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Lee Y, Choi K, Kim JE, Cha S, Nam JM. Integrating, Validating, and Expanding Information Space in Single-Molecule Surface-Enhanced Raman Spectroscopy for Biomolecules. ACS NANO 2024; 18:25359-25371. [PMID: 39228259 DOI: 10.1021/acsnano.4c09218] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 09/05/2024]
Abstract
Single-molecule surface-enhanced Raman spectroscopy (SM-SERS) is an ultrahigh-resolution spectroscopic method for directly obtaining the complex vibrational mode information on individual molecules. SM-SERS offers a wide range of submolecular information on the hidden heterogeneity in its functional groups and varying structures, dynamics of conformational changes, binding and reaction kinetics, and interactions with the neighboring molecule and environment. Despite the richness in information on individual molecules and potential of SM-SERS in various detection targets, including large and complex biomolecules, several issues and practical considerations remain to be addressed, such as the requirement of long integration time, challenges in forming reliable and controllable interfaces between nanostructures and biomolecules, difficulty in determining hotspot size and shape, and most importantly, insufficient signal reproducibility and stability. Moreover, utilizing and interpreting SERS spectra is challenging, mainly because of the complexity and dynamic nature of molecular fingerprint Raman spectra, and this leads to fragmentary analysis and incomplete understanding of the spectra. In this Perspective, we discuss the current challenges and future opportunities of SM-SERS in views of system approaches by integrating molecules of interest, Raman dyes, plasmonic nanostructures, and artificial intelligence, particularly for detecting and analyzing biomolecules to realize the validation and expansion of information space in SM-SERS.
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Affiliation(s)
- Yeonhee Lee
- Department of Chemistry, Seoul National University, Seoul 08826, South Korea
| | - Kyungin Choi
- Department of Chemistry, Seoul National University, Seoul 08826, South Korea
| | - Ji-Eun Kim
- Department of Chemistry, Seoul National University, Seoul 08826, South Korea
| | - Seungsang Cha
- Department of Chemistry, Seoul National University, Seoul 08826, South Korea
| | - Jwa-Min Nam
- Department of Chemistry, Seoul National University, Seoul 08826, South Korea
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2
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Qiao YP, Ren CL. Correlated Hybrid DNA Structures Explored by the oxDNA Model. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2024; 40:109-117. [PMID: 38154122 DOI: 10.1021/acs.langmuir.3c02231] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/30/2023]
Abstract
Thermodynamically, perfect DNA hybridization can be formed between probes and their corresponding targets due to the favorable energy. However, this is not the case dynamically. Here, we use molecular dynamics (MD) simulations based on the oxDNA model to investigate the process of DNA microarray hybridization. In general, correlated hybrid DNA structures are formed, including one probe associated with several targets as well as one target hybrid with multiple probes leading to the target-mediated hybridization. The formation of these two types of correlated structures largely depends on the surface coverage of the DNA microarray. Moreover, DNA sequence, DNA length, and spacer length have an impact on the structural formation. Our findings shed light on the dynamics of DNA hybridization, which is important for the application of DNA microarray.
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Affiliation(s)
- Ye-Peng Qiao
- National Laboratory of Solid State Microstructures and Department of Physics, Collaborative Innovation Center of Advanced Microstructures, Nanjing University, Nanjing 210093, China
| | - Chun-Lai Ren
- National Laboratory of Solid State Microstructures and Department of Physics, Collaborative Innovation Center of Advanced Microstructures, Nanjing University, Nanjing 210093, China
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3
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Shang Z, Deng Z, Yi X, Yang M, Nong X, Lin M, Xia F. Construction and bioanalytical applications of poly-adenine-mediated gold nanoparticle-based spherical nucleic acids. ANALYTICAL METHODS : ADVANCING METHODS AND APPLICATIONS 2023; 15:5564-5576. [PMID: 37861233 DOI: 10.1039/d3ay01618h] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/21/2023]
Abstract
Owing to the versatile photophysical and chemical properties, spherical nucleic acids (SNAs) have been widely used in biosensing. However, traditional SNAs are formed by self-assembly of thiolated DNA on the surface of a gold nanoparticle (AuNP), where it is challenging to precisely control the orientation and surface density of DNA. As a new SNA, a polyadenine (polyA)-mediated SNA using the high binding affinity of consecutive adenines to AuNPs shows controllable surface density and configuration of DNA, which can be used to improve the performance of a biosensor. Herein, we first introduce the properties of polyA-mediated SNAs and fundamental principles regarding the polyA-AuNP interaction. Then, we provide an overview of current representative synthesis methods of polyA-mediated SNAs and their advantages and disadvantages. After that, we summarize the application of polyA-mediated SNAs in biosensing based on fluorescence and colorimetric methods, followed by discussion and an outlook of future challenges in this field.
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Affiliation(s)
- Zhiwei Shang
- State Key Laboratory of Biogeology and Environmental Geology, Engineering Research Center of Nano-Geomaterials of Ministry of Education, Faculty of Materials Science and Chemistry, China University of Geosciences, Wuhan 430074, China.
| | - Zixuan Deng
- State Key Laboratory of Biogeology and Environmental Geology, Engineering Research Center of Nano-Geomaterials of Ministry of Education, Faculty of Materials Science and Chemistry, China University of Geosciences, Wuhan 430074, China.
| | - Xiaoqing Yi
- Key Laboratory of Prevention and Treatment of Cardiovascular and Cerebrovascular Diseases, Ministry of Education, Gannan Medical University, Ganzhou 341000, China
| | - Mengyu Yang
- State Key Laboratory of Biogeology and Environmental Geology, Engineering Research Center of Nano-Geomaterials of Ministry of Education, Faculty of Materials Science and Chemistry, China University of Geosciences, Wuhan 430074, China.
| | - Xianliang Nong
- State Key Laboratory of Biogeology and Environmental Geology, Engineering Research Center of Nano-Geomaterials of Ministry of Education, Faculty of Materials Science and Chemistry, China University of Geosciences, Wuhan 430074, China.
| | - Meihua Lin
- State Key Laboratory of Biogeology and Environmental Geology, Engineering Research Center of Nano-Geomaterials of Ministry of Education, Faculty of Materials Science and Chemistry, China University of Geosciences, Wuhan 430074, China.
| | - Fan Xia
- State Key Laboratory of Biogeology and Environmental Geology, Engineering Research Center of Nano-Geomaterials of Ministry of Education, Faculty of Materials Science and Chemistry, China University of Geosciences, Wuhan 430074, China.
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4
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Sokolov PA, Ramasanoff RR, Gabrusenok PV, Baryshev AV, Kasyanenko NA. Hybridization-Driven Adsorption of Polyadenine DNA onto Gold Nanoparticles. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2022; 38:15776-15781. [PMID: 36473190 DOI: 10.1021/acs.langmuir.2c02668] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/17/2023]
Abstract
The attachment of functional DNA to gold nanoparticles via polyadenine adsorption is a well-established technology. This approach was mainly viewed through the lens of changing the DNA charge in order to reduce the electrostatic barrier created by a similarly charged gold surface. However, altering the DNA charge results in the loss of its functionality. This work considers the adsorption process of polyadenines by force that artificially brings them closer to the surface. As a force source, we used the hybridization of a DNA strand carrying polyadenines with a complementary strand already attached to the surface. It was shown that the hybridization forces facilitated the adsorption of polyadenines. We believe that this approach is applicable in various areas where it is essential to preserve the functionality of DNA during conjugation with nanoparticles.
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Affiliation(s)
- Petr A Sokolov
- St. Petersburg University, 7/9 Universitetskaya Emb., St. Petersburg199034, Russia
| | - Ruslan R Ramasanoff
- Institute of Macromolecular Compounds, Russian Academy of Sciences, Bolshoy Prospect V.O. 31, St. Petersburg199004, Russia
| | - Pavel V Gabrusenok
- St. Petersburg University, 7/9 Universitetskaya Emb., St. Petersburg199034, Russia
| | - Andrey V Baryshev
- St. Petersburg University, 7/9 Universitetskaya Emb., St. Petersburg199034, Russia
| | - Nina A Kasyanenko
- St. Petersburg University, 7/9 Universitetskaya Emb., St. Petersburg199034, Russia
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Yu Z, Fang W, Yang Y, Yao H, Hu P, Shi J. Non-PCR Ultrasensitive Detection of Viral RNA by a Nanoprobe-Coupling Strategy: SARS-CoV-2 as an Example. Adv Healthc Mater 2022; 11:e2200031. [PMID: 35678310 PMCID: PMC9347949 DOI: 10.1002/adhm.202200031] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2022] [Revised: 05/16/2022] [Indexed: 01/27/2023]
Abstract
Developing efficient and highly sensitive diagnostic techniques for early detections of pathogenic viruses such as Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) is vitally important for preventing its widespread. However, the conventional polymerase chain reaction (PCR)-based detection features high complexity, excessive time-consumption, and labor-intensiveness, while viral protein-based detections suffer from moderate sensitivity and specificity. Here, a non-PCR but ultrasensitive viral RNA detection strategy is reported based on a facile nanoprobe-coupling strategy without enzymatic amplification, wherein PCR-induced bias and other shortcomings are successfully circumvented. This approach endows the viral RNA detection with ultra-low background to maximum signal ratio in the linear signal amplification by using Au nanoparticles as reporters. The present strategy exhibits 100% specificity toward SARS-CoV-2 N gene, and ultrasensitive detection of as low as 52 cp mL-1 of SARS-CoV-2 N gene without pre-PCR amplification. This approach presents a novel ultrasensitive tool for viral RNA detections for fighting against COVID-19 and other types of pathogenic virus-caused diseases.
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Affiliation(s)
- Zhiguo Yu
- State Key Laboratory of High Performance Ceramics and Superfine MicrostructureShanghai Institute of Ceramics Chinese Academy of Sciences; Research Unit of Nanocatalytic Medicine in Specific Therapy for Serious DiseaseChinese Academy of Medical Sciences (2021RU012)Shanghai200050P. R. China
- Center of Materials Science and Optoelectronics EngineeringUniversity of Chinese Academy of SciencesBeijing100049P. R. China
| | - Wenming Fang
- State Key Laboratory of High Performance Ceramics and Superfine MicrostructureShanghai Institute of Ceramics Chinese Academy of Sciences; Research Unit of Nanocatalytic Medicine in Specific Therapy for Serious DiseaseChinese Academy of Medical Sciences (2021RU012)Shanghai200050P. R. China
- Center of Materials Science and Optoelectronics EngineeringUniversity of Chinese Academy of SciencesBeijing100049P. R. China
| | - Yannan Yang
- Australian Institute for Bioengineering and NanotechnologyThe University of QueenslandSt LuciaBrisbaneQueensland4072Australia
| | - Heliang Yao
- State Key Laboratory of High Performance Ceramics and Superfine MicrostructureShanghai Institute of Ceramics Chinese Academy of Sciences; Research Unit of Nanocatalytic Medicine in Specific Therapy for Serious DiseaseChinese Academy of Medical Sciences (2021RU012)Shanghai200050P. R. China
| | - Ping Hu
- State Key Laboratory of High Performance Ceramics and Superfine MicrostructureShanghai Institute of Ceramics Chinese Academy of Sciences; Research Unit of Nanocatalytic Medicine in Specific Therapy for Serious DiseaseChinese Academy of Medical Sciences (2021RU012)Shanghai200050P. R. China
- Shanghai Tenth People's HospitalShanghai Frontiers Science Center of Nanocatalytic MedicineSchool of MedicineTongji UniversityShanghai200331P. R. China
| | - Jianlin Shi
- State Key Laboratory of High Performance Ceramics and Superfine MicrostructureShanghai Institute of Ceramics Chinese Academy of Sciences; Research Unit of Nanocatalytic Medicine in Specific Therapy for Serious DiseaseChinese Academy of Medical Sciences (2021RU012)Shanghai200050P. R. China
- Shanghai Tenth People's HospitalShanghai Frontiers Science Center of Nanocatalytic MedicineSchool of MedicineTongji UniversityShanghai200331P. R. China
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Prakash HS, Maroju PA, Boppudi NSS, Balapure A, Ganesan R, Ray Dutta J. Influence of citrate buffer and flash heating in enhancing the sensitivity of ratiometric genosensing of Hepatitis C virus using plasmonic gold nanoparticles. MICRO AND NANO SYSTEMS LETTERS 2021. [DOI: 10.1186/s40486-021-00134-3] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
AbstractGold nanoparticles (Au NPs) based technology has been shown to possess enormous potential in the viral nucleic acid diagnosis. Despite significant advancement in this domain, the existing literature reveals the diversity in the conditions employed for hybridization and tagging of thiolated nucleic acid probes over the Au NPs. Here we employ the probe sequence derived from the Hepatitis C virus to identify the optimal hybridization and thiol-Au NP tagging conditions. In a typical polymerase chain reaction, the probes are initially subjected to flash heating at elevated temperatures to obtain efficient annealing. Motivated by this, in the current study, the hybridization between the target and the antisense oligonucleotide (ASO) has been studied at 65 °C with and without employing flash heating at temperatures from 75 to 95 °C. Besides, the efficiency of the thiolated ASO’s tagging over the Au NPs with and without citrate buffer has been explored. The study has revealed the beneficial role of flash heating at 95 °C for efficient hybridization and the presence of citrate buffer for rapid and effective thiol tagging over the Au NPs. The combinatorial effect of these conditions has been found to be advantageous in enhancing the sensitivity of ratiometric genosensing using Au NPs.
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Nanoparticle-assisted detection of nucleic acids in a polymeric nanopore with a large pore size. Biosens Bioelectron 2021; 196:113697. [PMID: 34649096 PMCID: PMC8643331 DOI: 10.1016/j.bios.2021.113697] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2021] [Revised: 10/03/2021] [Accepted: 10/07/2021] [Indexed: 01/17/2023]
Abstract
Rapid and accurate detection of nucleic acids is of paramount importance in many fields, including medical diagnosis, gene therapy and virus identification. In this work, by taking advantage of two DNA hybridization probes, one of which was immobilized on the surface of gold nanoparticles, while the other was free in solution, detection of short length nucleic acids was successfully achieved using a large size (20 nm tip diameter) polyethylene terephythalate (PET) nanopore. The sensor was sensitive and selective: DNA samples with concentrations at as low as 0.5 nM could be detected within minutes and the number of mismatches can be discerned from the translocation frequency. Furthermore, the nanopore can be repeatedly used many times. Our developed large-size nanopore sensing platform offers the potential for fieldable/point-of-care diagnostic applications.
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JEV-nanobarcode and colorimetric reverse transcription loop-mediated isothermal amplification (cRT-LAMP). Mikrochim Acta 2021; 188:333. [PMID: 34498149 DOI: 10.1007/s00604-021-04986-9] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2021] [Accepted: 08/11/2021] [Indexed: 10/20/2022]
Abstract
Nucleic acid amplification tests (NAATs) are powerful tools for the Japanese encephalitis virus (JEV). We demonstrated highly sensitive, specific, and rapid detection of JEV by colorimetric reverse-transcription loop-mediated isothermal amplification (cRT-LAMP). Under optimized conditions, the RT-LAMP assay results showed that the limit of detection was approximately equivalent to 1 RNA genome copy/μL with an assay time of 30 min. The assay was highly specific to JEV when tested with other mosquito-borne virus panels (Zika virus and dengue virus types 2-4). The ability to detect JEV directly from crude human sample matrices (serum and urine) demonstrated the suitability of our JEV RT-LAMP for widespread clinical application. The JEV RT-LAMP provides combination of rapid colorimetric determination of true-positive JEV RT-LAMP amplicons with our recently developed JEV-nanobarcodes, measured at absorbance wavelenght of 530 (A530) and 650 (A650), which have a limit of detection of 23.3 ng/μL. The AuNP:polyA10-JEV RT-LAMP nanobarcodes exhibited superior capability for stabilizing the true-positive JEV RT-LAMP amplicons against salt-induced AuNP aggregation, which improved the evaluation of true/false positive signals in the assay. These advances enable to expand the use of RT-LAMP for point-of-care tests, which will greatly bolster JEV clinical programs. The JEV RT-LAMP nanobarcode assay targeting the envelope (E) gene and MgSO4 induced AuNP aggregation, indicated by an instant pink-to-violet colorimetric read-out.
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9
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Amplified plasmonic and microfluidic setup for DNA monitoring. Mikrochim Acta 2021; 188:326. [PMID: 34494176 DOI: 10.1007/s00604-021-04983-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/29/2021] [Accepted: 08/11/2021] [Indexed: 10/20/2022]
Abstract
Plasmonic nanosensors for label-free detection of DNA require excellent sensing resolution, which is crucial when monitoring short DNA sequences, as these induce tiny peak shifts, compared to large biomolecules. We report a versatile and simple strategy for plasmonic sensor signal enhancement by assembling multiple (four) plasmonic sensors in series. This approach provided a fourfold signal enhancement, increased signal-to-noise ratio, and improved sensitivity for DNA detection. The response of multiple sensors based on AuNSpheres was also compared with AuNRods, the latter showing better sensing resolution. The amplification system based on AuNR was integrated into a microfluidic sequential injection platform and applied to the monitoring of DNA, specifically from environmental invasive species-zebra mussels. DNA from zebra mussels was log concentration-dependent from 1 to 1 × 106 pM, reaching a detection limit of 2.0 pM. In situ tests were also successfully applied to real samples, within less than 45 min, using DNA extracted from zebra mussel meat. The plasmonic nanosensors' signal can be used as a binary output (yes/no) to assess the presence of those invasive species. Even though these genosensors were applied to the monitoring of DNA in environmental samples, they potentially offer advantage in a wide range of fields, such as disease diagnostics.
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Epanchintseva AV, Gorbunova EA, Ryabchikova EI, Pyshnaya IA, Pyshnyi DV. Effect of Fluorescent Labels on DNA Affinity for Gold Nanoparticles. NANOMATERIALS (BASEL, SWITZERLAND) 2021; 11:1178. [PMID: 33947157 PMCID: PMC8145642 DOI: 10.3390/nano11051178] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/31/2021] [Revised: 04/24/2021] [Accepted: 04/27/2021] [Indexed: 11/16/2022]
Abstract
Fluorophore (FD) labeling is widely used for detection and quantification of various compounds bound to nanocarriers. The systems, composed of gold nanoparticles (GNPs) and oligonucleotides (ONs) labeled with FDs, have wide applications. Our work was aimed at a systemic study of how FD structure (in composition of ON-FDs) influenced the efficiency of their non-covalent associates' formation with GNPs (ON-FD/GNPs). We examined ONs of different length and nucleotide composition, and corresponding ON-FDs (FDs from a series of xanthene, polymethine dyes; dyes based on polycyclic aromatic hydrocarbons). Methods: fluorometry, dynamic light scattering, high performance liquid chromatography, gel electrophoresis, molecular modeling and methods of thermodynamic and statistical analysis. We observed significant, differing several times, changes in surface density and Langmuir constant values of ON-FDs vs. ONs, evidence for the critical significance of FD nature for binding of ON-FDs with GNPs. Surface density of ON-FD/GNPs; hydrophobicity and total charge of ON or ON-FD; and charge and surface area of FDs were revealed as key factors determining affinity (Langmuir constant) of ON or ON-FDs for GNPs. These factors compose a specific set, which makes possible the highly reliable prediction of efficiency of ONs and ON-FDs binding with GNPs. The principal possibility of creating an algorithm for predictive calculation of efficiency of ONs and GNPs interaction was demonstrated. We proposed a hypothetical model that described the mechanism of contact interaction between negatively charged nano-objects, such as citrate-stabilized GNPs, and ONs or ON-FDs.
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Affiliation(s)
| | | | - Elena I. Ryabchikova
- Institute of Chemical Biology and Fundamental Medicine, SB RAS, Lavrentiev ave. 8, 630090 Novosibirsk, Russia; (A.V.E.); (E.A.G.); (I.A.P.)
| | | | - Dmitrii V. Pyshnyi
- Institute of Chemical Biology and Fundamental Medicine, SB RAS, Lavrentiev ave. 8, 630090 Novosibirsk, Russia; (A.V.E.); (E.A.G.); (I.A.P.)
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Zhang J, Jin J, Du Y, Zhou X, Liang H, Jiang W. Enhancing the stability of single-stranded DNA on gold nanoparticles as molecular machines through salt and acid regulation. J Mater Chem B 2020; 7:5554-5562. [PMID: 31465072 DOI: 10.1039/c9tb01238a] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
DNA-functionalized gold nanoparticles (DNA-AuNPs) have shown great potential and exciting opportunities for constructing machine-like nanodevices. Nonthiolated DNA can be grafted onto gold surfaces via DNA bases, such as polyadenine (polyA)-DNA. The colloidal stability of polyA-DNA-AuNPs has a significant dependency on salt and pH that affects the assembly of AuNPs and their application in polyA-DNA molecular machines. High salt and low pH value contribute to the stabilization of polyA-DNA-AuNPs. In acid conditions, adenine can be protonated and becomes positively-charged, thus enhancing the adsorption of polyA-DNA onto the gold surface by electrostatic interactions; coordination of multiple interactions achieves a high DNA grafting density and colloidal stability. In addition, the length of adenine has an important effect on the efficiency of the DNA machine, while the length of thymine has little effect when the thymine length is less than or equal to seven. The assembly of AuNPs driven by dynamic polyA-DNA molecular machines was successfully accomplished with A5-DNA and A9-DNA. A moderate concentration of catalyst oligomer (50 nM) could improve the DNA hybridization efficiency. The A9-DNA based molecular machine is more efficient than the A5-DNA based one because of the larger amount of A9-DNA on the AuNPs, which increases the probability of collisions between complementary DNA strands. Therefore, polyA-DNA functionalized nanoparticles can be used as a basic unit to construct assembly-ordering structures and achieve dynamic molecular machines to be applied in the molecular diagnostics field.
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Affiliation(s)
- Jianing Zhang
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P. R. China.
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Numerical evaluation of polyethylene glycol ligand conjugation to gold nanoparticle surface using ToF-SIMS and statistical analysis. Biointerphases 2020; 15:031008. [PMID: 32460504 DOI: 10.1116/6.0000106] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
Abstract
Nanoparticles (NPs) are substances between 1 and 100 nm in size. They have been the subject of numerous studies because of their potential applications in a wide range of fields such as cosmetics, electronics, medicine, and food. For biological applications of nanoparticles, they are usually coated with a substance capable of preventing agglomeration of the nanoparticles and nonspecific binding and exhibiting water-solubility characteristics with specific immobilized (bio)molecules. In order to evaluate the chemical properties of the surface-modified nanoparticles for bioapplications, including drug delivery, a simple and reliable method for the analysis of the presence of the surface chemicals and the ligand states of the nanoparticles is necessary. In this study, the authors numerically evaluated the extent of polyethylene glycol (PEG) ligand conjugation on AuNPs by concurrently adopting a microliquid inkjet printing system for sampling of the PEGylated AuNPs solution and ToF-SIMS imaging together with statistical analysis. The statistical correlation values calculated from the signals of PEG and Au measured by ToF-SIMS imaging on the sample spots made by a microliquid inkjet printing system showed better reproducibility and improved correlation values compared to the pipet spotting. Their improved method will be useful to evaluate ligand-conjugated nanoparticles for quality control of each conjugation process.
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Kardani A, Yaghoobi H, Alibakhshi A, Khatami M. Inhibition of miR-155 in MCF-7 breast cancer cell line by gold nanoparticles functionalized with antagomir and AS1411 aptamer. J Cell Physiol 2020; 235:6887-6895. [PMID: 32003016 DOI: 10.1002/jcp.29584] [Citation(s) in RCA: 32] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/15/2019] [Accepted: 01/09/2020] [Indexed: 11/07/2022]
Abstract
MicroRNAs are key factors for many biological functions. These regulatory molecules affect various gene networks and involve the subsequent signaling pathways. Therefore, disrupting the expression of these molecules is associated with multiple anomalies in the cells and body. One of the most important related abnormalities is the incidence of cancer. Thus, targeting microRNAs (miRNAs) is an effective approach for cancer gene therapy. Various factors are used for this purpose, including the antagomir nucleotide structure. There are some obstacles in the delivery of nucleotide therapeutics to the target cells, however, the use of nanoparticles could partly overcome these defeciencies. On the other hand, targeted delivery of antagomirs using aptamers, reduces nonspecific effects on nontarget cells. Considering the above, in this study, we designed and fabricated a nanocarrier composed of gold nanoparticles (GNPs), antagomir-155, and nucleolin specific aptamer for breast cancer study and therapy. Here, GNPs were synthesized using citrate reduction and were modified by polyA sequences, AS1411 aptamer, and antagomir-155. Attachment of molecules were confirmed using gel electrophoresis, atomic force microscopy imaging and electrochemical test. The specific entry of modified nanoparticles was investigated by fluorescence microscopy. The efficacy of modified nanoparticles was evaluated using a quantitative polymerase chain reaction (q-PCR) for miR-155 and its target gene. Efficient and specific delivery of AuNP-Apt-anti-miR-155 to target cells was confirmed in comparison with the control cell. The q-PCR analysis showed not only a significant decrease in mir-155 levels but also an elevated TP53INP1 mRNA, direct target of miR-155. The proposed structure inhibits proliferation and stimulates apoptosis by increasing the expression of TP53INP1. Our results suggest that AuNP-Apt-anti-miR-155 could be a promising nano constructor for breast cancer treatment.
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Affiliation(s)
- Arefeh Kardani
- Department of Medical Biotechnology, School of Advanced Technologies, Shahrekord University of Medical Sciences, Shahrekord, Iran
| | - Hajar Yaghoobi
- Clinical Biochemistry Research Center, Basic Health Sciences Institute, Shahrekord University of Medical Sciences, Shahrekord, Iran
| | - Abbas Alibakhshi
- Department of Biotechnology, School of Advanced Technologies in Medicine, Shahid Beheshti University of Medical Sciences, Tehran, Iran
| | - Mehrdad Khatami
- Nanobioelectrochemistry Research Center, Bam University of Medical Sciences, Bam, Iran
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Vorobjev P, Epanchintseva A, Lomzov A, Tupikin A, Kabilov M, Pyshnaya I, Pyshnyi D. DNA Binding to Gold Nanoparticles through the Prism of Molecular Selection: Sequence-Affinity Relation. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2019; 35:7916-7928. [PMID: 31117729 DOI: 10.1021/acs.langmuir.9b00661] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Native DNA strongly adsorbs to citrate-coated gold nanoparticles (AuNPs). The resulting composites (DNA/AuNPs) are valuable materials in many fields, especially in biomedicine. For this reason, the process of adsorption is a focus for intensive research. In this work, DNA adsorption to gold nanoparticles was studied using a molecular selection procedure followed by high-throughput DNA sequencing. The chemically synthesized DNA library containing a central N26 randomized fragment was sieved through four cycles of adsorption to AuNPs in a tree-like selection-amplification scheme (SELEX (Selective Evolution of Ligands by EXponential enrichment)). The frequencies of occurrence of specific oligomeric DNA motifs, k-mers ( k = 1-6), in the initial and selected pools were calculated. Distribution of secondary structures in the pools was analyzed. A large set of diverse A, T, and G enriched k-mers undergo a pronounced positive selection, and these sequences demonstrate faster and strong binding to the AuNPs. For facile binding, such structural motifs should be located in the loop regions of weak intramolecular complexes-hairpins with imperfect stem, or other portion of the structure, which is unpaired under selection conditions. Our data also show that, under the conditions employed in this study, cytosine is significantly depleted during the selection process, although guanine remains unchanged. These regularities were confirmed in a series of binding experiments with a set of synthetic DNA oligonucleotides. The detailed analysis of DNA binding to AuNPs shows that the sequence specificity of this interaction is low due to its nature, although the presence and the number of specific structural motifs in DNA affect both the rate of formation and the strength of the formed noncovalent associates with AuNPs.
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Affiliation(s)
- Pavel Vorobjev
- Institute of Chemical Biology and Fundamental Medicine , Siberian Branch of the Russian Academy of Sciences , 8 Lavrentiev Avenue , Novosibirsk 630090 , Russia
- Novosibirsk State University , 2, Pirogova Street , Novosibirsk 630090 , Russia
| | - Anna Epanchintseva
- Institute of Chemical Biology and Fundamental Medicine , Siberian Branch of the Russian Academy of Sciences , 8 Lavrentiev Avenue , Novosibirsk 630090 , Russia
| | - Alexander Lomzov
- Institute of Chemical Biology and Fundamental Medicine , Siberian Branch of the Russian Academy of Sciences , 8 Lavrentiev Avenue , Novosibirsk 630090 , Russia
- Novosibirsk State University , 2, Pirogova Street , Novosibirsk 630090 , Russia
| | - Aleksey Tupikin
- Institute of Chemical Biology and Fundamental Medicine , Siberian Branch of the Russian Academy of Sciences , 8 Lavrentiev Avenue , Novosibirsk 630090 , Russia
| | - Marsel Kabilov
- Institute of Chemical Biology and Fundamental Medicine , Siberian Branch of the Russian Academy of Sciences , 8 Lavrentiev Avenue , Novosibirsk 630090 , Russia
| | - Inna Pyshnaya
- Institute of Chemical Biology and Fundamental Medicine , Siberian Branch of the Russian Academy of Sciences , 8 Lavrentiev Avenue , Novosibirsk 630090 , Russia
| | - Dmitrii Pyshnyi
- Institute of Chemical Biology and Fundamental Medicine , Siberian Branch of the Russian Academy of Sciences , 8 Lavrentiev Avenue , Novosibirsk 630090 , Russia
- Novosibirsk State University , 2, Pirogova Street , Novosibirsk 630090 , Russia
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15
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Heuer-Jungemann A, Feliu N, Bakaimi I, Hamaly M, Alkilany A, Chakraborty I, Masood A, Casula MF, Kostopoulou A, Oh E, Susumu K, Stewart MH, Medintz IL, Stratakis E, Parak WJ, Kanaras AG. The Role of Ligands in the Chemical Synthesis and Applications of Inorganic Nanoparticles. Chem Rev 2019; 119:4819-4880. [PMID: 30920815 DOI: 10.1021/acs.chemrev.8b00733] [Citation(s) in RCA: 474] [Impact Index Per Article: 94.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
The design of nanoparticles is critical for their efficient use in many applications ranging from biomedicine to sensing and energy. While shape and size are responsible for the properties of the inorganic nanoparticle core, the choice of ligands is of utmost importance for the colloidal stability and function of the nanoparticles. Moreover, the selection of ligands employed in nanoparticle synthesis can determine their final size and shape. Ligands added after nanoparticle synthesis infer both new properties as well as provide enhanced colloidal stability. In this article, we provide a comprehensive review on the role of the ligands with respect to the nanoparticle morphology, stability, and function. We analyze the interaction of nanoparticle surface and ligands with different chemical groups, the types of bonding, the final dispersibility of ligand-coated nanoparticles in complex media, their reactivity, and their performance in biomedicine, photodetectors, photovoltaic devices, light-emitting devices, sensors, memory devices, thermoelectric applications, and catalysis.
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Affiliation(s)
- Amelie Heuer-Jungemann
- School of Physics and Astronomy, Faculty of Engineering and Physical Sciences , University of Southampton , Southampton SO17 1BJ , U.K
| | - Neus Feliu
- Department of Laboratory Medicine (LABMED) , Karolinska Institutet , Stockholm 171 77 , Sweden.,Fachbereich Physik, CHyN , Universität Hamburg , 22607 Hamburg , Germany
| | - Ioanna Bakaimi
- School of Chemistry, Faculty of Engineering and Physical Sciences , University of Southampton , Southampton SO171BJ , U.K
| | - Majd Hamaly
- King Hussein Cancer Center , P. O. Box 1269, Al-Jubeiha, Amman 11941 , Jordan
| | - Alaaldin Alkilany
- Department of Pharmaceutics & Pharmaceutical Technology, School of Pharmacy , The University of Jordan , Amman 11942 , Jordan.,Fachbereich Physik, CHyN , Universität Hamburg , 22607 Hamburg , Germany
| | | | - Atif Masood
- Fachbereich Physik , Philipps Universität Marburg , 30357 Marburg , Germany
| | - Maria F Casula
- INSTM and Department of Chemical and Geological Sciences , University of Cagliari , 09042 Monserrato , Cagliari , Italy.,Department of Mechanical, Chemical and Materials Engineering , University of Cagliari , Via Marengo 2 , 09123 Cagliari , Italy
| | - Athanasia Kostopoulou
- Institute of Electronic Structure and Laser , Foundation for Research and Technology-Hellas , Heraklion , 71110 Crete , Greece
| | - Eunkeu Oh
- KeyW Corporation , Hanover , Maryland 21076 , United States.,Optical Sciences Division, Code 5600 , U.S. Naval Research Laboratory , Washington , D.C. 20375 , United States
| | - Kimihiro Susumu
- KeyW Corporation , Hanover , Maryland 21076 , United States.,Optical Sciences Division, Code 5600 , U.S. Naval Research Laboratory , Washington , D.C. 20375 , United States
| | - Michael H Stewart
- Optical Sciences Division, Code 5600 , U.S. Naval Research Laboratory , Washington , D.C. 20375 , United States
| | - Igor L Medintz
- Center for Bio/Molecular Science and Engineering, Code 6900 , U.S. Naval Research Laboratory , Washington , D.C. 20375 , United States
| | - Emmanuel Stratakis
- Institute of Electronic Structure and Laser , Foundation for Research and Technology-Hellas , Heraklion , 71110 Crete , Greece
| | - Wolfgang J Parak
- Fachbereich Physik, CHyN , Universität Hamburg , 22607 Hamburg , Germany
| | - Antonios G Kanaras
- School of Physics and Astronomy, Faculty of Engineering and Physical Sciences , University of Southampton , Southampton SO17 1BJ , U.K
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16
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Farrokhpour H, Abedi S, Jouypazadeh H. Directional affinity of a spherical Gold nanoparticle for the adsorption of DNA bases. Colloids Surf B Biointerfaces 2018; 173:493-503. [PMID: 30336411 DOI: 10.1016/j.colsurfb.2018.10.001] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2018] [Revised: 08/10/2018] [Accepted: 10/01/2018] [Indexed: 11/19/2022]
Abstract
In this work, the adsorption activities of different facets of a spherical gold nanoparticle (Au(111), Au(100) and Au(110)) for adenine (ADE) and cytosine (CYT) in two different environments including gas phase and in the presence of solvent (water) have been investigated, separately. It has been found that the adsorption energy (Ead) and geometry of the DNA bases depend strongly on the kind of nanoparticle facet. The Au (110) facet showed the highest adsorption affinity for the ADE and CYT in both gas phase and water compared to Au(111) and Au(100) facets. Comparison of the Eads of bases calculated in the gas phase with those obtained in the presence of water showed that the electrostatic field of solvent decreases the Eads of bases, especially, for the Au (110) facet. The adsorption geometry of the CYT showed strong dependency on the kind of nanoparticle facet compared to ADE. Also, it has been shown that the direction and amount of charge transfer (CT) between the molecule and nanoparticle strongly depends on the kind of nanoparticle facet and environment. The CT is from the Au (111) facet to the ADE while the CT direction is reversed when the ADE is adsorbed on the Au (110) and Au (100) facets in the gas phase. The CT is from the CYT to three facets in the gas phase while its direction for the ADE and CYT adsorbed on Au (100) facet is reversed. The atoms in molecules (AIM) analysis has been employed to determine the bond paths (BPs) and bond critical points (BCPs) between the bases and facets. The infrared (IR) spectra of the bases adsorbed on the selected facets were calculated and compared with each other and with the spectra of the isolated bases. It was found that the symmetric and unsymmetric stretching of the NH of NH2 group, C-H stretching of the rings and CO stretching of bases can be used for the discrimination of the selected facets.
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Affiliation(s)
- Hossein Farrokhpour
- Department of chemistry, Isfahan University of Technology, Isfahan, 84156-83111, Iran.
| | - Soraya Abedi
- Department of chemistry, Isfahan University of Technology, Isfahan, 84156-83111, Iran
| | - Hamidreza Jouypazadeh
- Department of chemistry, Isfahan University of Technology, Isfahan, 84156-83111, Iran
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17
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Epanchintseva A, Dolodoev A, Grigor'eva A, Chelobanov B, Pyshnyi D, Ryabchikova E, Pyshnaya I. Non-covalent binding of nucleic acids with gold nanoparticles provides their stability and effective desorption in environment mimicking biological media. NANOTECHNOLOGY 2018; 29:355601. [PMID: 29851383 DOI: 10.1088/1361-6528/aac933] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
The ability of gold nanoparticles to bind different substances has resulted in the high interest of researchers determining their usage as a promising carrier of various biological substances including nucleic acids (NAs) for therapeutic applications. Most publications report covalent binding (conjugation) of an NA to spherical AuNPs via the Au-S bond. In this work, we obtained non-covalent associates of different ssDNA, ssRNA and siRNAs with spherical gold nanoparticles (AuNPs) and examined their physico-chemical properties and stability in media mimicking intracellular space (bacterial 'cytosol') and cell culture media (10% FBS in DMEM). The 'cytosol' was obtained from E. coli and possessed nuclease activity. For the first time, we used the phosphoryl guanidine (dimethylimidazolidin-2-imine, Dmi) group for modification of 3'-ends to enhance the stability of ssRNAs and siRNAs against nuclease destruction. Trying to evaluate the material balance, we analyzed the whole nucleotide species obtained after incubation of NA-AuNPs associates in 'cytosol' and FBS and evaluated the degree of NAs destruction, a share of full-size NAs remained on the surface of the AuNPs and in the solution. Native ss- and siRNAs, both free and in composition of non-covalent associates with AuNPs, were less resistant to degrading factors than ssDNA. The introduction of two Dmi-groups into the ssDNA increased its stability in 'cytosol' three times within 2.5 h. Dmi-modified siRNAs in non-covalent associates with AuNPs were two times more stable than unmodified siRNA within 4 h. We showed that non-covalent siRNA-AuNPs associates serve as a kind of storage for full-size NAs and thereby prolong their presence in nuclease-active media. Our study showed that non-covalent binding of siRNAs with a surface of AuNPs provides desorption of both strands, which is necessary for siRNA functioning in living cells, and could be considered as an important way to construct siRNA and ssDNA delivery systems based on AuNPs.
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Affiliation(s)
- Anna Epanchintseva
- Institute of Chemical Biology and Fundamental Medicine, Siberian Branch of Russian Academy of Science, Novosibirsk, Russia
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18
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Lee SH, Ahn G, Kim MS, Jeong OC, Lee JH, Kwon HG, Kim YH, Ahn JY. Poly-adenine-Coupled LAMP Barcoding to Detect Apple Scar Skin Viroid. ACS COMBINATORIAL SCIENCE 2018; 20:472-481. [PMID: 30011183 DOI: 10.1021/acscombsci.8b00022] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Apple Scar Skin Viroid (ASSVd), a nonprotein coding, circular RNA pathogen is relatively difficult to detect by immunoassay. We report here a one-step reverse transcription loop-mediated isothermal amplification (RT-LAMP) assay to improve selectivity for diagnostic use in detecting ASSVd in plants. ASSVd RT-LAMP was accelerated using loop primers and was found to be highly sensitive with a detection limit of 104 copies of cDNA-ASSVd within 30 min. Real-time LAMP and melting curve analysis could differentiate between the true-positive LAMP amplicons and false-positive nonspecific primer amplification products. The optimized RT-LAMP was then followed by the addition of nonthiolated AuNP:poly-adenine (A10)-ASSVd LAMP barcodes, showing a high authentication capacity with colorimetric changes. This type of barcoding assay is a potential alternative for rapid and multiple viroid diagnosis, providing for visible sensing in the field that can be applied to viroid-free planting.
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Affiliation(s)
- Se Hee Lee
- School of Biological Sciences, Chungbuk National University, 1 Chungdae-Ro, Seowon-Gu, Cheongju 28644, South Korea
| | - Gna Ahn
- School of Biological Sciences, Chungbuk National University, 1 Chungdae-Ro, Seowon-Gu, Cheongju 28644, South Korea
| | - Myung-Su Kim
- Apple Research Institute, National Institute of Horticultural & Herbal Science, Rural Development Administration, Gunwi 39000, Korea
| | - Ok Chan Jeong
- Department of Biomedical Engineering, Inje University, Gimhae, South Korea
- Institute of Digital Anti-Aging Healthcare, Inje University, Gimhae, South Korea
| | - Jong Hyun Lee
- Institute of Digital Anti-Aging Healthcare, Inje University, Gimhae, South Korea
| | - Hyuck Gi Kwon
- Institute of Digital Anti-Aging Healthcare, Inje University, Gimhae, South Korea
| | - Yang-Hoon Kim
- School of Biological Sciences, Chungbuk National University, 1 Chungdae-Ro, Seowon-Gu, Cheongju 28644, South Korea
| | - Ji-Young Ahn
- School of Biological Sciences, Chungbuk National University, 1 Chungdae-Ro, Seowon-Gu, Cheongju 28644, South Korea
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19
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Non-Covalent Associates of siRNAs and AuNPs Enveloped with Lipid Layer and Doped with Amphiphilic Peptide for Efficient siRNA Delivery. Int J Mol Sci 2018; 19:ijms19072096. [PMID: 30029512 PMCID: PMC6073485 DOI: 10.3390/ijms19072096] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2018] [Revised: 07/16/2018] [Accepted: 07/17/2018] [Indexed: 12/19/2022] Open
Abstract
Elaboration of non-viral vehicles for delivery of therapeutic nucleic acids, in particular siRNA, into a cell is an actively growing field. Gold nanoparticles (AuNPs) occupy a noticeable place in these studies, and various nanoconstructions containing AuNPs are reported. We aimed our work to the rational design of AuNPs-based siRNA delivery vehicle with enhanced transfection efficiency. We optimized the obtaining of non-covalent siRNAs-AuNPs cores: ionic strength, temperature and reaction time were determined. Formation of cores was confirmed using gel electrophoresis. Stable associates were prepared, and then enveloped into a lipid layer composed of phosphatidylcholine, phosphatidylethanolamine and novel pH-sensitive lipidoid. The constructions were modified with [Str-(RL)4G-NH2] peptide (the resulting construction). All intermediate and resulting nanoconstructions were analyzed by dynamic light scattering (DLS) and transmission electron microscopy (TEM) to control their physico-chemical properties. To examine the biological effect of the delivery vehicle, green fluorescent protein (GFP)-expressing human embryonic kidney (HEK) Phoenix cells were incubated with the resulting construction containing anti-GFP siRNA, with the siRNA effect being studied by flow cytometry and confocal microscopy. Transfection of the cells with the resulting construction reduced the GFP fluorescence as efficiently as Lipofectamin 3000. Thus, siRNA vehicle based on non-covalently bound siRNA-AuNP core and enveloped into a lipid layer provides efficient delivery of siRNA into a cell followed by specific gene silencing.
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20
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Epanchintseva A, Vorobjev P, Pyshnyi D, Pyshnaya I. Fast and Strong Adsorption of Native Oligonucleotides on Citrate-Coated Gold Nanoparticles. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2018; 34:164-172. [PMID: 29228777 DOI: 10.1021/acs.langmuir.7b02529] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
The adsorption of oligonucleotides on citrate-coated gold nanoparticles (AuNPs) is studied under conditions "right after the synthesis", i.e., in a weak citrate solution at a pH value close to neutral (5.8 ± 0.2). We found that short-term elevation of reaction temperature under these conditions provides fast and strong adsorption of oligonucleotides on the surface of AuNPs. The affinity of oligonucleotides to AuNPs depends on the length of the oligonucleotide and its nucleotide composition. The shortest oligonucleotide in this study, T6, is the most affine, having the equilibrium binding constant KD = 0.10 ± 0.04 nM and the highest surface density-up to 200 molecules per one particle. Olygothymidylates are at least as affine to AuNPs as oligoadenylates, while oligocytidilates show the lowest affinity. We also studied the interaction of resulting DNA/AuNPs with a series of low- and high-molecular thiols, which provide a variety of operations with adsorbed oligonucleotides: displacement (complete or partial) and encapsulation in a secondary shell. These experiments imitate someway the conditions in a living cell or serum, and show that DNA/AuNPs obtained by this method can be applied in a number of bionanotechnological applications, including delivery of nucleic acid therapeutics and theranostics.
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Affiliation(s)
- Anna Epanchintseva
- Institute of Chemical Biology and Fundamental Medicine, Siberian Branch of the Russian Academy of Sciences , 8 Lavrentiev Avenue, Novosibirsk, 630090, Russia
| | - Pavel Vorobjev
- Institute of Chemical Biology and Fundamental Medicine, Siberian Branch of the Russian Academy of Sciences , 8 Lavrentiev Avenue, Novosibirsk, 630090, Russia
- Novosibirsk State University , 2, Pirogova Street, Novosibirsk, 630090, Russia
| | - Dmitrii Pyshnyi
- Institute of Chemical Biology and Fundamental Medicine, Siberian Branch of the Russian Academy of Sciences , 8 Lavrentiev Avenue, Novosibirsk, 630090, Russia
- Novosibirsk State University , 2, Pirogova Street, Novosibirsk, 630090, Russia
| | - Inna Pyshnaya
- Institute of Chemical Biology and Fundamental Medicine, Siberian Branch of the Russian Academy of Sciences , 8 Lavrentiev Avenue, Novosibirsk, 630090, Russia
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21
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Bahram M, Madrakian T, Alizadeh S. Simultaneous colorimetric determination of morphine and ibuprofen based on the aggregation of gold nanoparticles using partial least square. J Pharm Anal 2017; 7:411-416. [PMID: 29404068 PMCID: PMC5790710 DOI: 10.1016/j.jpha.2017.03.001] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2016] [Revised: 03/07/2017] [Accepted: 03/12/2017] [Indexed: 11/26/2022] Open
Abstract
In this work a new method is presented for simultaneous colorimetric determination of morphine(MOR) and ibuprofen(IBU) based on the aggregation of citrate-capped gold nanoparticles (AuNPs). Citrate-capped gold nanoparticles were aggregated in the presence of morphine and ibuprofen. The difference in kinetics of AuNPs aggregation in the presence of morphine / ibuprofen was used for simultaneous analysis of morphine and ibuprofen. The formation and size of synthesized Au NPs and the aggregated forms were monitored by infra-Red (IR) spectroscopy and transmission electron microscopy (TEM) respectively.. By adding morphine or ibuprofen the absorbance was decreased at 520 nm and increased at 620 nm. The difference in kinetic profiles of aggregation was applied for simultaneous analysis of MOR and IBU using partial least square regression as an efficient multivariate calibration method. The number of PLS latent variables was optimized by leave-one-out cross-validation method using predicted residual error sum of square. The proposed model exhibited a high capability in simultaneous prediction of MOR and IBU concentrations in real samples. Our results showed linear ranges of 1.33-33.29 µg/mL (R2=0.9904) and 0.28-6.9 µg/mL (R2=0.9902) for MOR and IBU respectively with low detection limits of 0.15 and 0.03 µg/mL(S/N=5).
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Affiliation(s)
- Morteza Bahram
- Department of Chemistry, Faculty of Science, Urmia University, 5715175976 Urmia, Iran
| | - Tayyebeh Madrakian
- Department of Analytical chemistry, Faculty of Chemistry, Bu-Ali Sina University, 65178638695 Hamadan, Iran
| | - Sakineh Alizadeh
- Department of Analytical chemistry, Faculty of Chemistry, Bu-Ali Sina University, 65178638695 Hamadan, Iran
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22
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Kumari M, Pandey S, Mishra A, Nautiyal CS. Finding a facile way for the bacterial DNA transformation by biosynthesized gold nanoparticles. FEMS Microbiol Lett 2017; 364:3894107. [DOI: 10.1093/femsle/fnx081] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2017] [Accepted: 06/21/2017] [Indexed: 01/05/2023] Open
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23
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Rani K. Biomedical Applications of Silver and Gold Nanoparticles: Effective and Safe Non-Viral Delivery Vehicles. ACTA ACUST UNITED AC 2017. [DOI: 10.15406/jabb.2017.03.00059] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022]
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24
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Carnerero JM, Jimenez‐Ruiz A, Castillo PM, Prado‐Gotor R. Covalent and Non‐Covalent DNA–Gold‐Nanoparticle Interactions: New Avenues of Research. Chemphyschem 2016; 18:17-33. [DOI: 10.1002/cphc.201601077] [Citation(s) in RCA: 67] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2016] [Indexed: 12/19/2022]
Affiliation(s)
- Jose M. Carnerero
- Physical Chemistry. Faculty of Chemistry University of Seville C/Profesor Garcia Gonzalez, s/n 41012 Seville Spain
| | - Aila Jimenez‐Ruiz
- Physical Chemistry. Faculty of Chemistry University of Seville C/Profesor Garcia Gonzalez, s/n 41012 Seville Spain
| | - Paula M. Castillo
- Physical Chemistry. Faculty of Chemistry University of Seville C/Profesor Garcia Gonzalez, s/n 41012 Seville Spain
| | - Rafael Prado‐Gotor
- Physical Chemistry. Faculty of Chemistry University of Seville C/Profesor Garcia Gonzalez, s/n 41012 Seville Spain
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25
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Zeng Y, Ren J, Shen A, Hu J. Field and Pretreatment-Free Detection of Heavy-Metal Ions in Organic Polluted Water through an Alkyne-Coded SERS Test Kit. ACS APPLIED MATERIALS & INTERFACES 2016; 8:27772-27778. [PMID: 27696801 DOI: 10.1021/acsami.6b09722] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
Field and pretreatment-free detection of heavy-metal ions in organic polluted water is important but still challenging in current water pollution emergency response systems. Here we report a polyadenine-DNA-mediated approach for a rationally designed alkyne-coded surface-enhanced Raman scattering (SERS) test kit, enabling rapid and simultaneous detection of Hg2+ and Ag+ by a portable spectrometer, impervious to organic interferences. Because of the formation of thymine (T)-Hg2+-T and cytosine (C)-Ag+-C, highly recognizable SERS signals are rapidly detected when two different alkyne-labeled gold nanoparticles (AuNPs) are induced to undergo controllable bridging upon the addition of low-volume targets. For multiplex detection through a portable spectrometer, the limits of detection reach 0.77 and 0.86 nM for Hg2+ and Ag+, respectively. Of particular significance, the proposed C≡C-containing Raman reporters provide an extremely effective solution for multiplex sensing in a spectral silent region, when the hyperspectral and fairly intense optical noises originating from lower wavenumber region (<1800 cm-1) are inevitable under complex ambient conditions.
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Affiliation(s)
- Yi Zeng
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education), College of Chemistry and Molecular Sciences, Wuhan University , Wuhan 430072, P. R. China
| | - Jiaqiang Ren
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education), College of Chemistry and Molecular Sciences, Wuhan University , Wuhan 430072, P. R. China
| | - Aiguo Shen
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education), College of Chemistry and Molecular Sciences, Wuhan University , Wuhan 430072, P. R. China
| | - Jiming Hu
- Key Laboratory of Analytical Chemistry for Biology and Medicine (Ministry of Education), College of Chemistry and Molecular Sciences, Wuhan University , Wuhan 430072, P. R. China
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26
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Bano F, Sluysmans D, Wislez A, Duwez AS. Unraveling the complexity of the interactions of DNA nucleotides with gold by single molecule force spectroscopy. NANOSCALE 2015; 7:19528-19533. [PMID: 26538184 DOI: 10.1039/c5nr05695k] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
Addressing the effect of different environmental factors on the adsorption of DNA to solid supports is critical for the development of robust miniaturized devices for applications ranging from biosensors to next generation molecular technology. Most of the time, thiol-based chemistry is used to anchor DNA on gold - a substrate commonly used in nanotechnology - and little is known about the direct interaction between DNA and gold. So far there have been no systematic studies on the direct adsorption behavior of the deoxyribonucleotides (i.e., a nitrogenous base, a deoxyribose sugar, and a phosphate group) and on the factors that govern the DNA-gold bond strength. Here, using single molecule force spectroscopy, we investigated the interaction of the four individual nucleotides, adenine, guanine, cytosine, and thymine, with gold. Experiments were performed in three salinity conditions and two surface dwell times to reveal the factors that influence nucleotide-Au bond strength. Force data show that, at physiological ionic strength, adenine-Au interactions are stronger, asymmetrical and independent of surface dwell time as compared to cytosine-Au and guanine-Au interactions. We suggest that in these conditions only adenine is able to chemisorb on gold. A decrease of the ionic strength significantly increases the bond strength for all nucleotides. We show that moderate ionic strength along with longer surface dwell period suggest weak chemisorption also for cytosine and guanine.
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Affiliation(s)
- Fouzia Bano
- University of Liège, Department of Chemistry, B6a Sart-Tilman, 4000 Liège, Belgium.
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