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Applications of Raman Spectroscopy in Molecular Biology
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Applications of Raman Spectroscopy in Molecular Biology

A special issue of International Journal of Molecular Sciences (ISSN 1422-0067). This special issue belongs to the section "Molecular Biophysics".

Deadline for manuscript submissions: closed (31 January 2024) | Viewed by 1795

Special Issue Editor

Dr. Maria Teresa Caccamo

E-Mail Website
Guest Editor
Department of Mathematical and Computer Sciences, Physical and Earth Sciences, University of Messina, Viale Ferdinando Stagno D’Alcontres 31, 98166 Messina, Italy
Interests: complementary spectroscopic techniques; infrared spectroscopy; Raman spectroscopic; neutron scattering; polymers; peo; peg; disaccharides; trehalose; maltose; sucrose
Special Issues, Collections and Topics in MDPI journals

Special Issue Information

Dear Colleagues,

It is a great pleasure for me to share this Special Issue with you.

Raman spectroscopy is an essential technique for physicists chemists, biologists, and other scientists. Molecular biology studies how molecules interact with each other in living organisms to perform the functions of life, that is, it takes into consideration the molecular basis of biological activity. In this regard, Raman spectroscopy is a non-destructive technique that provides detailed information on chemical structure, phases, and polymorphy, crystallinity, and molecular interactions.

The aim of this Special Issue titled “Applications of Raman Spectroscopy in Molecular Biology” represents an opportunity to present a collection of articles on the most significant results of research in Molecular Biology.

Dr. Maria Teresa Caccamo
Guest Editor

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All submissions that pass pre-check are peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. International Journal of Molecular Sciences is an international peer-reviewed open access semimonthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. There is an Article Processing Charge (APC) for publication in this open access journal. For details about the APC please see here. Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

  • molecular biology
  • biophysics
  • raman spectroscopy

Published Papers (2 papers)

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Research

18 pages, 7008 KiB  
Article
Studying the Effects and Competitive Mechanisms of YOYO-1 on the Binding Characteristics of DOX and DNA Molecules Based on Surface-Enhanced Raman Spectroscopy and Molecular Docking Techniques
by Yanjie Li, Zhiwei Li, Penglun Yun, Dan Sun, Yong Niu, Baoli Yao and Kaige Wang
Int. J. Mol. Sci. 2024, 25(7), 3804; https://0-doi-org.brum.beds.ac.uk/10.3390/ijms25073804 - 28 Mar 2024
Viewed by 446
Abstract
Revealing the interaction mechanisms between anticancer drugs and target DNA molecules at the single-molecule level is a hot research topic in the interdisciplinary fields of biophysical chemistry and pharmaceutical engineering. When fluorescence imaging technology is employed to carry out this kind of research, [...] Read more.
Revealing the interaction mechanisms between anticancer drugs and target DNA molecules at the single-molecule level is a hot research topic in the interdisciplinary fields of biophysical chemistry and pharmaceutical engineering. When fluorescence imaging technology is employed to carry out this kind of research, a knotty problem due to fluorescent dye molecules and drug molecules acting on a DNA molecule simultaneously is encountered. In this paper, based on self-made novel solid active substrates NpAA/(ZnO-ZnCl2)/AuNPs, we use a surface-enhanced Raman spectroscopy method, inverted fluorescence microscope technology, and a molecular docking method to investigate the action of the fluorescent dye YOYO-1 and the drug DOX on calf thymus DNA (ctDNA) molecules and the influencing effects and competitive relationships of YOYO-1 on the binding properties of the ctDNA-DOX complex. The interaction sites and modes of action between the YOYO-1 and the ctDNA-DOX complex are systematically examined, and the DOX with the ctDNA-YOYO-1 are compared, and the impact of YOYO-1 on the stability of the ctDNA-DOX complex and the competitive mechanism between DOX and YOYO-1 acting with DNA molecules are elucidated. This study has helpful experimental guidance and a theoretical foundation to expound the mechanism of interaction between drugs and biomolecules at the single-molecule level. Full article
(This article belongs to the Special Issue Applications of Raman Spectroscopy in Molecular Biology)
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16 pages, 2881 KiB  
Article
Studying the Interaction between Bendamustine and DNA Molecule with SERS Based on AuNPs/ZnCl2/NpAA Solid-State Substrate
by Lina Yao, Yanjie Li, Zhenzhong Zuo, Ziyi Gong, Jie Zhu, Xiaoqiang Feng, Dan Sun and Kaige Wang
Int. J. Mol. Sci. 2023, 24(17), 13517; https://0-doi-org.brum.beds.ac.uk/10.3390/ijms241713517 - 31 Aug 2023
Cited by 1 | Viewed by 936
Abstract
Bendamustine (BENDA) is a bifunctional alkylating agent with alkylating and purinergic antitumor activity, which exerts its anticancer effects by direct binding to DNA, but the detailed mechanism of BENDA–DNA interaction is poorly understood. In this paper, the interaction properties of the anticancer drug [...] Read more.
Bendamustine (BENDA) is a bifunctional alkylating agent with alkylating and purinergic antitumor activity, which exerts its anticancer effects by direct binding to DNA, but the detailed mechanism of BENDA–DNA interaction is poorly understood. In this paper, the interaction properties of the anticancer drug BENDA with calf thymus DNA (ctDNA) were systematically investigated based on surface-enhanced Raman spectroscopy (SERS) technique mainly using a novel homemade AuNPs/ZnCl2/NpAA (NpAA: nano porous anodic alumina) solid-state substrate and combined with ultraviolet–visible spectroscopy and molecular docking simulation to reveal the mechanism of their interactions. We experimentally compared and studied the SERS spectra of ctDNA, BENDA, and BENDA–ctDNA complexes with different molar concentrations (1:1, 2:1, 3:1), and summarized their important characteristic peak positions, their peak position differences, and hyperchromic/hypochromic effects. The results showed that the binding modes include covalent binding and hydrogen bonding, and the binding site of BENDA to DNA molecules is mainly the N7 atom of G base. The results of this study help to understand and elucidate the mechanism of BENDA at the single-molecule level, and provide guidance for the further development of effective new drugs with low toxicity and side effects. Full article
(This article belongs to the Special Issue Applications of Raman Spectroscopy in Molecular Biology)
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