1
|
Yang J, Liang Y, Li X, Zhang Y, Qian L, Ke Y, Zhang C. A Spatially Programmable DNA Nanorobot Arm to Modulate Anisotropic Gold Nanoparticle Assembly by Enzymatic Excision. Angew Chem Int Ed Engl 2023; 62:e202308797. [PMID: 37691009 DOI: 10.1002/anie.202308797] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2023] [Revised: 09/06/2023] [Accepted: 09/07/2023] [Indexed: 09/12/2023]
Abstract
Programmable assembly of gold nanoparticle superstructures with precise spatial arrangement has drawn much attention for their unique characteristics in plasmonics and biomedicine. Bio-inspired methods have already provided programmable, molecular approaches to direct AuNP assemblies using biopolymers. The existing methods, however, predominantly use DNA as scaffolds to directly guide the AuNP interactions to produce intended superstructures. New paradigms for regulating AuNP assembly will greatly enrich the toolbox for DNA-directed AuNP manipulation and fabrication. Here, we developed a strategy of using a spatially programmable enzymatic nanorobot arm to modulate anisotropic DNA surface modifications and assembly of AuNPs. Through spatial controls of the proximity of the reactants, the locations of the modifications were precisely regulated. We demonstrated the control of the modifications on a single 15 nm AuNP, as well as on a rectangular DNA origami platform, to direct unique anisotropic AuNP assemblies. This method adds an alternative enzymatic manipulation to DNA-directed AuNP superstructure assembly.
Collapse
Affiliation(s)
- Jing Yang
- School of Computer Science, Key Lab of High Confidence Software Technologies, Peking University, Beijing, 100871, China
- School of Control and Computer Engineering, North China Electric Power University, Beijing, 102206, China
| | - Yuan Liang
- School of Computer Science, Key Lab of High Confidence Software Technologies, Peking University, Beijing, 100871, China
- School of Control and Computer Engineering, North China Electric Power University, Beijing, 102206, China
- Center for Quantitative Biology, Peking University, Beijing, 100871, China
| | - Xiang Li
- School of Control and Computer Engineering, North China Electric Power University, Beijing, 102206, China
| | - Yongpeng Zhang
- School of Control and Computer Engineering, North China Electric Power University, Beijing, 102206, China
| | - Long Qian
- Center for Quantitative Biology, Peking University, Beijing, 100871, China
| | - Yonggang Ke
- Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, Emory University School of Medicine, Atlanta, GA 30322, USA
- Department of Chemistry, Emory University, Atlanta, GA, 30322, USA
| | - Cheng Zhang
- School of Computer Science, Key Lab of High Confidence Software Technologies, Peking University, Beijing, 100871, China
- Center for Quantitative Biology, Peking University, Beijing, 100871, China
| |
Collapse
|
2
|
Jamal RB, Vitasovic T, Gosewinkel U, Ferapontova EE. Detection of E.coli 23S rRNA by electrocatalytic "off-on" DNA beacon assay with femtomolar sensitivity. Biosens Bioelectron 2023; 228:115214. [PMID: 36906990 DOI: 10.1016/j.bios.2023.115214] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2022] [Revised: 02/27/2023] [Accepted: 03/06/2023] [Indexed: 03/09/2023]
Abstract
Prevention of food spoilage, environmental bio-contamination, and pathogenic infections requires rapid and sensitive bacterial detection systems. Among microbial communities, the bacterial strain of Escherichia coli is most widespread, with pathogenic and non-pathogenic strains being biomarkers of bacterial contamination. Here, we have developed a fM-sensitive, simple, and robust electrocatalytically-amplified assay facilitating specific detection of E.coli 23S ribosomal rRNA, in the total RNA sample, after its site-specific cleavage by RNase H enzyme. Gold screen-printed electrodes (SPE) were electrochemically pre-treated to be productively modified with a methylene-blue (MB) - labelled hairpin DNA probes, which hybridization with the E. coli-specific DNA placed MB in the top region of the DNA duplex. The formed duplex acted as an electrical wire, mediating electron transfer from the gold electrode to the DNA-intercalated MB, and further to ferricyanide in solution, enabling its electrocatalytic reduction otherwise impeded on the hairpin-modified SPEs. The assay facilitated 20 min 1 fM detection of both synthetic E. coli DNA and 23S rRNA isolated from E.coli (equivalent to 15 CFU mL-1), and can be extended to fM analysis of nucleic acids isolated from any other bacteria.
Collapse
Affiliation(s)
- Rimsha B Jamal
- Interdisciplinary Nanoscience Center (iNANO) and Aarhus University Center for Water Technology (WATEC), Faculty of Science, Aarhus University, Gustav Wieds Vej 14, 8000, Aarhus C, Denmark
| | - Toni Vitasovic
- Interdisciplinary Nanoscience Center (iNANO) and Aarhus University Center for Water Technology (WATEC), Faculty of Science, Aarhus University, Gustav Wieds Vej 14, 8000, Aarhus C, Denmark
| | - Ulrich Gosewinkel
- Department of Environmental Science, Aarhus University, Frederiksborgvej 399, DK-4000, Roskilde, Denmark
| | - Elena E Ferapontova
- Interdisciplinary Nanoscience Center (iNANO) and Aarhus University Center for Water Technology (WATEC), Faculty of Science, Aarhus University, Gustav Wieds Vej 14, 8000, Aarhus C, Denmark.
| |
Collapse
|
3
|
Lino C, Barrias S, Chaves R, Adega F, Fernandes JR, Martins-Lopes P. Development of a QCM-based biosensor for the detection of non-small cell lung cancer biomarkers in liquid biopsies. Talanta 2023; 260:124624. [PMID: 37187027 DOI: 10.1016/j.talanta.2023.124624] [Citation(s) in RCA: 5] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2023] [Revised: 04/26/2023] [Accepted: 05/01/2023] [Indexed: 05/17/2023]
Abstract
Lung cancer is the main malignant cancer reported worldwide, with one of the lowest survival rates. Deletions in the Epidermal Growth Factor Receptor (EGFR) gene are often associated with non-small cell lung cancer (NSCLC), a common subtype of lung cancer. The detection of such mutations provides key information for the diagnosis and treatment of the disease; therefore, the early screening of such biomarkers is of vital importance. The need for fast, reliable, and early detection means applied to NSCLC has led to the development of highly sensitive devices that can detect cancer-associated mutations. Such devices, known as biosensors, are a promising alternative to more conventional detection methods and can potentially alter the way cancer is diagnosed and treated. In this study, we report the development of a DNA-based biosensor, namely a quartz crystal microbalance (QCM), applied to the detection of NSCLC, from liquid biopsies samples. The detection, as is the case of most DNA biosensors, is based on the hybridization between the NSCLC-specific probe and the sample DNA (containing specific mutations associated with NSCLC). The surface functionalization was performed with a blocking agent (dithiothreitol) and thiolated-ssDNA strands. The biosensor was able to detect specific DNA sequences in both synthetic and real samples. Aspects such as reutilization and regeneration of the QCM electrode were also studied.
Collapse
Affiliation(s)
- Catarina Lino
- DNA & RNA Sensing Lab, University of Trás-os-Montes e Alto Douro, Department of Genetics and Biotechnology, School of Life Science and Environment, Blocos Laboratoriais Bdg, 5000-801, Vila Real, Portugal; BioISI - Biosystems & Integrative Sciences Institute, University of Lisboa, Faculty of Sciences, Campo Grande, C8 Bdg, 1749-016, Lisboa, Portugal
| | - Sara Barrias
- DNA & RNA Sensing Lab, University of Trás-os-Montes e Alto Douro, Department of Genetics and Biotechnology, School of Life Science and Environment, Blocos Laboratoriais Bdg, 5000-801, Vila Real, Portugal; BioISI - Biosystems & Integrative Sciences Institute, University of Lisboa, Faculty of Sciences, Campo Grande, C8 Bdg, 1749-016, Lisboa, Portugal
| | - Raquel Chaves
- BioISI - Biosystems & Integrative Sciences Institute, University of Lisboa, Faculty of Sciences, Campo Grande, C8 Bdg, 1749-016, Lisboa, Portugal; Cytogenomics Lab, Department of Genetics and Biotechnology (DGB), University of Trás-os-Montes e Alto Douro (UTAD), Vila Real, Portugal
| | - Filomena Adega
- BioISI - Biosystems & Integrative Sciences Institute, University of Lisboa, Faculty of Sciences, Campo Grande, C8 Bdg, 1749-016, Lisboa, Portugal; Cytogenomics Lab, Department of Genetics and Biotechnology (DGB), University of Trás-os-Montes e Alto Douro (UTAD), Vila Real, Portugal
| | - José Ramiro Fernandes
- Chemical Centre - Vila Real (CQVR), Physics Department, School of Science and Technology, University of Trás-os-Montes e Alto Douro, 5000-801, Vila Real, Portugal
| | - Paula Martins-Lopes
- DNA & RNA Sensing Lab, University of Trás-os-Montes e Alto Douro, Department of Genetics and Biotechnology, School of Life Science and Environment, Blocos Laboratoriais Bdg, 5000-801, Vila Real, Portugal; BioISI - Biosystems & Integrative Sciences Institute, University of Lisboa, Faculty of Sciences, Campo Grande, C8 Bdg, 1749-016, Lisboa, Portugal.
| |
Collapse
|
4
|
Ye T, Deng B, Zhu D, Yuan M, Cao H, Hao L, Wu X, Yin F, Sun D, Zhang S, Lu Y, Xu F. Concatenated DNA Walking and Rolling Machines with Programable Interfacial Tracks for Kanamycin Detection. Microchem J 2023. [DOI: 10.1016/j.microc.2023.108551] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/24/2023]
|
5
|
Karimiravesh R, Mohabati Mobarez A, Behmanesh M, Nikkhah M, Talebi Bezmin Abadi A, Esmaeilli S. Design of an optical nanobiosensor for detection of Legionella pneumophila in water samples. IRANIAN JOURNAL OF MICROBIOLOGY 2022; 14:802-812. [PMID: 36721447 PMCID: PMC9867621 DOI: 10.18502/ijm.v14i6.11254] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Abstract
Background and Objectives Legionella spp. is a causative agent of Legionnaires' disease that creates public health problems. Isolation of these bacteria from water sources is essential to identify outbreak origins and prevent disease. Diagnostic biosensors for water quality control to protect consumers from water-borne infections can predict many outbreaks. Gold nanoparticles conjugated probes are a new generation of diagnostic tools. In this study, an optical nano biosensor was designed and characterized to detect Legionella pneumophila in water samples rapidly. Materials and Methods Thiolated probes designed for the mip gene were attached to gold nanoparticles and then water samples containing Legionella pneumophila were examined. Results The limit of detection for PCR and biosensor was 104 and 103 copy numbers/μl, respectively. Biosensor sensitivity and PCR were reported to be 90% (18 out of 20) and 85% (17 out of 20), respectively. Specificity 100% has been reported for both methods. Conclusion According to the obtained results, this method has the potential to diagnose L. pneumophila with high sensitivity and specificity. This system can be employed as a practical tool for rapid, accurate, high-sensitivity, and acceptable detection of Legionella pneumophila in contaminated water, which is cost-effective in terms of cost and time.
Collapse
Affiliation(s)
- Raheleh Karimiravesh
- Department of Bacteriology, Faculty of Medical Sciences, Tarbiat Modares University, Tehran, Iran
| | - Ashraf Mohabati Mobarez
- Department of Bacteriology, Faculty of Medical Sciences, Tarbiat Modares University, Tehran, Iran,Corresponding author: Ashraf Mohabati Mobarez, Ph.D, Department of Bacteriology, Faculty of Medical Sciences, Tarbiat Modares University, Tehran, Iran. Tel: +98-21-82883862 Fax: +98-21-82884555
| | - Mehrdad Behmanesh
- Department of Genetics, Faculty of Biological Sciences, Tarbiat Modares University, Tehran, Iran
| | - Maryam Nikkhah
- Department of Nanobiotechnology, Faculty of Biological Sciences, Tarbiat Modares University, Tehran, Iran
| | - Amin Talebi Bezmin Abadi
- Department of Bacteriology, Faculty of Medical Sciences, Tarbiat Modares University, Tehran, Iran
| | - Saber Esmaeilli
- National Reference Laboratory for Plague, Tularemia and Q fever, Research Centre for Emerging and Reemerging Infectious Diseases, Pasteur Institute of Iran, Akanlu, Kabudar Ahang, Hamadan, Iran,Department of Epidemiology and Biostatistics, Research Centre for Emerging and Reemerging Infectious Diseases, Pasteur Institute of Iran, Tehran, Iran
| |
Collapse
|
6
|
Abdussalam A, Chen Y, Yuan F, Ma X, Lou B, Xu G. Dithiothreitol-Lucigenin Chemiluminescent System for Ultrasensitive Dithiothreitol and Superoxide Dismutase Detection. Anal Chem 2022; 94:11023-11029. [PMID: 35878317 DOI: 10.1021/acs.analchem.2c01690] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
1,4-Dithiothreitol (DTT), a highly water-soluble and well-known reducing agent for preservation and regeneration of sulfhydryl groups in biomedical applications, has been developed as an efficient and stable coreactant of lucigenin for the first time. DTT efficiently reacts with lucigenin to generate intense chemiluminescence (CL), eliminating the need for external catalysts to facilitate the lucigenin CL. The DTT-lucigenin CL is approximately 15-fold more intense when compared with the lucigenin-H2O2 classical system. Superoxide dismutase (SOD) remarkably quenches the DTT-lucigenin CL. Based on this phenomenon, a newly developed CL approach for the determination of SOD was proposed with a linear range of 0.01-1.5 μg/mL and a limit of detection of 2.2 ng/mL. Various factors affecting the CL emission of the DTT-lucigenin probe were studied and optimized. Plausible mechanistic pathways for the CL coreaction of lucigenin with DTT were proposed and fully discussed. Our proposed method not only has the merit of being selective toward the target analytes but also eliminates the need for the complex synthesis of luminescent probes and facilitates the sensitive detection of SOD in human serum and cosmetics SOD raw material with satisfactory recoveries.
Collapse
Affiliation(s)
- Abubakar Abdussalam
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, 5625 Renmin Street, Changchun, Jilin 130022, PR China.,School of Applied Chemistry and Engineering, University of Science and Technology of China, 96 Jinsai Road, Hefei, Anhui 230026, P. R. China.,College of Natural and Pharmaceutical Sciences, Bayero University, PMB 3011, Kano 700006, Nigeria
| | - Yequan Chen
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, 5625 Renmin Street, Changchun, Jilin 130022, PR China
| | - Fan Yuan
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, 5625 Renmin Street, Changchun, Jilin 130022, PR China.,School of Applied Chemistry and Engineering, University of Science and Technology of China, 96 Jinsai Road, Hefei, Anhui 230026, P. R. China
| | - Xiangui Ma
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, 5625 Renmin Street, Changchun, Jilin 130022, PR China.,School of Applied Chemistry and Engineering, University of Science and Technology of China, 96 Jinsai Road, Hefei, Anhui 230026, P. R. China
| | - Baohua Lou
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, 5625 Renmin Street, Changchun, Jilin 130022, PR China
| | - Guobao Xu
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, 5625 Renmin Street, Changchun, Jilin 130022, PR China
| |
Collapse
|
7
|
Kshirsagar PG, Seshacharyulu P, Muniyan S, Rachagani S, Smith LM, Thompson C, Shah A, Mallya K, Kumar S, Jain M, Batra SK. DNA-gold nanoprobe-based integrated biosensing technology for non-invasive liquid biopsy of serum miRNA: A new frontier in prostate cancer diagnosis. NANOMEDICINE : NANOTECHNOLOGY, BIOLOGY, AND MEDICINE 2022; 43:102566. [PMID: 35569810 PMCID: PMC9942096 DOI: 10.1016/j.nano.2022.102566] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/24/2021] [Revised: 04/22/2022] [Accepted: 05/02/2022] [Indexed: 10/18/2022]
Abstract
The low specificity of prostate-specific antigen contributes to overdiagnosis and ov ertreatment of prostate cancer (PCa) patients. Hence, there is an urgent need for inclusive diagnostic platforms that could improve the diagnostic accuracy of PCa. Dysregulated miRNAs are closely associated with the progression and recurrence and have emerged as promising diagnostic and prognostic biomarkers for PCa. Nevertheless, simple, rapid, and ultrasensitive quantification of serum miRNAs is highly challenging. This study designed, synthesized, and demonstrated the practicability of DNA-linked gold nanoprobes (DNA-AuNPs) for the single-step quantification of miR-21/miR-141/miR-375. In preclinical study, the assay differented PCa Pten conditional knockout (PtencKO) mice compared to their age-matched Pten wild-type (PtenWT) control mice. In human sera, receiver operating characteristic (ROC) curve-based correlation analyses revealed clear discrimination between PCa patients from normal healthy controls using training and validation sets. Overall, we established integrated nano-biosensing technology for the PCR-free, non-invasive liquid biopsies of multiple miRNAs for PCa diagnosis.
Collapse
Affiliation(s)
- Prakash G. Kshirsagar
- Department of Biochemistry and Molecular Biology, University of Nebraska Medical Center, Omaha, Nebraska, USA
| | - Parthasarathy Seshacharyulu
- Department of Biochemistry and Molecular Biology, University of Nebraska Medical Center, Omaha, Nebraska, USA
| | - Sakthivel Muniyan
- Department of Biochemistry and Molecular Biology, University of Nebraska Medical Center, Omaha, Nebraska, USA
| | - Satyanarayan Rachagani
- Department of Biochemistry and Molecular Biology, University of Nebraska Medical Center, Omaha, Nebraska, USA
| | - Lynette M. Smith
- Department of Biostatistics, University of Nebraska Medical Center, Omaha, Nebraska, USA
| | - Christopher Thompson
- Department of Biochemistry and Molecular Biology, University of Nebraska Medical Center, Omaha, Nebraska, USA
| | - Ashu Shah
- Department of Biochemistry and Molecular Biology, University of Nebraska Medical Center, Omaha, Nebraska, USA
| | - Kavita Mallya
- Department of Biochemistry and Molecular Biology, University of Nebraska Medical Center, Omaha, Nebraska, USA
| | - Sushil Kumar
- Department of Biochemistry and Molecular Biology, University of Nebraska Medical Center, Omaha, Nebraska, USA
| | - Maneesh Jain
- Department of Biochemistry and Molecular Biology, University of Nebraska Medical Center, Omaha, NE, USA; Fred and Pamela Buffett Cancer Center, Omaha, NE, USA.
| | - Surinder K. Batra
- Department of Biochemistry and Molecular Biology, University of Nebraska Medical Center, Omaha, Nebraska, USA.,Fred and Pamela Buffett Cancer Center, Omaha, Nebraska, USA.,Eppley Institute for Research in Cancer and Allied Diseases, University of Nebraska Medical Center, Omaha, Nebraska, USA.,Corresponding authors: Surinder K. Batra, Ph.D., , Phone: 402-559-5455; Maneesh Jain, Ph.D., , Phone: 402-559-7667
| |
Collapse
|
8
|
Sensitive detection of microRNAs using polyadenine-mediated fluorescence spherical nucleic acids and a microfluidic electrokinetic signal amplification chip. J Pharm Anal 2022; 12:808-813. [PMID: 36320608 PMCID: PMC9615518 DOI: 10.1016/j.jpha.2022.05.009] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2022] [Revised: 05/24/2022] [Accepted: 05/27/2022] [Indexed: 11/21/2022] Open
Abstract
The identification of tumor-related microRNAs (miRNAs) exhibits excellent promise for the early diagnosis of cancer and other bioanalytical applications. Therefore, we developed a sensitive and efficient biosensor using polyadenine (polyA)-mediated fluorescent spherical nucleic acid (FSNA) for miRNA analysis based on strand displacement reactions on gold nanoparticle (AuNP) surfaces and electrokinetic signal amplification (ESA) on a microfluidic chip. In this FSNA, polyA-DNA biosensor was anchored on AuNP surfaces via intrinsic affinity between adenine and Au. The upright conformational polyA-DNA recognition block hybridized with 6-carboxyfluorescein-labeled reporter-DNA, resulting in fluorescence quenching of FSNA probes induced by AuNP-based resonance energy transfer. Reporter DNA was replaced in the presence of target miRNA, leading to the recovery of reporter-DNA fluorescence. Subsequently, reporter-DNAs were accumulated and detected in the front of with Nafion membrane in the microchannel by ESA. Our method showed high selectivity and sensitivity with a limit of detection of 1.3 pM. This method could also be used to detect miRNA-21 in human serum and urine samples, with recoveries of 104.0%–113.3% and 104.9%–108.0%, respectively. Furthermore, we constructed a chip with three parallel channels for the simultaneous detection of multiple tumor-related miRNAs (miRNA-21, miRNA-141, and miRNA-375), which increased the detection efficiency. Our universal method can be applied to other DNA/RNA analyses by altering recognition sequences. FSNA assisted microfluidic chip was developed for miRNAs detection. Three different miRNAs were detected simultaneously. The excellent sensitivity and specificity were displayed toward miRNAs.
Collapse
|
9
|
Alam S, Augustine S, Narayan T, Luong JHT, Malhotra BD, Khare SK. A Chemosensor Based on Gold Nanoparticles and Dithiothreitol (DTT) for Acrylamide Electroanalysis. NANOMATERIALS (BASEL, SWITZERLAND) 2021; 11:2610. [PMID: 34685051 PMCID: PMC8540553 DOI: 10.3390/nano11102610] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/21/2021] [Revised: 09/22/2021] [Accepted: 10/01/2021] [Indexed: 02/01/2023]
Abstract
Rapid and simple electroanalysis of acrylamide (ACR) was feasible by a gold electrode modified with gold nanoparticles (AuNPs) and dithiothreitol (DTT) with enhanced detection sensitivity and selectivity. The roughness of bare gold (Au) increased from 0.03 μm to 0.04 μm when it was decorated with AuNPs. The self-assembly between DTT and AuNPs resulted in a surface roughness of 0.09 μm. The DTT oxidation occurred at +0.92 V. The Au/AuNPs/DTT surface exhibited a surface roughness of 0.24 μm after its exposure to ACR with repeated analysis. SEM imaging illustrated the formation of a polymer layer on the Au/AuNPs/DTT surface. Surface plasmon resonance analysis confirmed the presence of AuNPs and DTT on the gold electrode and the binding of ACR to the electrode's active surface area. The peak area obtained by differential pulse voltammetry was inversely proportional to the ACR concentrations. The limit of detection (LOD) and the limit of quantitation (LOQ) were estimated to be 3.11 × 10-9 M and 1 × 10-8 M, respectively, with wide linearity ranging from 1 × 10-8 M to 1 × 10-3 M. The estimated levels of ACR in potato chips and coffee samples by the sensor were in agreement with those of high-performance liquid chromatography.
Collapse
Affiliation(s)
- Shahenvaz Alam
- Enzyme and Microbial Biochemistry Laboratory, Department of Chemistry, Indian Institute of Technology Delhi, Hauz Khas, New Delhi 110016, India;
| | - Shine Augustine
- Nanobioelectronic Laboratory, Department of Biotechnology, Delhi Technological University, Shahbad Daulatpur, Bawana, New Delhi 110042, India; (S.A.); (T.N.); (B.D.M.)
| | - Tarun Narayan
- Nanobioelectronic Laboratory, Department of Biotechnology, Delhi Technological University, Shahbad Daulatpur, Bawana, New Delhi 110042, India; (S.A.); (T.N.); (B.D.M.)
| | - John H. T. Luong
- School of Chemistry, University College Cork, T12 YN60 Cork, Ireland; or
| | - Bansi Dhar Malhotra
- Nanobioelectronic Laboratory, Department of Biotechnology, Delhi Technological University, Shahbad Daulatpur, Bawana, New Delhi 110042, India; (S.A.); (T.N.); (B.D.M.)
| | - Sunil K. Khare
- Enzyme and Microbial Biochemistry Laboratory, Department of Chemistry, Indian Institute of Technology Delhi, Hauz Khas, New Delhi 110016, India;
| |
Collapse
|
10
|
Fang Wong S, Mei Khor S. Differential colorimetric nanobiosensor array as bioelectronic tongue for discrimination and quantitation of multiple foodborne carcinogens. Food Chem 2021; 357:129801. [PMID: 33930694 DOI: 10.1016/j.foodchem.2021.129801] [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: 12/11/2020] [Revised: 03/30/2021] [Accepted: 03/31/2021] [Indexed: 02/08/2023]
Abstract
Foodborne amides, specifically acrylamide, are vitally important for food safety and security, as they are the most common food toxicants and suspected human carcinogens. A facile and novel differential-based colorimetric nanobiosensor array composed of three surface-bioengineered gold nanoparticles (AuNPs) was developed for the rapid detection, differentiation, and quantification of acrylamide and six analogues. Diverse cross-reactive receptors demonstrated differential binding affinities toward target analytes, resulting in distinctive AuNP aggregation behaviors and distinguishable response patterns. The sensor array, integrated with principal component analysis and hierarchical cluster analysis, accurately discriminated foodborne amides based on their amine subgroups, International Agency for Research on Cancer (IARC) carcinogen classifications, and food additive types, even at ultra-low concentrations (500 pM). Additionally, the sensor array successfully differentiated non-targeted analytes by sweetener and food ingredients types with 100% correct classification. Partial least squares regression outcomes exhibited high correlation coefficients (R2 > 0.95). Thus, the sensor array has practical potential for food safety monitoring in the food and beverage industries.
Collapse
Affiliation(s)
- Siew Fang Wong
- Department of Chemistry, Faculty of Science, University of Malaya, 50603 Kuala Lumpur, Malaysia
| | - Sook Mei Khor
- Department of Chemistry, Faculty of Science, University of Malaya, 50603 Kuala Lumpur, Malaysia; Centre for Innovation in Medical Engineering, Faculty of Engineering, University of Malaya, 50603 Kuala Lumpur, Malaysia.
| |
Collapse
|
11
|
Weaver SD, Whelan RJ. Characterization of DNA aptamer-protein binding using fluorescence anisotropy assays in low-volume, high-efficiency plates. ANALYTICAL METHODS : ADVANCING METHODS AND APPLICATIONS 2021; 13:1302-1307. [PMID: 33533761 DOI: 10.1039/d0ay02256j] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Aptamers have many useful attributes including specific binding to molecular targets. After aptamers are identified, their target binding must be characterized. Fluorescence anisotropy (FA) is one technique that can be used to characterize affinity and to optimize aptamer-target interactions. Efforts to make FA assays more efficient by reducing assay volume and time from mixing to measurement may save time and resources by minimizing consumption of costly reagents. Here, we use thrombin and two thrombin-binding aptamers as a model system to show that plate-based FA experiments can be performed in volumes as low as 2 μL per well with 20 minute incubations with minimal loss in assay precision. We demonstrate that the aptamer-thrombin interaction is best modelled with the Hill equation, indicating cooperative binding. The miniaturization of this assay has implications in drug development, as well as in the efficiency of aptamer selection workflows by allowing for higher throughput aptamer analysis.
Collapse
Affiliation(s)
- Simon D Weaver
- Integrated Biomedical Sciences Graduate Program, University of Notre Dame, Notre Dame, IN, USA
| | - Rebecca J Whelan
- Department of Chemistry and Biochemistry, University of Notre Dame, Notre Dame, IN, USA.
| |
Collapse
|
12
|
Chen X, Lisi F, Bakthavathsalam P, Longatte G, Hoque S, Tilley RD, Gooding JJ. Impact of the Coverage of Aptamers on a Nanoparticle on the Binding Equilibrium and Kinetics between Aptamer and Protein. ACS Sens 2021; 6:538-545. [PMID: 33296177 DOI: 10.1021/acssensors.0c02212] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Abstract
Knowledge of the interaction between aptamer and protein is integral to the design and development of aptamer-based biosensors. Nanoparticles functionalized with aptamers are commonly used in these kinds of sensors. As such, studies into how the number of aptamers on the nanoparticle surface influence both kinetics and thermodynamics of the binding interaction are required. In this study, aptamers specific for interferon gamma (IFN-γ) were immobilized on the surface of gold nanoparticles (AuNPs), and the effect of surface coverage of aptamer on the binding interaction with its target was investigated using fluorescence spectroscopy. The number of aptamers were adjusted from an average of 9.6 to 258 per particle. The binding isotherm between AuNPs-aptamer conjugate and protein was modeled with the Hill-Langmuir equation, and the determined equilibrium dissociation constant (K'D) decreased 10-fold when increasing the coverage of aptamer. The kinetics of the reaction as a function of coverage of aptamer were also investigated, including the association rate constant (kon) and the dissociation rate constant (koff). The AuNPs-aptamer conjugate with 258 aptamers per particle had the highest kon, while the koff was similar for AuNPs-aptamer conjugates with different surface coverages. Therefore, the surface coverage of aptamers on AuNPs affects both the thermodynamics and the kinetics of the binding. The AuNPs-aptamer conjugate with the highest surface coverage is the most favorable in biosensors considering the limit of detection, sensitivity, and response time of the assay. These findings deepen our understanding of the interaction between aptamer and target protein on the particle surface, which is important to both improve the scientific design and increase the application of aptamer-nanoparticle based biosensor.
Collapse
Affiliation(s)
- Xueqian Chen
- School of Chemistry, Australian Centre for Nanomedicine and ARC Centre of Excellence in Convergent Bio-Nano Science and Technology, University of New South Wales, Sydney, New South Wales 2052, Australia
| | - Fabio Lisi
- School of Chemistry, Australian Centre for Nanomedicine and ARC Centre of Excellence in Convergent Bio-Nano Science and Technology, University of New South Wales, Sydney, New South Wales 2052, Australia
| | - Padmavathy Bakthavathsalam
- School of Chemistry, Australian Centre for Nanomedicine and ARC Centre of Excellence in Convergent Bio-Nano Science and Technology, University of New South Wales, Sydney, New South Wales 2052, Australia
| | - Guillaume Longatte
- School of Chemistry, Australian Centre for Nanomedicine and ARC Centre of Excellence in Convergent Bio-Nano Science and Technology, University of New South Wales, Sydney, New South Wales 2052, Australia
| | - Sharmin Hoque
- School of Chemistry, Australian Centre for Nanomedicine and ARC Centre of Excellence in Convergent Bio-Nano Science and Technology, University of New South Wales, Sydney, New South Wales 2052, Australia
| | - Richard D. Tilley
- School of Chemistry and Electron Microscope Unit a Microscopy Australia Node, Mark Wainwright Analytical Centre, University of New South Wales, Sydney, New South Wales 2052, Australia
| | - J. Justin Gooding
- School of Chemistry, Australian Centre for Nanomedicine and ARC Centre of Excellence in Convergent Bio-Nano Science and Technology, University of New South Wales, Sydney, New South Wales 2052, Australia
| |
Collapse
|
13
|
Li D, Yang E, Luo Z, Xie Q, Duan Y. An enzyme-mediated universal fluorescent biosensor template for pathogen detection based on a three-dimensional DNA walker and catalyzed hairpin assembly. NANOSCALE 2021; 13:2492-2501. [PMID: 33471006 DOI: 10.1039/d0nr07593k] [Citation(s) in RCA: 18] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
An enzyme-mediated universal fluorescent biosensor template for rapid detection of pathogens was developed based on the strategy of a three-dimensional (3D) DNA walker and catalyzed hairpin assembly (CHA) reaction. In the bacterial recognition step, a strand displacement reaction between bacteria and the double-stranded complex caused the release of the walker strand. The walker strand triggered the DNA walker to produce an enzyme fragment, and the DNA walker used gold nanoparticles (AuNPs) as the track to provide an excellent DNA ligand anchoring area. In the CHA step, the enzyme fragment induced the CHA cycle to yield fluorescence signals, which greatly enhanced the conversion ratio of trigger DNA and the sensitivity of the fluorescent biosensor. The effect of the distance and density of the DNA ligand was studied by adjusting the length of poly-adenine (PolyA), and was further explored by its reaction kinetics. By comparing the maximum reaction rate (Vmax), Michaelis constant (Km) and turnover number (Kcat), the optimized PolyA probe was assessed and identified. In this work, the optimized PolyA-DNA probe exhibited an outstanding sensitivity in Salmonella typhimurium (S. ty) detection, which is 11.9 times and 4.6 times higher than those of the SH-DNA and the MCH treated SH-DNA. Meanwhile, a detection limit of 28.1 CFU mL-1 was achieved in Escherichia coli (E. coli) detection. Furthermore, the biosensor achieved good selectivity and high repeatability with recoveries of 91%-115% for real sample detection. Considering these advantages, this template has great potential as a routine tool for pathogen detection and has wide applications in the field of global public health and food safety.
Collapse
Affiliation(s)
- Dan Li
- Research Center of Analytical Instrumentation, Key Laboratory of Bio-Resource and Eco-Environment, Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, Sichuan, P.R. China.
| | - Enlai Yang
- Research Center of Analytical Instrumentation, Key Laboratory of Bio-Resource and Eco-Environment, Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, Sichuan, P.R. China.
| | - Zewei Luo
- Research Center of Analytical Instrumentation, Key Laboratory of Synthetic and Natural Functional Molecule Chemistry of Ministry of Education, College of Chemistry & Materials Science, Northwest University, Xi'an 710069, Shaanxi, P.R. China
| | - Qiyue Xie
- Research Center of Analytical Instrumentation, Key Laboratory of Bio-Resource and Eco-Environment, Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, Sichuan, P.R. China.
| | - Yixiang Duan
- Research Center of Analytical Instrumentation, Key Laboratory of Bio-Resource and Eco-Environment, Ministry of Education, College of Life Sciences, Sichuan University, Chengdu 610065, Sichuan, P.R. China.
| |
Collapse
|
14
|
Armstrong RE, Horáček M, Zijlstra P. Plasmonic Assemblies for Real-Time Single-Molecule Biosensing. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2020; 16:e2003934. [PMID: 33258287 DOI: 10.1002/smll.202003934] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/29/2020] [Revised: 10/09/2020] [Indexed: 05/11/2023]
Abstract
Their tunable optical properties and versatile surface functionalization have sparked applications of plasmonic assemblies in the fields of biosensing, nonlinear optics, and photonics. Particularly, in the field of biosensing, rapid advances have occurred in the use of plasmonic assemblies for real-time single-molecule sensing. Compared to individual particles, the use of assemblies as sensors provides stronger signals, more control over the optical properties, and access to a broader range of timescales. In the past years, they have been used to directly reveal single-molecule interactions, mechanical properties, and conformational dynamics. This review summarizes the development of real-time single-molecule sensors built around plasmonic assemblies. First, a brief overview of their optical properties is given, and then recent applications are described. The current challenges in the field and suggestions to overcome those challenges are discussed in detail. Their stability, specificity, and sensitivity as sensors provide a complementary approach to other single-molecule techniques like force spectroscopy and single-molecule fluorescence. In future applications, the impact in real-time sensing on ultralong timescales (hours) and ultrashort timescales (sub-millisecond), time windows that are difficult to access using other techniques, is particularly foreseen.
Collapse
Affiliation(s)
- Rachel E Armstrong
- Department of Applied Physics & Institute for Complex Molecular Systems, Eindhoven University of Technology, Postbus 513, Eindhoven, MB, 5600, the Netherlands
| | - Matěj Horáček
- Department of Applied Physics & Institute for Complex Molecular Systems, Eindhoven University of Technology, Postbus 513, Eindhoven, MB, 5600, the Netherlands
| | - Peter Zijlstra
- Department of Applied Physics & Institute for Complex Molecular Systems, Eindhoven University of Technology, Postbus 513, Eindhoven, MB, 5600, the Netherlands
| |
Collapse
|
15
|
A novel surface-enhanced Raman scattering (SERS) strategy for ultrasensitive detection of bacteria based on three-dimensional (3D) DNA walker. Biosens Bioelectron 2020; 172:112758. [PMID: 33157406 DOI: 10.1016/j.bios.2020.112758] [Citation(s) in RCA: 49] [Impact Index Per Article: 12.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2020] [Revised: 10/21/2020] [Accepted: 10/21/2020] [Indexed: 02/08/2023]
Abstract
Bacteria seriously endanger human life and health, and the detection of bacteria is vital for the prevention and treatment of related diseases. Surface-enhanced Raman scattering (SERS) is considered as a powerful technique for bacterial detection due to the inherent richness of spectral data. In this work, a novel SERS strategy based on three-dimensional (3D) DNA walker was developed for quantitative analysis of Salmonella typhimurium (S. ty). The complimentary DNA of S.ty-recognizing aptamer (cApt) was replaced from the double-stranded DNA (dsDNA) of Apt@cApt in the presence of S.ty, which can trigger the endonuclease mediated "DNA walker" on the surface of gold modified magnetic nanoparticles (AuMNPs). The DNA residues on the surface of AuMNPs can bind to SERS tag through base complementary pairing, and the complex of "AuMNPs@SERS tag" can be separated from the fluid by an external magnetic field for SERS analysis. It was found that the SERS intensity showed a good linear relationship with both lower (10-104 CFU/mL) and higher (104-106 CFU/mL) S.ty concentration. A superior limit of detection (LOD) as low as 4 CFU/mL was achieved due to the signal amplification effect of "DNA walker", and the preeminent selectivity of the proposed method was determined by the selectivity of the aptamer sequence. This strategy of separating the SERS tag from the biological matrix enables high stability and good repeatability of the SERS spectra, which presents a new method for SERS detection of biomaterials that can benefit various application scenarios.
Collapse
|
16
|
Zhang L, Wei Z, Liu P. An all-solid-state NO3- ion-selective electrode with gold nanoparticles solid contact layer and molecularly imprinted polymer membrane. PLoS One 2020; 15:e0240173. [PMID: 33057369 PMCID: PMC7561137 DOI: 10.1371/journal.pone.0240173] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2020] [Accepted: 09/21/2020] [Indexed: 11/26/2022] Open
Abstract
To improve the single-layer all-solid-state ion selective electrode' defects including poor conductivity of PVC sensitive membrane and interference of water layer between substrate electrode and sensitive membrane, a double-layer all-solid-state ion selective electrode with nanomaterial as the solid contact layer and conductive polymer as the ion sensitive membrane was developed. A gold nanoparticles solid contact layer and a nitrate-doped polypyrrole molecularly imprinted polymer membrane were prepared by electrodeposition. The optimal parameters obtained by electrochemical performance test were 2.5 mmol/L HAuCl4 electrolyte for solid contact layer and 1800s electrodeposition time for sensitive membrane. The new electrode exhibited a Nernstian response of -50.4 mV/decade and a low detection limit of 5.25×10-5mol/L. Potentiometric water layer test showed no water film formed between the gold nanoparticles solid contact layer and nitrate-doped polypyrrole molecularly imprinted polymer membrane. The contact angle between droplet and the surface of solid contact layer was 112.35° and showed good hydrophobic property. Furthermore, the developed electrode exhibited fast response, excellent potential stability and long lifetime. This electrode is suitable for the detection of nitrate concentration in water and liquid fertilizer.
Collapse
Affiliation(s)
- Lei Zhang
- State Key Lab for Manufacturing System Engineering, Xi’an Jiaotong University, Xi’an, China
| | - Zhengying Wei
- State Key Lab for Manufacturing System Engineering, Xi’an Jiaotong University, Xi’an, China
| | - Pengcheng Liu
- State Key Lab for Manufacturing System Engineering, Xi’an Jiaotong University, Xi’an, China
| |
Collapse
|
17
|
Li D, Luo Z, An H, Yang E, Wu M, Huang Z, Duan Y. Poly-adenine regulated DNA density on AuNPs to construct efficient DNA walker for microRNA-21 detection. Talanta 2020; 217:121056. [PMID: 32498903 DOI: 10.1016/j.talanta.2020.121056] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/29/2019] [Revised: 04/13/2020] [Accepted: 04/16/2020] [Indexed: 12/16/2022]
Abstract
DNA-modified gold nanoparticles (AuNPs) are useful nanomaterials for detecting multiple molecules. However, their performance is greatly dependent on the density of probe DNA on the surface of AuNPs. Here, we used Poly-adenine (PolyA) to regulate the surface density of probe DNA to achieve a highly efficient DNA walking biosensor system to detection miRNA-21. The movement track of the biosensor system consists of PolyA-DNA probe was connected to AuNPs, and exonuclease III (Exo III) acted as a motor driving the walker movement to achieve signal amplification. By optimizing the length of PolyA, the surface density of probe DNA was changed, thereby affecting the target binding and enzymatic processing of the bound probes, which ultimately enhanced the sensitivity and reduced timeliness of the DNA walker. Furthermore, the designed PolyA-DNA probe exhibits an outstanding sensitivity, due to the effect of density regulation, which is 7.9 times and 11.1 times lower than those of the SH-DNA and the free-DNA, respectively. In addition, the hairpin structure of DNA probe locates fluorophore at a zone adjacent to AuNPs surface, which reduces the background signal by 1.1 times compared with traditional straight probe. In this work, the biosensor system shows a high selectivity towards miRNA-21. Moreover, the biosensor system has been demonstrated to be potentially useful for the miRNA-21 detection in human serum with the recoveries of 93.2%-110.0% and has high repeatability. Considering these advantages, this PolyA-regulated DNA walking biosensor system has great potential as a routine tool for miRNA detection and has wide applications in the field of biomedical analysis.
Collapse
Affiliation(s)
- Dan Li
- Research Center of Analytical Instrumentation, Key Laboratory of Bio-resource and Eco-environment, Ministry of Education, College of Life Science, Sichuan University, Chengdu, 610065, Sichuan, PR China
| | - Zewei Luo
- Research Center of Analytical Instrumentation, Key Laboratory of Synthetic and Natural Functional Molecule Chemistry of Ministry of Education, College of Chemistry & Materials Science, Northwest University, Xi'an, 710069, Shanxi, PR China
| | - Huifang An
- Research Center of Analytical Instrumentation, Key Laboratory of Bio-resource and Eco-environment, Ministry of Education, College of Life Science, Sichuan University, Chengdu, 610065, Sichuan, PR China
| | - Enlai Yang
- Research Center of Analytical Instrumentation, Key Laboratory of Bio-resource and Eco-environment, Ministry of Education, College of Life Science, Sichuan University, Chengdu, 610065, Sichuan, PR China
| | - Mengfan Wu
- Research Center of Analytical Instrumentation, Key Laboratory of Bio-resource and Eco-environment, Ministry of Education, College of Life Science, Sichuan University, Chengdu, 610065, Sichuan, PR China
| | - Zhijun Huang
- Research Center of Analytical Instrumentation, Key Laboratory of Synthetic and Natural Functional Molecule Chemistry of Ministry of Education, College of Chemistry & Materials Science, Northwest University, Xi'an, 710069, Shanxi, PR China
| | - Yixiang Duan
- Research Center of Analytical Instrumentation, Key Laboratory of Bio-resource and Eco-environment, Ministry of Education, College of Life Science, Sichuan University, Chengdu, 610065, Sichuan, PR China.
| |
Collapse
|
18
|
An analytical method to control the surface density and stability of DNA-gold nanoparticles for an optimized biosensor. Colloids Surf B Biointerfaces 2020; 187:110650. [DOI: 10.1016/j.colsurfb.2019.110650] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2019] [Revised: 11/15/2019] [Accepted: 11/16/2019] [Indexed: 12/17/2022]
|
19
|
Liu Z, Wang H. An antifouling interface integrated with HRP-based amplification to achieve a highly sensitive electrochemical aptasensor for lysozyme detection. Analyst 2019; 144:5794-5801. [PMID: 31464300 DOI: 10.1039/c9an01430f] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
We report here a highly sensitive sandwich type electrochemical aptasensor for lysozyme (lys) detection by the integration of an antifouling interface with HRP-based signal amplification. The biosensing interface with antifouling ability is designed, consisting of a lys-binding aptamer (LBA), dithiothreitol (DTT) and mercaptohexanol (MCH). When lys is captured by the immobilized LBA due to the specific recognition of the aptamer, gold nanoparticles (AuNPs) functionalized with HRP and LBA (HRP-AuNP-LBA) are further conjugated to the surface-bound lys, forming a sandwich assay format. HRP catalyzes the chemical oxidation of hydroquinone (HQ) by hydrogen peroxide (H2O2) to produce benzoquinone (BQ) which results in a large electrochemical reduction signal of BQ. Therefore, this reduction signal measured by differential pulse voltammetry (DPV) is used to detect lys. The catalytic behavior of HRP toward the reaction between HQ and H2O2, together with the high loading of HRP on AuNPs, remarkably amplifies the signal. A linear relationship between the DPV response and the logarithm of lys concentration from 0.01 pg mL-1 to 105 pg mL-1 with a detection limit of 0.003 pg mL-1 (S/N = 3) is obtained. The proposed biosensing platform combines antifouling ability and signal amplification, resulting in high sensitivity, providing an effective way for ultrasensitive assay of protein biomarkers in complex media.
Collapse
Affiliation(s)
- Zimeng Liu
- College of Chemistry and Materials Science, Editorial Department of Journal of Anhui Normal University, Anhui Normal University, Wuhu 241000, P. R. China.
| | - Haiyan Wang
- College of Chemistry and Materials Science, Editorial Department of Journal of Anhui Normal University, Anhui Normal University, Wuhu 241000, P. R. China.
| |
Collapse
|
20
|
Luo Y, Yu H, Alkhamis O, Liu Y, Lou X, Yu B, Xiao Y. Label-Free, Visual Detection of Small Molecules Using Highly Target-Responsive Multimodule Split Aptamer Constructs. Anal Chem 2019; 91:7199-7207. [PMID: 31050407 PMCID: PMC6615563 DOI: 10.1021/acs.analchem.9b00507] [Citation(s) in RCA: 41] [Impact Index Per Article: 8.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
Colorimetric aptamer-based sensors offer a simple means of on-site or point-of-care analyte detection. However, these sensors are largely incapable of achieving naked-eye detection, because of the poor performance of the target-recognition and signal-reporting elements employed. To address this problem, we report a generalizable strategy for engineering novel multimodule split DNA constructs termed "CBSAzymes" that utilize a cooperative binding split aptamer (CBSA) as a highly target-responsive bioreceptor and a new, highly active split DNAzyme as an efficient signal reporter. CBSAzymes consist of two fragments that remain separate in the absence of target, but effectively assemble in the presence of the target to form a complex that catalyzes the oxidation of 2,2'-azino-bis(3-ethylbenzthiazoline)-6-sulfonic acid, developing a dark green color within 5 min. Such assay enables rapid, sensitive, and visual detection of small molecules, which has not been achieved with any previously reported split-aptamer-DNAzyme conjugates. In an initial demonstration, we generate a cocaine-binding CBSAzyme that enables naked-eye detection of cocaine at concentrations as low as 10 μM. Notably, CBSAzyme engineering is straightforward and generalizable. We demonstrate this by developing a methylenedioxypyrovalerone (MDPV)-binding CBSAzyme for visual detection of MDPV and 10 other synthetic cathinones at low micromolar concentrations, even in biological samples. Given that CBSAzyme-based assays are simple, label-free, rapid, robust, and instrument-free, we believe that such assays should be readily applicable for on-site visual detection of various important small molecules such as illicit drugs, medical biomarkers, and toxins in various sample matrices.
Collapse
Affiliation(s)
- Yingping Luo
- Department of Chemistry and Biochemistry, Florida International University, 11200 SW Eighth Street, Miami, Florida 33199, United States
- State Key Laboratory of Natural Medicines, Jiangsu Key Laboratory of TCM Evaluation and Translational Research, Department of Complex Prescription of TCM, China Pharmaceutical University, Nanjing 211198, People’s Republic of China
| | - Haixiang Yu
- Department of Chemistry and Biochemistry, Florida International University, 11200 SW Eighth Street, Miami, Florida 33199, United States
| | - Obtin Alkhamis
- Department of Chemistry and Biochemistry, Florida International University, 11200 SW Eighth Street, Miami, Florida 33199, United States
| | - Yingzhu Liu
- Department of Chemistry and Biochemistry, Florida International University, 11200 SW Eighth Street, Miami, Florida 33199, United States
| | - Xinhui Lou
- Department of Chemistry, Capital Normal University, Xisanhuan North Rd. 105, Beijing, China, 100048
| | - Boyang Yu
- State Key Laboratory of Natural Medicines, Jiangsu Key Laboratory of TCM Evaluation and Translational Research, Department of Complex Prescription of TCM, China Pharmaceutical University, Nanjing 211198, People’s Republic of China
| | - Yi Xiao
- Department of Chemistry and Biochemistry, Florida International University, 11200 SW Eighth Street, Miami, Florida 33199, United States
| |
Collapse
|
21
|
Chenab KK, Eivazzadeh-Keihan R, Maleki A, Pashazadeh-Panahi P, Hamblin MR, Mokhtarzadeh A. Biomedical applications of nanoflares: Targeted intracellular fluorescence probes. NANOMEDICINE : NANOTECHNOLOGY, BIOLOGY, AND MEDICINE 2019; 17:342-358. [PMID: 30826476 PMCID: PMC6520197 DOI: 10.1016/j.nano.2019.02.006] [Citation(s) in RCA: 30] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/22/2018] [Revised: 01/08/2019] [Accepted: 02/11/2019] [Indexed: 12/16/2022]
Abstract
Nanoflares are intracellular probes consisting of oligonucleotides immobilized on various nanoparticles that can recognize intracellular nucleic acids or other analytes, thus releasing a fluorescent reporter dye. Single-stranded DNA (ssDNA) complementary to mRNA for a target gene is constructed containing a 3'-thiol for binding to gold nanoparticles. The ssDNA "recognition sequence" is prehybridized to a shorter DNA complement containing a fluorescent dye that is quenched. The functionalized gold nanoparticles are easily taken up into cells. When the ssDNA recognizes its complementary target, the fluorescent dye is released inside the cells. Different intracellular targets can be detected by nanoflares, such as mRNAs coding for genes over-expressed in cancer (epithelial-mesenchymal transition, oncogenes, thymidine kinase, telomerase, etc.), intracellular levels of ATP, pH values and inorganic ions can also be measured. Advantages include high transfection efficiency, enzymatic stability, good optical properties, biocompatibility, high selectivity and specificity. Multiplexed assays and FRET-based systems have been designed.
Collapse
Affiliation(s)
- Karim Khanmohammadi Chenab
- Catalysts and Organic Synthesis Research Laboratory, Department of Chemistry, Iran University of Science and Technology, Tehran, Iran
| | - Reza Eivazzadeh-Keihan
- Catalysts and Organic Synthesis Research Laboratory, Department of Chemistry, Iran University of Science and Technology, Tehran, Iran
| | - Ali Maleki
- Catalysts and Organic Synthesis Research Laboratory, Department of Chemistry, Iran University of Science and Technology, Tehran, Iran
| | - Paria Pashazadeh-Panahi
- Department of Biochemistry and Biophysics, Metabolic Disorders Research Center, Gorgan Faculty of Medicine, Golestan University of Medical Sciences, Gorgan, Golestan Province, Iran; Immunology Research Center, Tabriz University of Medical Sciences, Tabriz, Iran
| | - Michael R Hamblin
- Wellman Center for Photomedicine, Massachusetts General Hospital, Boston, MA, USA; Department of Dermatology, Harvard Medical School, Boston, MA, USA; Harvard-MIT Division of Health Sciences and Technology, Cambridge, MA, USA.
| | - Ahad Mokhtarzadeh
- Immunology Research Center, Tabriz University of Medical Sciences, Tabriz, Iran; Department of Biotechnology, Higher Education Institute of Rab-Rashid, Tabriz, Iran.
| |
Collapse
|
22
|
Wu HX, Zhang XH, Huang L, Ma LF, Liu CJ. Diblock Polymer Brush (PHEAA- b-PFMA): Microphase Separation Behavior and Anti-Protein Adsorption Performance. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2018; 34:11101-11109. [PMID: 30148645 DOI: 10.1021/acs.langmuir.8b02584] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
In this paper, a series of amphiphilic diblock polymers of poly(hydroxyethylacrylamide)- b-poly(1H,1H-pentafluoropropyl methacrylate) (PHEAA- b-PFMA) were grafted from silicon wafer via surface-initiated atom transfer radical polymerization (SI-ATRP). Surface wettability and chemical compositions of the modified surfaces were characterized by contact angle goniometer and X-ray photoelectron spectroscopy (XPS) respectively. Molecular weight and polydispersity of each block were measured using gel permeation chromatography (GPC). The topography and the microphase separation behavior of PHEAA- b-PFMA surfaces were investigated by atomic force microscope (AFM). The results show that only when the grafting density (σ) and thickness of PHEAA brush were in the range of 0.9-1.3 (chain/nm2) and 6.6-15.1 nm, respectively, and the ratio of PFMA/PHEAA varied from 89/42 to 89/94, could the diblock copolymer phase separate into nanostructures. Further, the antiprotein adsorption performance of the modified surfaces against BSA, fibrinogen, and lysozyme was studied. The results indicated the modified surfaces could reduce the protein adsorption compared to the pristine silicon wafer. For Fibrinogen, the antiadsorption effect of PHEAA- b-PFMA-modified surfaces with microphase segregation was better than that of corresponding PHEAA modified surfaces. The results provide further evidence that surface composition and microphase segregation of fluorinated moieties of block copolymer brushes significantly impact protein adsorption behaviors.
Collapse
Affiliation(s)
- Hai-Xia Wu
- Key Laboratory of Biomedical Polymers of Ministry of Education, College of Chemistry and Molecular Science , Wuhan University , Wuhan 430072 , P. R. China
- College of Chemistry and Chemical Engineering, and Henan Key Laboratory of Function-Oriented Porous Materials , Luoyang Normal University , Luoyang 471022 , P. R. China
| | - Xiao-Hong Zhang
- Key Laboratory of Biomedical Polymers of Ministry of Education, College of Chemistry and Molecular Science , Wuhan University , Wuhan 430072 , P. R. China
| | - Lin Huang
- Key Laboratory of Biomedical Polymers of Ministry of Education, College of Chemistry and Molecular Science , Wuhan University , Wuhan 430072 , P. R. China
| | - Lu-Fang Ma
- College of Chemistry and Chemical Engineering, and Henan Key Laboratory of Function-Oriented Porous Materials , Luoyang Normal University , Luoyang 471022 , P. R. China
| | - Chuan-Jun Liu
- Key Laboratory of Biomedical Polymers of Ministry of Education, College of Chemistry and Molecular Science , Wuhan University , Wuhan 430072 , P. R. China
| |
Collapse
|
23
|
Chen P, Hu P, Huang K, Sawyer E, Sun K, Ying B, Wei X, Geng J. Detection of nucleic acids via G-quadruplex-controlled l-cysteine oxidation and catalyzed hairpin assembly-assisted signal amplification. RSC Adv 2018; 8:40564-40569. [PMID: 35557911 PMCID: PMC9091423 DOI: 10.1039/c8ra08296k] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/08/2018] [Accepted: 11/26/2018] [Indexed: 02/05/2023] Open
Abstract
A novel homogeneous strategy for detection of DNA via biomimetic synthesis of luminescent QDs coupled with nucleic acid signal amplification.
Collapse
Affiliation(s)
- Piaopiao Chen
- Department of Laboratory Medicine
- State Key Laboratory of Biotherapy
- West China Hospital
- Sichuan University and Collaborative Innovation Center for Biotherapy
- Chengdu
| | - Pingyue Hu
- College of Chemistry and Material Science
- Sichuan Normal University
- Chengdu
- China
| | - Ke Huang
- College of Chemistry and Material Science
- Sichuan Normal University
- Chengdu
- China
| | - Erica Sawyer
- Department of Laboratory Medicine
- State Key Laboratory of Biotherapy
- West China Hospital
- Sichuan University and Collaborative Innovation Center for Biotherapy
- Chengdu
| | - Ke Sun
- Department of Laboratory Medicine
- State Key Laboratory of Biotherapy
- West China Hospital
- Sichuan University and Collaborative Innovation Center for Biotherapy
- Chengdu
| | - Binwu Ying
- Department of Laboratory Medicine
- State Key Laboratory of Biotherapy
- West China Hospital
- Sichuan University and Collaborative Innovation Center for Biotherapy
- Chengdu
| | - Xiawei Wei
- Department of Laboratory Medicine
- State Key Laboratory of Biotherapy
- West China Hospital
- Sichuan University and Collaborative Innovation Center for Biotherapy
- Chengdu
| | - Jia Geng
- Department of Laboratory Medicine
- State Key Laboratory of Biotherapy
- West China Hospital
- Sichuan University and Collaborative Innovation Center for Biotherapy
- Chengdu
| |
Collapse
|