Scientific literature paper publication

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Acoustic Array Biochip Combined with Allele-Specific PCR for Multiple Cancer Mutation Analysis in Tissue and Liquid Biopsy

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Authors: Nikoletta Naoumi, Kleita Michaelidou, George Papadakis, Agapi E. Simaiaki, Román Fernández, Maria Calero, Antonio Arnau, Achilleas Tsortos, Sofia Agelaki, and Electra Gizeli

Journal: ACS Sens. (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.

 

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Interface Properties of 2D Graphene–Polydopamine Composite Electrodes in Protic Ionic Liquid-Based Electrolytes Explored by Advanced Electrogravimetry

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Authors: Adnane Bouzina, Hubert Perrot, Catherine Debiemme-Chouvy, and Ozlem Sel

Journal: ACS Appl. Energy Mater. (2022)

 

Abstract

A fundamental understanding of the processes occurring at the electrode/electrolyte interfaces is of paramount importance to enhance the performance of energy storage devices. Addressing this issue requires suitable characterization tools, due to the complex nature of such interfaces. By means of electrochemical quartz crystal microbalance (EQCM) and its advanced mode, the so-called ac-electrogravimetry, herein, we report on the interfacial properties of two-dimensional (2D) graphene–polydopamine (ERGO-PDA) composite electrodes in diverse electrolyte compositions including a protic ionic liquid (PIL), pyrrolidinium hydrogen sulfate [Pyr+][HSO4–]. We have performed a comparative study in a [Pyr+][HSO4–]–water binary mixture in the absence and presence of Na2SO4 and compared it with the interfacial behavior of ERGO-PDA in a 0.5 M Na2SO4 (pH = 2) pristine electrolyte. Our EQCM and ac-electrogravimetric analyses reveal that the [Pyr+] ions, due to their chaotropic nature, inhibit the approach of kosmotropic Na+ ions and water molecules to the interface, suppressing the contribution of electrodragged water molecules, substantially observed in the case of pristine aqueous electrolyte. Despite the dissimilarity of the charge compensation process occurring in the presence of [Pyr+][HSO4–], the ERGO-PDA electrode is able to maintain similar cycling stability (99% for 10,000 cycles at 1000 mV·s–1) and specific capacitance values (325 F·cm–3) compared with the pristine aqueous electrolyte, with the advantage of superior energy density (16.3 versus 8.7 mWh·cm–3) due to a noticeably enlarged potential window in [Pyr+][HSO4–]–water binary mixtures.

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V. cholerae MakA is a cholesterol-binding pore-forming toxin that induces non-canonical autophagy

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Authors: Xiaotong Jia, Anastasia Knyazeva, Yu Zhang, Sergio Castro-Gonzalez, Shuhei Nakamura, Lars-Anders Carlson, Tamotsu Yoshimori, Dale P. Corkery, Yao-Wen Wu

Journal: J Cell Biol (2022)

 

Abstract

Pore-forming toxins (PFTs) are important virulence factors produced by many pathogenic bacteria. Here, we show that the Vibrio cholerae toxin MakA is a novel cholesterol-binding PFT that induces non-canonical autophagy in a pH-dependent manner. MakA specifically binds to cholesterol on the membrane at pH < 7. Cholesterol-binding leads to oligomerization of MakA on the membrane and pore formation at pH 5.5. Unlike other cholesterol-dependent cytolysins (CDCs) which bind cholesterol through a conserved cholesterol-binding motif (Thr-Leu pair), MakA contains an Ile-Ile pair that is essential for MakA-cholesterol interaction. Following internalization, endosomal acidification triggers MakA pore-assembly followed by ESCRT-mediated membrane repair and V-ATPase-dependent unconventional LC3 lipidation on the damaged endolysosomal membranes. These findings characterize a new cholesterol-binding toxin that forms pores in a pH-dependent manner and reveals the molecular mechanism of host autophagy manipulation.

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Aerosol Jet Printing of the Ultramicroporous Calcium Squarate Metal–Organic Framework

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Authors: Dmitry E. Kravchenko, Aleksander Matavž, Víctor Rubio-Giménez, Hanne Vanduffel, Margot Verstreken, Rob Ameloot

Journal: Chem. Mater. (2022)

 

Abstract

Efficient methods to deposit thin layers of metal–organic frameworks (MOFs) are needed to integrate these microporous materials into microelectronics, sensing devices, and membranes. Herein, we report for the first time the direct aerosol jet printing of a MOF material. The ultramicroporous MOF [Ca(C4O4) (H2O)] (UTSA-280) was deposited from an aqueous precursor solution. In addition to blanket coatings, aerosol jet printing provides direct access to patterned coatings with a resolution of 100 μm via a digital, maskless approach. Moreover, by enabling spatial control over the layer thickness via the number of passes of the nozzle, this direct-write approach presents a more accessible alternative to advanced patterning techniques such as grayscale lithography.

 

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High Fundamental Frequency (HFF) Monolithic Quartz Crystal Microbalance with Dissipation Array for the Simultaneous Detection of Pesticides and Antibiotics in Complex Food

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Authors: María Calero, Román Fernández, María García, Marisol Juan-Borrás, Isabel Escriche, Antonio Arnau, Ángel Montoya and Yolanda Jiménez.

Journal: Biosensors (2022)

 

Abstract

As in the case of the food industry in general, there is a global concern about safety and quality in complex food matrices, such as honey, which is driving the demand for fast, sensitive and affordable analytical techniques across the honey-packaging industry. Although excellent techniques such as liquid chromatography-tandem mass spectrometry (LC-MS/MS) are available, these are located in centralized laboratories and are still lacking in speed, simplicity and cost-effectiveness. Here, a new approach is presented where a competitive immunoassay is combined with a novel High Fundamental Frequency Quartz Crystal Microbalance with Dissipation (HFF-QCMD) array biosensor for the simultaneous detection of antibiotics and pesticides in honey. Concretely, thiabendazole and sulfathiazole residues were monitored in spiked honey samples. Results revealed that HFF-QCMD arrays provide a complementary and reliable tool to LC-MS/MS for the analysis of contaminants in these kinds of complex matrices, while avoiding elaborate sample pre-treatment. The good sensitivity achieved (I50 values in the 70–720 µg/kg range) and the short analysis time (60 min for 24 individual assays), together with the ability for multiple analyte detection (24 sensor array) and its cost-effectiveness, pave the way for the implementation of a fast on-line, in situ routine control of potentially hazardous chemical residues in honey.

QCMD array cartridge microfluidics

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Membrane insertion mechanism of the caveola coat protein Cavin1

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Authors: Liu, K.-C., Pace, H., Larsson, E., Hossain, S., Kabedev, A., Shukla, A., Jerschabek, V., Mohan, J., Bergström, C. A. S., Bally, M., Schwieger, C., Hubert, M., & Lundmark, R.

Journal: PNAS (2022)

 

Abstract

Caveolae are small plasma membrane invaginations, important for control of membrane tension, signaling cascades, and lipid sorting. The caveola coat protein Cavin1 is essential for shaping such high curvature membrane structures. Yet, a mechanistic understanding of how Cavin1 assembles at the membrane interface is lacking. Here, we used model membranes combined with biophysical dissection and computational modeling to show that Cavin1 inserts into membranes. We establish that initial phosphatidylinositol (4, 5) bisphosphate [PI(4,5)P2]–dependent membrane adsorption of the trimeric helical region 1 (HR1) of Cavin1 mediates the subsequent partial separation and membrane insertion of the individual helices. Insertion kinetics of HR1 is further enhanced by the presence of flanking negatively charged disordered regions, which was found important for the coassembly of Cavin1 with Caveolin1 in living cells. We propose that this intricate mechanism potentiates membrane curvature generation and facilitates dynamic rounds of assembly and disassembly of Cavin1 at the membrane.

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Scientific publication

The effects of local graphitization on the charging mechanisms of microporous carbon supercapacitor electrodes

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Authors: Huan Yin, Hui Shao, Barbara Daffos, Pierre-Louis Taberna, Patrice Simon.
Journal: Electrochemistry Communications (2022)

 

Abstract

The electrochemical quartz crystal microbalance (EQCM) technique has been used to study the charge mechanisms in two TiC-derived nanoporous carbons (CDC), synthesized at 800℃ and 1100℃. These two carbons have a similar pore size and porous volume, but the CDC prepared at 1100°C shows a more graphitic microstructure. The EQCM study revealed that the charge storage mechanism in the CDC-800 is mainly controlled by a counter-ion adsorption process, while an expanded ion-exchange process was observed for the CDC-1100. Combined with the potential of zero charge (PZC), these measurements suggest a strong interaction between the anions and graphitic carbon. For the first time, we provide experimental evidence that the local carbon structure affects the charge storage mechanism of the electrical double-layer capacitance in high surface area porous carbons.

graphitization graphical abstract

 

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Scientific publication

Electropolymerization of thiazole derivatives bearing thiophene and selenophene and the potential application in capacitors

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Authors: Seongjun Hong, Joon Ho Yoon, Seunghyun Jeong, Yang-Rae Kim and In Tae Kim.
Journal: Journal of Electroanalytical Chemistry (2022)

 

Abstract

Three thiazole derivatives bearing thiophene and selenophene are synthesized and used as monomers for electropolymerization. The electropolymerization process is studied using cyclic voltammetry (CV) and electrochemical quartz crystal microbalance (EQCM) techniques. Deep understanding is obtained regarding the pseudocapacitor performance of deposited polymer layers by subjecting the macroelectrode and ultramicroelectrode to CV and galvanostatic charging–discharging experiments in three kinds of electrolytes. Notably, the highest specific capacitance is observed in the derivative bearing selenopheno[3,4-d]thiazole and selenophene in a solution of tetrabutylammonium tetrafluoroborate. Furthermore, the electropolymerization rate is influenced by the kind of chalcogenophene and the CV scan rate. A spectroelectrochemistry experiment reveals the optical and electrochromic behavior of the deposited polymer layers. From these results, the pseudocapacitor performance of the deposited polymer layers is related to anion intercalation/deintercalation processes by faradaic reactions of oligomer chains. The EQCM experiments also reveal these processes during electropolymerization and anion intercalation/deintercalation into the deposited polymer layers. Finally, the approximate molecular weight of the solvated anion and the number of solvent molecules surrounding a solvated anion are analyzed using the EQCM data.

 

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Scientific publication

High Frequency (100, 150 MHz) Quartz Crystal Microbalance (QCM) Piezoelectric Genosensor for the Determination of the Escherichia coli O157 rfbE Gene

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Authors: Kaory Barrientos, María Isabel Rocha, Marisol Jaramillo and Neil Aldrín Vásquez.
Journal: Analytical Letters (2022)

 

Abstract

Escherichia coli O157 (E. coli O157) is responsible for outbreaks of high morbidity in food-borne infections. The development of sensitive, reliable, and selective detection systems is of great importance in food safety. In this work, two high fundamental frequency (HFF) piezoelectric genosensors (100 and 150 MHz) were designed and validated for the rfbE gene detection, which encodes O-antigen in E. coli O157. HFF resonators offer improved sensitivity, small sample volumes, and the possibility of integration into lab-on-a-chip devices, but their sensing capabilities have not yet been fully explored. This HFF-QCM genosensor uses the method of physisorption based on the union between the streptavidin and the biotin to immobilize the genetic bioreceptor on the surface and detect its hybridization with the target sequence. Parameters such as molecular coating, specificity, and variability were tested to enhance its performance. Although both genosensors evaluated are able to determine the target, the 100 MHz device has a higher response to the analyte than the 150 MHz platform. This is the first step in the development of an HFF-QCM genosensor that may be used as a trial test of E. coli O157 in large batches of samples.

 

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Interfacial charge storage mechanisms of composite electrodes based on poly(ortho-phenylenediamine)/carbon nanotubes via advanced electrogravimetry

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Authors: El Mahdi Halim, Rezan Demir-Cakan, Hubert Perrot, Mama El Rhazi, Ozlem Sel

Journal: The Journal of Chemical Physics (2022)

 

Abstract

To reach a deeper understanding of the charge storage mechanisms of electrode materials is one of the challenges toward improving their energy storage performance. Herein, we investigate the interfacial ion exchange of a composite electrode made of carbon nanotube/poly( ortho-phenylenediamine) (CNT/P oPD) in a 1M NaCl aqueous electrolyte via advanced electrogravimetric analyses based on electrochemical quartz crystal microbalance (EQCM). Classical EQCM at different scan rates of the potential revealed the complex electrogravimetric behavior likely due to multi-species participation at different temporal scales. Thereafter, in order to better understand the behavior of each species (ions, counter ions, and co-ions) in the charge compensation mechanism, the electrogravimetric impedance spectroscopy analysis (also called ac-electrogravimetry) was pursued. Ac-electrogravimetry revealed the role of each species where Na + cations and Cl − anions as well as protons participate in the charge compensation mechanism of the CNT/P oPD composite with different kinetics and proportions. The water molecules with opposite flux direction with the cations are also detected, suggesting their exclusion during cationic species transfer. Having analyzed ac-electrogravimetry responses in depth, the synergistic interaction between the CNT and P oPD is highlighted, revealing the improved accessibility of species to new sites in the composite.

 

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