1
|
Shvalya V, Vasudevan A, Modic M, Abutoama M, Skubic C, Nadižar N, Zavašnik J, Vengust D, Zidanšek A, Abdulhalim I, Rozman D, Cvelbar U. Bacterial DNA Recognition by SERS Active Plasma-Coupled Nanogold. NANO LETTERS 2022; 22:9757-9765. [PMID: 36301628 PMCID: PMC9756328 DOI: 10.1021/acs.nanolett.2c02835] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/18/2022] [Revised: 10/14/2022] [Indexed: 06/16/2023]
Abstract
It is shown that surface-enhanced Raman spectroscopy (SERS) can identify bacteria based on their genomic DNA composition, acting as a "sample-distinguishing marker". Successful spectral differentiation of bacterial species was accomplished with nanogold aggregates synthesized through single-step plasma reduction of the ionic gold-containing vapored precursor. A high enhancement factor (EF = 107) in truncated coupled plasmonic particulates allowed SERS-probing at nanogram sample quantities. Simulations confirmed the occurrence of the strongest electric field confinement within nanometric gaps between gold dimers/chains from where the molecular fingerprints of bacterial DNA fragments gained photon scattering enhancement. The most prominent Raman modes linked to fundamental base-pair molecular vibrations were deconvoluted and used to proceed with nitrogenous base content estimation. The genomic composition (percentage of guanine-cytosine and adenine-thymine) was successfully validated by third-generation sequencing using nanopore technology, further proving that the SERS technique can be employed to swiftly specify bioentities by the discriminative principal-component statistical approach.
Collapse
Affiliation(s)
- Vasyl Shvalya
- Department
of Gaseous Electronics (F6), Jožef
Stefan Institute, Jamova cesta 39, SI-1000 Ljubljana, Slovenia
| | - Aswathy Vasudevan
- Department
of Gaseous Electronics (F6), Jožef
Stefan Institute, Jamova cesta 39, SI-1000 Ljubljana, Slovenia
- Jozef
Stefan International Postgraduate School, Jamova cesta 39, SI-1000 Ljubljana, Slovenia
| | - Martina Modic
- Department
of Gaseous Electronics (F6), Jožef
Stefan Institute, Jamova cesta 39, SI-1000 Ljubljana, Slovenia
| | - Mohammad Abutoama
- Department
of Electrooptics and Photonics Engineering and the Ilse Katz Center
for Nanoscale Science and Technology, School of Electrical and Computer
Engineering, Ben-Gurion University of the
Negev, Beer Sheba 84105, Israel
| | - Cene Skubic
- Centre
for Functional Genomics and Bio-Chips, Institute of Biochemistry and
Molecular Genetics, Faculty of Medicine, University of Ljubljana, Zaloška 4, SI-1000 Ljubljana, Slovenia
| | - Nejc Nadižar
- Centre
for Functional Genomics and Bio-Chips, Institute of Biochemistry and
Molecular Genetics, Faculty of Medicine, University of Ljubljana, Zaloška 4, SI-1000 Ljubljana, Slovenia
| | - Janez Zavašnik
- Department
of Gaseous Electronics (F6), Jožef
Stefan Institute, Jamova cesta 39, SI-1000 Ljubljana, Slovenia
| | - Damjan Vengust
- Department
of Gaseous Electronics (F6), Jožef
Stefan Institute, Jamova cesta 39, SI-1000 Ljubljana, Slovenia
| | - Aleksander Zidanšek
- Department
of Gaseous Electronics (F6), Jožef
Stefan Institute, Jamova cesta 39, SI-1000 Ljubljana, Slovenia
- Jozef
Stefan International Postgraduate School, Jamova cesta 39, SI-1000 Ljubljana, Slovenia
| | - Ibrahim Abdulhalim
- Department
of Electrooptics and Photonics Engineering and the Ilse Katz Center
for Nanoscale Science and Technology, School of Electrical and Computer
Engineering, Ben-Gurion University of the
Negev, Beer Sheba 84105, Israel
| | - Damjana Rozman
- Centre
for Functional Genomics and Bio-Chips, Institute of Biochemistry and
Molecular Genetics, Faculty of Medicine, University of Ljubljana, Zaloška 4, SI-1000 Ljubljana, Slovenia
| | - Uroš Cvelbar
- Department
of Gaseous Electronics (F6), Jožef
Stefan Institute, Jamova cesta 39, SI-1000 Ljubljana, Slovenia
- Jozef
Stefan International Postgraduate School, Jamova cesta 39, SI-1000 Ljubljana, Slovenia
| |
Collapse
|
2
|
Li J, Jiao Z, Li J, Bai H, Xi G. Plasmonic rhenium trioxide self-assembled microtubes for highly sensitive, stable and reproducible surface-enhanced raman spectroscopy detection. CHINESE CHEM LETT 2022. [DOI: 10.1016/j.cclet.2022.05.086] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
|
3
|
Bhatt S, Vyas G, Paul P. Rosmarinic Acid-Capped Silver Nanoparticles for Colorimetric Detection of CN - and Redox-Modulated Surface Reaction-Aided Detection of Cr(VI) in Water. ACS OMEGA 2022; 7:1318-1328. [PMID: 35036793 PMCID: PMC8757454 DOI: 10.1021/acsomega.1c05946] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/24/2021] [Accepted: 12/14/2021] [Indexed: 05/14/2023]
Abstract
Rosmarinic acid-capped silver nanoparticles (Ro-AgNPs) were prepared and applied as a probe for selective colorimetric detection of cyanide (CN-) and chromium(VI) [Cr(VI)] under different conditions in aqueous media. The carbon atom of CN- interacts with the AgNPs, and the carbon atom donates electrons from the HOMO to the vacant orbitals of the coordinatively unsaturated surface atom (Ag0). After donating electrons, CN- attached onto the surface of the nanoparticles becomes very reactive and interacts with dissolved oxygen and generates reactive oxygen species (ROS) such as superoxide (O2 -), singlet oxygen (1O2), and so forth. In this process, Ag0 oxidizes to Ag+ and combines with CN- forming water-insoluble AgCN, and the ROS (O2 -) formed reacts with Ag/Ag+ to form Ag2O. The oxidation of Ag0 to Ag+ resulted in dissolution of AgNPs, which causes disappearance of the surface plasmon resonance band and color change from yellow to colorless. For detection of Cr(VI), ascorbic acid and CN- were added first; the ascorbic acid replaced the rosmarinic acid and then reduced the added Cr(VI) to Cr(III), and, in this process, ascorbic acid was oxidized to dehydroascorbic acid, which moved away from the nanoparticles' surface. CN- then interacted with the surface Ag0 atom, got activated, and interacted with dissolved oxygen forming Ag+ and ROS, which then followed the same process as described for CN- to form AgCN and Ag2O with a color change. The limits of detection were found to be 0.01 and 0.03 μM for CN- and Cr(VI), respectively. The material was also used for sensing CN- and Cr(VI) in real samples, and the results obtained were satisfactory. For field application, agarose-based strips were prepared by immobilizing the nanoparticles onto the agarose film and successfully used for the detection of CN- and Cr(VI) in water.
Collapse
Affiliation(s)
- Shreya Bhatt
- Analytical
and Environmental Science Division & Centralized Instrument Facility, CSIR-Central Salt and Marine Chemicals Research Institute, G. B. Marg, Bhavnagar 364002, India
- Academy
of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India
| | - Gaurav Vyas
- Analytical
and Environmental Science Division & Centralized Instrument Facility, CSIR-Central Salt and Marine Chemicals Research Institute, G. B. Marg, Bhavnagar 364002, India
- Academy
of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India
| | - Parimal Paul
- Analytical
and Environmental Science Division & Centralized Instrument Facility, CSIR-Central Salt and Marine Chemicals Research Institute, G. B. Marg, Bhavnagar 364002, India
- Academy
of Scientific and Innovative Research (AcSIR), Ghaziabad 201002, India
| |
Collapse
|
4
|
Lu C, Zhou S, Gao F, Lin J, Liu J, Zheng J. DNA-Mediated Growth of Noble Metal Nanomaterials for Biosensing Applications. Trends Analyt Chem 2022. [DOI: 10.1016/j.trac.2022.116533] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/27/2022]
|
5
|
Ding Z, Li Y, Bao Y, Han K, Turepu I, Li G. A Sensitive Signal-on Supersandwich DNA Biosensor Based on the Enhancement of Poly(aniline-luminol) Nanowires Electrochemiluminescence by Ferrocene. ANAL SCI 2021; 37:1525-1531. [PMID: 33867402 DOI: 10.2116/analsci.21p027] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
A signal-on supersandwich type of electrochemiluminescence (ECL) DNA biosensor was developed based on the poly(aniline-luminol) nanowires (PALNWs) modified electrode and enhancement of ferrocene (Fc) on ECL of luminol. Aminated capture DNA was covalently linked to the PALNWs on the electrode surface by the crosslinking of glutaraldehyde. In presence of target DNA, its 3' terminus hybridizes with the capture probe and the 5' terminus hybridizes with ferrocene labeled DNA (Fc-DNA) to form a long DNA concatamer supersandwich structure. The ECL intensity of the prepared biosensor was clearly improved by increasing the concentration of target DNA due to the enhancement of ferrocene on luminol ECL. The difference of the ECL intensity in the absence and presence of target DNA was used to monitor the hybridization event. The difference of ECL linearly increased with the logarithm of target DNA concentration in the range from 1.0 × 10-16 - 1.0 × 10-8 mol L-1 with a detection limit of 5.8 × 10-17 mol L-1. The sensor had high sensitivity and wide linear relationship for the detection of target DNA.
Collapse
Affiliation(s)
- Zhifang Ding
- Xinjiang Key Laboratory of Energy Storage and Photoelectrocatalytic Materials, School of Chemistry and Chemical Engineering, Xinjiang Normal University
| | - Yue Li
- Xinjiang Key Laboratory of Energy Storage and Photoelectrocatalytic Materials, School of Chemistry and Chemical Engineering, Xinjiang Normal University
| | - Ying Bao
- Xinjiang Key Laboratory of Energy Storage and Photoelectrocatalytic Materials, School of Chemistry and Chemical Engineering, Xinjiang Normal University
| | - Kexin Han
- Xinjiang Key Laboratory of Energy Storage and Photoelectrocatalytic Materials, School of Chemistry and Chemical Engineering, Xinjiang Normal University
| | - Iparguli Turepu
- Xinjiang Key Laboratory of Energy Storage and Photoelectrocatalytic Materials, School of Chemistry and Chemical Engineering, Xinjiang Normal University
| | - Guixin Li
- Xinjiang Key Laboratory of Energy Storage and Photoelectrocatalytic Materials, School of Chemistry and Chemical Engineering, Xinjiang Normal University
| |
Collapse
|
6
|
Ahn SY, Liu J, Vellampatti S, Wu Y, Um SH. DNA Transformations for Diagnosis and Therapy. ADVANCED FUNCTIONAL MATERIALS 2021; 31:2008279. [PMID: 33613148 PMCID: PMC7883235 DOI: 10.1002/adfm.202008279] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/28/2020] [Revised: 11/22/2020] [Indexed: 05/03/2023]
Abstract
Due to its unique physical and chemical characteristics, DNA, which is known only as genetic information, has been identified and utilized as a new material at an astonishing rate. The role of DNA has increased dramatically with the advent of various DNA derivatives such as DNA-RNA, DNA-metal hybrids, and PNA, which can be organized into 2D or 3D structures by exploiting their complementary recognition. Due to its intrinsic biocompatibility, self-assembly, tunable immunogenicity, structural programmability, long stability, and electron-rich nature, DNA has generated major interest in electronic and catalytic applications. Based on its advantages, DNA and its derivatives are utilized in several fields where the traditional methodologies are ineffective. Here, the present challenges and opportunities of DNA transformations are demonstrated, especially in biomedical applications that include diagnosis and therapy. Natural DNAs previously utilized and transformed into patterns are not found in nature due to lack of multiplexing, resulting in low sensitivity and high error frequency in multi-targeted therapeutics. More recently, new platforms have advanced the diagnostic ability and therapeutic efficacy of DNA in biomedicine. There is confidence that DNA will play a strong role in next-generation clinical technology and can be used in multifaceted applications.
Collapse
Affiliation(s)
- So Yeon Ahn
- School of Chemical EngineeringSungkyunkwan University2066, Seobu‐ro, Jangan‐guSuwonGyeonggi‐do16419Korea
| | - Jin Liu
- Hubei Key Laboratory of Bioinorganic Chemistry and Materia MedicaSchool of Chemistry and Chemical Engineering Huazhong University of Science and Technology1037 Luoyu LoadWuhan430074China
| | - Srivithya Vellampatti
- Institute of Convergent Chemical Engineering and TechnologySungkyunkwan University2066, Seobu‐ro, Jangan‐guSuwonGyeonggi‐do16419Korea
- Present address:
Progeneer, Inc.#1002, 12, Digital‐ro 31‐gil, Guro‐guSeoul08380Korea
| | - Yuzhou Wu
- Hubei Key Laboratory of Bioinorganic Chemistry and Materia MedicaSchool of Chemistry and Chemical Engineering Huazhong University of Science and Technology1037 Luoyu LoadWuhan430074China
| | - Soong Ho Um
- School of Chemical EngineeringSKKU Advanced Institute of Nanotechnology (SAINT)Biomedical Institute for Convergence at SKKU (BICS) and Institute of Quantum Biophysics (IQB)Sungkyunkwan University2066, Seobu‐ro, Jangan‐guSuwonGyeonggi‐do16419Korea
- Progeneer Inc.#1002, 12, Digital‐ro 31‐gil, Guro‐guSeoul08380Korea
| |
Collapse
|
7
|
Kim Y, Lee H. Balanced Detection Method Using Optical Affinity Sensors for Quick Measurement of Biomolecule Concentrations. Anal Chem 2020; 92:6189-6193. [PMID: 32298099 DOI: 10.1021/acs.analchem.0c00637] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
To determine the concentration of biomolecules using a label-free optical biosensor, it is necessary to measure the serial signal from the reaction starting point, which is inconvenient for practical applications. Here, we propose an alternative detection method for determining the concentration of a biomolecule. The method, which is derived from the fraction bound equation of the Langmuir adsorption model, determines the concentration relative to a reference sample with required accuracy, with a single measurement at any point in time. We also experimentally demonstrated the method and its accuracy by detecting streptavidin-biotin complexes using on-chip optical sensors based on active disk resonators integrated with microfluidic circuits. By performing the proposed method in a simultaneous parallel measurement scheme, signal fluctuations evenly induced in the detectors by external perturbations could be automatically suppressed, similar to the balanced detection method. We expect our approach to be applicable to practical applications where fast and accurate detection responses are needed.
Collapse
Affiliation(s)
- Yeseul Kim
- Department of Physics, Korea Advanced Institute of Science and Technology, Daejeon 34141, Republic of Korea
| | - Hansuek Lee
- Department of Physics, Korea Advanced Institute of Science and Technology, Daejeon 34141, Republic of Korea.,Graduate School of Nanoscience and Technology, Korea Advanced Institute of Science and Technology, Daejeon 34141, Republic of Korea
| |
Collapse
|
8
|
Jabłońska A, Jaworska A, Kasztelan M, Berbeć S, Pałys B. Graphene and Graphene Oxide Applications for SERS Sensing and Imaging. Curr Med Chem 2020; 26:6878-6895. [PMID: 30289065 DOI: 10.2174/0929867325666181004152247] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/17/2018] [Revised: 09/17/2018] [Accepted: 09/18/2018] [Indexed: 11/22/2022]
Abstract
Surface Enhanced Raman Spectroscopy (SERS) has a long history as an ultrasensitive platform for the detection of biological species from small aromatic molecules to complex biological systems as circulating tumor cells. Thanks to unique properties of graphene, the range of SERS applications has largely expanded. Graphene is efficient fluorescence quencher improving quality of Raman spectra. It contributes also to the SERS enhancement factor through the chemical mechanism. In turn, the chemical flexibility of Reduced Graphene Oxide (RGO) enables tunable adsorption of molecules or cells on SERS active surfaces. Graphene oxide composites with SERS active nanoparticles have been also applied for Raman imaging of cells. This review presents a survey of SERS assays employing graphene or RGO emphasizing the improvement of SERS enhancement brought by graphene or RGO. The structure and physical properties of graphene and RGO will be discussed too.
Collapse
Affiliation(s)
- Anna Jabłońska
- Chemical and Biological Research Centre, University of Warsaw, Zwirki i Wigury str. 101, Warsaw, PL-02- 089, Poland
| | - Aleksandra Jaworska
- Faculty of Chemistry, University of Warsaw, Pasteur str. 1, Warsaw, PL-02-093, Poland
| | - Mateusz Kasztelan
- Faculty of Chemistry, University of Warsaw, Pasteur str. 1, Warsaw, PL-02-093, Poland
| | - Sylwia Berbeć
- Faculty of Chemistry, University of Warsaw, Pasteur str. 1, Warsaw, PL-02-093, Poland
| | - Barbara Pałys
- Chemical and Biological Research Centre, University of Warsaw, Zwirki i Wigury str. 101, Warsaw, PL-02- 089, Poland
| |
Collapse
|
9
|
Franco D, De Plano LM, Rizzo MG, Scibilia S, Lentini G, Fazio E, Neri F, Guglielmino SPP, Mezzasalma AM. Bio-hybrid gold nanoparticles as SERS probe for rapid bacteria cell identification. SPECTROCHIMICA ACTA. PART A, MOLECULAR AND BIOMOLECULAR SPECTROSCOPY 2020; 224:117394. [PMID: 31351419 DOI: 10.1016/j.saa.2019.117394] [Citation(s) in RCA: 29] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/16/2019] [Revised: 07/15/2019] [Accepted: 07/15/2019] [Indexed: 06/10/2023]
Abstract
This study reports the utilization of engineered molecular networks between bacteriophage (or phage) and gold nanoparticles (AuNPs) prepared ablating a high purity gold target in water by nanosecond laser source. Gold colloids are assembled with P9b phage clone, displaying the specific peptide (QRKLAAKLT), able to bind P. aeruginosa. The single components and assembled systems were characterized by spectroscopic and electronic techniques, such as the conventional optical absorption and micro-Raman spectroscopies as well as the Dynamic Light Scattering (DLS) and Scanning Transmission Electron Microscopy (STEM) techniques. The performance of the AuNPs-phage assembly as substrate for Surface-Enhanced Raman Spectroscopy (SERS) was tested against the detection of the characteristics Raman vibrational features of the Pseudomonas aeruginosa bacteria.
Collapse
Affiliation(s)
- D Franco
- Dipartimento di Scienze Matematiche ed Informatiche, Scienze Fisiche e Scienze della Terra (MIFT), University of Messina, Messina 98166, Italy
| | - L M De Plano
- Dipartimento di Scienze Chimiche, Biologiche, Farmaceutiche e Ambientali, University of Messina, Messina 98166, Italy
| | - M G Rizzo
- Dipartimento di Scienze Chimiche, Biologiche, Farmaceutiche e Ambientali, University of Messina, Messina 98166, Italy
| | - S Scibilia
- Dipartimento di Scienze Matematiche ed Informatiche, Scienze Fisiche e Scienze della Terra (MIFT), University of Messina, Messina 98166, Italy
| | - G Lentini
- Dipartimento di Patologia Umana dell'adulto e dell'età Evolutiva "Gaetano Barresi", University of Messina, Messina, 98125, Italy
| | - E Fazio
- Dipartimento di Scienze Matematiche ed Informatiche, Scienze Fisiche e Scienze della Terra (MIFT), University of Messina, Messina 98166, Italy
| | - F Neri
- Dipartimento di Scienze Matematiche ed Informatiche, Scienze Fisiche e Scienze della Terra (MIFT), University of Messina, Messina 98166, Italy
| | - S P P Guglielmino
- Dipartimento di Scienze Chimiche, Biologiche, Farmaceutiche e Ambientali, University of Messina, Messina 98166, Italy
| | - A M Mezzasalma
- Dipartimento di Scienze Matematiche ed Informatiche, Scienze Fisiche e Scienze della Terra (MIFT), University of Messina, Messina 98166, Italy.
| |
Collapse
|
10
|
Pyrak E, Krajczewski J, Kowalik A, Kudelski A, Jaworska A. Surface Enhanced Raman Spectroscopy for DNA Biosensors-How Far Are We? Molecules 2019; 24:E4423. [PMID: 31817059 PMCID: PMC6943648 DOI: 10.3390/molecules24244423] [Citation(s) in RCA: 40] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2019] [Revised: 11/28/2019] [Accepted: 11/29/2019] [Indexed: 12/20/2022] Open
Abstract
A sensitive and accurate identification of specific DNA fragments (usually containing a mutation) can influence clinical decisions. Standard methods routinely used for this type of detection are PCR (Polymerase Chain Reaction, and its modifications), and, less commonly, NGS (Next Generation Sequencing). However, these methods are quite complicated, requiring time-consuming, multi-stage sample preparation, and specially trained staff. Usually, it takes weeks for patients to obtain their results. Therefore, different DNA sensors are being intensively developed by many groups. One technique often used to obtain an analytical signal from DNA sensors is Raman spectroscopy. Its modification, surface-enhanced Raman spectroscopy (SERS), is especially useful for practical analytical applications due to its extra low limit of detection. SERS takes advantage of the strong increase in the efficiency of Raman signal generation caused by a local electric field enhancement near plasmonic (typically gold and silver) nanostructures. In this condensed review, we describe the most important types of SERS-based nanosensors for genetic studies and comment on their potential for becoming diagnostic tools.
Collapse
Affiliation(s)
- Edyta Pyrak
- Faculty of Chemistry, University of Warsaw, 1 Pasteur St., 02-093 Warsaw, Poland; (E.P.); (J.K.)
- Nencki Institute of Experimental Biology of Polish Academy of Sciences, 3 Pasteur St., 02-093 Warsaw, Poland
| | - Jan Krajczewski
- Faculty of Chemistry, University of Warsaw, 1 Pasteur St., 02-093 Warsaw, Poland; (E.P.); (J.K.)
| | - Artur Kowalik
- Holy Cross Cancer Center, 3 Stefana Artwińskiego St., 25-734 Kielce, Poland
| | - Andrzej Kudelski
- Faculty of Chemistry, University of Warsaw, 1 Pasteur St., 02-093 Warsaw, Poland; (E.P.); (J.K.)
| | - Aleksandra Jaworska
- Faculty of Chemistry, University of Warsaw, 1 Pasteur St., 02-093 Warsaw, Poland; (E.P.); (J.K.)
| |
Collapse
|
11
|
Nanomaterials as efficient platforms for sensing DNA. Biomaterials 2019; 214:119215. [DOI: 10.1016/j.biomaterials.2019.05.026] [Citation(s) in RCA: 36] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2019] [Revised: 05/13/2019] [Accepted: 05/16/2019] [Indexed: 02/07/2023]
|
12
|
Shao H, Lin H, Guo Z, Lu J, Jia Y, Ye M, Su F, Niu L, Kang W, Wang S, Hu Y, Huang Y. A multiple signal amplification sandwich-type SERS biosensor for femtomolar detection of miRNA. Biosens Bioelectron 2019; 143:111616. [PMID: 31472412 DOI: 10.1016/j.bios.2019.111616] [Citation(s) in RCA: 51] [Impact Index Per Article: 10.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2019] [Revised: 08/07/2019] [Accepted: 08/19/2019] [Indexed: 12/24/2022]
Abstract
MicroRNAs are widely used as tumor markers for cancer diagnosis and prognosis. Herein, a multiple signal amplification sandwich-type SERS biosensor for femtomolar detection of miRNA is reported. The signal unit consisted of giant Au vesicles, DNA sequences and deposited silver nanoparticles. The giant Au vesicles provided large-volume hot spots because of sharp tips and abundant hotspot gaps, thus enhancing the electromagnetic intensity for the SERS performance. Further silver stain would easily lead to second-stage amplification of Raman signal. In addition, more SERS signal molecules R6G adsorbed on the signal unit with the aid of HCR and the controlled nanogaps between adjacent AgNPs, brought about the third-stage amplification. The capture unit, prepared by immobilizing the capture probe (CP) on the Fe3O4@AuNPs, could easily capture target miRNA and greatly simplify the separation step to improve reproducibility. The higher concentration of target miRNA definitely formed more sandwich-type structures with combination of capture unit and signal unit, resulting in multiple amplification of SERS signals. The proposed multiple signal amplification sandwich-type SERS biosensor could detect miRNA-141 at the femtomolar level with a low detection limit of 0.03 fM. Meanwhile, it exhibited high selectivity and accuracy, even for practical analysis in human serum. Therefore, the designed multiple signal amplification sandwich-type SERS biosensor would be a very promising alternative tool for the detection of miRNA and analogs in the field of biomedical diagnosis.
Collapse
Affiliation(s)
- Huili Shao
- State Key Laboratory for Quality and Safety of Agro-products, School of Material Science and Chemical Engineering, Ningbo University, Ningbo, 315211, PR China
| | - Han Lin
- State Key Laboratory for Quality and Safety of Agro-products, School of Material Science and Chemical Engineering, Ningbo University, Ningbo, 315211, PR China; Key Laboratory of Marine Materials and Related Technologies, Zhejiang Key Laboratory of Marine Materials and Protective Technologies, Division of Polymer and Composite Materials, Ningbo Institute of Materials Technology & Engineering, Chinese Academy of Sciences, Ningbo, 315201, PR China
| | - Zhiyong Guo
- State Key Laboratory for Quality and Safety of Agro-products, School of Material Science and Chemical Engineering, Ningbo University, Ningbo, 315211, PR China.
| | - Jing Lu
- State Key Laboratory for Quality and Safety of Agro-products, School of Material Science and Chemical Engineering, Ningbo University, Ningbo, 315211, PR China
| | - Yaru Jia
- State Key Laboratory for Quality and Safety of Agro-products, School of Material Science and Chemical Engineering, Ningbo University, Ningbo, 315211, PR China; Key Laboratory of Marine Materials and Related Technologies, Zhejiang Key Laboratory of Marine Materials and Protective Technologies, Division of Polymer and Composite Materials, Ningbo Institute of Materials Technology & Engineering, Chinese Academy of Sciences, Ningbo, 315201, PR China
| | - Meng Ye
- Department of Medical Oncology, The Affiliated Hospital of Medical School, Ningbo University, Ningbo, 315020, PR China.
| | - Fengmei Su
- National Engineering Research Centre for Advanced Polymer Processing Technology, Key Laboratory of Materials Processing and Mold (Zhengzhou University), Ministry of Education, Zhengzhou University, Zhengzhou, 450002, PR China
| | - Lingmei Niu
- School of Public Health, Hebei Medical University, Shijiazhuang, 050017, PR China
| | - Weijun Kang
- School of Public Health, Hebei Medical University, Shijiazhuang, 050017, PR China
| | - Sui Wang
- State Key Laboratory for Quality and Safety of Agro-products, School of Material Science and Chemical Engineering, Ningbo University, Ningbo, 315211, PR China
| | - Yufang Hu
- State Key Laboratory for Quality and Safety of Agro-products, School of Material Science and Chemical Engineering, Ningbo University, Ningbo, 315211, PR China
| | - Youju Huang
- Key Laboratory of Marine Materials and Related Technologies, Zhejiang Key Laboratory of Marine Materials and Protective Technologies, Division of Polymer and Composite Materials, Ningbo Institute of Materials Technology & Engineering, Chinese Academy of Sciences, Ningbo, 315201, PR China.
| |
Collapse
|
13
|
Abstract
Specific nucleic acid detection in vitro or in vivo has become increasingly important in the discovery of genetic diseases, diagnosing pathogen infection and monitoring disease treatment. One challenge, however, is that the amount of target nucleic acid in specimens is limited. Furthermore, direct sensing methods are also unable to provide sufficient sensitivity and specificity. Fortunately, due to advances in nanotechnology and nanomaterials, nanotechnology-based bioassays have emerged as powerful and promising approaches providing ultra-high sensitivity and specificity in nucleic acid detection. This chapter presents an overview of strategies used in the development and integration of nanotechnology for nucleic acid detection, including optical and electrical detection methods, and nucleic acid assistant recycling amplification strategies. Recent 5 years representative examples are reviewed to demonstrate the proof-of-concept with promising applications for DNA/RNA detection and the underlying mechanism for detection of DNA/RNA with the higher sensitivity and selectivity. Furthermore, a brief discussion of common unresolved issues and future trends in this field is provided both from fundamental and practical point of view.
Collapse
Affiliation(s)
- Hong Zhou
- Shandong Provincial Key Laboratory of Detection Technology for Tumor Markers, College of Chemistry and Chemical Engineering, Linyi University, Linyi, China
| | - Jing Liu
- Shandong Provincial Key Laboratory of Detection Technology for Tumor Markers, College of Chemistry and Chemical Engineering, Linyi University, Linyi, China
| | - Jing-Juan Xu
- Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, China.
| | - Shusheng Zhang
- Shandong Provincial Key Laboratory of Detection Technology for Tumor Markers, College of Chemistry and Chemical Engineering, Linyi University, Linyi, China.
| | - Hong-Yuan Chen
- Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing, China
| |
Collapse
|
14
|
Kowalczyk A, Krajczewski J, Kowalik A, Weyher JL, Dzięcielewski I, Chłopek M, Góźdź S, Nowicka AM, Kudelski A. New strategy for the gene mutation identification using surface enhanced Raman spectroscopy (SERS). Biosens Bioelectron 2019; 132:326-332. [DOI: 10.1016/j.bios.2019.03.019] [Citation(s) in RCA: 26] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2019] [Revised: 03/08/2019] [Accepted: 03/11/2019] [Indexed: 01/05/2023]
|
15
|
Bhardwaj N, Bhardwaj SK, Bhatt D, Lim DK, Kim KH, Deep A. Optical detection of waterborne pathogens using nanomaterials. Trends Analyt Chem 2019. [DOI: 10.1016/j.trac.2019.02.019] [Citation(s) in RCA: 42] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
|
16
|
Liu Y, Ding Y, Gao Y, Liu R, Hu X, Lv Y. Enzyme-free amplified DNA assay: five orders of linearity provided by metal stable isotope detection. Chem Commun (Camb) 2019; 54:13782-13785. [PMID: 30393790 DOI: 10.1039/c8cc07036a] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
For the quantification of mutated genes at greatly varied concentrations in body fluids, nucleic acid amplification strategies are often challenged by limited dynamic linear ranges. The proposed metal stable isotope detection strategy demonstrates five orders of linear range and a lower attomol detection limit, showing promising potential in clinical diagnosis.
Collapse
Affiliation(s)
- Yu Liu
- College of Earth Sciences, Chengdu University of Technology, Chengdu, Sichuan 610059, P. R. China
| | | | | | | | | | | |
Collapse
|
17
|
Wen G, Jing Q, Liang A, Jiang Z. A new SERS strategy for quantitative analysis of trace microalbuminuria based on immunorecognition and graphene oxide nanoribbon catalysis. Int J Nanomedicine 2018; 13:6099-6107. [PMID: 30323597 PMCID: PMC6179722 DOI: 10.2147/ijn.s174765] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022] Open
Abstract
Background Microalbuminuria (mAlb) detection is essential for the diagnosis and prognosis of nephrotic patients and hypoproteinemia. In this article, we develop a new surface-enhanced Raman scattering (SERS) quantitative analysis method to detect mAlb in urine. Methods Combined the mAlb immunoreaction with gold nanoreaction of graphene oxide nanoribbons (GONR)-HAuCl4-H2O2, and used Victoria blue B (VBB) as molecular probe with a SERS peak at 1,615 cm−1, a new SERS strategy for quantitative analysis of trace mAlb in urine was established. Results The linear range of SERS quantitative analysis method is from 0.065 to 2.62 ng/mL, with a detection limit of 0.02 ng/mL. The SERS method was applied to analysis of mAlb in urine with good accuracy and reliability, the relative standard deviation is 0.49%–2.28% and the recovery is 96.9%–109.8%. Conclusion This study demonstrated that the new SERS quantitative analysis method is of high sensitivity, good selectivity and simplicity. It has been applied to analysis of mAlb in urine, with satisfactory results.
Collapse
Affiliation(s)
- Guiqing Wen
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, Guangxi Key Laboratory of Environmental Pollution Control Theory and Technology, Guilin, China, ; .,Department of Environment Science, College of Environment and Resources, Guangxi Normal University, Guilin, China, ;
| | - Qi Jing
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, Guangxi Key Laboratory of Environmental Pollution Control Theory and Technology, Guilin, China, ; .,Department of Environment Science, College of Environment and Resources, Guangxi Normal University, Guilin, China, ;
| | - Aihui Liang
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, Guangxi Key Laboratory of Environmental Pollution Control Theory and Technology, Guilin, China, ; .,Department of Environment Science, College of Environment and Resources, Guangxi Normal University, Guilin, China, ;
| | - Zhiliang Jiang
- Key Laboratory of Ecology of Rare and Endangered Species and Environmental Protection (Guangxi Normal University), Ministry of Education, Guangxi Key Laboratory of Environmental Pollution Control Theory and Technology, Guilin, China, ; .,Department of Environment Science, College of Environment and Resources, Guangxi Normal University, Guilin, China, ;
| |
Collapse
|
18
|
Three-dimensional Tri-SNSs-layered electrodeposited reduced graphene oxide for ECL biosensing of DNA. Talanta 2018; 188:58-65. [DOI: 10.1016/j.talanta.2018.05.045] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2018] [Revised: 05/05/2018] [Accepted: 05/11/2018] [Indexed: 12/30/2022]
|
19
|
Park CR, Park SJ, Lee WG, Hwang BH. Biosensors Using Hybridization Chain Reaction - Design and Signal Amplification Strategies of Hybridization Chain Reaction. BIOTECHNOL BIOPROC E 2018. [DOI: 10.1007/s12257-018-0182-z] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
|
20
|
Mukanova Z, Gudun K, Elemessova Z, Khamkhash L, Ralchenko E, Bukasov R. Detection of Paracetamol in Water and Urea in Artificial Urine with Gold Nanoparticle@Al Foil Cost-efficient SERS Substrate. ANAL SCI 2018; 34:183-187. [PMID: 29434104 DOI: 10.2116/analsci.34.183] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
We demonstrated that a cost-efficient, easy to prepare, hybrid SERS substrate-gold nanoparticles (AuNPs) on untreated Al foil (AlF) can effectively detect pharmaceuticals, such as paracetamol and clinical biomarkers, like urea in artificial urine. The limit of detection (LOD) for paracetamol on AuNPs on AlF is superior (0.1 vs. 1 mM ) to the LOD reported for SERS detection of paracetamol in the literature. For SERS detection of urea in urine, AuNPs on both Al foil and Au film performed much better than AuNPs on glass, in terms of the concentration range, linearity and LOD. However, assay on AuNPs on AlF showed a better semi-logarithmic trendline with R2 = 0.98 than an assay on AuNPs on Au film with R2 = 0.94. They have comparable sensitivity with LOD 0.024 and 0.017 M, respectively. The limit of quantification (LOQ) of the former is 0.026 M, which makes it sufficient for the quantification of urea in urine at both normal and pathophysiological (0.03 - 0.15 M) concentration.
Collapse
Affiliation(s)
- Zhansaya Mukanova
- Chemistry Department, School of Science and Technology, Nazarbayev University
| | - Kristina Gudun
- Chemistry Department, School of Science and Technology, Nazarbayev University
| | - Zarina Elemessova
- Chemistry Department, School of Science and Technology, Nazarbayev University
| | - Laura Khamkhash
- Chemistry Department, School of Science and Technology, Nazarbayev University
| | - Ekaterina Ralchenko
- Chemistry Department, School of Science and Technology, Nazarbayev University
| | - Rostislav Bukasov
- Chemistry Department, School of Science and Technology, Nazarbayev University
| |
Collapse
|
21
|
Self-reference and random sampling approach for label-free identification of DNA composition using plasmonic nanomaterials. Sci Rep 2018; 8:7398. [PMID: 29743506 PMCID: PMC5943445 DOI: 10.1038/s41598-018-25444-2] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/25/2017] [Accepted: 04/17/2018] [Indexed: 11/08/2022] Open
Abstract
The analysis of DNA has led to revolutionary advancements in the fields of medical diagnostics, genomics, prenatal screening, and forensic science, with the global DNA testing market expected to reach revenues of USD 10.04 billion per year by 2020. However, the current methods for DNA analysis remain dependent on the necessity for fluorophores or conjugated proteins, leading to high costs associated with consumable materials and manual labor. Here, we demonstrate a potential label-free DNA composition detection method using surface-enhanced Raman spectroscopy (SERS) in which we identify the composition of cytosine and adenine within single strands of DNA. This approach depends on the fact that there is one phosphate backbone per nucleotide, which we use as a reference to compensate for systematic measurement variations. We utilize plasmonic nanomaterials with random Raman sampling to perform label-free detection of the nucleotide composition within DNA strands, generating a calibration curve from standard samples of DNA and demonstrating the capability of resolving the nucleotide composition. The work represents an innovative way for detection of the DNA composition within DNA strands without the necessity of attached labels, offering a highly sensitive and reproducible method that factors in random sampling to minimize error.
Collapse
|
22
|
Zhou H, Liu J, Xu JJ, Zhang SS, Chen HY. Optical nano-biosensing interface via nucleic acid amplification strategy: construction and application. Chem Soc Rev 2018; 47:1996-2019. [PMID: 29446429 DOI: 10.1039/c7cs00573c] [Citation(s) in RCA: 110] [Impact Index Per Article: 18.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Modern optical detection technology plays a critical role in current clinical detection due to its high sensitivity and accuracy. However, higher requirements such as extremely high detection sensitivity have been put forward due to the clinical needs for the early finding and diagnosing of malignant tumors which are significant for tumor therapy. The technology of isothermal amplification with nucleic acids opens up avenues for meeting this requirement. Recent reports have shown that a nucleic acid amplification-assisted modern optical sensing interface has achieved satisfactory sensitivity and accuracy, high speed and specificity. Compared with isothermal amplification technology designed to work completely in a solution system, solid biosensing interfaces demonstrated better performances in stability and sensitivity due to their ease of separation from the reaction mixture and the better signal transduction on these optical nano-biosensing interfaces. Also the flexibility and designability during the construction of these nano-biosensing interfaces provided a promising research topic for the ultrasensitive detection of cancer diseases. In this review, we describe the construction of the burgeoning number of optical nano-biosensing interfaces assisted by a nucleic acid amplification strategy, and provide insightful views on: (1) approaches to the smart fabrication of an optical nano-biosensing interface, (2) biosensing mechanisms via the nucleic acid amplification method, (3) the newest strategies and future perspectives.
Collapse
Affiliation(s)
- Hong Zhou
- Shandong Provincial Key Laboratory of Detection Technology for Tumor Markers, College of Chemistry and Chemical Engineering, Linyi University, Linyi 276005, China.
| | - Jing Liu
- Shandong Provincial Key Laboratory of Detection Technology for Tumor Markers, College of Chemistry and Chemical Engineering, Linyi University, Linyi 276005, China.
| | - Jing-Juan Xu
- Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China.
| | - Shu-Sheng Zhang
- Shandong Provincial Key Laboratory of Detection Technology for Tumor Markers, College of Chemistry and Chemical Engineering, Linyi University, Linyi 276005, China.
| | - Hong-Yuan Chen
- Key Laboratory of Analytical Chemistry for Life Science, School of Chemistry and Chemical Engineering, Nanjing University, Nanjing 210023, China.
| |
Collapse
|
23
|
Chen Y, Duong HTT, Wen S, Mi C, Zhou Y, Shimoni O, Valenzuela SM, Jin D. Exonuclease III-Assisted Upconversion Resonance Energy Transfer in a Wash-Free Suspension DNA Assay. Anal Chem 2017; 90:663-668. [DOI: 10.1021/acs.analchem.7b04240] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Affiliation(s)
- Yinghui Chen
- Institute for Biomedical Materials and Devices, School of Mathematical and Physical Sciences, Faculty of Science, University of Technology, Sydney, New South Wales 2007, Australia
- ARC Research Hub for Integrated Device for End-user Analysis at Low-levels (IDEAL), Faculty of Science, University of Technology Sydney, New South Wales 2007, Australia
| | - Hien T. T. Duong
- The Faculty of Pharmacy, The University of Sydney, Sydney, New South Wales 2006, Australia
| | - Shihui Wen
- Institute for Biomedical Materials and Devices, School of Mathematical and Physical Sciences, Faculty of Science, University of Technology, Sydney, New South Wales 2007, Australia
- ARC Research Hub for Integrated Device for End-user Analysis at Low-levels (IDEAL), Faculty of Science, University of Technology Sydney, New South Wales 2007, Australia
| | - Chao Mi
- Institute for Biomedical Materials and Devices, School of Mathematical and Physical Sciences, Faculty of Science, University of Technology, Sydney, New South Wales 2007, Australia
- ARC Research Hub for Integrated Device for End-user Analysis at Low-levels (IDEAL), Faculty of Science, University of Technology Sydney, New South Wales 2007, Australia
| | - Yingzhu Zhou
- Institute for Biomedical Materials and Devices, School of Mathematical and Physical Sciences, Faculty of Science, University of Technology, Sydney, New South Wales 2007, Australia
- ARC Research Hub for Integrated Device for End-user Analysis at Low-levels (IDEAL), Faculty of Science, University of Technology Sydney, New South Wales 2007, Australia
| | - Olga Shimoni
- Institute for Biomedical Materials and Devices, School of Mathematical and Physical Sciences, Faculty of Science, University of Technology, Sydney, New South Wales 2007, Australia
- ARC Research Hub for Integrated Device for End-user Analysis at Low-levels (IDEAL), Faculty of Science, University of Technology Sydney, New South Wales 2007, Australia
| | - Stella M. Valenzuela
- ARC Research Hub for Integrated Device for End-user Analysis at Low-levels (IDEAL), Faculty of Science, University of Technology Sydney, New South Wales 2007, Australia
- School of Life Sciences, University of Technology Sydney, Sydney, New South Wales 2007, Australia
| | - Dayong Jin
- Institute for Biomedical Materials and Devices, School of Mathematical and Physical Sciences, Faculty of Science, University of Technology, Sydney, New South Wales 2007, Australia
- ARC Research Hub for Integrated Device for End-user Analysis at Low-levels (IDEAL), Faculty of Science, University of Technology Sydney, New South Wales 2007, Australia
| |
Collapse
|
24
|
Liu R, Wang C, Xu Y, Hu J, Deng D, Lv Y. Label-Free DNA Assay by Metal Stable Isotope Detection. Anal Chem 2017; 89:13269-13274. [DOI: 10.1021/acs.analchem.7b03327] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Affiliation(s)
- Rui Liu
- Key Laboratory of Green Chemistry & Technology, Ministry of Education, College of Chemistry, Sichuan University, Chengdu, Sichuan 610064, P. R. China
| | - Chaoqun Wang
- Key Laboratory of Green Chemistry & Technology, Ministry of Education, College of Chemistry, Sichuan University, Chengdu, Sichuan 610064, P. R. China
| | - Yuming Xu
- College of Materials and Chemistry & Chemical Engineering, Chengdu University of Technology, Chengdu, Sichuan 610059, P. R. China
| | - Jianyu Hu
- Key Laboratory of Green Chemistry & Technology, Ministry of Education, College of Chemistry, Sichuan University, Chengdu, Sichuan 610064, P. R. China
| | - Dongyan Deng
- Key Laboratory of Green Chemistry & Technology, Ministry of Education, College of Chemistry, Sichuan University, Chengdu, Sichuan 610064, P. R. China
| | - Yi Lv
- Key Laboratory of Green Chemistry & Technology, Ministry of Education, College of Chemistry, Sichuan University, Chengdu, Sichuan 610064, P. R. China
| |
Collapse
|
25
|
Zhou Y, Wang Y, Wang X, Lu J. Polystyrene Microspheres Coupled with Hybridization Chain Reaction for Dual-Amplified Chemiluminescence Detection of Specific DNA Sequences. JOURNAL OF ANALYSIS AND TESTING 2017. [DOI: 10.1007/s41664-017-0042-4] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
|
26
|
Zhang Q, Li X, Yi W, Li W, Bai H, Liu J, Xi G. Plasmonic MoO2 Nanospheres as a Highly Sensitive and Stable Non-Noble Metal Substrate for Multicomponent Surface-Enhanced Raman Analysis. Anal Chem 2017; 89:11765-11771. [DOI: 10.1021/acs.analchem.7b03385] [Citation(s) in RCA: 52] [Impact Index Per Article: 7.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/23/2023]
Affiliation(s)
- Qiqi Zhang
- Institute
of Industrial and Consumer Product Safety, Chinese Academy of Inspection and Quarantine, Beijing 100176, People’s Republic of China
| | - Xinshi Li
- Institute
of Industrial and Consumer Product Safety, Chinese Academy of Inspection and Quarantine, Beijing 100176, People’s Republic of China
| | - Wencai Yi
- Laboratory
of Theoretical and Computational Chemistry, Institute of Theoretical
Chemistry, Jilin University, Changchun 130023, People’s Republic of China
| | - Wentao Li
- Institute
of Industrial and Consumer Product Safety, Chinese Academy of Inspection and Quarantine, Beijing 100176, People’s Republic of China
| | - Hua Bai
- Institute
of Industrial and Consumer Product Safety, Chinese Academy of Inspection and Quarantine, Beijing 100176, People’s Republic of China
| | - Jingyao Liu
- Laboratory
of Theoretical and Computational Chemistry, Institute of Theoretical
Chemistry, Jilin University, Changchun 130023, People’s Republic of China
| | - Guangcheng Xi
- Institute
of Industrial and Consumer Product Safety, Chinese Academy of Inspection and Quarantine, Beijing 100176, People’s Republic of China
| |
Collapse
|
27
|
Yang D, Tang Y, Miao P. Hybridization chain reaction directed DNA superstructures assembly for biosensing applications. Trends Analyt Chem 2017. [DOI: 10.1016/j.trac.2017.06.011] [Citation(s) in RCA: 61] [Impact Index Per Article: 8.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
|
28
|
Liu Y, Zhou H, Hu Z, Yu G, Yang D, Zhao J. Label and label-free based surface-enhanced Raman scattering for pathogen bacteria detection: A review. Biosens Bioelectron 2017; 94:131-140. [DOI: 10.1016/j.bios.2017.02.032] [Citation(s) in RCA: 183] [Impact Index Per Article: 26.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/13/2016] [Revised: 02/20/2017] [Accepted: 02/22/2017] [Indexed: 12/21/2022]
|
29
|
Chemiluminescence immunoassay for cardiac troponin T by using silver nanoparticles functionalized with hemin/G-quadruplex DNAzyme on a glass chip array. Mikrochim Acta 2017. [DOI: 10.1007/s00604-017-2331-z] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/01/2023]
|
30
|
Yuan PX, Deng SY, Zheng CY, Cosnier S, Shan D. In situ formed copper nanoparticles templated by TdT-mediated DNA for enhanced SPR sensor-based DNA assay. Biosens Bioelectron 2017; 97:1-7. [PMID: 28544921 DOI: 10.1016/j.bios.2017.05.033] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2017] [Revised: 05/03/2017] [Accepted: 05/17/2017] [Indexed: 01/16/2023]
Abstract
For the efficient surface plasmon resonance (SPR)-based DNA assay researching, signal amplification tactics were absolutely necessary. In this work, a sensitive SPR-DNA sensor was developed by employing in situ synthesis of copper nanoparticles (CuNPs) templated by poly-T sequences DNA from terminal deoxynucleotidyl transferase (TdT)-mediated extension, and synergistically with nano-effect deposition as the mass relay. The objective of this strategy was manifold: firstly, tDNA hybridized with the optimal designed probes to active the TdT-mediated DNA extension onto the surface of SPR chip, resulted a long poly-T sequences ssDNA chain in dsDNA terminal onto surface of gold chip and characterized by SPR signal amplitudes. Secondly, copper ion (Cu2+) adsorbed into the skeleton of poly-T sequences DNA, with the aid of ascorbic acid (VC) to achieve the Cu2+ reduction, copper nanostructures (CuNPs) was synchronously generated onto the single nucleotide chain anchoring in dsDNA derivatives and the formation was featured by transmission electron micrographs (TEM) and electrochemistry. Lastly, dsDNA-complexed CuNPs (CuNPs@dsDNA) triggered the final signal amplification via real-time conversion of the additive catechol violet (CV) into oligomer or chelation precipitation by CuNPs-tagged reporters. With the proposed setups, a precise and replicable DNA sensing platform for specific target oligo was obtained with a detection limit down to 3.21 femtomolar, demonstrating a beneficial overlapping exploitation of nanomaterials and biochemical reaction as unique SPR infrastructure. Such triple-amplification strategic setups, the possibility of various methods abutment and biocompatibility weight reactor was amassed and adapted to more biological detection field.
Collapse
Affiliation(s)
- Pei-Xin Yuan
- MIIT Key Laboratory of Advanced Display Materials and Devices, School of Environmental and Biological Engineering, Nanjing University of Science and Technology, Nanjing 210094, China
| | - Sheng-Yuan Deng
- MIIT Key Laboratory of Advanced Display Materials and Devices, School of Environmental and Biological Engineering, Nanjing University of Science and Technology, Nanjing 210094, China.
| | - Chen-Yu Zheng
- MIIT Key Laboratory of Advanced Display Materials and Devices, School of Environmental and Biological Engineering, Nanjing University of Science and Technology, Nanjing 210094, China
| | - Serge Cosnier
- University of Grenoble Alpes-CNRS, DCM UMR 5250, F-38000 Grenoble, France
| | - Dan Shan
- MIIT Key Laboratory of Advanced Display Materials and Devices, School of Environmental and Biological Engineering, Nanjing University of Science and Technology, Nanjing 210094, China.
| |
Collapse
|
31
|
Wang T, Guo HC, Chen XY, Lu M. Low-temperature thermal reduction of suspended graphene oxide film for electrical sensing of DNA-hybridization. MATERIALS SCIENCE & ENGINEERING. C, MATERIALS FOR BIOLOGICAL APPLICATIONS 2017; 72:62-68. [DOI: 10.1016/j.msec.2016.11.026] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/22/2016] [Revised: 10/04/2016] [Accepted: 11/07/2016] [Indexed: 01/11/2023]
|
32
|
Zhang Y, Yang F, Sun Z, Li YT, Zhang GJ. A surface acoustic wave biosensor synergizing DNA-mediated in situ silver nanoparticle growth for a highly specific and signal-amplified nucleic acid assay. Analyst 2017; 142:3468-3476. [DOI: 10.1039/c7an00988g] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
An SAW biosensor harmonizes the surface mass effect for signal-amplified and sequence-specific DNA detection in blood serum.
Collapse
Affiliation(s)
- Yulin Zhang
- School of Laboratory Medicine
- Hubei University of Chinese Medicine
- Wuhan 430065
- China
| | - Fan Yang
- School of Laboratory Medicine
- Hubei University of Chinese Medicine
- Wuhan 430065
- China
| | - Zhongyue Sun
- School of Laboratory Medicine
- Hubei University of Chinese Medicine
- Wuhan 430065
- China
| | - Yu-Tao Li
- School of Laboratory Medicine
- Hubei University of Chinese Medicine
- Wuhan 430065
- China
| | - Guo-Jun Zhang
- School of Laboratory Medicine
- Hubei University of Chinese Medicine
- Wuhan 430065
- China
| |
Collapse
|
33
|
Biomimetic nanochannels based biosensor for ultrasensitive and label-free detection of nucleic acids. Biosens Bioelectron 2016; 86:194-201. [DOI: 10.1016/j.bios.2016.06.059] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/22/2016] [Revised: 06/07/2016] [Accepted: 06/19/2016] [Indexed: 11/18/2022]
|
34
|
Li Y, Zhao Q, Wang Y, Man T, Zhou L, Fang X, Pei H, Chi L, Liu J. Ultrasensitive Signal-On Detection of Nucleic Acids with Surface-Enhanced Raman Scattering and Exonuclease III-Assisted Probe Amplification. Anal Chem 2016; 88:11684-11690. [DOI: 10.1021/acs.analchem.6b03267] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Affiliation(s)
- Yingying Li
- Institute
of Functional Nano and Soft Materials (FUNSOM), Jiangsu Key Laboratory
for Carbon-Based Functional Materials and Devices, Soochow University, Suzhou, Jiangsu 215123, China
| | - Qingcheng Zhao
- Institute
of Functional Nano and Soft Materials (FUNSOM), Jiangsu Key Laboratory
for Carbon-Based Functional Materials and Devices, Soochow University, Suzhou, Jiangsu 215123, China
| | - Yandong Wang
- Institute
of Functional Nano and Soft Materials (FUNSOM), Jiangsu Key Laboratory
for Carbon-Based Functional Materials and Devices, Soochow University, Suzhou, Jiangsu 215123, China
| | - Tiantian Man
- School
of Chemistry and Molecular Engineering, East China Normal University, Shanghai, 200241, China
| | - Lu Zhou
- Institute
of Functional Nano and Soft Materials (FUNSOM), Jiangsu Key Laboratory
for Carbon-Based Functional Materials and Devices, Soochow University, Suzhou, Jiangsu 215123, China
| | - Xu Fang
- Institute
of Functional Nano and Soft Materials (FUNSOM), Jiangsu Key Laboratory
for Carbon-Based Functional Materials and Devices, Soochow University, Suzhou, Jiangsu 215123, China
| | - Hao Pei
- School
of Chemistry and Molecular Engineering, East China Normal University, Shanghai, 200241, China
| | - Lifeng Chi
- Institute
of Functional Nano and Soft Materials (FUNSOM), Jiangsu Key Laboratory
for Carbon-Based Functional Materials and Devices, Soochow University, Suzhou, Jiangsu 215123, China
| | - Jian Liu
- Institute
of Functional Nano and Soft Materials (FUNSOM), Jiangsu Key Laboratory
for Carbon-Based Functional Materials and Devices, Soochow University, Suzhou, Jiangsu 215123, China
| |
Collapse
|
35
|
Benito-Peña E, Valdés MG, Glahn-Martínez B, Moreno-Bondi MC. Fluorescence based fiber optic and planar waveguide biosensors. A review. Anal Chim Acta 2016; 943:17-40. [PMID: 27769374 PMCID: PMC7094704 DOI: 10.1016/j.aca.2016.08.049] [Citation(s) in RCA: 67] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/15/2016] [Revised: 08/25/2016] [Accepted: 08/29/2016] [Indexed: 12/21/2022]
Abstract
The application of optical biosensors, specifically those that use optical fibers and planar waveguides, has escalated throughout the years in many fields, including environmental analysis, food safety and clinical diagnosis. Fluorescence is, without doubt, the most popular transducer signal used in these devices because of its higher selectivity and sensitivity, but most of all due to its wide versatility. This paper focuses on the working principles and configurations of fluorescence-based fiber optic and planar waveguide biosensors and will review biological recognition elements, sensing schemes, as well as some major and recent applications, published in the last ten years. The main goal is to provide the reader a general overview of a field that requires the joint collaboration of researchers of many different areas, including chemistry, physics, biology, engineering, and material science.
Collapse
Affiliation(s)
- Elena Benito-Peña
- Department of Analytical Chemistry, Faculty of Chemistry, Complutense University, 28040 Madrid, Spain
| | - Mayra Granda Valdés
- Department of Analytical Chemistry, Faculty of Chemistry, University of La Habana, 10400 La Habana, Cuba
| | - Bettina Glahn-Martínez
- Department of Analytical Chemistry, Faculty of Chemistry, Complutense University, 28040 Madrid, Spain
| | - Maria C Moreno-Bondi
- Department of Analytical Chemistry, Faculty of Chemistry, Complutense University, 28040 Madrid, Spain.
| |
Collapse
|
36
|
DNA hybridization chain reaction and DNA supersandwich self-assembly for ultrasensitive detection. Sci China Chem 2016. [DOI: 10.1007/s11426-016-0262-5] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/26/2022]
|
37
|
Ou L, Chen Y, Su Y, Zou C, Chen Z. Detection of Genomic DNA Damage from Radiated Nasopharyngeal Carcinoma Cells Using Surface-Enhanced Raman Spectroscopy (SERS). APPLIED SPECTROSCOPY 2016; 70:1821-1830. [PMID: 27703049 DOI: 10.1177/0003702816671073] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/10/2015] [Accepted: 11/09/2015] [Indexed: 05/19/2023]
Abstract
Structural changes and chemical modifications in DNA during interactions with X-ray radiation are still not clear within 48 h of incubation. We investigate genomic DNA from the radiated CNE2 cell line within 48 h of incubation using surface-enhanced Raman spectroscopy (SERS). Multivariate methods including principal component analysis (PCA) and random forest are proposed to explore the statistical significance before and after radiation. Our results show that intensities of several bands change after radiation, which indicates backbone damage and base-unstacking. Biological effects from DNA damage repairing process may be simultaneously stimulated and different from incubation time. Under doses of 10 Gy (with 24 and 48 h of incubation) and 20 Gy (with 48 h of incubation), the relative contents of C against T and A against G deviate obviously from the control level. Statistical results strengthen significantly the idea that modification in DNA bases is associated with the disruption of base-stacking in the DNA duplex. Our findings provide vital information for radiation-induced the DNA damage at the molecular level, which may provide insight into the effect and mechanism of anticarcinogens in tumor therapy.
Collapse
Affiliation(s)
- Lin Ou
- Key Laboratory of Optoelectronic Science and Technology for Medicine, Ministry of Education, Fujian Normal University, Fuzhou, China
| | - Yang Chen
- Department of Electronic Science, Fujian Provincial Key Laboratory of Plasma and Magnetic Resonance, Xiamen University, Xiamen, China
| | - Ying Su
- Laboratory of Radiobiology, Fujian Provincial Tumor Hospital, Fuzhou, China
| | - Changyan Zou
- Laboratory of Radiobiology, Fujian Provincial Tumor Hospital, Fuzhou, China
| | - Zhong Chen
- Department of Electronic Science, Fujian Provincial Key Laboratory of Plasma and Magnetic Resonance, Xiamen University, Xiamen, China
- Laboratory of Radiobiology, Fujian Provincial Tumor Hospital, Fuzhou, China
| |
Collapse
|
38
|
Sharma C, Awasthi SK. Versatility of peptide nucleic acids (PNAs): role in chemical biology, drug discovery, and origins of life. Chem Biol Drug Des 2016; 89:16-37. [PMID: 27490868 DOI: 10.1111/cbdd.12833] [Citation(s) in RCA: 55] [Impact Index Per Article: 6.9] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2016] [Revised: 06/03/2016] [Accepted: 07/28/2016] [Indexed: 12/16/2022]
Abstract
This review briefly discussed nomenclature, synthesis, chemistry, and biophysical properties of a plethora of PNA derivatives reported since the discovery of aegPNA. Different synthetic methods and structural analogs of PNA synthesized till date were also discussed. An insight was gained into various chemical, physical, and biological properties of PNA which make it preferable over all other classes of modified nucleic acid analogs. Thereafter, various approaches with special attention to the practical constraints, characteristics, and inherent drawbacks leading to the delay in the development of PNA as gene therapeutic drug were outlined. An explicit account of the successful application of PNA in different areas of research such as antisense and antigene strategies, diagnostics, molecular probes, and so forth was described along with the current status of PNA as gene therapeutic drug. Further, the plausibility of the existence of PNA and its role in primordial chemistry, that is, origin of life was explored in an endeavor to comprehend the mystery and open up its deepest secrets ever engaging and challenging the human intellect. We finally concluded it with a discussion on the future prospects of PNA technology in the field of therapeutics, diagnostics, and origin of life.
Collapse
Affiliation(s)
- Chiranjeev Sharma
- Chemical Biology Laboratory, Department of Chemistry, University of Delhi, Delhi, India
| | - Satish Kumar Awasthi
- Chemical Biology Laboratory, Department of Chemistry, University of Delhi, Delhi, India
| |
Collapse
|
39
|
Jin M, Liu X, van den Berg A, Zhou G, Shui L. Ultrasensitive DNA detection based on two-step quantitative amplification on magnetic nanoparticles. NANOTECHNOLOGY 2016; 27:335102. [PMID: 27378514 DOI: 10.1088/0957-4484/27/33/335102] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
Sensitive detection of a specific deoxyribo nucleic acid (DNA) sequence is important for biomedical applications. In this report, a two-step amplification strategy is developed based on magnetic nanoparticles (MNPs) to achieve ultrasensitive DNA fluorescence detection. The first level amplification is obtained from multiple binding sites on MNPs to achieve thousands of probe DNA molecules on one nanoparticle surface. The second level amplification is gained by enzymatic reaction to achieve fluorescence signal enhancement. MNPs functionalized by probe DNA (DNAp) are bound to target DNA (t-DNA) molecules with a ratio of 1:1 on a substrate with capture DNA (DNAc). After the MNPs with DNAp are released from the substrate, alkaline phosphatase (AP) is labelled to MNPs via hybridization reaction between DNAp on MNPs and detection DNAs (DNAd) with AP. The AP on MNPs catalyses non-fluorescent 4-methylumbelliferyl phosphate (4-MUP) to fluorescent 4-methylumbelliferone (4-MU) with high intensity. Finally, fluorescence intensity of the 4-MU is detected by a conventional fluorescence spectrophotometer. With this two-step amplification strategy, the limit of detection (LOD) of 2.8 × 10(-18) mol l(-1) for t-DNA has been achieved.
Collapse
Affiliation(s)
- Mingliang Jin
- Institute of Electronic paper Displays, Academy of South China Advanced Optoelectronics, South China Normal University, Guangzhou 510006, People's Republic of China
| | | | | | | | | |
Collapse
|
40
|
Zhou H, Lin S, Nie Y, Yang D, Wang Q, Chen W, Huang N, Jiang Z, Chen S. Surface-enhanced resonance Raman scattering (SERRS) simulates PCR for sensitive DNA detection. Analyst 2016; 140:7518-21. [PMID: 26465756 DOI: 10.1039/c5an01887k] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Abstract
This paper describes a novel double-stranded DNA detection method through resonance between SYBR Green I and DNA with the surface-enhanced resonance Raman scattering (SERRS) assay, which opens an avenue to the quantitative and reliable application of SERRS in DNA detection.
Collapse
Affiliation(s)
- Haibo Zhou
- Department of Pharmacy and Guangdong Province Key Laboratory of Pharmacodynamic of Traditional Chinese Medicine & New Drug Research, Jinan University, Guangzhou, Guangdong Province 510632, China.
| | - Shenyu Lin
- Department of Pharmacy and Guangdong Province Key Laboratory of Pharmacodynamic of Traditional Chinese Medicine & New Drug Research, Jinan University, Guangzhou, Guangdong Province 510632, China. and Department of Hand Surgery, Union Hospital, Tongji Medical College, Huazhong University of Science and Technology, Wuhan, Hubei Province 430022, China
| | - Yichu Nie
- State Key Laboratory of Respiratory Diseases, the First Affiliated Hospital of Guangzhou Medical University, Guangzhou Medical University, No. 151 Yanjiang Road, Yuexiu Dist., Guangzhou, Guangdong Province 510120, China
| | - Danting Yang
- Schools of Biosystems Engineering and Food Science, Zhejiang University, 866 Yuhangtang Road, Hangzhou, Zhejiang Province 310058, China
| | - Qiqin Wang
- Department of Pharmacy and Guangdong Province Key Laboratory of Pharmacodynamic of Traditional Chinese Medicine & New Drug Research, Jinan University, Guangzhou, Guangdong Province 510632, China.
| | - Weijia Chen
- Department of Pharmacy and Guangdong Province Key Laboratory of Pharmacodynamic of Traditional Chinese Medicine & New Drug Research, Jinan University, Guangzhou, Guangdong Province 510632, China.
| | - Ning Huang
- Department of Pathophysiology, West China School of Preclinical Sciences and Forensic Medicine, Sichuan University, Chengdu, Sichuan Province 610041, China
| | - Zhengjin Jiang
- Department of Pharmacy and Guangdong Province Key Laboratory of Pharmacodynamic of Traditional Chinese Medicine & New Drug Research, Jinan University, Guangzhou, Guangdong Province 510632, China.
| | - Shanze Chen
- Department of Pathophysiology, West China School of Preclinical Sciences and Forensic Medicine, Sichuan University, Chengdu, Sichuan Province 610041, China
| |
Collapse
|
41
|
Ngo HT, Gandra N, Fales AM, Taylor SM, Vo-Dinh T. Sensitive DNA detection and SNP discrimination using ultrabright SERS nanorattles and magnetic beads for malaria diagnostics. Biosens Bioelectron 2016; 81:8-14. [PMID: 26913502 PMCID: PMC4835027 DOI: 10.1016/j.bios.2016.01.073] [Citation(s) in RCA: 74] [Impact Index Per Article: 9.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/30/2015] [Revised: 01/23/2016] [Accepted: 01/28/2016] [Indexed: 12/18/2022]
Abstract
One of the major obstacles to implement nucleic acid-based molecular diagnostics at the point-of-care (POC) and in resource-limited settings is the lack of sensitive and practical DNA detection methods that can be seamlessly integrated into portable platforms. Herein we present a sensitive yet simple DNA detection method using a surface-enhanced Raman scattering (SERS) nanoplatform: the ultrabright SERS nanorattle. The method, referred to as the nanorattle-based method, involves sandwich hybridization of magnetic beads that are loaded with capture probes, target sequences, and ultrabright SERS nanorattles that are loaded with reporter probes. Upon hybridization, a magnet was applied to concentrate the hybridization sandwiches at a detection spot for SERS measurements. The ultrabright SERS nanorattles, composed of a core and a shell with resonance Raman reporters loaded in the gap space between the core and the shell, serve as SERS tags for signal detection. Using this method, a specific DNA sequence of the malaria parasite Plasmodium falciparum could be detected with a detection limit of approximately 100 attomoles. Single nucleotide polymorphism (SNP) discrimination of wild type malaria DNA and mutant malaria DNA, which confers resistance to artemisinin drugs, was also demonstrated. These test models demonstrate the molecular diagnostic potential of the nanorattle-based method to both detect and genotype infectious pathogens. Furthermore, the method's simplicity makes it a suitable candidate for integration into portable platforms for POC and in resource-limited settings applications.
Collapse
Affiliation(s)
- Hoan T Ngo
- Fitzpatrick Institute for Photonics, Duke University, Durham, NC 27708, USA; Department of Biomedical Engineering, Duke University, Durham, NC 27708, USA
| | - Naveen Gandra
- Fitzpatrick Institute for Photonics, Duke University, Durham, NC 27708, USA; Department of Biomedical Engineering, Duke University, Durham, NC 27708, USA
| | - Andrew M Fales
- Fitzpatrick Institute for Photonics, Duke University, Durham, NC 27708, USA; Department of Biomedical Engineering, Duke University, Durham, NC 27708, USA
| | - Steve M Taylor
- Fitzpatrick Institute for Photonics, Duke University, Durham, NC 27708, USA; Department of Medicine & Duke Global Health Institute, Duke University, Durham, NC 27708, USA
| | - Tuan Vo-Dinh
- Fitzpatrick Institute for Photonics, Duke University, Durham, NC 27708, USA; Department of Biomedical Engineering, Duke University, Durham, NC 27708, USA; Department of Chemistry, Duke University, Durham, NC 27708, USA.
| |
Collapse
|
42
|
Xie H, Wang Q, Chai Y, Yuan Y, Yuan R. Enzyme-assisted cycling amplification and DNA-templated in-situ deposition of silver nanoparticles for the sensitive electrochemical detection of Hg(2.). Biosens Bioelectron 2016; 86:630-635. [PMID: 27471153 DOI: 10.1016/j.bios.2016.07.035] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/30/2016] [Revised: 06/06/2016] [Accepted: 07/11/2016] [Indexed: 10/21/2022]
Abstract
In this work, a label-free electrochemical biosensor was developed for sensitive and selective detection of mercury (II) ions (Hg(2+)) based on in-situ deposition of silver nanoparticles (AgNPs) on terminal deoxynucleotidyl transferase (TdT) extended ssDNA for signal output and nicking endonuclease for cycling amplification. In the presence of target Hg(2+), the T-rich DNA (HP1) could partly fold into duplex-like structure (termed as output DNA) via T-Hg(2+)-T base pairs and thus exposed its sticky end. The sticky end of output DNA could then hybridize with 3'-PO4 terminated capture DNA (HP2) on electrode surface to form output DNA-HP2 hybridization complex with the sequence 5'-CCTCAGC-3'/3'-GGAGTCG-5' (the sequence could be recognized by nicking endonuclease Nt. BbvCI). With the introduction of Nt. BbvCI, output DNA existed in hybridization complex was released from electrode and participated in the next hybridization process, accompanying with the cleave of HP2 to expose substantial 3'-OH group, which could be extended into a long ssDNA nanotail with the aid of TdT and deoxyadenosine triphosphate (dATP). Since the long negatively charged ssDNA nanotail absorbed the positively charged silver ions on the DNA skeleton, the metallic silver could be in-situ deposited on electrode surface for electrochemical signal output upon addition of reduction regent sodium borohydride. Under optimal conditions, the developed electrochemical biosensor presented a good response to Hg(2+) with a detection limit of 3 pM (S/N=3). Furthermore, the biosensor exhibited good reproducibility and high selectivity towards other interfering ions. The proposed sensing system also showed a promising potential application in real sample analysis.
Collapse
Affiliation(s)
- Hua Xie
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, College of Chemistry and Chemical Engineering, Southwest University, Chongqing, 400715 PR China
| | - Qin Wang
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, College of Chemistry and Chemical Engineering, Southwest University, Chongqing, 400715 PR China
| | - Yaqin Chai
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, College of Chemistry and Chemical Engineering, Southwest University, Chongqing, 400715 PR China
| | - Yali Yuan
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, College of Chemistry and Chemical Engineering, Southwest University, Chongqing, 400715 PR China.
| | - Ruo Yuan
- Key Laboratory of Luminescent and Real-Time Analytical Chemistry (Southwest University), Ministry of Education, College of Chemistry and Chemical Engineering, Southwest University, Chongqing, 400715 PR China.
| |
Collapse
|
43
|
Narang J, Singhal C, Malhotra N, Narang S, Pn AK, Gupta R, Kansal R, Pundir CS. Impedimetric genosensor for ultratrace detection of hepatitis B virus DNA in patient samples assisted by zeolites and MWCNT nano-composites. Biosens Bioelectron 2016; 86:566-574. [PMID: 27448547 DOI: 10.1016/j.bios.2016.07.013] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2016] [Revised: 06/20/2016] [Accepted: 07/06/2016] [Indexed: 10/21/2022]
Abstract
Nanocrystals of zeolites (Nanocrys Zeo) and Multi-walled carbon nanotubes (MWCNT) based diagnostic genosensor was employed for detection of polymerase chain (PCR) amplified HBVDNA in blood of hepatitis B patients. The ssDNA-nanocomposite modified electrode was characterized by cyclic voltammetry (CV), differential pulse voltammetry (DPV) and electrochemical impedance spectroscopy (EIS). The hybridization between ss DNA probe and target ss DNA was detected by reduction in current, generated by interaction of methylene blue (MB) with free guanine (3'G) of ssDNA. Nanocrys zeo were deposited on the Fluorine doped tin oxide glass electrode (FTO) by drop-casting method for better immobilization of ss DNA while MWCNTs are incorporated into the zeolite-assembly to enhance the electro-conductivity of the present genosensor. The ssDNA-nanocomposite modified FTO electrode exhibited optimum current within 5s, at pH 5.6, and incubation temperature of 45°C. The value of charge transfer resistance (Rct) was linear with the number of copies of target DNA between 150 and 10(6) copies/ml. The limit of detection (LOD) of the sensor was 50 copies/ml. Within and between batches coefficients of variation (CV) were 2.5% and 3.2% respectively. Results obtained with our genosensor were also correlated with those by RT-PCR and r(2) value found with good accuracy of 97%. The electrode was reused by dipping it into 0.1M NaOH for 3min and lost 50% of its initial activity in 4 weeks. Furthermore the technique employed for detection of HBV is EIS, which is convenient and required less analysis time.
Collapse
Affiliation(s)
- Jagriti Narang
- Amity Institute of Nanotechnology, Amity University, Noida, UP, India.
| | - Chaitali Singhal
- Amity Institute of Nanotechnology, Amity University, Noida, UP, India
| | | | - Sumit Narang
- Oil and Natural Gas Corporation, Ankleshwar, India
| | - Anoop Krishna Pn
- Amity Institute of Nanotechnology, Amity University, Noida, UP, India
| | - Riya Gupta
- Amity Institute of Nanotechnology, Amity University, Noida, UP, India
| | | | - C S Pundir
- Deptt. of Biochemistry, MD University, Rohtak, India
| |
Collapse
|
44
|
Yuan R, Ding S, Yan Y, Zhang Y, Zhang Y, Cheng W. A facile and pragmatic electrochemical biosensing strategy for ultrasensitive detection of DNA in real sample based on defective T junction induced transcription amplification. Biosens Bioelectron 2016; 77:19-25. [DOI: 10.1016/j.bios.2015.09.009] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2015] [Revised: 08/25/2015] [Accepted: 09/04/2015] [Indexed: 11/30/2022]
|
45
|
Scibilia S, Lentini G, Fazio E, Franco D, Neri F, Mezzasalma AM, Guglielmino SPP. Self-assembly of silver nanoparticles and bacteriophage. SENSING AND BIO-SENSING RESEARCH 2016. [DOI: 10.1016/j.sbsr.2016.02.002] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 02/06/2023] Open
|
46
|
Zhou L, Huang J, Yu B, You T. A novel self-enhanced electrochemiluminescence immunosensor based on hollow Ru-SiO2@PEI nanoparticles for NSE analysis. Sci Rep 2016; 6:22234. [PMID: 26916963 PMCID: PMC4768085 DOI: 10.1038/srep22234] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/09/2015] [Accepted: 02/08/2016] [Indexed: 12/11/2022] Open
Abstract
Poly(ethylenimine) (PEI) and Ru(bpy)3(2+)-doped silica (Ru-SiO2) nanoparticles were simply mixed together to prepare a novel self-enhanced electrochemiluminescence (ECL) composite of Ru-SiO2@PEI. The hollow Ru-SiO2@PEI nanoparticles were used to build an ECL immunosensor for the analysis of neuron specific enolase (NSE). PEI not only assembled on the surface of Ru-SiO2 nanoparticles through the electrostatic interaction to act as co-reactant for Ru(bpy)3(2+) ECL, but also provided alkaline condition to etch the Ru-SiO2 nanoparticles to form the hollow Ru-SiO2@PEI nanoparticles with porous shell. The unique structure of the Ru-SiO2@PEI nanoparticles loaded both a large amount of Ru(bpy)3(2+) and its co-reactant PEI at the same time, which shortened the electron-transfer distance, thereby greatly enhanced the luminous efficiency and amplified the ECL signal. The developed immunosensor showed a wide linear range from 1.0 × 10(-11) to 1.0 × 10(-5) mg mL(-1) with a low detection limit of 1.0 × 10(-11) mg mL(-1) for NSE. When the immunosensor was used for the determination of NSE in clinical human serum, the results were comparable with those obtained by using enzyme-linked immunosorbent assay (ELISA) method. The proposed method provides a promising alternative for NSE analysis in clinical samples.
Collapse
Affiliation(s)
- Limin Zhou
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, China
- University of the Chinese Academy of Sciences, Beijing 100049, China
| | - Jianshe Huang
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, China
| | - Bin Yu
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, China
- National Engineering Laboratory for AIDS Vaccine, School of Life Sciences, Jilin University, Changchun 130012, China
| | - Tianyan You
- State Key Laboratory of Electroanalytical Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, China
| |
Collapse
|
47
|
Litti L, Amendola V, Toffoli G, Meneghetti M. Detection of low-quantity anticancer drugs by surface-enhanced Raman scattering. Anal Bioanal Chem 2016; 408:2123-31. [DOI: 10.1007/s00216-016-9315-4] [Citation(s) in RCA: 33] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2015] [Revised: 12/27/2015] [Accepted: 01/05/2016] [Indexed: 01/12/2023]
|
48
|
Silver nanocluster based sensitivity amplification of a quartz crystal microbalance gene sensor. Mikrochim Acta 2015. [DOI: 10.1007/s00604-015-1728-9] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
|
49
|
Zhan X, Hu G, Wagberg T, Zhan S, Xu H, Zhou P. Electrochemical aptasensor for tetracycline using a screen-printed carbon electrode modified with an alginate film containing reduced graphene oxide and magnetite (Fe3O4) nanoparticles. Mikrochim Acta 2015. [DOI: 10.1007/s00604-015-1718-y] [Citation(s) in RCA: 59] [Impact Index Per Article: 6.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
|
50
|
Ye S, Zhai X, Wu Y, Kuang S. Dual-primer self-generation SERS signal amplification assay for PDGF-BB using label-free aptamer. Biosens Bioelectron 2015; 79:130-5. [PMID: 26703991 DOI: 10.1016/j.bios.2015.11.090] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2015] [Revised: 11/27/2015] [Accepted: 11/28/2015] [Indexed: 01/16/2023]
Abstract
Highly sensitive detection of proteins, especially those associated with cancers, is essential to biomedical research as well as clinical diagnosis. In this work, a simple and novel one-two-three signal amplification surface-enhanced Raman scattering (SERS) method for the detection of protein is fabricated by using label-free aptamer and dual-primer self-generation. Platelet-derived growth factor B-chain (PDGF-BB) is selected as the model protein. The one-two-three cascade DNA amplification means one target-aptamer binding event, two hairpin DNA switches and three DNA amplification reactions. This strategy possesses some remarkable features compared to conventional signal amplification methods: (i) A smart probe including a label-free aptamer is fabricated, for suitable hybridization without hindering the affinity of the aptamer toward its target. (ii) Using the unique structure switch of the aptamer and cooperator, a one-two-three working mode is developed to amplify the SERS signal. The amplification efficiency is enhanced. Given the unique and attractive characteristics, a simple and universal strategy is designed to accomplish ultrasensitive detection of proteins. The detection limit of PDGF-BB via SERS detection is 0.42 pM, with the linear range from 1.0×10(-12)M to 10(-8)M. It is potentially universal because the aptamer can be easily designed for biomolecules whose aptamers undergo similar conformational changes.
Collapse
Affiliation(s)
- SuJuan Ye
- Key Laboratory of Sensor Analysis of Tumor Marker Ministry of Education, State Key Laboratory Base of Eco-chemical Engineering, College of Chemistry and Molecular Engineering, Qingdao University of Science and Technology, Qingdao 266042, China
| | - XiaoMo Zhai
- Key Laboratory of Sensor Analysis of Tumor Marker Ministry of Education, State Key Laboratory Base of Eco-chemical Engineering, College of Chemistry and Molecular Engineering, Qingdao University of Science and Technology, Qingdao 266042, China
| | - YanYing Wu
- Key Laboratory of Sensor Analysis of Tumor Marker Ministry of Education, State Key Laboratory Base of Eco-chemical Engineering, College of Chemistry and Molecular Engineering, Qingdao University of Science and Technology, Qingdao 266042, China
| | - ShaoPing Kuang
- Key Laboratory of Sensor Analysis of Tumor Marker Ministry of Education, State Key Laboratory Base of Eco-chemical Engineering, College of Chemistry and Molecular Engineering, Qingdao University of Science and Technology, Qingdao 266042, China.
| |
Collapse
|