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Marini M, Legittimo F, Torre B, Allione M, Limongi T, Scaltrito L, Pirri CF, di Fabrizio E. DNA Studies: Latest Spectroscopic and Structural Approaches. MICROMACHINES 2021; 12:mi12091094. [PMID: 34577737 PMCID: PMC8465297 DOI: 10.3390/mi12091094] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/12/2021] [Revised: 08/28/2021] [Accepted: 09/04/2021] [Indexed: 11/16/2022]
Abstract
This review looks at the different approaches, techniques, and materials devoted to DNA studies. In the past few decades, DNA nanotechnology, micro-fabrication, imaging, and spectroscopies have been tailored and combined for a broad range of medical-oriented applications. The continuous advancements in miniaturization of the devices, as well as the continuous need to study biological material structures and interactions, down to single molecules, have increase the interdisciplinarity of emerging technologies. In the following paragraphs, we will focus on recent sensing approaches, with a particular effort attributed to cutting-edge techniques for structural and mechanical studies of nucleic acids.
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Affiliation(s)
- Monica Marini
- Dipartimento di Scienza Applicata e Tecnologia (DISAT), Politecnico di Torino, Corso Duca degli Abruzzi 24, 10129 Torino, Italy; (F.L.); (B.T.); (T.L.); (L.S.); (C.F.P.); (E.d.F.)
- Correspondence: ; Tel.: +39-011-090-43-22
| | - Francesca Legittimo
- Dipartimento di Scienza Applicata e Tecnologia (DISAT), Politecnico di Torino, Corso Duca degli Abruzzi 24, 10129 Torino, Italy; (F.L.); (B.T.); (T.L.); (L.S.); (C.F.P.); (E.d.F.)
| | - Bruno Torre
- Dipartimento di Scienza Applicata e Tecnologia (DISAT), Politecnico di Torino, Corso Duca degli Abruzzi 24, 10129 Torino, Italy; (F.L.); (B.T.); (T.L.); (L.S.); (C.F.P.); (E.d.F.)
| | - Marco Allione
- Istituto Italiano di Tecnologia (IIT), Via Livorno 60, 10144 Torino, Italy;
| | - Tania Limongi
- Dipartimento di Scienza Applicata e Tecnologia (DISAT), Politecnico di Torino, Corso Duca degli Abruzzi 24, 10129 Torino, Italy; (F.L.); (B.T.); (T.L.); (L.S.); (C.F.P.); (E.d.F.)
| | - Luciano Scaltrito
- Dipartimento di Scienza Applicata e Tecnologia (DISAT), Politecnico di Torino, Corso Duca degli Abruzzi 24, 10129 Torino, Italy; (F.L.); (B.T.); (T.L.); (L.S.); (C.F.P.); (E.d.F.)
| | - Candido Fabrizio Pirri
- Dipartimento di Scienza Applicata e Tecnologia (DISAT), Politecnico di Torino, Corso Duca degli Abruzzi 24, 10129 Torino, Italy; (F.L.); (B.T.); (T.L.); (L.S.); (C.F.P.); (E.d.F.)
- Istituto Italiano di Tecnologia (IIT), Via Livorno 60, 10144 Torino, Italy;
| | - Enzo di Fabrizio
- Dipartimento di Scienza Applicata e Tecnologia (DISAT), Politecnico di Torino, Corso Duca degli Abruzzi 24, 10129 Torino, Italy; (F.L.); (B.T.); (T.L.); (L.S.); (C.F.P.); (E.d.F.)
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Sreekanth KV, Alapan Y, ElKabbash M, Ilker E, Hinczewski M, Gurkan UA, De Luca A, Strangi G. Extreme sensitivity biosensing platform based on hyperbolic metamaterials. NATURE MATERIALS 2016; 15:621-7. [PMID: 27019384 PMCID: PMC4959915 DOI: 10.1038/nmat4609] [Citation(s) in RCA: 255] [Impact Index Per Article: 31.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/15/2015] [Accepted: 02/25/2016] [Indexed: 05/20/2023]
Abstract
Optical sensor technology offers significant opportunities in the field of medical research and clinical diagnostics, particularly for the detection of small numbers of molecules in highly diluted solutions. Several methods have been developed for this purpose, including label-free plasmonic biosensors based on metamaterials. However, the detection of lower-molecular-weight (<500 Da) biomolecules in highly diluted solutions is still a challenging issue owing to their lower polarizability. In this context, we have developed a miniaturized plasmonic biosensor platform based on a hyperbolic metamaterial that can support highly confined bulk plasmon guided modes over a broad wavelength range from visible to near infrared. By exciting these modes using a grating-coupling technique, we achieved different extreme sensitivity modes with a maximum of 30,000 nm per refractive index unit (RIU) and a record figure of merit (FOM) of 590. We report the ability of the metamaterial platform to detect ultralow-molecular-weight (244 Da) biomolecules at picomolar concentrations using a standard affinity model streptavidin-biotin.
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Affiliation(s)
- Kandammathe Valiyaveedu Sreekanth
- Department of Physics, Case Western Reserve University, 10600 Euclid Avenue, Cleveland, Ohio 44106, USA
- Correspondence and requests for materials should be addressed to K.V.S. or G.S. ;
| | - Yunus Alapan
- Case Biomanufacturing and Microfabrication Laboratory, Mechanical and Aerospace Engineering Department, Case Western Reserve University, Cleveland, Ohio 44106, USA
| | - Mohamed ElKabbash
- Department of Physics, Case Western Reserve University, 10600 Euclid Avenue, Cleveland, Ohio 44106, USA
| | - Efe Ilker
- Department of Physics, Case Western Reserve University, 10600 Euclid Avenue, Cleveland, Ohio 44106, USA
| | - Michael Hinczewski
- Department of Physics, Case Western Reserve University, 10600 Euclid Avenue, Cleveland, Ohio 44106, USA
| | - Umut A. Gurkan
- Case Biomanufacturing and Microfabrication Laboratory, Mechanical and Aerospace Engineering Department, Case Western Reserve University, Cleveland, Ohio 44106, USA
- Biomedical Engineering Department, Case Western Reserve University, Cleveland, Ohio 44106, USA
- Department of Orthopedics, Case Western Reserve University, Cleveland, Ohio 44106, USA
- Advanced Platform Technology Center, Louis Stokes Cleveland Veterans Affairs Medical Center, Cleveland, Ohio 44106, USA
| | - Antonio De Luca
- CNR-NANOTEC Istituto di Nanotecnologia and Department of Physics, University of Calabria, 87036-Rende, Italy
| | - Giuseppe Strangi
- Department of Physics, Case Western Reserve University, 10600 Euclid Avenue, Cleveland, Ohio 44106, USA
- CNR-NANOTEC Istituto di Nanotecnologia and Department of Physics, University of Calabria, 87036-Rende, Italy
- Correspondence and requests for materials should be addressed to K.V.S. or G.S. ;
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Glinka EM. Eukaryotic expression vectors containing genes encoding plant proteins for killing of cancer cells. Cancer Epidemiol 2013; 37:1014-9. [DOI: 10.1016/j.canep.2013.09.013] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2013] [Revised: 09/10/2013] [Accepted: 09/20/2013] [Indexed: 11/16/2022]
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Moretti M, Canale C, Canale C, Francardi M, Dante S, De Angelis F, Di Fabrizio E. AFM characterization of biomolecules in physiological environment by an advanced nanofabricated probe. Microsc Res Tech 2012; 75:1723-31. [DOI: 10.1002/jemt.22122] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/19/2012] [Accepted: 08/09/2012] [Indexed: 11/12/2022]
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Zheltukhina GA, Lobanova TN, Nebol'sin VE, Galliamov MO, Dranitsyna SM, Kostanian IA. [Synthesis and structure-function study of artificial nucleases on the basis of hemin conjugates with peptide fragments of cell differentiation factor HLDF]. RUSSIAN JOURNAL OF BIOORGANIC CHEMISTRY 2006; 32:198-210. [PMID: 16637292 DOI: 10.1134/s1068162006020117] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
A series of octa-hexapeptide fragments of HLDF and their conjugates with hemin were obtained by solid phase peptide synthesis. A relationship between the structure and the nuclease activity of the compounds was established. The effect of various factors (medium pH, the presence of metal ions, complexons, reducers, and buffer composition) on DNA destruction with hemin peptides was studied. Preliminary information confirming an oxidative mechanism of this process was obtained. The cleavage of plasmid DNA under the action of hemin peptides was studied by the methods of electron microscopy, gel electrophoresis, and atomic force microscopy.
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Interaction of Artificial Nuclease and DNA: Atomic Force Microscopy Data. DOKLADY PHYSICAL CHEMISTRY 2005. [DOI: 10.1007/s10634-005-0072-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
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