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Zhao Y, Kumar A, Yang Y. Unveiling practical considerations for reliable and standardized SERS measurements: lessons from a comprehensive review of oblique angle deposition-fabricated silver nanorod array substrates. Chem Soc Rev 2024; 53:1004-1057. [PMID: 38116610 DOI: 10.1039/d3cs00540b] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2023]
Abstract
Recently, there has been an exponential growth in the number of publications focusing on surface-enhanced Raman scattering (SERS), primarily driven by advancements in nanotechnology and the increasing demand for chemical and biological detection. While many of these publications have focused on the development of new substrates and detection-based applications, there is a noticeable lack of attention given to various practical issues related to SERS measurements and detection. This review aims to fill this gap by utilizing silver nanorod (AgNR) SERS substrates fabricated through the oblique angle deposition method as an illustrative example. The review highlights and addresses a range of practical issues associated with SERS measurements and detection. These include the optimization of SERS substrates in terms of morphology and structural design, considerations for measurement configurations such as polarization and the incident angle of the excitation laser, and exploration of enhancement mechanisms encompassing both intrinsic properties induced by the structure and materials, as well as extrinsic factors arising from wetting/dewetting phenomena and analyte size. The manufacturing and storage aspects of SERS substrates, including scalable fabrication techniques, contamination control, cleaning procedures, and appropriate storage methods, are also discussed. Furthermore, the review delves into device design considerations, such as well arrays, flow cells, and fiber probes, and explores various sample preparation methods such as drop-cast and immersion. Measurement issues, including the effect of excitation laser wavelength and power, as well as the influence of buffer, are thoroughly examined. Additionally, the review discusses spectral analysis techniques, encompassing baseline removal, chemometric analysis, and machine learning approaches. The wide range of AgNR-based applications of SERS, across various fields, is also explored. Throughout the comprehensive review, key lessons learned from collective findings are outlined and analyzed, particularly in the context of detailed SERS measurements and standardization. The review also provides insights into future challenges and perspectives in the field of SERS. It is our hope that this comprehensive review will serve as a valuable reference for researchers seeking to embark on in-depth studies and applications involving their own SERS substrates.
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Affiliation(s)
- Yiping Zhao
- Department of Physics and Astronomy, The University of Georgia, Athens, GA 30602, USA.
| | - Amit Kumar
- Department of Physics and Astronomy, The University of Georgia, Athens, GA 30602, USA.
| | - Yanjun Yang
- School of Electrical and Computer Engineering, College of Engineering, The University of Georgia, Athens, GA 30602, USA.
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Issatayeva A, Farnesi E, Cialla-May D, Schmitt M, Rizzi FMA, Milanese D, Selleri S, Cucinotta A. SERS-based methods for the detection of genomic biomarkers of cancer. Talanta 2024; 267:125198. [PMID: 37722343 DOI: 10.1016/j.talanta.2023.125198] [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: 04/24/2023] [Revised: 09/05/2023] [Accepted: 09/10/2023] [Indexed: 09/20/2023]
Abstract
Genomic biomarkers of cancer are based on changes in nucleic acids, which include abnormal expression levels of some miRNAs, point mutations in DNA sequences, and altered levels of DNA methylation. The presence of tumor-related nucleic acids in body fluids (blood, saliva, or urine) makes it possible to achieve a non-invasive early-stage cancer diagnosis. Currently existing techniques for the discovery of nucleic acids require complex, time-consuming, costly assays and have limited multiplexing abilities. Surface-enhanced Raman spectroscopy (SERS) is a vibrational spectroscopy technique that is able to provide molecular specificity combined with trace sensitivity. SERS has gained research attention as a tool for the detection of nucleic acids because of its promising potential: label-free SERS can decrease the complexity of assays currently used with fluorescence-based detection due to the absence of the label, while labeled SERS may outperform the gold standard in terms of the multiplexing ability. The first papers about SERS-based methods for the measurement of genomic biomarkers were written in 2008, and since then, more than 150 papers have been published. The aim of this paper is to review and evaluate the proposed SERS-based methods in terms of their level of development and their potential for liquid biopsy application, as well as to contribute to their further evolution by attracting research attention to the field. This goal will be reached by grouping, on the basis of their experimental protocol, all the published manuscripts on the topic and evaluating each group in terms of its limit of detection and applicability to real body fluids. Thus, the methods are classified according to their working principles into five main groups, including capture-based, displacement-based, sandwich-based, enzyme-assisted, and specialized protocols.
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Affiliation(s)
- Aizhan Issatayeva
- Department of Engineering and Architecture, University of Parma, Parco Area delle Scienze 181/a, 43124, Parma, Italy.
| | - Edoardo Farnesi
- Institute of Physical Chemistry (IPC) and Abbe Center of Photonics (ACP), Friedrich Schiller University Jena, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Helmholtzweg 4, 07743, Jena, Germany; Leibniz Institute of Photonic Technology, Member of Leibniz Health Technologies, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Albert-Einstein-Straße 9, 07745, Jena, Germany
| | - Dana Cialla-May
- Institute of Physical Chemistry (IPC) and Abbe Center of Photonics (ACP), Friedrich Schiller University Jena, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Helmholtzweg 4, 07743, Jena, Germany; Leibniz Institute of Photonic Technology, Member of Leibniz Health Technologies, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Albert-Einstein-Straße 9, 07745, Jena, Germany
| | - Michael Schmitt
- Institute of Physical Chemistry (IPC) and Abbe Center of Photonics (ACP), Friedrich Schiller University Jena, Member of the Leibniz Centre for Photonics in Infection Research (LPI), Helmholtzweg 4, 07743, Jena, Germany
| | | | - Daniel Milanese
- Department of Engineering and Architecture, University of Parma, Parco Area delle Scienze 181/a, 43124, Parma, Italy
| | - Stefano Selleri
- Department of Engineering and Architecture, University of Parma, Parco Area delle Scienze 181/a, 43124, Parma, Italy
| | - Annamaria Cucinotta
- Department of Engineering and Architecture, University of Parma, Parco Area delle Scienze 181/a, 43124, Parma, Italy
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Yadav S, Senapati S, Kumar S, Gahlaut SK, Singh JP. GLAD Based Advanced Nanostructures for Diversified Biosensing Applications: Recent Progress. BIOSENSORS 2022; 12:1115. [PMID: 36551082 PMCID: PMC9775079 DOI: 10.3390/bios12121115] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 10/27/2022] [Revised: 11/18/2022] [Accepted: 11/23/2022] [Indexed: 06/17/2023]
Abstract
Glancing angle deposition (GLAD) is a technique for the fabrication of sculpted micro- and nanostructures under the conditions of oblique vapor flux incident and limited adatom diffusion. GLAD-based nanostructures are emerging platforms with broad sensing applications due to their high sensitivity, enhanced optical and catalytic properties, periodicity, and controlled morphology. GLAD-fabricated nanochips and substrates for chemical and biosensing applications are replacing conventionally used nanomaterials due to their broad scope, ease of fabrication, controlled growth parameters, and hence, sensing abilities. This review focuses on recent advances in the diverse nanostructures fabricated via GLAD and their applications in the biomedical field. The effects of morphology and deposition conditions on GLAD structures, their biosensing capability, and the use of these nanostructures for various biosensing applications such as surface plasmon resonance (SPR), fluorescence, surface-enhanced Raman spectroscopy (SERS), and colorimetric- and wettability-based bio-detection will be discussed in detail. GLAD has also found diverse applications in the case of molecular imaging techniques such as fluorescence, super-resolution, and photoacoustic imaging. In addition, some in vivo applications, such as drug delivery, have been discussed. Furthermore, we will also provide an overview of the status of GLAD technology as well as future challenges associated with GLAD-based nanostructures in the mentioned areas.
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Affiliation(s)
- Sarjana Yadav
- Department of Physics, Indian Institute of Technology Delhi, Hauz Khas, New Delhi 110016, India
| | - Sneha Senapati
- School of Interdisciplinary Research, Indian Institute of Technology Delhi, Hauz Khas, New Delhi 110016, India
| | - Samir Kumar
- Department of Electronics and Information Engineering, Korea University, Sejong 30019, Republic of Korea
| | - Shashank K. Gahlaut
- Department of Physics, Indian Institute of Technology Delhi, Hauz Khas, New Delhi 110016, India
| | - Jitendra P. Singh
- Department of Physics, Indian Institute of Technology Delhi, Hauz Khas, New Delhi 110016, India
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Abstract
MicroRNAs (miRNAs) are considerably small yet highly important riboregulators involved in nearly all cellular processes. Due to their critical roles in posttranscriptional regulation of gene expression, they have the potential to be used as biomarkers in addition to their use as drug targets. Although computational approaches speed up the initial genomewide identification of putative miRNAs, experimental approaches are essential for further validation and functional analyses of differentially expressed miRNAs. Therefore, sensitive, specific, and cost-effective microRNA detection methods are imperative for both individual and multiplex analysis of miRNA expression in different tissues and during different developmental stages. There are a number of well-established miRNA detection methods that can be exploited depending on the comprehensiveness of the study (individual miRNA versus multiplex analysis), the availability of the sample and the location and intracellular concentration of miRNAs. This review aims to highlight not only traditional but also novel strategies that are widely used in experimental identification and quantification of microRNAs.
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Cui J, Guan Q, Lv H, Fu K, Fu R, Feng Z, Chen F, Zhang G. Three-dimensional nanorod array for label-free surface-enhanced Raman spectroscopy analysis of microRNA pneumoconiosis biomarkers. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2021; 261:120015. [PMID: 34098483 DOI: 10.1016/j.saa.2021.120015] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/19/2021] [Revised: 05/12/2021] [Accepted: 05/22/2021] [Indexed: 06/12/2023]
Abstract
Novel approaches are required to overcome the challenges associated with conventional microRNA (miRNA) detection methods and realize the early diagnosis of diseases. This work describes a novel label-free surface-enhanced Raman spectroscopy (SERS) method for the detection of the miRNA biomarkers for pneumoconiosis on a three-dimensional Au-coated ZnO nanorod array (Au-ZnO NRA). The Au-ZnO NRA substrate, which was fabricated via a modified seeding method combined with ion sputtering, provided a high enhancement factor and good spatial uniformity of the signal. With the Au-ZnO NRA, the SERS spectra of miRNAs were obtained in 30 s without labeling at room temperature. Density functional theory calculations were performed to understand the structural fingerprints of the miRNAs. Principal component analysis was carried out to identify the pneumoconiosis biomarkers based on their fingerprint SERS signals. Dual-logarithm linear relationships between the SERS intensity and the miRNA concentration were proposed for quantitative analysis. The label-free SERS method has limits of detection on the femtomolar level, which is much lower than the concentrations of the miRNA biomarkers for pneumoconiosis in lung fibroblasts.
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Affiliation(s)
- Jingcheng Cui
- School of Municipal and Environmental Engineering, Shandong Jianzhu University, Jinan 250101, Shandong, China
| | - Qingxiang Guan
- School of Municipal and Environmental Engineering, Shandong Jianzhu University, Jinan 250101, Shandong, China
| | - Han Lv
- School of Municipal and Environmental Engineering, Shandong Jianzhu University, Jinan 250101, Shandong, China
| | - Kaifang Fu
- School of Municipal and Environmental Engineering, Shandong Jianzhu University, Jinan 250101, Shandong, China
| | - Rao Fu
- School of Information and Electrical Engineering, Shandong Jianzhu University, Jinan 250101, Shandong, China; Department of Electrical Engineering, SUNY at Buffalo, Buffalo 14228, NY, USA
| | - Zhenyu Feng
- School of Chemistry and Chemical Engineering, Shandong University, Jinan, Shandong, 250100, China
| | - Feiyong Chen
- Research Institute of Resources and Environmental Innovation, Shandong Jianzhu University, Jinan 250101, China
| | - Guiqin Zhang
- School of Municipal and Environmental Engineering, Shandong Jianzhu University, Jinan 250101, Shandong, China.
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Kim JY, Mun SJ, Roh YH, Bong KW. Rapid colorimetric analysis of multiple microRNAs using encoded hydrogel microparticles. Analyst 2021; 146:5508-5516. [PMID: 34346406 DOI: 10.1039/d1an00622c] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
Abstract
microRNAs (miRNAs) have attracted much attention as potential biomarkers for the diagnosis of various fatal diseases. With increasing interest in miRNA detection at practical sites, colorimetric bead-based assays have garnered much attention, because these allow for simple analysis with cheap and portable devices. Among them, the encoded hydrogel microparticle-based colorimetric miRNA assay is considered as one of the promising techniques, due to its strengths, such as large multiplex capacity, acceptable sensitivity, and simple analysis. However, it still imposes a limitation in terms of the assay time, particularly the colorimetric reaction time, which is too long, making the practical application of the assay difficult and undermining its detection accuracy. In this work, we present a rapid colorimetric assay based on encoded hydrogel microparticles, which exhibits a significant decrease in the colorimetric reaction time due to two factors: (1) an increase in the number of enzymes bound to hydrogel microparticles via a post-synthesis functionalization method, and (2) an elevation in the enzyme reaction temperature during colorimetric labeling. We obtained a comparable sensitivity of the colorimetric assay with three different miRNA targets, even with a shortened colorimetric reaction time. Furthermore, we validated that our colorimetric detection method is suitable for multiplex miRNA detection, owing to its low cross-reactivity.
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Affiliation(s)
- Ju Yeon Kim
- Department of Chemical and Biological Engineering, Korea University, Seoul, Republic of Korea.
| | - Seok Joon Mun
- Department of Chemical and Biological Engineering, Korea University, Seoul, Republic of Korea.
| | - Yoon Ho Roh
- Department of Chemical and Biological Engineering, Korea University, Seoul, Republic of Korea.
| | - Ki Wan Bong
- Department of Chemical and Biological Engineering, Korea University, Seoul, Republic of Korea.
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Luo X, Zhu J, Jia W, Fang N, Wu P, Cai C, Zhu JJ. Boosting Long-Range Surface-Enhanced Raman Scattering on Plasmonic Nanohole Arrays for Ultrasensitive Detection of MiRNA. ACS APPLIED MATERIALS & INTERFACES 2021; 13:18301-18313. [PMID: 33821612 DOI: 10.1021/acsami.1c01834] [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] [Indexed: 06/12/2023]
Abstract
A fundamental challenge, particularly, in surface-enhanced Raman scattering (SERS) analysis is the detection of analytes that are distant from the sensing surface. To tackle this challenge, we herein report a long-range SERS (LR-SERS) substrate supporting an extension of electric field afforded by long-range surface plasmon resonance (LRSPR) excited in symmetrical dielectric environments. The LR-SERS substrate has a sandwich configuration with a triangle-shaped gold nanohole array embedded between two dielectrics with similar refractive indices (i.e., MgF2 and water). The finite-difference time-domain simulation was applied to guide the design of the LR-SERS substrate, which was engineered to have a wavelength-matched LRSPR with 785 nm excitation. The simulations predict that the LR-SERS substrate exhibits great SERS enhancement at distances of more than 10 nm beyond its top surface, and the enhancement factor (EF) has been improved by three orders of magnitude on LR-SERS substrates compared to that on conventional substrates. The experimental results show good agreement with the simulations, an EF of 4.1 × 105 remains available at 22 nm above the LR-SERS substrate surface. The LR-SERS substrate was further applied as a sensing platform to detect microRNA (miRNA) let-7a coupled with a hybridization chain reaction (HCR) strategy. The developed sensor displays a wide linear range from 10 aM to 1 nM and an ultralow detection limit of 8.5 aM, making it the most sensitive among the current detection strategies for miRNAs based on the SERS-HCR combination to the best of our knowledge.
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Affiliation(s)
- Xiaojun Luo
- Jiangsu Key Laboratory of New Power Batteries, Jiangsu Collaborative Innovation Center of Biomedical Functional Materials, School of Chemistry and Materials Science, Nanjing Normal University, Nanjing 210023, P. R. China
| | - Jingtian Zhu
- Jiangsu Key Laboratory of New Power Batteries, Jiangsu Collaborative Innovation Center of Biomedical Functional Materials, School of Chemistry and Materials Science, Nanjing Normal University, Nanjing 210023, P. R. China
| | - Wenyu Jia
- Jiangsu Key Laboratory of New Power Batteries, Jiangsu Collaborative Innovation Center of Biomedical Functional Materials, School of Chemistry and Materials Science, Nanjing Normal University, Nanjing 210023, P. R. China
| | - Ningning Fang
- Jiangsu Key Laboratory of New Power Batteries, Jiangsu Collaborative Innovation Center of Biomedical Functional Materials, School of Chemistry and Materials Science, Nanjing Normal University, Nanjing 210023, P. R. China
| | - Ping Wu
- Jiangsu Key Laboratory of New Power Batteries, Jiangsu Collaborative Innovation Center of Biomedical Functional Materials, School of Chemistry and Materials Science, Nanjing Normal University, Nanjing 210023, P. R. China
| | - Chenxin Cai
- Jiangsu Key Laboratory of New Power Batteries, Jiangsu Collaborative Innovation Center of Biomedical Functional Materials, School of Chemistry and Materials Science, Nanjing Normal University, Nanjing 210023, P. R. China
| | - Jun-Jie Zhu
- State Key Laboratory of Analytical for Life Science, School of Chemistry & Chemical Engineering, Nanjing University, Nanjing 210023, P. R. China
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Tran HV, Piro B. Recent trends in application of nanomaterials for the development of electrochemical microRNA biosensors. Mikrochim Acta 2021; 188:128. [PMID: 33740140 DOI: 10.1007/s00604-021-04784-3] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/11/2021] [Accepted: 03/10/2021] [Indexed: 01/10/2023]
Abstract
The biology of the late twentieth century was marked by the discovery in 1993 of a new class of small non-coding ribonucleic acids (RNAs) which play major roles in regulating the translation and degradation of messenger RNAs. These small RNAs (18-25 nucleotides), called microRNAs (miRNAs), are implied in several biological processes such as differentiation, metabolic homeostasis, or cellular apoptosis and proliferation. The discovery in 2008 that the presence of miRNAs in body fluids could be correlated with cancer (prostate, breast, colon, lung, etc.) or other diseases (diabetes, heart diseases, etc.) has made them new key players as biomarkers. Therefore, miRNA detection is of considerable significance in both disease diagnosis and in the study of miRNA function. Until these days, more than 1200 miRNAs have been identified. However, traditional methods developed for conventional DNA does not apply satisfactorily for miRNA, in particular due to the low expression level of these miRNA in biofluids, and because they are very short strands. Electrochemical biosensors can provide this sensitivity and also offer the advantages of mass fabrication, low-cost, and potential decentralized analysis, which has wide application for microRNAs sensing, with many promising results already reported. The present review summarizes some newly developed electrochemical miRNA detection methods.
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Affiliation(s)
- Hoang Vinh Tran
- School of Chemical Engineering, Hanoi University of Science and Technology (HUST), 1st Dai Co Viet Road, Hanoi, Vietnam.
| | - Benoit Piro
- ITODYS, CNRS, Université de Paris, F-75006, Paris, France
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Nasir S, Majeed MI, Nawaz H, Rashid N, Ali S, Farooq S, Kashif M, Rafiq S, Bano S, Ashraf MN, Abubakar M, Ahmad S, Rehman A, Amin I. Surface enhanced Raman spectroscopy of RNA samples extracted from blood of hepatitis C patients for quantification of viral loads. Photodiagnosis Photodyn Ther 2020; 33:102152. [PMID: 33348077 DOI: 10.1016/j.pdpdt.2020.102152] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/24/2020] [Revised: 11/23/2020] [Accepted: 12/14/2020] [Indexed: 01/31/2023]
Abstract
BACKGROUND Raman spectroscopy is a promising technique to analyze the body fluids for the purpose of non-invasive disease diagnosis. OBJECTIVES To develop a surface-enhanced Raman spectroscopy (SERS) based method for qualitative and quantitative analysis of HCV from blood samples. METHODS SERS was employed to characterize the Hepatitis C viral RNA extracted from different blood samples of hepatitis C virus (HCV) infected patients with predetermined viral loads in comparison with total RNA of healthy individuals. The SERS measurements were performed on 27 extracted RNA samples including low viral loads, medium viral loads, high viral loads and healthy/negative viral load samples. For this purpose, silver nanoparticles (Ag NPs) were used as SERS substrates. Furthermore, multivariate data analysis technique, Principal Component Analysis (PCA) and Partial Least Square Regression (PLSR) were also performed on SERS spectral data. RESULTS The SERS spectral features due to biochemical changes in the extracted RNA samples associated with the increasing viral loads were established which could be employed for HCV diagnostic purpose. PCA was found helpful for the differentiation between Raman spectral data of RNA extracted from hepatitis infected and healthy blood samples. PLSR model is established for the determination of viral loads in HCV positive RNA samples with 99 % accuracy. CONCLUSION SERS can be employed for qualitative and quantitative analysis of HCV from blood samples.
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Affiliation(s)
- Saira Nasir
- Department of Chemistry, University of Agriculture Faisalabad, 38040, Pakistan
| | | | - Haq Nawaz
- Department of Chemistry, University of Agriculture Faisalabad, 38040, Pakistan.
| | - Nosheen Rashid
- Department of Chemistry, University of Central Punjab, Lahore, Faisalabad Campus, Pakistan
| | - Saqib Ali
- Department of Chemistry, University of Agriculture Faisalabad, 38040, Pakistan
| | - Sidra Farooq
- Department of Chemistry, University of Agriculture Faisalabad, 38040, Pakistan
| | - Muhammad Kashif
- Department of Chemistry, University of Agriculture Faisalabad, 38040, Pakistan
| | - Sidra Rafiq
- Department of Chemistry, University of Agriculture Faisalabad, 38040, Pakistan
| | - Saira Bano
- Department of Chemistry, University of Agriculture Faisalabad, 38040, Pakistan
| | | | - Muhammad Abubakar
- Department of Chemistry, University of Agriculture Faisalabad, 38040, Pakistan
| | - Shamsheer Ahmad
- Department of Chemistry, University of Agriculture Faisalabad, 38040, Pakistan
| | - Asma Rehman
- National Institute for Biotechnology and Genetic Engineering (NIBGE), P. O. Box 577, Jhang Road Faisalabad, Pakistan
| | - Imran Amin
- PCR Laboratory, PINUM Hospital, Faisalabad, Pakistan
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Masterson AN, Liyanage T, Berman C, Kaimakliotis H, Johnson M, Sardar R. A novel liquid biopsy-based approach for highly specific cancer diagnostics: mitigating false responses in assaying patient plasma-derived circulating microRNAs through combined SERS and plasmon-enhanced fluorescence analyses. Analyst 2020; 145:4173-4180. [PMID: 32490854 DOI: 10.1039/d0an00538j] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
Studies have shown that microRNAs, which are small noncoding RNAs, hold tremendous promise as next-generation circulating biomarkers for early cancer detection via liquid biopsies. A novel, solid-state nanoplasmonic sensor capable of assaying circulating microRNAs through a combined surface-enhanced Raman scattering (SERS) and plasmon-enhanced fluorescence (PEF) approach has been developed. Here, the unique localized surface plasmon resonance properties of chemically-synthesized gold triangular nanoprisms (Au TNPs) are utilized to create large SERS and PEF enhancements. With careful modification to the surface of Au TNPs, this sensing approach is capable of quantifying circulating microRNAs at femtogram/microliter concentrations. Uniquely, the multimodal analytical methods mitigate both false positive and false negative responses and demonstrate the high stability of our sensors within bodily fluids. As a proof of concept, microRNA-10b and microRNA-96 were directly assayed from the plasma of six bladder cancer patients. Results show potential for a highly specific liquid biopsy method that could be used in point-of-care clinical diagnostics to increase early cancer detection or any other diseases including SARS-CoV-2 in which RNAs can be used as biomarkers.
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Affiliation(s)
- Adrianna N Masterson
- Department of Chemistry & Chemical Biology, Indiana University-Purdue University Indianapolis, 402 N. Blackford Street, Indianapolis, Indiana 46202, USA.
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Girigoswami K, Girigoswami A. A Review on the Role of Nanosensors in Detecting Cellular miRNA Expression in Colorectal Cancer. Endocr Metab Immune Disord Drug Targets 2020; 21:12-26. [PMID: 32410567 DOI: 10.2174/1871530320666200515115723] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 10/15/2019] [Revised: 03/10/2020] [Accepted: 03/20/2020] [Indexed: 12/24/2022]
Abstract
BACKGROUND Colorectal cancer (CRC) is one of the leading causes of death across the globe. Early diagnosis with high sensitivity can prevent CRC progression, thereby reducing the condition of metastasis. OBJECTIVE The purpose of this review is (i) to discuss miRNA based biomarkers responsible for CRC, (ii) to brief on the different methods used for the detection of miRNA in CRC, (iii) to discuss different nanobiosensors so far found for the accurate detection of miRNAs in CRC using spectrophotometric detection, piezoelectric detection. METHODS The keywords for the review like micro RNA detection in inflammation, colorectal cancer, nanotechnology, were searched in PubMed and the relevant papers on the topics of miRNA related to CRC, nanotechnology-based biosensors for miRNA detection were then sorted and used appropriately for writing the review. RESULTS The review comprises a general introduction explaining the current scenario of CRC, the biomarkers used for the detection of different cancers, especially CRC and the importance of nanotechnology and a general scheme of a biosensor. The further subsections discuss the mechanism of CRC progression, the role of miRNA in CRC progression and different nanotechnology-based biosensors so far investigated for miRNA detection in other diseases, cancer and CRC. A scheme depicting miRNA detection using gold nanoparticles (AuNPs) is also illustrated. CONCLUSION This review may give insight into the different nanostructures, like AuNPs, quantum dots, silver nanoparticles, MoS2derived nanoparticles, etc., based approaches for miRNA detection using biosensors.
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Affiliation(s)
- Koyeli Girigoswami
- Medical Bionanotechnology Laboratory, Faculty of Allied Health Sciences, Chettinad Hospital and Research Institute, Chettinad Academy of Research and Education, Chettinad Health City, Kelambakkam, Chennai, 603103, India
| | - Agnishwar Girigoswami
- Medical Bionanotechnology Laboratory, Faculty of Allied Health Sciences, Chettinad Hospital and Research Institute, Chettinad Academy of Research and Education, Chettinad Health City, Kelambakkam, Chennai, 603103, India
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Single-molecule analysis of nucleic acid biomarkers - A review. Anal Chim Acta 2020; 1115:61-85. [PMID: 32370870 DOI: 10.1016/j.aca.2020.03.001] [Citation(s) in RCA: 21] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2019] [Revised: 02/29/2020] [Accepted: 03/02/2020] [Indexed: 12/11/2022]
Abstract
Nucleic acids are important biomarkers for disease detection, monitoring, and treatment. Advances in technologies for nucleic acid analysis have enabled discovery and clinical implementation of nucleic acid biomarkers. However, challenges remain with technologies for nucleic acid analysis, thereby limiting the use of nucleic acid biomarkers in certain contexts. Here, we review single-molecule technologies for nucleic acid analysis that can be used to overcome these challenges. We first discuss the various types of nucleic acid biomarkers important for clinical applications and conventional technologies for nucleic acid analysis. We then discuss technologies for single-molecule in vitro and in situ analysis of nucleic acid biomarkers. Finally, we discuss other ultra-sensitive techniques for nucleic acid biomarker detection.
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Lee T, Mohammadniaei M, Zhang H, Yoon J, Choi HK, Guo S, Guo P, Choi J. Single Functionalized pRNA/Gold Nanoparticle for Ultrasensitive MicroRNA Detection Using Electrochemical Surface-Enhanced Raman Spectroscopy. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2020; 7:1902477. [PMID: 32042566 PMCID: PMC7001639 DOI: 10.1002/advs.201902477] [Citation(s) in RCA: 30] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/17/2019] [Revised: 11/14/2019] [Indexed: 05/07/2023]
Abstract
Controlling the selective one-to-one conjugation of RNA with nanoparticles is vital for future applications of RNA nanotechnology. Here, the monofunctionalization of a gold nanoparticle (AuNP) with a single copy of RNA is developed for ultrasensitive microRNA-155 quantification using electrochemical surface-enhanced Raman spectroscopy (EC-SERS). A single AuNP is conjugated with one copy of the packaging RNA (pRNA) three-way junction (RNA 3WJ). pRNA 3WJ containing one strand of the 3WJ is connected to a Sephadex G100 aptamer and a biotin group at each arm (SEPapt/3WJ/Bio) which is then immobilized to the Sephadex G100 resin. The resulting complex is connected to streptavidin-coated AuNP (STV/AuNP). Next, the STV/AuNP-Bio/3WJa is purified and reassembled with another 3WJ to form a single-labeled 3WJ/AuNP. Later, the monoconjugate is immobilized onto the AuNP-electrodeposited indium tin oxide coated substrate for detecting microRNA-155 based on EC-SERS. Application of an optimum potential of +0.2 V results in extraordinary amplification (≈7 times) of methylene blue (reporter) SERS signal compared to the normal SERS signal. As a result, a highly sensitive detection of 60 × 10-18 m microRNA-155 in 1 h in serum based on monoconjugated AuNP/RNA is achieved. Thus, the monofunctionalization of RNA onto nanoparticle can provide a new methodology for biosensor construction and diverse RNA nanotechnology development.
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Affiliation(s)
- Taek Lee
- College of PharmacyCollege of Medicine/Department of Physiology and Cell Biology/Dorothy M. Davis Heart and Lung Research InstituteOhio State UniversityColumbusOH43210USA
- Department of Chemical and Biomolecular EngineeringSogang University35 Baekbeom‐ro, Mapo‐guSeoul121‐742Republic of Korea
- Department of Chemical EngineeringKwangwoon University20 Kwangwoon‐Ro, Nowon‐GuSeoul01897Republic of Korea
| | - Mohsen Mohammadniaei
- Department of Chemical and Biomolecular EngineeringSogang University35 Baekbeom‐ro, Mapo‐guSeoul121‐742Republic of Korea
| | - Hui Zhang
- College of PharmacyCollege of Medicine/Department of Physiology and Cell Biology/Dorothy M. Davis Heart and Lung Research InstituteOhio State UniversityColumbusOH43210USA
| | - Jinho Yoon
- Department of Chemical and Biomolecular EngineeringSogang University35 Baekbeom‐ro, Mapo‐guSeoul121‐742Republic of Korea
| | - Hye Kyu Choi
- Department of Chemical and Biomolecular EngineeringSogang University35 Baekbeom‐ro, Mapo‐guSeoul121‐742Republic of Korea
| | - Sijin Guo
- College of PharmacyCollege of Medicine/Department of Physiology and Cell Biology/Dorothy M. Davis Heart and Lung Research InstituteOhio State UniversityColumbusOH43210USA
| | - Peixuan Guo
- College of PharmacyCollege of Medicine/Department of Physiology and Cell Biology/Dorothy M. Davis Heart and Lung Research InstituteOhio State UniversityColumbusOH43210USA
| | - Jeong‐Woo Choi
- Department of Chemical and Biomolecular EngineeringSogang University35 Baekbeom‐ro, Mapo‐guSeoul121‐742Republic of Korea
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14
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Wang XP, Walkenfort B, König M, König L, Kasimir-Bauer S, Schlücker S. Fast and reproducible iSERS microscopy of single HER2-positive breast cancer cells using gold nanostars as SERS nanotags. Faraday Discuss 2019; 205:377-386. [PMID: 28902197 DOI: 10.1039/c7fd00135e] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
Speed is often a bottleneck in conventional Raman microscopy on biological specimens. In immuno-Raman microspectroscopy, or for short iSERS microscopy, the acquisition times per pixel have been reduced by more than one order of magnitude over the past decade since its proof of concept. Typically rather high laser power densities are employed with the intention of compensating for the shorter acquisition times, without checking the reproducibility of the results in repeated experiments on the same sample. Here, we systematically analyze this aspect at the single-cell level since it forms the basis of quantification and is very important for reinspection of the same specimen. Specifically, we investigate experimentally the role of the laser power density in conjunction with the acquisition times per pixel in a series of repeated iSERS experiments on the same single cell overexpressing the breast cancer tumor marker human epidermal growth factor receptor 2 (HER2). Confocal iSERS mapping experiments were guided by wide-field fluorescence microscopy for selecting the regions of interest. We demonstrate that the combination of ca. a 1-2 mW laser power (40× objective, NA 0.6), 50 ms acquisition time per pixel and a high EM-CCD signal gain yields highly reproducible iSERS images in a series of four repeated experiments on the same single cell. In contrast, longer acquisition times (0.8 s, no EM gain) and in particular higher laser power (4 mW up to 18 mW) densities lead to non-reproducible iSERS results due to signal degradation.
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Affiliation(s)
- Xin-Ping Wang
- Physical Chemistry I, Department of Chemistry and Center for Nanointegration Duisburg-Essen (CENIDE), University of Duisburg-Essen, Universitätsstr. 5, Essen 45141, Germany.
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15
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Wang X, Shi W, Wang S, Zhao H, Lin J, Yang Z, Chen M, Guo L. Two-Dimensional Amorphous TiO2 Nanosheets Enabling High-Efficiency Photoinduced Charge Transfer for Excellent SERS Activity. J Am Chem Soc 2019; 141:5856-5862. [DOI: 10.1021/jacs.9b00029] [Citation(s) in RCA: 200] [Impact Index Per Article: 40.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Affiliation(s)
- Xiaotian Wang
- School of Chemistry, Beijing Advanced Innovation Center for Biomedical Engineering, Key Laboratory of Bio-Inspired Smart Interfacial Science and Technology, Beihang University, 100191 Beijing, P. R. China
| | - Wenxiong Shi
- School of Material Science and Engineering, State Key Laboratory of Separation Membranes and Membrane Processes, Tianjin Polytechnic University, 300387 Tianjin, P. R. China
| | - Shaoxiong Wang
- School of Chemistry, Beijing Advanced Innovation Center for Biomedical Engineering, Key Laboratory of Bio-Inspired Smart Interfacial Science and Technology, Beihang University, 100191 Beijing, P. R. China
| | - Hewei Zhao
- School of Chemistry, Beijing Advanced Innovation Center for Biomedical Engineering, Key Laboratory of Bio-Inspired Smart Interfacial Science and Technology, Beihang University, 100191 Beijing, P. R. China
| | - Jie Lin
- School of Chemistry, Beijing Advanced Innovation Center for Biomedical Engineering, Key Laboratory of Bio-Inspired Smart Interfacial Science and Technology, Beihang University, 100191 Beijing, P. R. China
| | - Zhao Yang
- School of Chemistry, Beijing Advanced Innovation Center for Biomedical Engineering, Key Laboratory of Bio-Inspired Smart Interfacial Science and Technology, Beihang University, 100191 Beijing, P. R. China
| | - Mo Chen
- School of Chemistry, Beijing Advanced Innovation Center for Biomedical Engineering, Key Laboratory of Bio-Inspired Smart Interfacial Science and Technology, Beihang University, 100191 Beijing, P. R. China
| | - Lin Guo
- School of Chemistry, Beijing Advanced Innovation Center for Biomedical Engineering, Key Laboratory of Bio-Inspired Smart Interfacial Science and Technology, Beihang University, 100191 Beijing, P. R. China
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16
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Facile and sensitive S1 endonuclease activity and inhibition assay using positively-charged Ag nanorods. CHINESE CHEM LETT 2019. [DOI: 10.1016/j.cclet.2018.11.017] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
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17
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Oh HJ, Kim J, Park H, Chung S, Hwang DW, Lee DS. Graphene-oxide quenching-based molecular beacon imaging of exosome-mediated transfer of neurogenic miR-193a on microfluidic platform. Biosens Bioelectron 2019; 126:647-656. [DOI: 10.1016/j.bios.2018.11.027] [Citation(s) in RCA: 30] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2018] [Revised: 11/08/2018] [Accepted: 11/18/2018] [Indexed: 01/10/2023]
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18
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Detection of microRNA using a polydopamine mediated bimetallic SERS substrate and a re-circulated enzymatic amplification system. Mikrochim Acta 2019; 186:65. [DOI: 10.1007/s00604-018-3174-y] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/03/2018] [Accepted: 12/12/2018] [Indexed: 01/30/2023]
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19
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Jia M, Li S, Zang L, Lu X, Zhang H. Analysis of Biomolecules Based on the Surface Enhanced Raman Spectroscopy. NANOMATERIALS (BASEL, SWITZERLAND) 2018; 8:E730. [PMID: 30223597 PMCID: PMC6165412 DOI: 10.3390/nano8090730] [Citation(s) in RCA: 26] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/28/2018] [Revised: 09/10/2018] [Accepted: 09/14/2018] [Indexed: 12/24/2022]
Abstract
Analyzing biomolecules is essential for disease diagnostics, food safety inspection, environmental monitoring and pharmaceutical development. Surface-enhanced Raman spectroscopy (SERS) is a powerful tool for detecting biomolecules due to its high sensitivity, rapidness and specificity in identifying molecular structures. This review focuses on the SERS analysis of biomolecules originated from humans, animals, plants and microorganisms, combined with nanomaterials as SERS substrates and nanotags. Recent advances in SERS detection of target molecules were summarized with different detection strategies including label-free and label-mediated types. This comprehensive and critical summary of SERS analysis of biomolecules might help researchers from different scientific backgrounds spark new ideas and proposals.
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Affiliation(s)
- Min Jia
- Shandong Provincial Key Laboratory of Animal Resistance Biology, Institute of Biomedical Sciences, Key Laboratory of Food Nutrition and Safety of Shandong Normal University, College of Life Science, Shandong Normal University, Jinan 250014, China.
- Beijing Advanced Innovation Center for Food Nutrition and Human Health, Beijing Technology and Business University (BTBU), Beijing 100048, China.
| | - Shenmiao Li
- Food, Nutrition and Health Program, Faculty of Land and Food Systems, The University of British Columbia, Vancouver, BC V6T 1Z4, Canada.
| | - Liguo Zang
- Shandong Provincial Key Laboratory of Animal Resistance Biology, Institute of Biomedical Sciences, Key Laboratory of Food Nutrition and Safety of Shandong Normal University, College of Life Science, Shandong Normal University, Jinan 250014, China.
| | - Xiaonan Lu
- Food, Nutrition and Health Program, Faculty of Land and Food Systems, The University of British Columbia, Vancouver, BC V6T 1Z4, Canada.
| | - Hongyan Zhang
- Shandong Provincial Key Laboratory of Animal Resistance Biology, Institute of Biomedical Sciences, Key Laboratory of Food Nutrition and Safety of Shandong Normal University, College of Life Science, Shandong Normal University, Jinan 250014, China.
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20
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Fluorometric determination of microRNA-155 in cancer cells based on carbon dots and MnO 2 nanosheets as a donor-acceptor pair. Mikrochim Acta 2018; 185:372. [PMID: 29995191 DOI: 10.1007/s00604-018-2868-5] [Citation(s) in RCA: 30] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2018] [Accepted: 06/08/2018] [Indexed: 10/28/2022]
Abstract
A fluorometric method is presented for sensitive deternination of microRNA. It is making use of carbon dots (C-dots) loaded with a DNA probe as fluorophore and MnO2 nanosheets as the quenching agent. The blue-green fluorescence of the DNA-loaded C-dots is quenched by the MnO2 nanosheets, but restored on binding target microRNA-155. The maximum excitation wavelength and the maximum emission wavelength of C-dots are at 360 nm and 455 nm, respectively. Fluorescence correlates linearly with the log of the microRNA-155 concentration in two ranges, viz. from 0.15 to 1.65 aM and from 1.65 to 20 aM. The detection limit is as low as 0.1 aM. The assay can discriminate between fully complementary and single-base mismatch microRNA. The assay displayed high specificity when used to detect MCF-7 breast cancer cells which can be detected in concentrations from 1000 to 45,000 cells·mL-1, with a 600 cells·mL-1 detection limit. The method was applied to the analysis of serum samples spiked with microRNA, and satisfactory results were acquired. Graphical abstract Schematic of a fluorometric sensing platform for miRNA-155. The method relies on a FRET process between C-dots and MnO2 nanosheets. This strategy has a practical application for detection of miRNA in cell lines and biological fluids.
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21
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Xia Y, Zhang R, Wang Z, Tian J, Chen X. Recent advances in high-performance fluorescent and bioluminescent RNA imaging probes. Chem Soc Rev 2017; 46:2824-2843. [PMID: 28345687 PMCID: PMC5472208 DOI: 10.1039/c6cs00675b] [Citation(s) in RCA: 100] [Impact Index Per Article: 14.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
RNA plays an important role in life processes. Imaging of messenger RNAs (mRNAs) and micro-RNAs (miRNAs) not only allows us to learn the formation and transcription of mRNAs and the biogenesis of miRNAs involved in various life processes, but also helps in detecting cancer. High-performance RNA imaging probes greatly expand our view of life processes and enhance the cancer detection accuracy. In this review, we summarize the state-of-the-art high-performance RNA imaging probes, including exogenous probes that can image RNA sequences with special modification and endogeneous probes that can directly image endogenous RNAs without special treatment. For each probe, we review its structure and imaging principle in detail. Finally, we summarize the application of mRNA and miRNA imaging probes in studying life processes as well as in detecting cancer. By correlating the structures and principles of various probes with their practical uses, we compare different RNA imaging probes and offer guidance for better utilization of the current imaging probes and the future design of higher-performance RNA imaging probes.
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Affiliation(s)
- Yuqiong Xia
- Engineering Research Center of Molecular-imaging and Neuro-imaging of Ministry of Education, School of Life Science and Technology, Xidian University, Xi'an, Shaanxi 710126, China.
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22
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Su J, Wang D, Nörbel L, Shen J, Zhao Z, Dou Y, Peng T, Shi J, Mathur S, Fan C, Song S. Multicolor Gold–Silver Nano-Mushrooms as Ready-to-Use SERS Probes for Ultrasensitive and Multiplex DNA/miRNA Detection. Anal Chem 2017; 89:2531-2538. [DOI: 10.1021/acs.analchem.6b04729] [Citation(s) in RCA: 172] [Impact Index Per Article: 24.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- Jing Su
- Division
of Physical Biology and Bioimaging Center, Shanghai Synchrotron Radiation
Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China
| | - Dongfang Wang
- Division
of Physical Biology and Bioimaging Center, Shanghai Synchrotron Radiation
Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China
| | - Lena Nörbel
- Institute
of Inorganic Chemistry, University of Cologne, Cologne D-50939, Germany
| | - Jianlei Shen
- Division
of Physical Biology and Bioimaging Center, Shanghai Synchrotron Radiation
Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China
| | - Zhihan Zhao
- Division
of Physical Biology and Bioimaging Center, Shanghai Synchrotron Radiation
Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China
| | - Yanzhi Dou
- Division
of Physical Biology and Bioimaging Center, Shanghai Synchrotron Radiation
Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China
| | - Tianhuan Peng
- Division
of Physical Biology and Bioimaging Center, Shanghai Synchrotron Radiation
Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China
| | - Jiye Shi
- Kellogg
College, University of Oxford, Oxford OX2 6PN, United Kingdom
| | - Sanjay Mathur
- Institute
of Inorganic Chemistry, University of Cologne, Cologne D-50939, Germany
| | - Chunhai Fan
- Division
of Physical Biology and Bioimaging Center, Shanghai Synchrotron Radiation
Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China
| | - Shiping Song
- Division
of Physical Biology and Bioimaging Center, Shanghai Synchrotron Radiation
Facility, Shanghai Institute of Applied Physics, Chinese Academy of Sciences, Shanghai 201800, China
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23
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Tan L, Liu C, Wang Y, Sun J, Dong J, Qian W. Fabrication of SERS substrates containing dense “hot spots” by assembling star-shaped nanoparticles on superhydrophobic surfaces. NEW J CHEM 2017. [DOI: 10.1039/c7nj00226b] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
Abstract
In this work, efficient SERS substrates containing dense hot spots were fabricated by assembling AuNS@Ag on SMCSL superhydrophobic platforms, based on an evaporation assembly technique.
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Affiliation(s)
- Lianqiao Tan
- State Key Laboratory of Bioelectronics
- School of Biological Science and Medical Engineering
- Southeast University
- Nanjing 210096
- P. R. China
| | - Chang Liu
- State Key Laboratory of Bioelectronics
- School of Biological Science and Medical Engineering
- Southeast University
- Nanjing 210096
- P. R. China
| | - Ying Wang
- State Key Laboratory of Bioelectronics
- School of Biological Science and Medical Engineering
- Southeast University
- Nanjing 210096
- P. R. China
| | - Jie Sun
- State Key Laboratory of Bioelectronics
- School of Biological Science and Medical Engineering
- Southeast University
- Nanjing 210096
- P. R. China
| | - Jian Dong
- State Key Laboratory of Bioelectronics
- School of Biological Science and Medical Engineering
- Southeast University
- Nanjing 210096
- P. R. China
| | - Weiping Qian
- State Key Laboratory of Bioelectronics
- School of Biological Science and Medical Engineering
- Southeast University
- Nanjing 210096
- P. R. China
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24
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Liu X, Tian R, Gao J, Liu D, Wang Z. Multiplexed detection of microRNAs by a competitive DNA microarray-based resonance light scattering assay. Analyst 2017; 142:4529-4535. [DOI: 10.1039/c7an01152k] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/25/2023]
Abstract
A competitive DNA microarray-based resonance light scattering assay is developed for the selective and sensitive detection of multiple microRNAs.
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Affiliation(s)
- Xia Liu
- State Key Laboratory of Electroanalytical Chemistry
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun 130022
- P. R. China
| | - Rongrong Tian
- State Key Laboratory of Electroanalytical Chemistry
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun 130022
- P. R. China
| | - Jiaxue Gao
- State Key Laboratory of Electroanalytical Chemistry
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun 130022
- P. R. China
| | - Dianjun Liu
- State Key Laboratory of Electroanalytical Chemistry
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun 130022
- P. R. China
| | - Zhenxin Wang
- State Key Laboratory of Electroanalytical Chemistry
- Changchun Institute of Applied Chemistry
- Chinese Academy of Sciences
- Changchun 130022
- P. R. China
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25
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Zhang H, Yi Y, Zhou C, Ying G, Zhou X, Fu C, Zhu Y, Shen Y. SERS detection of microRNA biomarkers for cancer diagnosis using gold-coated paramagnetic nanoparticles to capture SERS-active gold nanoparticles. RSC Adv 2017. [DOI: 10.1039/c7ra10918k] [Citation(s) in RCA: 31] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022] Open
Abstract
A highly sensitive magnetic-capture SERS assay for detecting cancer-related microRNAs was developed by enhancing the formation of SERS “hot spots”.
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Affiliation(s)
- Hao Zhang
- College of Chemical Engineering
- Zhejiang University of Technology
- Hangzhou 310014
- China
| | - Yu Yi
- College of Pharmaceutical Science
- Zhejiang University of Technology
- Hangzhou 310014
- China
| | - Chunhui Zhou
- College of Chemical Engineering
- Zhejiang University of Technology
- Hangzhou 310014
- China
| | - Guoqing Ying
- College of Pharmaceutical Science
- Zhejiang University of Technology
- Hangzhou 310014
- China
| | - Xiangdong Zhou
- College of Chemical Engineering
- Zhejiang University of Technology
- Hangzhou 310014
- China
| | - Chaopeng Fu
- College of Chemical Engineering
- Zhejiang University of Technology
- Hangzhou 310014
- China
| | - Yifeng Zhu
- College of Chemical Engineering
- Zhejiang University of Technology
- Hangzhou 310014
- China
| | - Youqing Shen
- College of Chemical and Biological Engineering
- Zhejiang University
- Hangzhou 310027
- China
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26
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Koo KM, Wee EJH, Mainwaring PN, Wang Y, Trau M. Toward Precision Medicine: A Cancer Molecular Subtyping Nano-Strategy for RNA Biomarkers in Tumor and Urine. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2016; 12:6233-6242. [PMID: 27717152 DOI: 10.1002/smll.201602161] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/30/2016] [Revised: 08/26/2016] [Indexed: 06/06/2023]
Abstract
Cancer is a heterogeneous disease which manifests as different molecular subtypes due to the complex nature of tumor initiation, progression, and metastasis. The concept of precision medicine aims to exploit this cancer heterogeneity by incorporating diagnostic technology to characterize each cancer patient's molecular subtype for tailored treatments. To characterize cancer molecular subtypes accurately, a suite of multiplexed bioassays have currently been developed to detect multiple oncogenic biomarkers. Despite the reliability of current multiplexed detection techniques, novel strategies are still needed to resolve limitations such as long assay time, complex protocols, and difficulty in interpreting broad overlapping spectral peaks of conventional fluorescence readouts. Herein a rapid (80 min) multiplexed platform strategy for subtyping prostate cancer tumor and urine samples based on their RNA biomarker profiles is presented. This is achieved by combining rapid multiplexed isothermal reverse transcription-recombinase polymerase amplification (RT-RPA) of target RNA biomarkers with surface-enhanced Raman spectroscopy (SERS) nanotags for "one-pot" readout. This is the first translational application of a RT-RPA/SERS-based platform for multiplexed cancer biomarker detection to address a clinical need. With excellent sensitivity of 200 zmol (100 copies) and specificity, we believed that this platform methodology could be a useful tool for rapid multiplexed subtyping of cancers.
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Affiliation(s)
- Kevin M Koo
- Centre for Personalized Nanomedicine, Australian Institute for Bioengineering and Nanotechnology (AIBN), The University of Queensland, QLD, 4072, Australia
| | - Eugene J H Wee
- Centre for Personalized Nanomedicine, Australian Institute for Bioengineering and Nanotechnology (AIBN), The University of Queensland, QLD, 4072, Australia
| | - Paul N Mainwaring
- Centre for Personalized Nanomedicine, Australian Institute for Bioengineering and Nanotechnology (AIBN), The University of Queensland, QLD, 4072, Australia
| | - Yuling Wang
- Centre for Personalized Nanomedicine, Australian Institute for Bioengineering and Nanotechnology (AIBN), The University of Queensland, QLD, 4072, Australia
| | - Matt Trau
- Centre for Personalized Nanomedicine, Australian Institute for Bioengineering and Nanotechnology (AIBN), The University of Queensland, QLD, 4072, Australia
- School of Chemistry and Molecular Biosciences, The University of Queensland, QLD, 4072, Australia
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27
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Surface-Enhanced Raman Spectroscopy Label-free Detection of DNA Complementary PolyA and PolyT Polybases on Ag/TiO2
Platform. ChemistrySelect 2016. [DOI: 10.1002/slct.201600521] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
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28
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Li JJ, Xi Q, Du WF, Yu RQ, Jiang JH. Label-free fluorescence detection of microRNA based on target induced adenosine2-coralyne-adenosine2 formation. Analyst 2016; 141:2384-7. [PMID: 26998900 DOI: 10.1039/c6an00001k] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
This study develops a simple and label-free biosensor for sensitive and selective detection of microRNA (miRNA) based on the formation of the adenosine2-coralyne-adenosine2 complex mediated by miRNA-specific polyadenosine extension.
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Affiliation(s)
- Jun-Jie Li
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha 410082, P. R. China.
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29
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Chao J, Cao W, Su S, Weng L, Song S, Fan C, Wang L. Nanostructure-based surface-enhanced Raman scattering biosensors for nucleic acids and proteins. J Mater Chem B 2016; 4:1757-1769. [PMID: 32263053 DOI: 10.1039/c5tb02135a] [Citation(s) in RCA: 65] [Impact Index Per Article: 8.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
Detection of nucleic acid and protein targets related to human health and safety has attracted widespread attention. Surface-enhanced Raman scattering (SERS) is a powerful tool for biomarker detection because of its ultrahigh detection sensitivity and unique fingerprinting spectra. In this review, we first introduce the development of nanostructure-based SERS-active substrates and SERS nanotags, which greatly influence the performance of SERS biosensors. We then focus on recent advances in SERS biosensors for DNA, microRNA and protein determination, including label-free, labeled and multiplex analyses as well as in vivo imaging. Finally, the prospects and challenges of such nanostructure-based SERS biosensors are discussed.
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Affiliation(s)
- Jie Chao
- Key Laboratory for Organic Electronics and Information Displays & Institute of Advanced Materials (IAM), Jiangsu National Synergetic Innovation Center for Advanced Materials (SICAM), Nanjing University of Posts & Telecommunications, 9 Wenyuan Road, Nanjing 210023, China.
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30
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Rana M, Balcioglu M, Kovach M, Hizir MS, Robertson NM, Khan I, Yigit MV. Reprogrammable multiplexed detection of circulating oncomiRs using hybridization chain reaction. Chem Commun (Camb) 2016; 52:3524-7. [DOI: 10.1039/c5cc09910b] [Citation(s) in RCA: 37] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
Abstract
Coupling the DNA polymerization capability of HCR with the plasmonic properties of AuNP for reprogrammable, multiplexed and visual detection of three different circulating oncomiRs in seven different combinations.
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Affiliation(s)
- Muhit Rana
- Department of Chemistry
- University at Albany
- State University of New York
- Albany
- USA
| | - Mustafa Balcioglu
- Department of Chemistry
- University at Albany
- State University of New York
- Albany
- USA
| | - Maya Kovach
- Department of Chemistry
- University at Albany
- State University of New York
- Albany
- USA
| | - Mustafa Salih Hizir
- Department of Chemistry
- University at Albany
- State University of New York
- Albany
- USA
| | - Neil M. Robertson
- Department of Chemistry
- University at Albany
- State University of New York
- Albany
- USA
| | - Irfan Khan
- Department of Chemistry
- University at Albany
- State University of New York
- Albany
- USA
| | - Mehmet V. Yigit
- Department of Chemistry
- University at Albany
- State University of New York
- Albany
- USA
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31
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Li X, Ye S, Luo X. Sensitive SERS detection of miRNA via enzyme-free DNA machine signal amplification. Chem Commun (Camb) 2016; 52:10269-72. [DOI: 10.1039/c6cc04391g] [Citation(s) in RCA: 42] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]
Abstract
Coupling SERS technology with a DNA fueled molecular machine, an enzyme-free signal amplified detection platform is described for miRNA detection.
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Affiliation(s)
- Xiaoxiao Li
- Key Laboratory of Sensor Analysis of Tumor Marker
- Ministry of Education
- College of Chemistry and Molecular Engineering
- Qingdao University of Science and Technology
- Qingdao 266042
| | - Sujuan Ye
- Key Laboratory of Sensor Analysis of Tumor Marker
- Ministry of Education
- College of Chemistry and Molecular Engineering
- Qingdao University of Science and Technology
- Qingdao 266042
| | - Xiliang Luo
- Key Laboratory of Sensor Analysis of Tumor Marker
- Ministry of Education
- College of Chemistry and Molecular Engineering
- Qingdao University of Science and Technology
- Qingdao 266042
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32
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33
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Shah P, Choi SW, Kim HJ, Cho SK, Bhang YJ, Ryu MY, Thulstrup PW, Bjerrum MJ, Yang SW. Locking-to-unlocking system is an efficient strategy to design DNA/silver nanoclusters (AgNCs) probe for human miRNAs. Nucleic Acids Res 2015; 44:e57. [PMID: 26681688 PMCID: PMC4824086 DOI: 10.1093/nar/gkv1377] [Citation(s) in RCA: 39] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/10/2015] [Accepted: 11/19/2015] [Indexed: 12/18/2022] Open
Abstract
MicroRNAs (miRNAs), small non-coding RNA molecules, are important biomarkers for research and medical purposes. Here, we describe the development of a fast and simple method using highly fluorescent oligonucleotide-silver nanocluster probes (DNA/AgNCs) to efficiently detect specific miRNAs. Due to the great sequence diversity of miRNAs in humans and other organisms, a uniform strategy for miRNA detection is attractive. The concept presented is an oligonucleotide-based locking-to-unlocking system that can be endowed with miRNA complementarity while maintaining the same secondary structure. The locking-to-unlocking system is based on fold-back anchored DNA templates that consist of a cytosine-rich loop for AgNCs stabilization, an miRNA recognition site and an overlap region for hairpin stabilization. When an miRNA is recognized, fluorescence in the visible region is specifically extinguished in a concentration-dependent manner. Here, the exact composition of the fold-back anchor for the locking-to-unlocking system has been systematically optimized, balancing propensity for loop-structure formation, encapsulation of emissive AgNCs and target sensitivity. It is demonstrated that the applied strategy successfully can detect a number of cancer related miRNAs in RNA extracts from human cancer cell lines.
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Affiliation(s)
- Pratik Shah
- UNIK Center for Synthetic Biology, University of Copenhagen, Thorvaldsensvej 40, DK-1871 Frederiksberg C, Copenhagen, Denmark
| | - Suk Won Choi
- Department of Chemistry, University of Copenhagen, Universitetsparken 5, DK-2100, Copenhagen, Denmark
| | - Ho-Jin Kim
- Department of Chemistry, University of Copenhagen, Universitetsparken 5, DK-2100, Copenhagen, Denmark
| | - Seok Keun Cho
- UNIK Center for Synthetic Biology, University of Copenhagen, Thorvaldsensvej 40, DK-1871 Frederiksberg C, Copenhagen, Denmark
| | - Yong-Joo Bhang
- Department of Chemistry, University of Copenhagen, Universitetsparken 5, DK-2100, Copenhagen, Denmark
| | - Moon Young Ryu
- UNIK Center for Synthetic Biology, University of Copenhagen, Thorvaldsensvej 40, DK-1871 Frederiksberg C, Copenhagen, Denmark
| | - Peter Waaben Thulstrup
- Seoulin Bioscience Co. Ltd. 4F. #A, KOREA BIO PARK, 700, Daewangpangyo-ro, Bundang-gu, Seongnam-si, Gyeonggi-do, Korea
| | - Morten Jannik Bjerrum
- Seoulin Bioscience Co. Ltd. 4F. #A, KOREA BIO PARK, 700, Daewangpangyo-ro, Bundang-gu, Seongnam-si, Gyeonggi-do, Korea
| | - Seong Wook Yang
- UNIK Center for Synthetic Biology, University of Copenhagen, Thorvaldsensvej 40, DK-1871 Frederiksberg C, Copenhagen, Denmark Department of Systems Biology, College of Life Science and Biotechnology, Yonsei University, Korea
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34
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Luo Y, Ma L, Zhang X, Liang A, Jiang Z. SERS Detection of Dopamine Using Label-Free Acridine Red as Molecular Probe in Reduced Graphene Oxide/Silver Nanotriangle Sol Substrate. NANOSCALE RESEARCH LETTERS 2015; 10:937. [PMID: 26055475 PMCID: PMC4457732 DOI: 10.1186/s11671-015-0937-9] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/24/2015] [Accepted: 05/15/2015] [Indexed: 05/06/2023]
Abstract
The reduced graphene oxide/silver nanotriangle (rGO/AgNT) composite sol was prepared by the reduction of silver ions with sodium borohydride in the presence of H2O2 and sodium citrate. In the nanosol substrate, the molecular probe of acridine red (AR) exhibited a weak surface-enhanced Raman scattering (SERS) peak at 1506 cm(-1) due to its interaction with the rGO of rGO/AgNT. Upon addition of dopamine (DA), the competitive adsorption between DA and AR with the rGO took place, and the AR molecules were adsorbed on the AgNT aggregates with a strong SERS peak at 1506 cm(-1) that caused the SERS peak increase. The increased SERS intensity is linear to the DA concentration in the range of 2.5-500 μmol/L. This new analytical system was investigated by SERS, fluorescence, absorption, transmission electron microscope (TEM), and scanning electron microscope (SEM) techniques, and a SERS quantitative analysis method for DA was established, using AR as a label-free molecular probe.
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Affiliation(s)
- Yanghe Luo
- />Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection of Ministry Education, Guangxi Key Laboratory of Environmental Pollution Control Theory and Technology, Guangxi Normal University, Guilin, 541004 China
- />Hezhou University, Hezhou, 542899 China
| | - Lu Ma
- />Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection of Ministry Education, Guangxi Key Laboratory of Environmental Pollution Control Theory and Technology, Guangxi Normal University, Guilin, 541004 China
- />Hezhou University, Hezhou, 542899 China
| | - Xinghui Zhang
- />Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection of Ministry Education, Guangxi Key Laboratory of Environmental Pollution Control Theory and Technology, Guangxi Normal University, Guilin, 541004 China
| | - Aihui Liang
- />Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection of Ministry Education, Guangxi Key Laboratory of Environmental Pollution Control Theory and Technology, Guangxi Normal University, Guilin, 541004 China
| | - Zhiliang Jiang
- />Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection of Ministry Education, Guangxi Key Laboratory of Environmental Pollution Control Theory and Technology, Guangxi Normal University, Guilin, 541004 China
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Choi J, Martin SJH, Tripp RA, Tompkins SM, Dluhy RA. Detection of neuraminidase stalk motifs associated with enhanced N1 subtype influenza A virulence via Raman spectroscopy. Analyst 2015; 140:7748-60. [PMID: 26460183 PMCID: PMC4687448 DOI: 10.1039/c5an00977d] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Oligonucleotides corresponding to neuraminidase (NA) stalk motifs that have been associated with enhanced influenza virulence have been identified using surface-enhanced Raman spectroscopy (SERS). 5'-Thiolated ssDNA oligonucleotides were immobilized onto a hexadecyltrimethylammonium bromide (CTAB) coated Au nanoparticles (AuNP). Three synthetic RNA sequences corresponding to specific amino acid deletions in the influenza NA stalk region were attached to the CTAB-modified AuNPs. Two of these sequences were specific to sequences with amino acid deletions associated with increased virulence, and one was a low virulence sequence with no amino acid deletions. Hybridization of synthetic matched and mismatched DNA-RNA complexes were detected based on the intrinsic SERS spectra. In addition, this platform was used to analyze RNA sequences isolated from laboratory grown influenza viruses having the NA stalk motif associated with enhanced virulence, including A/WSN/33/H1N1, A/Anhui/1/2005/H5N, and A/Vietnam/1203/2004/H5N1 strains. Multivariate feature selection methods were employed to determine the specific wavenumbers in the Raman spectra that contributed the most information for class discrimination. A one-way analysis of variance (ANOVA) test identified 884 and 1196 wavenumbers as being highly significant in the high and low virulence spectra, respectively (p < 0.01). A post-hoc Tukey Honestly Significance Difference (HSD) test identified the wavenumbers that played a major role in differentiating the DNA-RNA hybrid classes. An estimate of the spectral variability, based on the Wilcoxon rank sum test, found the major source of variation to be predominately between the different classes, and not within the classes, thus confirming that the spectra reflected real class differences and not sampling artifacts. The multivariate classification methods partial least squares discriminant analysis (PLS-DA) and support vector machine discriminant analysis (SVM-DA) were able to distinguish between different NA stalk-motifs linked to NA-enhanced influenza virus virulence (NA-EIV) with >95% sensitivity and specificity in both synthetic RNA sequences as well as the isolated viral RNA. This study demonstrates the feasibility of SERS for direct identification of influenza NA stalk mutations associated with virulence without sample amplification or labeling.
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MESH Headings
- Amino Acid Sequence
- Base Sequence
- Cetrimonium
- Cetrimonium Compounds/chemistry
- DNA Probes/chemistry
- DNA Probes/genetics
- Gold/chemistry
- Humans
- Immobilized Nucleic Acids/chemistry
- Immobilized Nucleic Acids/genetics
- Influenza A Virus, H1N1 Subtype/enzymology
- Influenza A Virus, H1N1 Subtype/genetics
- Influenza A Virus, H1N1 Subtype/pathogenicity
- Influenza A Virus, H5N1 Subtype/enzymology
- Influenza A Virus, H5N1 Subtype/genetics
- Influenza A Virus, H5N1 Subtype/pathogenicity
- Influenza, Human/virology
- Metal Nanoparticles/chemistry
- Metal Nanoparticles/ultrastructure
- Mutation
- Neuraminidase/chemistry
- Neuraminidase/genetics
- RNA, Viral/analysis
- RNA, Viral/genetics
- Spectrum Analysis, Raman/methods
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Affiliation(s)
- JooYoung Choi
- Department of Chemistry, University of Georgia, Athens, GA 30602, USA.
| | - Sharon J H Martin
- Department of Chemistry, University of Georgia, Athens, GA 30602, USA.
| | - Ralph A Tripp
- Department of Infectious Disease, University of Georgia, Athens, GA 30602, USA
| | - S Mark Tompkins
- Department of Infectious Disease, University of Georgia, Athens, GA 30602, USA
| | - Richard A Dluhy
- Department of Chemistry, University of Georgia, Athens, GA 30602, USA.
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36
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Wang W, Kong T, Zhang D, Zhang J, Cheng G. Label-Free MicroRNA Detection Based on Fluorescence Quenching of Gold Nanoparticles with a Competitive Hybridization. Anal Chem 2015; 87:10822-9. [DOI: 10.1021/acs.analchem.5b01930] [Citation(s) in RCA: 68] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
Affiliation(s)
- Wei Wang
- Key Laboratory
of Nano-Bio Interface, Suzhou Institute of Nano-Tech and
Nano-Bionics, Chinese Academy of Sciences, 398 Ruoshui Road, Suzhou Industrial Park, Jiangsu 215123, China
| | - Tao Kong
- Key Laboratory
of Nano-Bio Interface, Suzhou Institute of Nano-Tech and
Nano-Bionics, Chinese Academy of Sciences, 398 Ruoshui Road, Suzhou Industrial Park, Jiangsu 215123, China
| | - Dong Zhang
- Key Laboratory
of Nano-Bio Interface, Suzhou Institute of Nano-Tech and
Nano-Bionics, Chinese Academy of Sciences, 398 Ruoshui Road, Suzhou Industrial Park, Jiangsu 215123, China
| | - Jinan Zhang
- Bona Tianyuan
Biotech LLC, 568 Longmian Avenue, Jiangning, Jiangsu 211100, China
| | - Guosheng Cheng
- Key Laboratory
of Nano-Bio Interface, Suzhou Institute of Nano-Tech and
Nano-Bionics, Chinese Academy of Sciences, 398 Ruoshui Road, Suzhou Industrial Park, Jiangsu 215123, China
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Abstract
The use of cancer biomarkers is emerging as one of the most promising strategies for early detection and management of cancer. Biosensors can provide advanced platforms for biomarker analysis with the advantages of being easy to use, inexpensive, rapid and offering multi-analyte testing capability. The intention of this article is to discuss recent advances and trends in affinity biosensors for cancer diagnosis, prognosis and even theragnosis. The different types of affinity biosensors will be reviewed in terms of molecular recognition element. Current challenges and trends for this technology will be also discussed, with a particular emphasis on recent developments in miRNA detection.
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38
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Li F, Peng J, Zheng Q, Guo X, Tang H, Yao S. Carbon Nanotube-Polyamidoamine Dendrimer Hybrid-Modified Electrodes for Highly Sensitive Electrochemical Detection of MicroRNA24. Anal Chem 2015; 87:4806-13. [DOI: 10.1021/acs.analchem.5b00093] [Citation(s) in RCA: 66] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Affiliation(s)
- Fengye Li
- Key
Laboratory of Chemical Biology and Traditional Chinese Medicine Research
(Ministry of Education), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha 410081, People’s Republic of China
| | - Jing Peng
- Key
Laboratory of Chemical Biology and Traditional Chinese Medicine Research
(Ministry of Education), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha 410081, People’s Republic of China
| | - Qiong Zheng
- Key
Laboratory of Chemical Biology and Traditional Chinese Medicine Research
(Ministry of Education), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha 410081, People’s Republic of China
| | - Xiang Guo
- Key
Laboratory of Chemical Biology and Traditional Chinese Medicine Research
(Ministry of Education), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha 410081, People’s Republic of China
| | - Hao Tang
- Key
Laboratory of Chemical Biology and Traditional Chinese Medicine Research
(Ministry of Education), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha 410081, People’s Republic of China
| | - Shouzhuo Yao
- Key
Laboratory of Chemical Biology and Traditional Chinese Medicine Research
(Ministry of Education), College of Chemistry and Chemical Engineering, Hunan Normal University, Changsha 410081, People’s Republic of China
- State
Key Laboratory of Chemo/Biosensing and Chemometrics, Hunan University, Changsha 410082, People’s Republic of China
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39
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Shah P, Choi SW, Kim HJ, Cho SK, Thulstrup PW, Bjerrum MJ, Bhang YJ, Ahn JC, Yang SW. DNA/RNA chimera templates improve the emission intensity and target the accessibility of silver nanocluster-based sensors for human microRNA detection. Analyst 2015; 140:3422-30. [PMID: 25759134 DOI: 10.1039/c5an00093a] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
In recent years microRNAs (miRNAs) have been established as important biomarkers in a variety of diseases including cancer, diabetes, cardiovascular disease, aging, Alzheimer's disease, asthma, autoimmune disease and liver diseases. As a consequence, a variety of monitoring methods for miRNAs have been developed, including a fast and simple method for miRNA detection by exploitation of the unique photoluminescence of DNA-templated silver nanoclusters (DNA/AgNCs). To increase the versatility of the AgNC-based method, we have adopted DNA/RNA chimera templates for AgNC-based probes, allowing response from several human miRNAs which are hardly detectable with DNA-based probes. Here, we demonstrate in detail the power of DNA/RNA chimera/AgNC probes in detecting two human miRNAs, let-7a and miR-200c. The DNA/RNA chimera-based probes are highly efficient to determine the level of miRNAs in several human cell lines.
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Affiliation(s)
- Pratik Shah
- UNIK Center for Synthetic Biology, University of Copenhagen, Thorvaldsensvej 40, DK-1871 Frederiksberg C, Copenhagen, Denmark.
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40
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Hudcova K, Trnkova L, Kejnovska I, Vorlickova M, Gumulec J, Kizek R, Masarik M. Novel biophysical determination of miRNAs related to prostate and head and neck cancers. EUROPEAN BIOPHYSICS JOURNAL: EBJ 2015; 44:131-8. [PMID: 25650273 DOI: 10.1007/s00249-015-1008-y] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/19/2014] [Revised: 12/15/2014] [Accepted: 01/13/2015] [Indexed: 01/26/2023]
Abstract
In this study we have chosen a new approach and characterized three miRNAs (miR-23a, miR-34a and miR-320a) related to prostate cancer and head and neck cancer by spectral (circular dichroic and UV-absorption spectra) and electrochemical (voltammetry at graphite and mercury electrodes) methods. The spectral and voltammetric results, reflecting different nucleotide sequences of miRNAs, were complemented by the results of DNAs(U) having the same oligonucleotide sequences as miRNAs. The effect of the substitution of ribose for deoxyribose was shown and structural diversity was confirmed. The stability of RNA and DNA(U) was studied using CD and UV-absorption spectroscopy and melting points were calculated. MiRNA-320a with the highest content of guanine provided the highest melting point. With respect to the rapid progress of miRNA electrochemical sensors, our results will be useful for the research and development of sensitive, portable and time-efficient miRNA sensors, which will be able to diagnose cancer and other diseases.
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Affiliation(s)
- Kristyna Hudcova
- Department of Pathological Physiology, Faculty of Medicine, Masaryk University, Kamenice 5, 625 00, Brno, Czech Republic
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41
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Lee J, Kang HJ, Lee YS, Heo H, Gu HN, Cho S, Kim S. A self-assembling magnetic resonance beacon for the detection of microRNA-1. Chem Commun (Camb) 2015; 51:7199-202. [DOI: 10.1039/c4cc10231b] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
A self-assembling magnetic resonance beacon was used to visualize the microRNA-1 expression-dependent change in magnetic resonance signal intensity.
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Affiliation(s)
- Jonghwan Lee
- Institute for Bio-Medical Convergence
- College of Medicine
- Catholic Kwandong University
- Gangneung-si
- Gangwon-do
| | - Hyo Jin Kang
- Institute for Bio-Medical Convergence
- College of Medicine
- Catholic Kwandong University
- Gangneung-si
- Gangwon-do
| | - Yong Seung Lee
- Institute for Bio-Medical Convergence
- College of Medicine
- Catholic Kwandong University
- Gangneung-si
- Gangwon-do
| | - Hyejung Heo
- Institute for Bio-Medical Convergence
- College of Medicine
- Catholic Kwandong University
- Gangneung-si
- Gangwon-do
| | - Ha-Na Gu
- Institute for Bio-Medical Convergence
- College of Medicine
- Catholic Kwandong University
- Gangneung-si
- Gangwon-do
| | - Sujeong Cho
- Institute for Bio-Medical Convergence
- College of Medicine
- Catholic Kwandong University
- Gangneung-si
- Gangwon-do
| | - Soonhag Kim
- Institute for Bio-Medical Convergence
- College of Medicine
- Catholic Kwandong University
- Gangneung-si
- Gangwon-do
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42
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Zhang H, Liu Y, Gao J, Zhen J. A sensitive SERS detection of miRNA using a label-free multifunctional probe. Chem Commun (Camb) 2015; 51:16836-9. [DOI: 10.1039/c5cc06225j] [Citation(s) in RCA: 48] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
Abstract
A novel surface enhanced Raman scattering (SERS) detection method is fabricated for miRNA based on a smart multifunctional probe for dual cyclical nucleic acid strand-displacement polymerization (CNDP).
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Affiliation(s)
- Hao Zhang
- Department of Chemistry
- Qilu University of Technology
- Jinan 250353
- China
| | - Yu Liu
- Department of Chemistry
- Qilu University of Technology
- Jinan 250353
- China
| | - Jian Gao
- Department of Chemistry
- Qilu University of Technology
- Jinan 250353
- China
| | - Junhui Zhen
- School of Medicine
- Shandong University
- Jinan 250012
- China
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43
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44
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Deng H, Shen W, Ren Y, Gao Z. A highly sensitive microRNA biosensor based on hybridized microRNA-guided deposition of polyaniline. Biosens Bioelectron 2014; 60:195-200. [DOI: 10.1016/j.bios.2014.04.023] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2014] [Revised: 04/04/2014] [Accepted: 04/15/2014] [Indexed: 11/26/2022]
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45
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Guven B, Dudak FC, Boyaci IH, Tamer U, Ozsoz M. SERS-based direct and sandwich assay methods for mir-21 detection. Analyst 2014; 139:1141-7. [PMID: 24418951 DOI: 10.1039/c3an01600e] [Citation(s) in RCA: 40] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
In this study, two different assay methods were developed using a surface enhanced Raman scattering (SERS) label for sensitive miR-21 detection. In the first method (direct assay), the miR-21 probe was attached to SERS-labelled, rod-shaped gold nanoparticles and hybridised with the target miR-21, which was previously immobilised onto the gold slide. In the second method (sandwich assay), the target miR-21 was captured by an miR-21 probe immobilised onto the gold slide and hybridised with a second miR-21 probe immobilised on the SERS-labeled, rod-shaped gold nanoparticles. SERS signals of developed assays were obtained via a SERS spectrum of 5,5'-dithiobis(2-nitrobenzoic acid) (DTNB) on the rod-shaped nanoparticles. The calibration curves were plotted to measure the different concentrations of miR-21. The detection limits of the direct and sandwich assays, which last less than 40 min, were found to be 0.36 and 0.85 nM, respectively. The developed SERS-based methods offer rapid, selective, sensitive and easy detection of miR-21, especially compared to conventional PCR-based methods.
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Affiliation(s)
- Burcu Guven
- Department of Food Engineering, Faculty of Engineering, Hacettepe University, Beytepe, 06800 Ankara, Turkey.
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46
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Ye LP, Hu J, Liang L, Zhang CY. Surface-enhanced Raman spectroscopy for simultaneous sensitive detection of multiple microRNAs in lung cancer cells. Chem Commun (Camb) 2014; 50:11883-6. [DOI: 10.1039/c4cc05598e] [Citation(s) in RCA: 72] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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47
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Negri P, Choi JY, Jones C, Tompkins SM, Tripp R, Dluhy RA. Identification of virulence determinants in influenza viruses. Anal Chem 2014; 86:6911-7. [PMID: 24937567 PMCID: PMC4116746 DOI: 10.1021/ac500659f] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2014] [Accepted: 06/17/2014] [Indexed: 01/15/2023]
Abstract
To date there is no rapid method to screen for highly pathogenic avian influenza strains that may be indicators of future pandemics. We report here the first development of an oligonucleotide-based spectroscopic assay to rapidly and sensitively detect a N66S mutation in the gene coding for the PB1-F2 protein associated with increased virulence in highly pathogenic pandemic influenza viruses. 5'-Thiolated ssDNA oligonucleotides were employed as probes to capture RNA isolated from six influenza viruses, three having N66S mutations, two without the N66S mutation, and one deletion mutant not encoding the PB1-F2 protein. Hybridization was detected without amplification or labeling using the intrinsic surfaced-enhanced Raman spectrum of the DNA-RNA complex. Multivariate analysis identified target RNA binding from noncomplementary sequences with 100% sensitivity, 100% selectivity, and 100% correct classification in the test data set. These results establish that optical-based diagnostic methods are able to directly identify diagnostic indicators of virulence linked to highly pathogenic pandemic influenza viruses without amplification or labeling.
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Affiliation(s)
- Pierre Negri
- Department
of Chemistry, University of Georgia, Athens, Georgia 30602 United States
| | - Joo Young Choi
- Department
of Chemistry, University of Georgia, Athens, Georgia 30602 United States
| | - Cheryl Jones
- Department
of Infectious Disease, University of Georgia, Athens, Georgia 30602 United States
| | - S. Mark Tompkins
- Department
of Infectious Disease, University of Georgia, Athens, Georgia 30602 United States
| | - Ralph
A. Tripp
- Department
of Infectious Disease, University of Georgia, Athens, Georgia 30602 United States
| | - Richard A. Dluhy
- Department
of Chemistry, University of Georgia, Athens, Georgia 30602 United States
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48
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Zhang LR, Zhu G, Zhang CY. Homogeneous and Label-Free Detection of MicroRNAs Using Bifunctional Strand Displacement Amplification-Mediated Hyperbranched Rolling Circle Amplification. Anal Chem 2014; 86:6703-9. [DOI: 10.1021/ac501645x] [Citation(s) in RCA: 79] [Impact Index Per Article: 7.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Affiliation(s)
- Li-rong Zhang
- Single-Molecule Detection and Imaging Laboratory, Shenzhen Institutes
of Advanced Technology, Chinese Academy of Sciences, Shenzhen, Guangdong 518055, China
| | - Guichi Zhu
- Single-Molecule Detection and Imaging Laboratory, Shenzhen Institutes
of Advanced Technology, Chinese Academy of Sciences, Shenzhen, Guangdong 518055, China
| | - Chun-yang Zhang
- Single-Molecule Detection and Imaging Laboratory, Shenzhen Institutes
of Advanced Technology, Chinese Academy of Sciences, Shenzhen, Guangdong 518055, China
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49
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Shu L, Zhou J, Yuan X, Petti L, Chen J, Jia Z, Mormile P. Highly sensitive immunoassay based on SERS using nano-Au immune probes and a nano-Ag immune substrate. Talanta 2014; 123:161-8. [DOI: 10.1016/j.talanta.2014.02.015] [Citation(s) in RCA: 36] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/06/2013] [Revised: 01/27/2014] [Accepted: 02/02/2014] [Indexed: 11/27/2022]
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50
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