing the same sensors to different molecules were used to confirm the high selectivity of the designed aptamers. The proposed in silico SELEX approach can potentially reduce the cost and the time needed to identify the aptamers and potentially be applied to any target molecule.
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Affiliation(s)
- Ali Douaki
- Faculty of Science and Technology, Libera Università di Bolzano, Piazza Università 1, 39100 Bolzano, Italy; (A.K.M.S.I.); (M.A.C.A.); (G.C.); (L.P.)
- Correspondence: (A.D.); (P.L.)
| | - Denis Garoli
- Istituto Italiano di Tecnologia, Via Morego, 30, 16163 Genova, Italy;
| | - A. K. M. Sarwar Inam
- Faculty of Science and Technology, Libera Università di Bolzano, Piazza Università 1, 39100 Bolzano, Italy; (A.K.M.S.I.); (M.A.C.A.); (G.C.); (L.P.)
| | - Martina Aurora Costa Angeli
- Faculty of Science and Technology, Libera Università di Bolzano, Piazza Università 1, 39100 Bolzano, Italy; (A.K.M.S.I.); (M.A.C.A.); (G.C.); (L.P.)
| | - Giuseppe Cantarella
- Faculty of Science and Technology, Libera Università di Bolzano, Piazza Università 1, 39100 Bolzano, Italy; (A.K.M.S.I.); (M.A.C.A.); (G.C.); (L.P.)
| | - Walter Rocchia
- CONCEPT Lab, Istituto Italiano di Tecnologia, Via Enrico Melen 83, 16152 Genova, Italy;
| | - Jiahai Wang
- School of Mechanical and Electrical Engineering, School of Chemistry and Chemical Engineering, Guangzhou University, Guangzhou 510006, China;
| | - Luisa Petti
- Faculty of Science and Technology, Libera Università di Bolzano, Piazza Università 1, 39100 Bolzano, Italy; (A.K.M.S.I.); (M.A.C.A.); (G.C.); (L.P.)
| | - Paolo Lugli
- Faculty of Science and Technology, Libera Università di Bolzano, Piazza Università 1, 39100 Bolzano, Italy; (A.K.M.S.I.); (M.A.C.A.); (G.C.); (L.P.)
- Correspondence: (A.D.); (P.L.)
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Liu R, Zhang F, Sang Y, Liu M, Shi M, Wang X. Selection and Characterization of DNA Aptamers for Constructing Aptamer-AuNPs Colorimetric Method for Detection of AFM1. Foods 2022; 11:foods11121802. [PMID: 35742000 PMCID: PMC9222373 DOI: 10.3390/foods11121802] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/14/2022] [Revised: 06/11/2022] [Accepted: 06/17/2022] [Indexed: 12/03/2022] Open
Abstract
Aflatoxin M1 (AFM1), one of the most toxic mycotoxins, is a feed and food contaminant of global concern. To isolate the ssDNA aptamer of AFM1, synthesized magnetic graphene oxide nanomaterials, 12 rounds of subtractive systematic evolution of ligands by exponential enrichment (SELEX) selection were carried out. As a result, 24 candidate aptamers were selected, and their sequence similarity exceeded 97%. Their binding affinity and specificity were further examined by fluorescence and biofilm interferometry (BLI) methods. One aptamer (Apt-5) against AFM1 with a high affinity and specificity was isolated and demonstrated to be the optimal aptamer, whose dissociation constant reached the nanomolar level, Kd = 8.12 ± 1.51 nM. Additionally, molecular docking studies were used to predict the possible binding sites and mechanisms of the two. Based on Apt-5, an unlabeled aptamer-AuNPs colorimetric method was established to detect AFM1 in milk with a linear range of 0.078–10 ng/mL, and the actual detection limit was 0.078 ng/mL. These results demonstrated that this detection technique could be useful for the quantitative determination of AFM1 in milk and dairy products.
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EDTA salt modified carbon paste electrode for square wave voltammetric determination of theophylline in pharmaceutical tablet formulation. PLoS One 2022; 17:e0255700. [PMID: 35687564 PMCID: PMC9187066 DOI: 10.1371/journal.pone.0255700] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2021] [Accepted: 07/21/2021] [Indexed: 11/19/2022] Open
Abstract
In this study, a square wave voltammetric method for determination of theophylline in tablet formulation based on EDTA salt modified carbon paste electrode is presented. CV, FT-IR, and EIS results confirmed modification of the carbon paste with EDTA salt. In contrast to the unmodified carbon paste electrode, the modified carbon paste electrode showed irreversible oxidation of theophylline with considerable current enhancement. Investigation of the effect of scan rate on the Ip and Ep response of the modified electrode for theophylline revealed predominantly diffusion controlled oxidation kinetics. Under the optimized conditions, square wave oxidative peak current of theophylline in pH 7.0 PBS showed linear dependence on concentration in the range 10–200 μM with determination coefficient (R2), limit of detection, and limit of quantification of 0.99782, 0.0257 μM, and 0.0857 μM, respectively. Detection of an amount of theophylline in the analyzed tablet formulation with 1.85% error from its nominal content (120 mg/tablet) confirmed the accuracy of the developed method. Spike and interference recovery results of 98.59%, and 95.7–100%, respectively validated the applicability of the developed method for determination of theophylline content in tablet samples.
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Liu R, Zhang F, Sang Y, Katouzian I, Jafari SM, Wang X, Li W, Wang J, Mohammadi Z. Screening, identification, and application of nucleic acid aptamers applied in food safety biosensing. Trends Food Sci Technol 2022. [DOI: 10.1016/j.tifs.2022.03.025] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
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Inam AKMS, Angeli MAC, Douaki A, Shkodra B, Lugli P, Petti L. An Aptasensor Based on a Flexible Screen-Printed Silver Electrode for the Rapid Detection of Chlorpyrifos. SENSORS 2022; 22:s22072754. [PMID: 35408368 PMCID: PMC9003324 DOI: 10.3390/s22072754] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/04/2022] [Revised: 03/24/2022] [Accepted: 03/30/2022] [Indexed: 11/16/2022]
Abstract
In this work, we propose a novel disposable flexible and screen-printed electrochemical aptamer-based sensor (aptasensor) for the rapid detection of chlorpyrifos (CPF). To optimize the process, various characterization procedures were employed, including Fourier transform infrared spectroscopy (FT-IR), electrochemical impedance spectroscopy (EIS), and cyclic voltammetry (CV). Initially, the aptasensor was optimized in terms of electrolyte pH, aptamer concentration, and incubation time for chlorpyrifos. Under optimal conditions, the aptasensor showed a wide linear range from 1 to 105 ng/mL with a calculated limit of detection as low as 0.097 ng/mL and sensitivity of 600.9 µA/ng. Additionally, the selectivity of the aptasensor was assessed by identifying any interference from other pesticides, which were found to be negligible (with a maximum standard deviation of 0.31 mA). Further, the stability of the sample was assessed over time, where the reported device showed high stability over a period of two weeks at 4 °C. As the last step, the ability of the aptasensor to detect chlorpyrifos in actual samples was evaluated by testing it on banana and grape extracts. As a result, the device demonstrated sufficient recovery rates, which indicate that it can find application in the food industry.
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Affiliation(s)
- A. K. M. Sarwar Inam
- Sensing Technologies Laboratory, Faculty of Science and Technology, Free University of Bozen-Bolzano, 39100 Bolzano, Italy; (A.K.M.S.I.); (A.D.); (B.S.); (P.L.); (L.P.)
- Department of Nutrition and Food Engineering, Daffodil International University, Dhaka 1207, Bangladesh
| | - Martina Aurora Costa Angeli
- Sensing Technologies Laboratory, Faculty of Science and Technology, Free University of Bozen-Bolzano, 39100 Bolzano, Italy; (A.K.M.S.I.); (A.D.); (B.S.); (P.L.); (L.P.)
- Correspondence:
| | - Ali Douaki
- Sensing Technologies Laboratory, Faculty of Science and Technology, Free University of Bozen-Bolzano, 39100 Bolzano, Italy; (A.K.M.S.I.); (A.D.); (B.S.); (P.L.); (L.P.)
| | - Bajramshahe Shkodra
- Sensing Technologies Laboratory, Faculty of Science and Technology, Free University of Bozen-Bolzano, 39100 Bolzano, Italy; (A.K.M.S.I.); (A.D.); (B.S.); (P.L.); (L.P.)
| | - Paolo Lugli
- Sensing Technologies Laboratory, Faculty of Science and Technology, Free University of Bozen-Bolzano, 39100 Bolzano, Italy; (A.K.M.S.I.); (A.D.); (B.S.); (P.L.); (L.P.)
| | - Luisa Petti
- Sensing Technologies Laboratory, Faculty of Science and Technology, Free University of Bozen-Bolzano, 39100 Bolzano, Italy; (A.K.M.S.I.); (A.D.); (B.S.); (P.L.); (L.P.)
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13
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Wang J, Zhu L, Li T, Li X, Huang K, Xu W. Multiple functionalities of functional nucleic acids for developing high-performance lateral flow assays. Trends Analyt Chem 2022. [DOI: 10.1016/j.trac.2022.116529] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]
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14
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Li P, Zhou B, Ge M, Jing X, Yang L. Metal coordination induced SERS nanoprobe for sensitive and selective detection of histamine in serum. Talanta 2022; 237:122913. [PMID: 34736650 DOI: 10.1016/j.talanta.2021.122913] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2021] [Revised: 09/13/2021] [Accepted: 09/29/2021] [Indexed: 12/29/2022]
Abstract
Sensitivity and credibility detecting histamine (HA) as an important neurotransmitter in biofluids is of importance in analytical science and physiology. Surface-enhanced Raman spectroscopy (SERS) is able to realize the high sensitivity with single molecules level, but providing the high sensitivity for HA with a small cross section remains a challenge. Here we develop the metal complex-based SERS nanoprobe nitrilotriacetic acid-Ni2+ (NTA-Ni2+) combined with self-assemble Au NPs active substrates for sensitive detection of HA. The NTA-Ni2+ can capture the HA molecules close to Au NPs substrates and then amplify the Raman signals of HA owing to the formation of a complex of NTA-Ni2+-HA. The self-assemble Au film through the evaporation-driven method can provide the high-density hot spots substrate with high stability and reproducibility. The NTA-Ni2+ decorated Au NPs as nanoprobe responds to HA with 1 μM level of sensitivity. More importantly, the developed SERS nanoprobe composing of NTA-Ni2+ and self-assemble Au NPs can be utilized to detect and monitor the HA spiked into serum, indicating the potential prospect in analysis of HA in complex specimen.
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Affiliation(s)
- Pan Li
- Institute of Health and Medical Technology, Hefei Institute of Physical Science, Chinese Academy of Sciences, Hefei, Anhui, 230031, China
| | - Binbin Zhou
- Department of Mechanical Engineering, City University of Hong Kong, Kowloon, Hong Kong, China
| | - Meihong Ge
- Institute of Health and Medical Technology, Hefei Institute of Physical Science, Chinese Academy of Sciences, Hefei, Anhui, 230031, China
| | - Xianghong Jing
- Institute of Acupuncture and Moxibustion, China Academy of Chinese Medicine, Beijing, 100700, China.
| | - Liangbao Yang
- Institute of Health and Medical Technology, Hefei Institute of Physical Science, Chinese Academy of Sciences, Hefei, Anhui, 230031, China; Department of Pharmacy, Hefei Cancer Hospital, Chinese Academy of Sciences, Hefei, Anhui, 230031, PR China.
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16
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An Investigation into the Interaction between Double Hydroxide-Based Antioxidant Benzophenone Derivatives and Cyclooxygenase 2. Molecules 2021; 26:molecules26216622. [PMID: 34771031 PMCID: PMC8587043 DOI: 10.3390/molecules26216622] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2021] [Revised: 10/22/2021] [Accepted: 10/26/2021] [Indexed: 12/18/2022] Open
Abstract
Cyclooxygenases 2 (COX2) is a therapeutic target for many inflammation and oxidative stress associated diseases. A high-throughput technique, biolayer interferometry, was performed to primarily screen the potential COX2 binding activities of twelve newly synthesized double hydroxide-based benzophenone derivatives. Binding confirmation was achieved by molecular docking and multi-spectroscopy studies. Such a combined method provided a comprehensive understanding of binding mechanism and conformational changes. Compounds DB2, SC2 and YB2 showed effective COX2 binding activity and underlined the benefits of three phenolic hydroxyl groups adjacent to each other on the B ring. The twelve tested derivatives were further evaluated for antioxidant activity, wherein compound SC2 showed the highest activity. Its concentration for the 50% of maximal effect (EC50) value was approximately 1000 times greater than that of the positive controls. SC2 treatment effectively improved biochemical indicators caused by oxidative stress. Overall, compound SC2 could serve as a promising candidate for further development of a new potent COX2 inhibitor.
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17
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Study on the binding mode of aptamer to ampicillin and its electrochemical response behavior in two different reaction media. Anal Bioanal Chem 2021; 413:6877-6887. [PMID: 34595555 DOI: 10.1007/s00216-021-03646-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2021] [Revised: 08/30/2021] [Accepted: 09/01/2021] [Indexed: 10/20/2022]
Abstract
A study was carried out to investigate the binding mode of aptamer to ampicillin (AMP) and its electrochemical response behavior. The binding mode was confirmed using the molecular dynamics (MD) simulation method to obtain the corresponding binding dynamic change process. Following the confirmed binding mode, a qualitative elucidation was provided on the electrochemical response characteristics of a single-probe aptamer-based folding sensor. The results show that there exist two different binding modes in two different solution systems, Phys2 and H2O (0.1 M NaCl). These two binding modes can respectively induce two different contraction changes, thereby driving the methylene blue (MB)-modified aptamer probe to show a "close-to-interface" convergence behavior with different degrees on the actual electrode surface, which validates two apparently different electrochemical response behavior characteristics of "signal-on" for the sensor. By contrast, H2O (0.1 M NaCl) as the reaction medium is more conducive to the formation of a stable aptamer/AMP complex and the development of a high-sensitivity analytical method with a low detection limit of 0.033 μM. The simulation results effectively support the experimental results, which is helpful in gaining a deeper understanding of the relationship between the signaling mechanism and practical analytical performance for aptamer-based folding sensors at the molecular level.
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Daems E, Moro G, Campos R, De Wael K. Mapping the gaps in chemical analysis for the characterisation of aptamer-target interactions. Trends Analyt Chem 2021. [DOI: 10.1016/j.trac.2021.116311] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
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Ma P, Guo H, Duan N, Ma X, Yue L, Gu Q, Wang Z. Label free structure-switching fluorescence polarization detection of chloramphenicol with truncated aptamer. Talanta 2021; 230:122349. [PMID: 33934798 DOI: 10.1016/j.talanta.2021.122349] [Citation(s) in RCA: 33] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/17/2021] [Revised: 03/02/2021] [Accepted: 03/18/2021] [Indexed: 12/18/2022]
Abstract
In this study, the original chloramphenicol aptamer containing 80 bases was truncated to 30 bases with high affinity by the SYBR Green I assay. It was found that the ionic strength and type affect the recognition of aptamers, especially magnesium ion played a vital role in the binding process. Furthermore, the binding performance of aptamer, including binding mode, key binding sites and conformational changes were further investigated by circular dichroism spectroscopy, UV-vis absorption spectrum and molecular docking. Based on these research data, we inferred that chloramphenicol bound to the minor groove region in the aptamer double helix. Finally, the optimized aptamer LLR10 was used to develop a novel label free fluorescence polarization assay to detect chloramphenicol within SYBR Green I as the source of fluorescence polarization signal. Under optimal conditions, the designed method showed a linear detection range of 0.1-10 nM with a detection limit of 0.06 nM. Additionally, the aptasensor exhibited a high accuracy to the detection of chloramphenicol in milk samples with a recovery rate from 93.7% to 98.4%. Therefore, the developed label free fluorescence polarization aptasensor provides a new idea for the rapid, reliable and sensitive detection of chloramphenicol, which can be applied to food safety control.
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Affiliation(s)
- Pengfei Ma
- State Key Laboratory of Food Science and Technology, Jiangnan University, Wuxi, 214122, China; School of Food Science and Technology, Jiangnan University, Wuxi, 214122, China; International Joint Laboratory on Food Safety, Jiangnan University, Wuxi, 214122, China
| | - Hualin Guo
- State Key Laboratory of Food Science and Technology, Jiangnan University, Wuxi, 214122, China; School of Food Science and Technology, Jiangnan University, Wuxi, 214122, China; International Joint Laboratory on Food Safety, Jiangnan University, Wuxi, 214122, China
| | - Nuo Duan
- State Key Laboratory of Food Science and Technology, Jiangnan University, Wuxi, 214122, China; School of Food Science and Technology, Jiangnan University, Wuxi, 214122, China; International Joint Laboratory on Food Safety, Jiangnan University, Wuxi, 214122, China
| | - Xiaoyuan Ma
- State Key Laboratory of Food Science and Technology, Jiangnan University, Wuxi, 214122, China; School of Food Science and Technology, Jiangnan University, Wuxi, 214122, China; International Joint Laboratory on Food Safety, Jiangnan University, Wuxi, 214122, China
| | - Lin Yue
- State Key Laboratory of Food Science and Technology, Jiangnan University, Wuxi, 214122, China; School of Food Science and Technology, Jiangnan University, Wuxi, 214122, China; International Joint Laboratory on Food Safety, Jiangnan University, Wuxi, 214122, China
| | - Qianhui Gu
- State Key Laboratory of Food Science and Technology, Jiangnan University, Wuxi, 214122, China; School of Food Science and Technology, Jiangnan University, Wuxi, 214122, China; Three Squirrels Inc., Wuhu, 241000, China
| | - Zhouping Wang
- State Key Laboratory of Food Science and Technology, Jiangnan University, Wuxi, 214122, China; School of Food Science and Technology, Jiangnan University, Wuxi, 214122, China; National Engineering Research Center for Functional Food, Jiangnan University, Wuxi, Jiangsu, 214122, China; International Joint Laboratory on Food Safety, Jiangnan University, Wuxi, 214122, China; Collaborative Innovation Center of Food Safety and Quality Control of Jiangsu Province, Jiangnan University, Wuxi, 214122, China.
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Qin M, Ma X, Fan S, Wu H, Yan W, Tian X, Lu J, Lyu M, Wang S. Rapid detection of Pseudomonas aeruginosa using a DNAzyme-based sensor. Food Sci Nutr 2021; 9:3873-3884. [PMID: 34262744 PMCID: PMC8269565 DOI: 10.1002/fsn3.2367] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2021] [Revised: 05/15/2021] [Accepted: 05/17/2021] [Indexed: 11/22/2022] Open
Abstract
In the present study, a DNAzyme was screened in vitro through the use of a DNA library and crude extracellular mixture (CEM) of Pseudomonas aeruginosa. Following eight rounds of selection, a DNAzyme termed PAE-1 was obtained, which displayed high rates of cleavage with strong specificity. A fluorescent biosensor was designed for the detection of P. aeruginosa in combination with the DNAzyme. A detection limit as low as 1.2 cfu/ml was observed. Using proteases and filtration, it was determined that the target was a protein with a molecular weight of 10 kDa-50 kDa. The DNAzyme was combined with a polystyrene board to construct a simple indicator plate sensor which produced a color that identified the target within 10 min. The results were reliable when tap water and food samples were tested. The present study provides a novel experimental strategy for the development of sensors based on a DNAzyme to rapidly detect P. aeruginosa in the field.
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Affiliation(s)
- Mingcan Qin
- Jiangsu Key Laboratory of Marine Bioresources and Environment/Jiangsu Key Laboratory of Marine BiotechnologyJiangsu Ocean UniversityLianyungangChina
- Co‐Innovation Center of Jiangsu Marine Bio‐industry TechnologyJiangsu Ocean UniversityLianyungangChina
- Jiangsu Marine Resources Development Research InstituteLianyungangChina
| | - Xiaoyi Ma
- Jiangsu Key Laboratory of Marine Bioresources and Environment/Jiangsu Key Laboratory of Marine BiotechnologyJiangsu Ocean UniversityLianyungangChina
- Co‐Innovation Center of Jiangsu Marine Bio‐industry TechnologyJiangsu Ocean UniversityLianyungangChina
- Jiangsu Marine Resources Development Research InstituteLianyungangChina
| | - Shihui Fan
- Jiangsu Key Laboratory of Marine Bioresources and Environment/Jiangsu Key Laboratory of Marine BiotechnologyJiangsu Ocean UniversityLianyungangChina
- Co‐Innovation Center of Jiangsu Marine Bio‐industry TechnologyJiangsu Ocean UniversityLianyungangChina
- Jiangsu Marine Resources Development Research InstituteLianyungangChina
| | - Hangjie Wu
- Jiangsu Key Laboratory of Marine Bioresources and Environment/Jiangsu Key Laboratory of Marine BiotechnologyJiangsu Ocean UniversityLianyungangChina
- Co‐Innovation Center of Jiangsu Marine Bio‐industry TechnologyJiangsu Ocean UniversityLianyungangChina
- Jiangsu Marine Resources Development Research InstituteLianyungangChina
| | - Wanli Yan
- Jiangsu Key Laboratory of Marine Bioresources and Environment/Jiangsu Key Laboratory of Marine BiotechnologyJiangsu Ocean UniversityLianyungangChina
- Co‐Innovation Center of Jiangsu Marine Bio‐industry TechnologyJiangsu Ocean UniversityLianyungangChina
- Jiangsu Marine Resources Development Research InstituteLianyungangChina
| | - Xiaopeng Tian
- Jiangsu Key Laboratory of Marine Bioresources and Environment/Jiangsu Key Laboratory of Marine BiotechnologyJiangsu Ocean UniversityLianyungangChina
- Co‐Innovation Center of Jiangsu Marine Bio‐industry TechnologyJiangsu Ocean UniversityLianyungangChina
- Jiangsu Marine Resources Development Research InstituteLianyungangChina
| | - Jing Lu
- Jiangsu Key Laboratory of Marine Bioresources and Environment/Jiangsu Key Laboratory of Marine BiotechnologyJiangsu Ocean UniversityLianyungangChina
- Co‐Innovation Center of Jiangsu Marine Bio‐industry TechnologyJiangsu Ocean UniversityLianyungangChina
- Jiangsu Marine Resources Development Research InstituteLianyungangChina
| | - Mingsheng Lyu
- Jiangsu Key Laboratory of Marine Bioresources and Environment/Jiangsu Key Laboratory of Marine BiotechnologyJiangsu Ocean UniversityLianyungangChina
- Co‐Innovation Center of Jiangsu Marine Bio‐industry TechnologyJiangsu Ocean UniversityLianyungangChina
- Jiangsu Marine Resources Development Research InstituteLianyungangChina
| | - Shujun Wang
- Jiangsu Key Laboratory of Marine Bioresources and Environment/Jiangsu Key Laboratory of Marine BiotechnologyJiangsu Ocean UniversityLianyungangChina
- Co‐Innovation Center of Jiangsu Marine Bio‐industry TechnologyJiangsu Ocean UniversityLianyungangChina
- Jiangsu Marine Resources Development Research InstituteLianyungangChina
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21
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Zhu W, Hutchison JA, Dong M, Li M. Frequency Shift Surface-Enhanced Raman Spectroscopy Sensing: An Ultrasensitive Multiplex Assay for Biomarkers in Human Health. ACS Sens 2021; 6:1704-1716. [PMID: 33939402 DOI: 10.1021/acssensors.1c00393] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023]
Abstract
The sensitive and selective detection of biomarkers for human health remains one of the grand challenges of the analytical sciences. Compared to established methods (colorimetric, (chemi) luminescent), surface-enhanced Raman spectroscopy (SERS) is an emerging alternative with enormous potential for ultrasensitive biological detection. Indeed even attomolar (10-18 M) detection limits are possible for SERS due to an orders-of-magnitude boosting of Raman signals at the surface of metallic nanostructures by surface plasmons. However, challenges remain for SERS assays of large biomolecules, as the largest enhancements require the biomarker to enter a "hot spot" nanogap between metal nanostructures. The frequency-shift SERS method has gained popularity in recent years as an alternative assay that overcomes this drawback. It measures frequency shifts in intense SERS peaks of a Raman reporter during binding events on biomolecules (protein coupling, DNA hybridization, etc.) driven by mechanical transduction, charge transfer, or local electric field effects. As such, it retains the excellent multiplexing capability of SERS, with multiple analytes being identifiable by a spectral fingerprint in a single read-out. Meanwhile, like refractive index surface plasmon resonance methods, frequency-shift SERS measures the shift of an intense signal rather than resolving a peak above noise, easing spectroscopic resolution requirements. SERS frequency-shift assays have proved particularly suitable for sensing large, highly charged biomolecules that alter hydrogen-bonding networks upon specific binding. Herein we discuss the frequency-shift SERS method and promising applications in (multiplex) biomarker sensing as well as extensions to ion and gas sensing and much more.
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Affiliation(s)
- Wenfeng Zhu
- CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety, Institute of High Energy Physics, the Chinese Academy of Sciences, Beijing 100049, China
- Department of Biochemistry and Molecular Biology, Institute of Basic Medical Sciences, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing 100005, China
| | - James Andell Hutchison
- School of Chemistry, University of Melbourne, 30 Flemington Road, Parkville 3052, Victoria, Australia
| | - Mingdong Dong
- Interdisciplinary Nanoscience Center, Aarhus University, Aarhus C 8000, Denmark
| | - Min Li
- CAS Key Laboratory for Biomedical Effects of Nanomaterials and Nanosafety, Institute of High Energy Physics, the Chinese Academy of Sciences, Beijing 100049, China
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Hu D, Xu X, Zhao Z, Li C, Tian Y, Liu Q, Shao B, Chen S, Zhao Y, Li L, Bi H, Chen A, Fu C, Cui X, Zeng Y. Detecting urine metabolites of bladder cancer by surface-enhanced Raman spectroscopy. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2021; 247:119108. [PMID: 33161263 DOI: 10.1016/j.saa.2020.119108] [Citation(s) in RCA: 23] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/27/2020] [Revised: 10/10/2020] [Accepted: 10/13/2020] [Indexed: 05/20/2023]
Abstract
AIM Metabolites present in urine reflect the current phenotype of the cancer state. Surface-enhanced Raman spectroscopy (SERS) can be used in urine supernatant or sediment to largely reflect the metabolic status of the body. MATERIALS & METHODS SERS was performed to detect bladder cancer (BCa) and predict tumour grade from urine supernatant, which contains various system metabolites, as well as from urine sediment, which contains exfoliated tumour cells. RESULTS & DISCUSSION Upon combining the urinary supernatant and sediment results, the total diagnostic sensitivity and specificity of SERS were 100% and 98.85%, respectively, for high-grade tumours and 97.53% and 90.80%, respectively, for low-grade tumours. CONCLUSION The present results suggest high potential for SERS to detect BCa from urine, especially when combining both urinary supernatant and sediment results.
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Affiliation(s)
- Dayu Hu
- College of Medicine and Biological Information Engineering, Northeastern University, No. 500 Wisdom Street, Shenyang 110169, China
| | - Xiaosong Xu
- College of Medicine and Biological Information Engineering, Northeastern University, No. 500 Wisdom Street, Shenyang 110169, China
| | - Zeyin Zhao
- College of Medicine and Biological Information Engineering, Northeastern University, No. 500 Wisdom Street, Shenyang 110169, China
| | - Changqi Li
- Department of Urology, Cancer Hospital of China Medical University, Liaoning Cancer Hospital & Institute, 44 Xiaoheyan Road, Shenyang, Liaoning 110042, China
| | - Ye Tian
- College of Medicine and Biological Information Engineering, Northeastern University, No. 500 Wisdom Street, Shenyang 110169, China
| | - Qiang Liu
- Department of Urology, Cancer Hospital of China Medical University, Liaoning Cancer Hospital & Institute, 44 Xiaoheyan Road, Shenyang, Liaoning 110042, China
| | - Bo Shao
- Department of Urology, Cancer Hospital of China Medical University, Liaoning Cancer Hospital & Institute, 44 Xiaoheyan Road, Shenyang, Liaoning 110042, China
| | - Shuo Chen
- College of Medicine and Biological Information Engineering, Northeastern University, No. 500 Wisdom Street, Shenyang 110169, China; Key Laboratory of Data Analytics and Optimization for Smart Industry, Northeastern University, Wenhua Road, Shenyang 110819, China
| | - Yue Zhao
- College of Medicine and Biological Information Engineering, Northeastern University, No. 500 Wisdom Street, Shenyang 110169, China
| | - Ling Li
- Department of Urology, Cancer Hospital of China Medical University, Liaoning Cancer Hospital & Institute, 44 Xiaoheyan Road, Shenyang, Liaoning 110042, China
| | - Huan Bi
- Department of Urology, Cancer Hospital of China Medical University, Liaoning Cancer Hospital & Institute, 44 Xiaoheyan Road, Shenyang, Liaoning 110042, China
| | - Ang Chen
- Department of Urology, Cancer Hospital of China Medical University, Liaoning Cancer Hospital & Institute, 44 Xiaoheyan Road, Shenyang, Liaoning 110042, China
| | - Cheng Fu
- Department of Urology, Cancer Hospital of China Medical University, Liaoning Cancer Hospital & Institute, 44 Xiaoheyan Road, Shenyang, Liaoning 110042, China
| | - Xiaoyu Cui
- College of Medicine and Biological Information Engineering, Northeastern University, No. 500 Wisdom Street, Shenyang 110169, China; Key Laboratory of Data Analytics and Optimization for Smart Industry, Northeastern University, Wenhua Road, Shenyang 110819, China.
| | - Yu Zeng
- Department of Urology, Cancer Hospital of China Medical University, Liaoning Cancer Hospital & Institute, 44 Xiaoheyan Road, Shenyang, Liaoning 110042, China.
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