Determination of minimal sequence for zearalenone aptamer by computational docking and application on an indirect competitive electrochemical aptasensor

An immobilization-free electrochemical sensor coupled with a graphene oxide (GO)-based aptasensor was developed for glycated human serum albumin (GHSA) detection. The concentration of GHSA was monitored by measuring the electrochemical response of free GO and aptamer-bound GO in the presence of glycated albumin; their currents served as the analytical signals. The electrochemical aptasensor exhibited good performance with a base-10 logarithmic scale. The calibration curve was achieved in the range of 0.01–50 µg/mL. The limit of detection (LOD) was 8.70 ng/mL. The developed method was considered a one-drop measurement process because a fabrication step and the probe-immobilization process were not required. This simple sensor offers a cost-effective, rapid, and sensitive detection method, and could be an alternative approach for determination of GHSA levels.

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Flow injection amperometric sandwich-type electrochemical aptasensor for the determination of adenocarcinoma gastric cancer cell using aptamer-Au@Ag nanoparticles as labeled aptamer

Electrochimica Acta ◽

10.1016/j.electacta.2017.06.115 ◽

2017 ◽

Vol 246 ◽

pp. 1147-1154 ◽

Cited By ~ 20

Author(s):

Mahmoud Amouzadeh Tabrizi ◽

Mojtaba Shamsipur ◽

Reza Saber ◽

Saeed Sarkar ◽

Narjes Sherkatkhameneh

Keyword(s):

Gastric Cancer ◽

Cancer Cell ◽

Flow Injection ◽

Ag Nanoparticles ◽

Gastric Cancer Cell ◽

Electrochemical Aptasensor ◽

Sandwich Type

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Bioinformatics Tools and Benchmarks for Computational Docking and 3D Structure Prediction of RNA-Protein Complexes

Genes ◽

10.3390/genes9090432 ◽

2018 ◽

Vol 9 (9) ◽

pp. 432 ◽

Cited By ~ 15

Author(s):

Chandran Nithin ◽

Pritha Ghosh ◽

Janusz Bujnicki

Keyword(s):

Rna Splicing ◽

Structure Prediction ◽

Protein Complexes ◽

3D Structure ◽

Structural Models ◽

Computational Prediction ◽

Computational Docking ◽

3D Structure Prediction ◽

Rna Protein Complexes

RNA-protein (RNP) interactions play essential roles in many biological processes, such as regulation of co-transcriptional and post-transcriptional gene expression, RNA splicing, transport, storage and stabilization, as well as protein synthesis. An increasing number of RNP structures would aid in a better understanding of these processes. However, due to the technical difficulties associated with experimental determination of macromolecular structures by high-resolution methods, studies on RNP recognition and complex formation present significant challenges. As an alternative, computational prediction of RNP interactions can be carried out. Structural models obtained by theoretical predictive methods are, in general, less reliable compared to models based on experimental measurements but they can be sufficiently accurate to be used as a basis for to formulating functional hypotheses. In this article, we present an overview of computational methods for 3D structure prediction of RNP complexes. We discuss currently available methods for macromolecular docking and for scoring 3D structural models of RNP complexes in particular. Additionally, we also review benchmarks that have been developed to assess the accuracy of these methods.

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Encapsulation of hemin in Fe-based metal-organic frameworks and its application for the direct determination of aflatoxin M1

World Mycotoxin Journal ◽

10.3920/wmj2020.2578 ◽

2021 ◽

pp. 1-10

Author(s):

F. Jahangiri-Dehaghani ◽

H.R. Zare ◽

Z. Shekari

Keyword(s):

Electrochemical Impedance ◽

Metal Organic Frameworks ◽

Direct Determination ◽

Differential Pulse ◽

Aflatoxin M1 ◽

Label Free ◽

Electrochemical Aptasensor ◽

Selective Determination ◽

Metal Organic

A label-free electrochemical aptasensor was constructed for the sensitive and selective determination of AFM1. For preparation of the aptasensor, the AFM1 aptamer was immobilised on the surface of a glassy carbon electrode modified with hemin encapsulated in Fe-based metal-organic frameworks (hemin@Fe-MIL-101). The morphology and the structure of Fe-MIL-101 and hemin@Fe-MIL-101 were evaluated by scanning electron microscopy, Fourier-transform infrared spectroscopy, X-ray powder diffraction and Brunauer-Emmett-Teller-N2 sorption methods. Electrochemical impedance spectroscopy and cyclic voltammetry were performed to monitor the fabrication process of the electrochemical aptasensor. The electrochemical reduction current of hemin encapsulated in Fe-MIL-101 serves as a signal for the quantitative determination of AFM1. Differential pulse voltammetry was done to determine the AFM1 concentration in the linear range of 1.0×10-1-100.0 ng/ml. The detection limit of AFM1 was estimated to be 4.6×10-2 ng/ml. Finally, the fabricated aptasensor was applied to determine AFM1 in raw and boiled milk samples.

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Design of an electrochemical aptasensor based on porous nickel‑cobalt phosphide nanodiscs for the impedimetric determination of ractopamine

Journal of Electroanalytical Chemistry ◽

10.1016/j.jelechem.2020.114557 ◽

2020 ◽

Vol 877 ◽

pp. 114557

Author(s):

Somayeh Farokhi ◽

Mahmoud Roushani ◽

Hadi Hosseini

Keyword(s):

Electrochemical Aptasensor ◽

Porous Nickel ◽

Cobalt Phosphide ◽

Nickel Cobalt

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An electrochemical aptasensor based on graphene doped chitosan nanocomposites for determination of Ochratoxin A

Microchemical Journal ◽

10.1016/j.microc.2018.08.064 ◽

2019 ◽

Vol 144 ◽

pp. 102-109 ◽

Cited By ~ 24

Author(s):

Navpreet Kaur ◽

Anu Bharti ◽

Supriya Batra ◽

Shilpa Rana ◽

Shweta Rana ◽

...

Keyword(s):

Ochratoxin A ◽

Electrochemical Aptasensor

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Label-Free and Sensitive Determination of Cadmium Ions Using a Ti-Modified Co3O4-Based Electrochemical Aptasensor

Biosensors ◽

10.3390/bios10120195 ◽

2020 ◽

Vol 10 (12) ◽

pp. 195

Author(s):

Yang Liu ◽

Dongwei Zhang ◽

Jina Ding ◽

Kashif Hayat ◽

Xijia Yang ◽

...

Keyword(s):

Environmental Protection Agency ◽

Concentration Limit ◽

Co3o4 Nanoparticles ◽

Label Free ◽

Current Signal ◽

Electrochemical Aptasensor ◽

Screen Printed Carbon Electrode ◽

Sensitive Determination

The current work demonstrates an electrochemical aptasensor for sensitive determination of Cd2+ based on the Ti-modified Co3O4 nanoparticles. In this unlabeled system, Ti-modified Co3O4 nanoparticles act as current signal amplifiers modified on the screen-printed carbon electrode (SPCE) surface, while the derivative aptamer of Cd2+ works as a target recognizer. In addition, the sensing is based on the increase in electrochemical probe thionine current signal due to the binding of aptamer to Cd2+ via specific recognition. In the current study, key parameters, including aptamer concentration, pH, and incubation time were optimized, respectively, to ensure sensing performance. Cyclic voltammetry was used not only to characterize each preparation and optimization step, but also to profile the bindings of aptamer to Cd2+. Under optimal conditions, Cd2+ can be determined in a linear range of 0.20 to 15 ng/mL, with a detection limit of 0.49 ng/mL, significantly below the maximum concentration limit set by the U.S. Environmental Protection Agency. Based on comparative analysis and the results of recovery test with real samples, this simple, label-free but highly selective method has considerable potential and thus can be used as an in-situ environmental monitoring platform for Cd2+ testing.

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