1
|
Naoumi N, Araya-Farias M, Megariti M, Alexandre L, Papadakis G, Descroix S, Gizeli E. Acoustic detection of a mutation-specific Ligase Chain Reaction based on liposome amplification. Analyst 2024; 149:3537-3546. [PMID: 38758167 DOI: 10.1039/d3an02142d] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/18/2024]
Abstract
Single nucleotide variants (SNVs) play a crucial role in understanding genetic diseases, cancer development, and personalized medicine. However, existing ligase-based amplification and detection techniques, such as Rolling Circle Amplification and Ligase Detection Reaction, suffer from low efficiency and difficulties in product detection. To address these limitations, we propose a novel approach that combines Ligase Chain Reaction (LCR) with acoustic detection using highly dissipative liposomes. In our study, we are using LCR combined with biotin- and cholesterol-tagged primers to produce amplicons also modified at each end with a biotin and cholesterol molecule. We then apply the LCR mix without any purification directly on a neutravidin modified QCM device Au-surface, where the produced amplicons can bind specifically through the biotin end. To improve sensitivity, we finally introduce liposomes as signal enhancers. For demonstration, we used the detection of the BRAF V600E point mutation versus the wild-type allele, achieving an impressive detection limit of 220 aM of the mutant target in the presence of the same amount of the wild type. Finally, we combined the assay with a microfluidic fluidized bed DNA extraction technology, offering the potential for semi-automated detection of SNVs in patients' crude samples. Overall, our LCR/acoustic method outperforms other LCR-based approaches and surface ligation biosensing techniques in terms of detection efficiency and time. It effectively overcomes challenges related to DNA detection, making it applicable in diverse fields, including genetic disease and pathogen detection.
Collapse
Affiliation(s)
- Nikoletta Naoumi
- Department of Biology, University of Crete, Vassilika Vouton, Heraklion, 70013, Greece
- Institute of Molecular Biology and Biotechnology-FORTH, 100 N. Plastira Str., Heraklion 70013, Greece.
| | - Monica Araya-Farias
- Laboratoire Physico-Chimie Curie, CNRS UMR 168, Institut Curie, PSL Research University, Paris, France
- Institut Pierre-Gilles de Gennes for Microfluidic (IPGG), Paris, France
| | - Maria Megariti
- Institute of Molecular Biology and Biotechnology-FORTH, 100 N. Plastira Str., Heraklion 70013, Greece.
| | - Lucile Alexandre
- Laboratoire Physico-Chimie Curie, CNRS UMR 168, Institut Curie, PSL Research University, Paris, France
- Institut Pierre-Gilles de Gennes for Microfluidic (IPGG), Paris, France
| | - George Papadakis
- Institute of Molecular Biology and Biotechnology-FORTH, 100 N. Plastira Str., Heraklion 70013, Greece.
| | - Stephanie Descroix
- Laboratoire Physico-Chimie Curie, CNRS UMR 168, Institut Curie, PSL Research University, Paris, France
- Institut Pierre-Gilles de Gennes for Microfluidic (IPGG), Paris, France
| | - Electra Gizeli
- Department of Biology, University of Crete, Vassilika Vouton, Heraklion, 70013, Greece
- Institute of Molecular Biology and Biotechnology-FORTH, 100 N. Plastira Str., Heraklion 70013, Greece.
| |
Collapse
|
2
|
Sadowska M, Nattich-Rak M, Morga M, Adamczyk Z, Basinska T, Mickiewicz D, Gadzinowski M. Anisotropic Particle Deposition Kinetics from Quartz Crystal Microbalance Measurements: Beyond the Sphere Paradigm. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2024; 40:7907-7919. [PMID: 38578865 PMCID: PMC11025136 DOI: 10.1021/acs.langmuir.3c03676] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/28/2023] [Revised: 02/09/2024] [Accepted: 02/14/2024] [Indexed: 04/07/2024]
Abstract
Deposition kinetics of polymer particles characterized by a prolate spheroid shape on gold sensors modified by the adsorption of poly(allylamine) was investigated using a quartz crystal microbalance and atomic force microscopy. Reference measurements were also performed for polymer particles of a spherical shape and the same diameter as the spheroid shorter axis. Primarily, the frequency and dissipation shifts for various overtones were measured as a function of time. These kinetic data were transformed into the dependence of the complex impedance, scaled up by the inertia impedance, upon the particle size to the hydrodynamic boundary layer ratio. The results obtained for low particle coverage were interpolated, which enabled the derivation of Sauerbrey-like equations, yielding the real particle coverage using the experimental frequency or dissipation (bandwidth) shifts. Experiments carried out for a long deposition time confirmed that, for spheroids, the imaginary and real impedance components were equal to each other for all overtones and for a large range of particle coverage. This result was explained in terms of a hydrodynamic, lubrication-like contact of particles with the sensor, enabling their sliding motion. In contrast, the experimental data obtained for spheres, where the impedance ratio was a complicated function of overtones and particle coverage, showed that the contact was rather stiff, preventing their motion over the sensor. It was concluded that results obtained in this work can be exploited as useful reference systems for a quantitative interpretation of bioparticle, especially bacteria, deposition kinetics on macroion-modified surfaces.
Collapse
Affiliation(s)
- Marta Sadowska
- Jerzy
Haber Institute of Catalysis and Surface Chemistry, Polish Academy of Sciences, Niezapominajek 8, 30-239 Krakow, Poland
| | - Małgorzata Nattich-Rak
- Jerzy
Haber Institute of Catalysis and Surface Chemistry, Polish Academy of Sciences, Niezapominajek 8, 30-239 Krakow, Poland
| | - Maria Morga
- Jerzy
Haber Institute of Catalysis and Surface Chemistry, Polish Academy of Sciences, Niezapominajek 8, 30-239 Krakow, Poland
| | - Zbigniew Adamczyk
- Jerzy
Haber Institute of Catalysis and Surface Chemistry, Polish Academy of Sciences, Niezapominajek 8, 30-239 Krakow, Poland
| | - Teresa Basinska
- Centre
of Molecular and Macromolecular Studies, Polish Academy of Sciences, Henryka Sienkiewicza 112, 90-363 Lodz, Poland
| | - Damian Mickiewicz
- Centre
of Molecular and Macromolecular Studies, Polish Academy of Sciences, Henryka Sienkiewicza 112, 90-363 Lodz, Poland
| | - Mariusz Gadzinowski
- Centre
of Molecular and Macromolecular Studies, Polish Academy of Sciences, Henryka Sienkiewicza 112, 90-363 Lodz, Poland
| |
Collapse
|
3
|
Delgado-Buscalioni R. Coverage Effects in Quartz Crystal Microbalance Measurements with Suspended and Adsorbed Nanoparticles. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2024; 40:580-593. [PMID: 38127725 PMCID: PMC10786041 DOI: 10.1021/acs.langmuir.3c02792] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/19/2023] [Revised: 12/02/2023] [Accepted: 12/04/2023] [Indexed: 12/23/2023]
Abstract
Quartz crystal microbalance (QCM) biosensors often deal with nanoparticles suspended in the solvent at tens of nanometers above the resonator while being linked to some molecular receptor (DNA, antibody, etc.). This work presents a numerical analysis based on the immersed boundary method for the flow and QCM impedance created by an ensemble of spherical particles of radius R at varying surface coverage Θ and particle-surface gap distance Δ. The trends for the frequency Δf and dissipation ΔD shifts against Θ and Δ are shown to be determined by modifications in the structure of the perturbative flow created by the analytes. Simulations are in good agreement with a relatively large experimental database collected from the literature. Qualitative differences between the adsorbed (Δ ≈ 0) and suspended states (Δ > 0) are highlighted. In the case of adsorbed particles, deviations from the linear scaling Δf ∝ Θ are observed above Θ > 0.05 and largely depend on the specific analyte-substrate combination. Moreover, in general, ΔD(Θ) is not monotonous and usually presents a maximum around Θ ∼ 0.2. In the case of suspended analytes, the agreement with the numerical results is quantitative, indicating that the predicted scalings are universal and determined by hydrodynamics. Up to high coverage, the suspended particles present Δf ∼ Θ and ΔD ∼ Θβ, where β ≈ 0.85 is not largely dependent on R. The present findings should help forecast molecular configurations from QCM signals and have implications on QCM analyses, e.g., in the case of suspended ligands (Δf ∝ Θ), it is safe to use Δf to build Langmuir isotherms and estimate equilibrium constants. Open questions on the transition from the suspended-to-adsorbed state are discussed.
Collapse
Affiliation(s)
- Rafael Delgado-Buscalioni
- Departamento de Física de la
Materia Condensada, Universidad Autonoma
de Madrid, and Institute for Condensed Matter Physics, IFIMAC. Campus
de Cantoblanco, Madrid 28049, Spain
| |
Collapse
|
4
|
Reviakine I. Quartz crystal microbalance in soft and biological interfaces. Biointerphases 2024; 19:010801. [PMID: 38416603 DOI: 10.1116/6.0003312] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2023] [Accepted: 02/05/2024] [Indexed: 03/01/2024] Open
Abstract
Applications of quartz crystal microbalance with dissipation to studying soft and biological interfaces are reviewed. The focus is primarily on data analysis through viscoelastic modeling and a model-free approach focusing on the acoustic ratio. Current challenges and future research and development directions are discussed.
Collapse
|
5
|
Wei J, Shao Y, Qiao S, Li A, Hou S, Zhang WB. Biomacromolecular Characterizations Using State-of-the-Art Quartz Crystal Microbalance with Dissipation. Anal Chem 2023; 95:16435-16446. [PMID: 37921449 DOI: 10.1021/acs.analchem.3c02499] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2023]
Abstract
Biomolecular characterization is essential in fields such as drug discovery, glycomics, and cell biology. This feature article focuses on the experimental use of quartz crystal microbalance with dissipation (QCM-D) as a powerful analytical technique to probe biological events ranging from biomacromolecular interactions and conformational changes of biomacromolecules to surface immobilization of biomacromolecules and cell morphological changes.
Collapse
Affiliation(s)
- Jingjing Wei
- College of Chemical and Environmental Engineering, Anyang Institute of Technology, Anyang, Henan 455000, China
| | - Yu Shao
- Beijing National Laboratory for Molecular Sciences, Key Laboratory of Polymer Chemistry & Physics of Ministry of Education, Center for Soft Matter Science and Engineering, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, P. R. China
| | - Shixin Qiao
- College of Chemical and Environmental Engineering, Anyang Institute of Technology, Anyang, Henan 455000, China
| | - Aaron Li
- China Biolin Scientific AB, Shanghai 201203, P. R. China
| | - Shaogang Hou
- College of Chemical and Environmental Engineering, Anyang Institute of Technology, Anyang, Henan 455000, China
| | - Wen-Bin Zhang
- Beijing National Laboratory for Molecular Sciences, Key Laboratory of Polymer Chemistry & Physics of Ministry of Education, Center for Soft Matter Science and Engineering, College of Chemistry and Molecular Engineering, Peking University, Beijing 100871, P. R. China
| |
Collapse
|
6
|
Liu C, Mentzelopoulou A, Papagavriil F, Ramachandran P, Perraki A, Claus L, Barg S, Dörmann P, Jaillais Y, Johnen P, Russinova E, Gizeli E, Schaaf G, Moschou PN. SEC14-like condensate phase transitions at plasma membranes regulate root growth in Arabidopsis. PLoS Biol 2023; 21:e3002305. [PMID: 37721949 PMCID: PMC10538751 DOI: 10.1371/journal.pbio.3002305] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/05/2022] [Revised: 09/28/2023] [Accepted: 08/20/2023] [Indexed: 09/20/2023] Open
Abstract
Protein function can be modulated by phase transitions in their material properties, which can range from liquid- to solid-like; yet, the mechanisms that drive these transitions and whether they are important for physiology are still unknown. In the model plant Arabidopsis, we show that developmental robustness is reinforced by phase transitions of the plasma membrane-bound lipid-binding protein SEC14-like. Using imaging, genetics, and in vitro reconstitution experiments, we show that SEC14-like undergoes liquid-like phase separation in the root stem cells. Outside the stem cell niche, SEC14-like associates with the caspase-like protease separase and conserved microtubule motors at unique polar plasma membrane interfaces. In these interfaces, SEC14-like undergoes processing by separase, which promotes its liquid-to-solid transition. This transition is important for root development, as lines expressing an uncleavable SEC14-like variant or mutants of separase and associated microtubule motors show similar developmental phenotypes. Furthermore, the processed and solidified but not the liquid form of SEC14-like interacts with and regulates the polarity of the auxin efflux carrier PINFORMED2. This work demonstrates that robust development can involve liquid-to-solid transitions mediated by proteolysis at unique plasma membrane interfaces.
Collapse
Affiliation(s)
- Chen Liu
- Department of Biology, University of Crete, Heraklion, Greece
- Institute of Molecular Biology and Biotechnology, Foundation for Research and Technology-Hellas, Heraklion, Greece
- Department of Plant Biology, Uppsala BioCenter, Swedish University of Agricultural Sciences and Linnean Center for Plant Biology, Uppsala, Sweden
| | - Andriani Mentzelopoulou
- Department of Biology, University of Crete, Heraklion, Greece
- Institute of Molecular Biology and Biotechnology, Foundation for Research and Technology-Hellas, Heraklion, Greece
| | - Fotini Papagavriil
- Department of Biology, University of Crete, Heraklion, Greece
- Institute of Molecular Biology and Biotechnology, Foundation for Research and Technology-Hellas, Heraklion, Greece
| | - Prashanth Ramachandran
- Department of Organismal Biology, Physiological Botany, Linnean Centre for Plant Biology, Uppsala University, Uppsala, Sweden
| | - Artemis Perraki
- Institute of Molecular Biology and Biotechnology, Foundation for Research and Technology-Hellas, Heraklion, Greece
| | - Lucas Claus
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- Center for Plant Systems Biology, Ghent, Belgium
| | - Sebastian Barg
- Department of Medical Cell Biology, Uppsala University, Uppsala, Sweden
| | - Peter Dörmann
- Institute of Molecular Physiology and Biotechnology of Plants, University of Bonn, Bonn, Germany
| | - Yvon Jaillais
- Laboratoire Reproduction et Développement des Plantes, ENS de Lyon, Université Claude Bernard Lyon 1, CNRS, INRAE, Lyon, France
| | - Philipp Johnen
- Department of Plant Nutrition, Institute of Crop Science and Resource Conservation, University of Bonn, Bonn, Germany
| | - Eugenia Russinova
- Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium
- Center for Plant Systems Biology, Ghent, Belgium
| | - Electra Gizeli
- Department of Biology, University of Crete, Heraklion, Greece
- Institute of Molecular Biology and Biotechnology, Foundation for Research and Technology-Hellas, Heraklion, Greece
| | - Gabriel Schaaf
- Department of Plant Nutrition, Institute of Crop Science and Resource Conservation, University of Bonn, Bonn, Germany
| | - Panagiotis Nikolaou Moschou
- Department of Biology, University of Crete, Heraklion, Greece
- Institute of Molecular Biology and Biotechnology, Foundation for Research and Technology-Hellas, Heraklion, Greece
- Department of Plant Biology, Uppsala BioCenter, Swedish University of Agricultural Sciences and Linnean Center for Plant Biology, Uppsala, Sweden
| |
Collapse
|
7
|
Xu W, Pan S, Noble BB, Lin Z, Kaur Bhangu S, Kim C, Chen J, Han Y, Yarovsky I, Caruso F. Engineering Flexible Metal-Phenolic Networks with Guest Responsiveness via Intermolecular Interactions. Angew Chem Int Ed Engl 2023; 62:e202302448. [PMID: 36872291 PMCID: PMC10947570 DOI: 10.1002/anie.202302448] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/16/2023] [Revised: 02/27/2023] [Accepted: 03/03/2023] [Indexed: 03/07/2023]
Abstract
Flexible metal-organic materials are of growing interest owing to their ability to undergo reversible structural transformations under external stimuli. Here, we report flexible metal-phenolic networks (MPNs) featuring stimuli-responsive behavior to diverse solute guests. The competitive coordination of metal ions to phenolic ligands of multiple coordination sites and solute guests (e.g., glucose) primarily determines the responsive behavior of the MPNs, as revealed experimentally and computationally. Glucose molecules can be embedded into the dynamic MPNs upon mixing, leading to the reconfiguration of the metal-organic networks and thus changes in their physicochemical properties for targeting applications. This study expands the library of stimuli-responsive flexible metal-organic materials and the understanding of intermolecular interactions between metal-organic materials and solute guests, which is essential for the rational design of responsive materials for various applications.
Collapse
Affiliation(s)
- Wanjun Xu
- Department of Chemical EngineeringThe University of MelbourneParkvilleVictoria3010Australia
| | - Shuaijun Pan
- Department of Chemical EngineeringThe University of MelbourneParkvilleVictoria3010Australia
- State Key Laboratory of Chemo/Biosensing and Chemometricsand College of Chemistry and Chemical EngineeringHunan UniversityChangsha410082China
| | | | - Zhixing Lin
- Department of Chemical EngineeringThe University of MelbourneParkvilleVictoria3010Australia
| | - Sukhvir Kaur Bhangu
- Department of Chemical EngineeringThe University of MelbourneParkvilleVictoria3010Australia
| | - Chan‐Jin Kim
- Department of Chemical EngineeringThe University of MelbourneParkvilleVictoria3010Australia
| | - Jingqu Chen
- Department of Chemical EngineeringThe University of MelbourneParkvilleVictoria3010Australia
| | - Yiyuan Han
- Department of Chemical EngineeringThe University of MelbourneParkvilleVictoria3010Australia
| | - Irene Yarovsky
- School of EngineeringRMIT UniversityMelbourneVictoria3001Australia
| | - Frank Caruso
- Department of Chemical EngineeringThe University of MelbourneParkvilleVictoria3010Australia
| |
Collapse
|
8
|
Barrientos K, Rocha MI, Jaramillo M, Vásquez NA. High Frequency (100, 150 MHz) Quartz Crystal Microbalance (QCM) Piezoelectric Genosensor for the Determination of the Escherichia coli O157 rfbE Gene. ANAL LETT 2022. [DOI: 10.1080/00032719.2022.2068566] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/01/2022]
Affiliation(s)
- Kaory Barrientos
- GIBEC Research Group, Faculty of Life Sciences, Universidad EIA, Medellín, Colombia
| | | | - Marisol Jaramillo
- GIBEC Research Group, Faculty of Life Sciences, Universidad EIA, Medellín, Colombia
| | - Neil Aldrín Vásquez
- BioA Research Group, Faculty of Sciences, Universidad Nacional de Colombia, Medellín, Colombia
| |
Collapse
|
9
|
Naoumi N, Michaelidou K, Papadakis G, Simaiaki AE, Fernández R, Calero M, Arnau A, Tsortos A, Agelaki S, Gizeli E. Acoustic Array Biochip Combined with Allele-Specific PCR for Multiple Cancer Mutation Analysis in Tissue and Liquid Biopsy. ACS Sens 2022; 7:495-503. [PMID: 35073481 DOI: 10.1021/acssensors.1c02245] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Regular screening of point mutations is of importance to cancer management and treatment selection. Although techniques like next-generation sequencing and digital polymerase chain reaction (PCR) are available, these are lacking in speed, simplicity, and cost-effectiveness. The development of alternative methods that can detect the extremely low concentrations of the target mutation in a fast and cost-effective way presents an analytical and technological challenge. Here, an approach is presented where for the first time an allele-specific PCR (AS-PCR) is combined with a newly developed high fundamental frequency quartz crystal microbalance array as biosensor for the amplification and detection, respectively, of cancer point mutations. Increased sensitivity, compared to fluorescence detection of the AS-PCR amplicons, is achieved through energy dissipation measurement of acoustically "lossy" liposomes binding to surface-anchored dsDNA targets. The method, applied to the screening of BRAF V600E and KRAS G12D mutations in spiked-in samples, was shown to be able to detect 1 mutant copy of genomic DNA in an excess of 104 wild-type molecules, that is, with a mutant allele frequency (MAF) of 0.01%. Moreover, validation of tissue and plasma samples obtained from melanoma, colorectal, and lung cancer patients showed excellent agreement with Sanger sequencing and ddPCR; remarkably, the efficiency of this AS-PCR/acoustic methodology to detect mutations in real samples was demonstrated to be below 1% MAF. The combined high sensitivity and technology-readiness level of the methodology, together with the ability for multiple sample analysis (24 array biochip), cost-effectiveness, and compatibility with routine workflow, make this approach a promising tool for implementation in clinical oncology labs for tissue and liquid biopsy.
Collapse
Affiliation(s)
- Nikoletta Naoumi
- Department of Biology, University of Crete, Vassilika Vouton, Heraklion 70013, Greece
- Institute of Molecular Biology and Biotechnology-FORTH, 100 N. Plastira Str., Heraklion 70013, Greece
| | - Kleita Michaelidou
- Laboratory of Translational Oncology, School of Medicine, University of Crete, Vassilika Vouton, Heraklion 70013, Crete, Greece
| | - George Papadakis
- Institute of Molecular Biology and Biotechnology-FORTH, 100 N. Plastira Str., Heraklion 70013, Greece
| | - Agapi E. Simaiaki
- Department of Biology, University of Crete, Vassilika Vouton, Heraklion 70013, Greece
| | - Román Fernández
- Advanced Wave Sensors S. L., Algepser 24, Paterna 46988, Spain
- Centro de Investigación e Innovación en Bioingeniería, Universitat Politècnica de València, Valencia 46022, Spain
| | - Maria Calero
- Centro de Investigación e Innovación en Bioingeniería, Universitat Politècnica de València, Valencia 46022, Spain
| | - Antonio Arnau
- Advanced Wave Sensors S. L., Algepser 24, Paterna 46988, Spain
- Centro de Investigación e Innovación en Bioingeniería, Universitat Politècnica de València, Valencia 46022, Spain
| | - Achilleas Tsortos
- Institute of Molecular Biology and Biotechnology-FORTH, 100 N. Plastira Str., Heraklion 70013, Greece
| | - Sofia Agelaki
- Laboratory of Translational Oncology, School of Medicine, University of Crete, Vassilika Vouton, Heraklion 70013, Crete, Greece
- Department of Medical Oncology, University General Hospital of Heraklion, Vassilika Vouton, Crete 71500, Greece
| | - Electra Gizeli
- Department of Biology, University of Crete, Vassilika Vouton, Heraklion 70013, Greece
- Institute of Molecular Biology and Biotechnology-FORTH, 100 N. Plastira Str., Heraklion 70013, Greece
| |
Collapse
|
10
|
Abstract
Quartz Crystal Microbalance (QCM) is one of the many acoustic transducers. It is the most popular and widely used acoustic transducer for sensor applications. It has found wide applications in chemical and biosensing fields owing to its high sensitivity, robustness, small sized-design, and ease of integration with electronic measurement systems. However, it is necessary to coat QCM with a sensing film. Without coating materials, its selectivity and sensitivity are not obtained. At present, this is not an issue, mainly due to the advancement of oscillator circuits and dedicated measurement circuits. Since a new researcher may seek to understand QCM sensors, we provide an overview of QCM from its fundamental knowledge. Then, we explain some of the recent QCM applications both in gas-phase and liquid-phase. Next, the theory of QCM is introduced by using piezoelectric stress equations and the Mason equivalent circuit, which explains how the QCM behavior is obtained. Then, the conventional equations that govern QCM behaviors in terms of resonant frequency and resistance are described. We show the behavior of QCM with a viscous film based on the acoustic wave equation and Mason equivalent circuit. Then, we present various existing QCM electronic measurement methods. Furthermore, we describe the experiment on QCM with viscous loading and its interpretation based on the Mason equivalent circuit. Lastly, we review some theoretical models to describe QCM behavior with various models.
Collapse
|
11
|
Schofield MM, Delgado-Buscalioni R. Quantitative description of the response of finite size adsorbates on a quartz crystal microbalance in liquids using analytical hydrodynamics. SOFT MATTER 2021; 17:8160-8174. [PMID: 34525162 DOI: 10.1039/d1sm00492a] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
Despite being a fundamental tool in soft matter research and biosensing, quartz crystal microbalance (QCM) analyses of discrete macromolecules in liquids so far lack a firm theoretical basis. Quite often, acoustic signals of discrete particles are qualitatively interpreted using ad hoc frameworks based on effective electrical circuits, effective springs and trapped-solvent models with many fitting parameters. Nevertheless, due to its extreme sensitivity, the QCM technique pledges to become an accurate predictive tool. Using unsteady low Reynolds hydrodynamics we derive analytical expressions for the acoustic impedance of adsorbed discrete spheres. The present approach is successfully validated against 3D simulations and a plethora of experimental results covering more than a decade of research on proteins, viruses, liposomes, and massive nanoparticles, with sizes ranging from a few to hundreds of nanometers. The agreement without fitting parameters indicates that the acoustic response is dominated by the hydrodynamic propagation of the particle surface stress over the resonator. Understanding this leading contribution is a prerequisite for deciphering the secondary contributions arising from the relevant specific molecular and physico-chemical forces.
Collapse
Affiliation(s)
- Marc Meléndez Schofield
- Departmento de Fisica de la Materia Condensada, Universidad Autonoma de Madrid, and Institute for Condensed Matter Physics, IFIMAC, Campus de Cantoblanco, Madrid 28049, Spain.
| | - Rafael Delgado-Buscalioni
- Departmento de Fisica de la Materia Condensada, Universidad Autonoma de Madrid, and Institute for Condensed Matter Physics, IFIMAC, Campus de Cantoblanco, Madrid 28049, Spain.
| |
Collapse
|
12
|
Vafaei S, Allabush F, Tabaei SR, Male L, Dafforn TR, Tucker JHR, Mendes PM. Förster Resonance Energy Transfer Nanoplatform Based on Recognition-Induced Fusion/Fission of DNA Mixed Micelles for Nucleic Acid Sensing. ACS NANO 2021; 15:8517-8524. [PMID: 33961404 PMCID: PMC8158853 DOI: 10.1021/acsnano.1c00156] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/06/2021] [Accepted: 04/29/2021] [Indexed: 05/29/2023]
Abstract
The dynamic nature of micellar nanostructures is employed to form a self-assembled Förster resonance energy transfer (FRET) nanoplatform for enhanced sensing of DNA. The platform consists of lipid oligonucleotide FRET probes incorporated into micellar scaffolds, where single recognition events result in fusion and fission of DNA mixed micelles, triggering the fluorescence response of multiple rather than a single FRET pair. In comparison to conventional FRET substrates where a single donor interacts with a single acceptor, the micellar multiplex FRET system showed ∼20- and ∼3-fold enhancements in the limit of detection and FRET efficiency, respectively. This supramolecular signal amplification approach could potentially be used to improve FRET-based diagnostic assays of nucleic acid and non-DNA based targets.
Collapse
Affiliation(s)
- Setareh Vafaei
- School
of Chemical Engineering, University of Birmingham, Edgbaston, Birmingham B15 2TT, United Kingdom
| | - Francia Allabush
- School
of Chemical Engineering, University of Birmingham, Edgbaston, Birmingham B15 2TT, United Kingdom
- School
of Chemistry, University of Birmingham, Edgbaston, Birmingham B15 2TT, United Kingdom
| | - Seyed R. Tabaei
- School
of Chemical Engineering, University of Birmingham, Edgbaston, Birmingham B15 2TT, United Kingdom
| | - Louise Male
- School
of Chemistry, University of Birmingham, Edgbaston, Birmingham B15 2TT, United Kingdom
| | - Timothy R. Dafforn
- School
of Biosciences, University of Birmingham, Edgbaston, Birmingham B15 2TT, United Kingdom
| | - James H. R. Tucker
- School
of Chemistry, University of Birmingham, Edgbaston, Birmingham B15 2TT, United Kingdom
| | - Paula M. Mendes
- School
of Chemical Engineering, University of Birmingham, Edgbaston, Birmingham B15 2TT, United Kingdom
| |
Collapse
|
13
|
Chen Z, Zhou T, Hu J, Duan H. Quartz Crystal Microbalance with Dissipation Monitoring of Dynamic Viscoelastic Changes of Tobacco BY-2 Cells under Different Osmotic Conditions. BIOSENSORS 2021; 11:136. [PMID: 33925584 PMCID: PMC8145959 DOI: 10.3390/bios11050136] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/17/2021] [Revised: 04/21/2021] [Accepted: 04/22/2021] [Indexed: 01/03/2023]
Abstract
The plant cell mechanics, including turgor pressure and wall mechanical properties, not only determine the growth of plant cells, but also reflect the functional and structural changes of plant cells under biotic and abiotic stresses. However, there are currently no appropriate techniques allowing to monitor the complex mechanical properties of living plant cells non-invasively and continuously. In this work, quartz crystal microbalance with dissipation (QCM-D) monitoring technique with overtones (3-9) was used for the dynamic monitoring of adhesions of living tobacco BY-2 cells onto positively charged N,N-dimethyl-N-propenyl-2-propen-1-aminiumchloride homopolymer (PDADMAC)/SiO2 QCM crystals under different concentrations of mannitol (CM) and the subsequent effects of osmotic stresses. The cell viscoelastic index (CVIn) (CVIn = ΔD⋅n/ΔF) was used to characterize the viscoelastic properties of BY-2 cells under different osmotic conditions. Our results indicated that lower overtones of QCM could detect both the cell wall and cytoskeleton structures allowing the detection of plasmolysis phenomena; whereas higher overtones could only detect the cell wall's mechanical properties. The QCM results were further discussed with the morphological changes of the BY-2 cells by an optical microscopy. The dynamic changes of cell's generated forces or cellular structures of plant cells caused by external stimuli (or stresses) can be traced by non-destructive and dynamic monitoring of cells' viscoelasticity, which provides a new way for the characterization and study of plant cells. QCM-D could map viscoelastic properties of different cellular structures in living cells and could be used as a new tool to test the mechanical properties of plant cells.
Collapse
Affiliation(s)
- Zongxing Chen
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha 410128, China; (Z.C.); (J.H.); (H.D.)
- Hunan Provincial Engineering Technology Research Center for Cell Mechanics and Function Analysis, Changsha 410128, China
| | - Tiean Zhou
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha 410128, China; (Z.C.); (J.H.); (H.D.)
- Hunan Provincial Engineering Technology Research Center for Cell Mechanics and Function Analysis, Changsha 410128, China
| | - Jiajin Hu
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha 410128, China; (Z.C.); (J.H.); (H.D.)
- Hunan Provincial Engineering Technology Research Center for Cell Mechanics and Function Analysis, Changsha 410128, China
| | - Haifeng Duan
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha 410128, China; (Z.C.); (J.H.); (H.D.)
- Hunan Provincial Engineering Technology Research Center for Cell Mechanics and Function Analysis, Changsha 410128, China
| |
Collapse
|
14
|
Calero M, Fernández R, García P, García JV, García M, Gamero-Sandemetrio E, Reviakine I, Arnau A, Jiménez Y. A Multichannel Microfluidic Sensing Cartridge for Bioanalytical Applications of Monolithic Quartz Crystal Microbalance. BIOSENSORS-BASEL 2020; 10:bios10120189. [PMID: 33255411 PMCID: PMC7760489 DOI: 10.3390/bios10120189] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/20/2020] [Revised: 11/19/2020] [Accepted: 11/20/2020] [Indexed: 01/07/2023]
Abstract
Integrating acoustic wave sensors into lab-on-a-chip (LoC) devices is a well-known challenge. We address this challenge by designing a microfluidic device housing a monolithic array of 24 high-fundamental frequency quartz crystal microbalance with dissipation (HFF-QCMD) sensors. The device features six 6-µL channels of four sensors each for low-volume parallel measurements, a sealing mechanism that provides appropriate pressure control while assuring liquid confinement and maintaining good stability, and provides a mechanical, electrical, and thermal interface with the characterization electronics. We validate the device by measuring the response of the HFF-QCMD sensors to the air-to-liquid transition, for which the robust Kanazawa–Gordon–Mason theory exists, and then by studying the adsorption of model bioanalytes (neutravidin and biotinylated albumin). With these experiments, we show how the effects of the protein–surface interactions propagate within adsorbed protein multilayers, offering essentially new insight into the design of affinity-based bioanalytical sensors.
Collapse
Affiliation(s)
- María Calero
- Centro de Investigación e Innovación en Bioingeniería, Universitat Politècnica de València, 46022 Valencia, Spain; (M.C.); (R.F.); (A.A.)
| | - Román Fernández
- Centro de Investigación e Innovación en Bioingeniería, Universitat Politècnica de València, 46022 Valencia, Spain; (M.C.); (R.F.); (A.A.)
- Advanced Wave Sensors S.L. Paterna, 46988 Valencia, Spain; (P.G.); (J.V.G.); (M.G.); (E.G.-S.)
| | - Pablo García
- Advanced Wave Sensors S.L. Paterna, 46988 Valencia, Spain; (P.G.); (J.V.G.); (M.G.); (E.G.-S.)
| | - José Vicente García
- Advanced Wave Sensors S.L. Paterna, 46988 Valencia, Spain; (P.G.); (J.V.G.); (M.G.); (E.G.-S.)
| | - María García
- Advanced Wave Sensors S.L. Paterna, 46988 Valencia, Spain; (P.G.); (J.V.G.); (M.G.); (E.G.-S.)
| | - Esther Gamero-Sandemetrio
- Advanced Wave Sensors S.L. Paterna, 46988 Valencia, Spain; (P.G.); (J.V.G.); (M.G.); (E.G.-S.)
- Unidad de Educación, Florida Universitaria, 46470 Valencia, Spain
| | - Ilya Reviakine
- Advanced Wave Sensors S.L. Paterna, 46988 Valencia, Spain; (P.G.); (J.V.G.); (M.G.); (E.G.-S.)
- IMBB-FORTH and Department of Biology, University of Crete, Heraklion, 70013 Crete, Greece
- Department of Bioengineering, University of Washington, Seattle, WA 98150, USA
- Correspondence: (I.R.); (Y.J.)
| | - Antonio Arnau
- Centro de Investigación e Innovación en Bioingeniería, Universitat Politècnica de València, 46022 Valencia, Spain; (M.C.); (R.F.); (A.A.)
| | - Yolanda Jiménez
- Centro de Investigación e Innovación en Bioingeniería, Universitat Politècnica de València, 46022 Valencia, Spain; (M.C.); (R.F.); (A.A.)
- Correspondence: (I.R.); (Y.J.)
| |
Collapse
|
15
|
Feng Y, Zhou D, Gao L, He F. Electrochemical biosensor for rapid detection of bacteria based on facile synthesis of silver wire across electrodes. Biosens Bioelectron 2020; 168:112527. [PMID: 32905927 DOI: 10.1016/j.bios.2020.112527] [Citation(s) in RCA: 16] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/14/2020] [Revised: 08/13/2020] [Accepted: 08/19/2020] [Indexed: 12/24/2022]
Abstract
The early detection of bacteria is of critical importance in addressing serious public health problems. Here, an electrochemical biosensor for rapid detection of bacteria based on facile synthesis of silver wire across electrodes was constructed. High-variable region of 16S rRNA of bacteria was used as biomarker. Polymerase-free synthesis of silver wire was introduced into electrochemical signal transduction to improve the sensitivity of electrochemical detection. The construction biosensor of proposed method is as follows: Metastable hairpin probe H1 was modified on electrode surface, biomarker can open the stem-loop structure of H1 and activates HCR. The alternate opening of the stem-loop structure of H1 and H2-AuNPs finally results in the formation of long double-stranded DNA-RNA (HCR products) -AuNPs. The formed AuNPs modified HCR products was blown in one direction using N2 to across the electrode gap. Using this HCR products as template, the silver wire was formed between the electrodes by silver deposition, and resulted in sharp change in electrical parameters of electrode. As the proof-of-concept work, multichannel series piezoelectric quartz crystal (MSPQC) was utilized as detector. The detection of Staphylococcus aureus in the concentration range from 50 to 107 CFU/mL within 100 min was achieved. The detection limit was 50 CFU/mL. Escherichia coli, Salmonella enteritidis, Listeria innocua, Pseudomonas aeruginosa and Streptococcus pneumoniae did not interfere the detection results. This newly proposed electrochemical biosensor is simple, rapid and exhibit high signal-to-noise ratio, it has great potential for being applied in food safety monitoring and clinical diagnosis.
Collapse
Affiliation(s)
- Ye Feng
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha, 410082, China
| | - Dan Zhou
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha, 410082, China
| | - Lujia Gao
- Chemistry Department, Reed College, Portland, 97202, USA
| | - Fengjiao He
- State Key Laboratory of Chemo/Biosensing and Chemometrics, College of Chemistry and Chemical Engineering, Hunan University, Changsha, 410082, China.
| |
Collapse
|
16
|
Meléndez M, Vázquez-Quesada A, Delgado-Buscalioni R. Load Impedance of Immersed Layers on the Quartz Crystal Microbalance: A Comparison with Colloidal Suspensions of Spheres. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2020; 36:9225-9234. [PMID: 32660251 DOI: 10.1021/acs.langmuir.0c01429] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
The analytical theories derived here for the acoustic load impedance measured by a quartz crystal microbalance (QCM), due to the presence of layers of different types (rigid, elastic, and viscous) immersed in a fluid, display generic properties, such as "vanishing mass" and positive frequency shifts, which have been observed in QCM experiments with soft-matter systems. These phenomena seem to contradict the well-known Sauerbrey relation at the heart of many QCM measurements, but here, we show that they arise as a natural consequence of hydrodynamics. We compare our one-dimensional immersed plate theory with three-dimensional simulations of rigid and flexible submicron-sized suspended spheres and with experimental results for adsorbed micron-sized colloids, which yield a "negative acoustic mass". The parallel behavior unveiled indicates that the QCM response is highly sensitive to hydrodynamics, even for adsorbed colloids. Our conclusions call for a revision of existing theories based on adhesion forces and elastic stiffness at contact, which should, in most cases, include hydrodynamics.
Collapse
Affiliation(s)
- Marc Meléndez
- Department of Theoretical Condensed Matter Physics, Universidad Autónoma de Madrid, Campus de Cantoblanco, 28049 Madrid, Spain
| | | | - Rafael Delgado-Buscalioni
- Department of Theoretical Condensed Matter Physics, Universidad Autónoma de Madrid, Campus de Cantoblanco, 28049 Madrid, Spain
- Institute for Condensed Matter Physics, IFIMAC, Campus de Cantoblanco, 28049 Madrid, Spain
| |
Collapse
|