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Article ; Online: Reply to G. Francolini et al.

D'Amico, Anthony V / Xie, Wanling / Kantoff, Philip W

Journal of clinical oncology : official journal of the American Society of Clinical Oncology

2021 Volume 39, Issue 33, Page(s) 3764–3765

Language	English
Publishing date	2021-09-17
Publishing country	United States
Document type	Research Support, Non-U.S. Gov't ; Letter ; Comment
ZDB-ID	604914-x
ISSN	1527-7755 ; 0732-183X
ISSN (online)	1527-7755
ISSN	0732-183X
DOI	10.1200/JCO.21.01977
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Article ; Online: PAD4-Induced NETosis Via Cathepsin G-Mediated Platelet-Neutrophil Interaction in ChAdOx1 Vaccine-Induced Thrombosis-Brief Report.

Carnevale, Roberto / Leopizzi, Martina / Dominici, Marcello / d'Amati, Giulia / Bartimoccia, Simona / Nocella, Cristina / Cammisotto, Vittoria / D'Amico, Alessandra / Castellani, Valentina / Baratta, Francesco / Bertelli, Alessia / Arrivi, Alessio / Toni, Danilo / De Michele, Manuela / Pignatelli, Pasquale / Marcucci, Rossella / Violi, Francesco

Arteriosclerosis, thrombosis, and vascular biology

2023 Volume 43, Issue 10, Page(s) e396–e403

Abstract: ... thrombogenesis by PAD4-mediated NETs formation via cathepsin G-mediated platelet/neutrophil interaction. ... soluble TF, D-dimer, and prothrombin fragment 1+2 (: Conclusions: Patients with VITT display enhanced ...

Abstract	Background: Vaccine-induced immune thrombotic thrombocytopenia (VITT) is a rare syndrome characterized by platelet anti-PF4 (platelet-activating antiplatelet factor 4)-related thrombosis. Platelet-neutrophil interaction has been suggested to play a role, but the underlying mechanism has not been fully elucidated. Methods: The study included 10 patients with VITT after ChAdOx1 (chimpanzee adenovirus Oxford 1) nCoV-19 (Oxford-AstraZeneca) vaccine administration, 10 patients with ischemic stroke (IS), 10 patients with acute deep vein thrombosis, and 10 control subjects in whom blood levels of neutrophil extracellular traps (NETs), soluble TF (tissue factor), and thrombin generation were examined. Furthermore, we performed in vitro studies comparing the effect of serum from patients and controls on NETs formation. Finally, immunohistochemistry was performed in cerebral thrombi retrieved from a patients with VITT and 3 patients with IS. Results: Compared with patients with IS, patients with deep vein thrombosis, controls, and patients with VITT had significantly higher blood values of CitH3 (citrullinated histone H3), soluble TF, D-dimer, and prothrombin fragment 1+2 ( Conclusions: Patients with VITT display enhanced thrombogenesis by PAD4-mediated NETs formation via cathepsin G-mediated platelet/neutrophil interaction.
MeSH term(s)	Humans ; Neutrophils ; Cathepsin G ; Thrombin ; Thrombosis/prevention & control ; Vaccines ; Thrombocytopenia
Chemical Substances	Cathepsin G (EC 3.4.21.20) ; Thrombin (EC 3.4.21.5) ; Vaccines
Language	English
Publishing date	2023-08-10
Publishing country	United States
Document type	Journal Article
ZDB-ID	1221433-4
ISSN	1524-4636 ; 1079-5642
ISSN (online)	1524-4636
ISSN	1079-5642
DOI	10.1161/ATVBAHA.123.319522
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Article ; Online: Solvent Vibrations as a Proxy of the Telomere G-Quadruplex Rearrangements across Thermal Unfolding.

Libera, Valeria / Bianchi, Federico / Rossi, Barbara / D'Amico, Francesco / Masciovecchio, Claudio / Petrillo, Caterina / Sacchetti, Francesco / Paciaroni, Alessandro / Comez, Lucia

International journal of molecular sciences

2022 Volume 23, Issue 9

Abstract: G-quadruplexes (G4s) are noncanonical forms of DNA involved in many key genome functions. Here ...

Abstract	G-quadruplexes (G4s) are noncanonical forms of DNA involved in many key genome functions. Here, we exploited UV Resonance Raman scattering to simultaneously explore the vibrational behavior of a human telomeric G4 (Tel22) and its aqueous solvent as the biomolecule underwent thermal melting. We found that the OH stretching band, related to the local hydrogen-bonded network of a water molecule, was in strict relation with the vibrational features of the G4 structure as a function of temperature. In particular, the modifications to the tetrahedral ordering of the water network were strongly coupled to the DNA rearrangements, showing changes in temperature that mirrored the multi-step melting process of Tel22. The comparison between circular dichroism and Raman results supported this view. The present findings provide novel insights into the impact of the molecular environment on G4 conformation. Improving current knowledge on the solvent structural properties will also contribute to a better understanding of the role played by water arrangement in the complexation of G4s with ligands.
MeSH term(s)	Circular Dichroism ; G-Quadruplexes ; Gene Rearrangement ; Humans ; Solvents ; Telomere/genetics ; Vibration ; Water
Chemical Substances	Solvents ; Water (059QF0KO0R)
Language	English
Publishing date	2022-05-04
Publishing country	Switzerland
Document type	Journal Article
ZDB-ID	2019364-6
ISSN	1422-0067 ; 1422-0067 ; 1661-6596
ISSN (online)	1422-0067
ISSN	1422-0067 ; 1661-6596
DOI	10.3390/ijms23095123
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Article ; Online: Cytosine epigenetic modifications and conformational changes in G-quadruplex DNA: An ultraviolet resonance Raman spectroscopy study.

D'Amico, Francesco / Graziano, Raffaele / D'Aria, Federica / Russomanno, Pasquale / Di Fonzo, Silvia / Amato, Jussara / Pagano, Bruno

Spectrochimica acta. Part A, Molecular and biomolecular spectroscopy

2023 Volume 300, Page(s) 122901

Abstract: ... cancer. Alternative DNA secondary structures, such as G-quadruplexes, can also influence ... G-quadruplex structures and DNA epigenetic modifications often go side by side, and recent evidence ... reveals that cytosine modifications within loops of G-quadruplexes can play a role in modulating ...

Abstract	Epigenetic modifications of DNA are known to play important regulatory roles in biological systems, especially in regulation of gene expression, and are associated with many types of human diseases, including cancer. Alternative DNA secondary structures, such as G-quadruplexes, can also influence gene transcription, thus suggesting that such structures may represent a distinctive layer of epigenetic information. G-quadruplex structures and DNA epigenetic modifications often go side by side, and recent evidence reveals that cytosine modifications within loops of G-quadruplexes can play a role in modulating their stability and structural polymorphism. Therefore, the development and validation of experimental techniques that can easily and reliably analyse G-quadruplex structures are highly desirable. In the present study, we propose to exploit the advantages of UV resonance Raman (UVRR) spectroscopy to investigate cytosine epigenetic modifications along with conformational changes in G-quadruplex-forming DNA. Our findings show that clear and specific spectral changes occur when there is a change in a G-quadruplex structure. Moreover, UVRR spectral analysis can indirectly distinguish the spectral variations occurring because of modifications in the guanine glycosidic conformations, as well as detect changes in the loops induced by H-bond formation or hydration of nitrogenous bases. The results further underscore the utility of UVRR spectroscopy for G-quadruplex structure elucidation under biologically relevant solution conditions.
MeSH term(s)	Humans ; G-Quadruplexes ; Spectrum Analysis, Raman ; Cytosine ; DNA/genetics ; DNA/chemistry ; Epigenesis, Genetic
Chemical Substances	Cytosine (8J337D1HZY) ; DNA (9007-49-2)
Language	English
Publishing date	2023-05-22
Publishing country	England
Document type	Journal Article
ZDB-ID	210413-1
ISSN	1873-3557 ; 0370-8322 ; 0584-8539 ; 1386-1425
ISSN (online)	1873-3557
ISSN	0370-8322 ; 0584-8539 ; 1386-1425
DOI	10.1016/j.saa.2023.122901
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Article: Chemical-Physical Characterization of PET-G-Based Material for Orthodontic Use: Preliminary Evaluation of micro-Raman Analysis.

Nicita, Fabiana / D'Amico, Cesare / Filardi, Vincenzo / Spadaro, Donatella / Aquilio, Emidio / Mancini, Maura / Fiorillo, Luca

European journal of dentistry

2023 Volume 18, Issue 1, Page(s) 228–235

Abstract: ... of a thermoplastic material based on polyethylene terephthalate glycol (PET-G) used for the manufacture of Lineo ... Materials and methods: Twenty-two thermoformed PET-G samples were immersed to various substances of daily ... at 10 and 15 days. Furthermore, having ascertained the heterogeneous surface morphology of the PET-G ...

Abstract	Objectives: Orthodontic treatment with clear thermoplastic aligners is in great demand by patients especially for aesthetics. Any alterations in the chemical composition of the thermoplastic material for aligners, subjected to the oral environment and exposure to various commonly used substances, could influence the desired orthodontic movement decreasing the predictability of the treatment. The objective of this study was to determine the chemical-physical characterization by micro-Raman spectroscopy of a thermoplastic material based on polyethylene terephthalate glycol (PET-G) used for the manufacture of Lineo aligners (Micerium Lab, Avegno, Italy) subjected to different staining beverages and cleaning agents. Materials and methods: Twenty-two thermoformed PET-G samples were immersed to various substances of daily use for 10 and 15 days (coffee, tea, Coca-Cola, red wine, colloidal silver disinfectant, nicotine, artificial saliva, cigarette smoke, and different combinations of saliva with some of the previous solutions). Subsequently, the chemical-physical characterization was investigated by micro-Raman spectroscopy. Results: The analysis of the spectra acquired for all the specimens showed no difference in the exposure to the different solvents at 10 and 15 days. Furthermore, having ascertained the heterogeneous surface morphology of the PET-G material due to thermoforming, various deposits were present on all the samples whose consistency and concentration depended on the substance used. Conclusion: The spectroscopic investigations have provided a precise and detailed analysis of the qualitative and structural data of the PET-G material under examination. No significant structural modifications of the thermoplastic polymer were found after immersion in different solutions in the exposure times adopted.
Language	English
Publishing date	2023-05-29
Publishing country	Germany
Document type	Journal Article
ZDB-ID	2491711-4
ISSN	1305-7464 ; 1305-7456
ISSN (online)	1305-7464
ISSN	1305-7456
DOI	10.1055/s-0043-1764424
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Article ; Online: Ligand-based drug repurposing strategy identified SARS-CoV-2 RNA G-quadruplex binders.

Moraca, Federica / Marzano, Simona / D'Amico, Francesco / Lupia, Antonio / Di Fonzo, Silvia / Vertecchi, Eleonora / Salvati, Erica / Di Porzio, Anna / Catalanotti, Bruno / Randazzo, Antonio / Pagano, Bruno / Amato, Jussara

Chemical communications (Cambridge, England)

2022 Volume 58, Issue 85, Page(s) 11913–11916

Abstract: The single-stranded RNA genome of SARS-CoV-2 contains some G-quadruplex-forming G-rich elements ...

Abstract	The single-stranded RNA genome of SARS-CoV-2 contains some G-quadruplex-forming G-rich elements which are putative drug targets. Here, we performed a ligand-based pharmacophore virtual screening of FDA approved drugs to find candidates targeting such RNA structures. Further
MeSH term(s)	Humans ; Antiviral Agents/pharmacology ; Antiviral Agents/chemistry ; COVID-19/drug therapy ; Drug Repositioning ; Ligands ; Molecular Docking Simulation ; RNA, Viral/genetics ; SARS-CoV-2 ; G-Quadruplexes
Chemical Substances	Antiviral Agents ; Ligands ; RNA, Viral
Language	English
Publishing date	2022-10-25
Publishing country	England
Document type	Journal Article
ZDB-ID	1472881-3
ISSN	1364-548X ; 1359-7345 ; 0009-241X
ISSN (online)	1364-548X
ISSN	1359-7345 ; 0009-241X
DOI	10.1039/d2cc03135c
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Article ; Online: Solvent Vibrations as a Proxy of the Telomere G-Quadruplex Rearrangements across Thermal Unfolding

Valeria Libera / Federico Bianchi / Barbara Rossi / Francesco D’Amico / Claudio Masciovecchio / Caterina Petrillo / Francesco Sacchetti / Alessandro Paciaroni / Lucia Comez

International Journal of Molecular Sciences, Vol 23, Iss 5123, p

2022 Volume 5123

Abstract: G-quadruplexes (G4s) are noncanonical forms of DNA involved in many key genome functions. Here ...

Abstract	G-quadruplexes (G4s) are noncanonical forms of DNA involved in many key genome functions. Here, we exploited UV Resonance Raman scattering to simultaneously explore the vibrational behavior of a human telomeric G4 (Tel22) and its aqueous solvent as the biomolecule underwent thermal melting. We found that the OH stretching band, related to the local hydrogen-bonded network of a water molecule, was in strict relation with the vibrational features of the G4 structure as a function of temperature. In particular, the modifications to the tetrahedral ordering of the water network were strongly coupled to the DNA rearrangements, showing changes in temperature that mirrored the multi-step melting process of Tel22. The comparison between circular dichroism and Raman results supported this view. The present findings provide novel insights into the impact of the molecular environment on G4 conformation. Improving current knowledge on the solvent structural properties will also contribute to a better understanding of the role played by water arrangement in the complexation of G4s with ligands.
Keywords	G-quadruplex ; hydrogen bonding ; resonant Raman spectroscopy ; circular dichroism ; hydration water ; Biology (General) ; QH301-705.5 ; Chemistry ; QD1-999
Subject code	541
Language	English
Publishing date	2022-05-01T00:00:00Z
Publisher	MDPI AG
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article: Chemical–Physical Characterization of PET-G-Based Material for Orthodontic Use: Preliminary Evaluation of micro-Raman Analysis

Nicita, Fabiana / D'Amico, Cesare / Filardi, Vincenzo / Spadaro, Donatella / Aquilio, Emidio / Mancini, Maura / Fiorillo, Luca

European Journal of Dentistry

2023 Volume 18, Issue 01, Page(s) 228–235

Abstract: ... of a thermoplastic material based on polyethylene terephthalate glycol (PET-G) used for the manufacture of Lineo ... Materials and Methods: Twenty-two thermoformed PET-G samples were immersed to various substances of daily ... at 10 and 15 days. Furthermore, having ascertained the heterogeneous surface morphology of the PET-G ...

Abstract	Objectives: Orthodontic treatment with clear thermoplastic aligners is in great demand by patients especially for aesthetics. Any alterations in the chemical composition of the thermoplastic material for aligners, subjected to the oral environment and exposure to various commonly used substances, could influence the desired orthodontic movement decreasing the predictability of the treatment. The objective of this study was to determine the chemical–physical characterization by micro-Raman spectroscopy of a thermoplastic material based on polyethylene terephthalate glycol (PET-G) used for the manufacture of Lineo aligners (Micerium Lab, Avegno, Italy) subjected to different staining beverages and cleaning agents. Materials and Methods: Twenty-two thermoformed PET-G samples were immersed to various substances of daily use for 10 and 15 days (coffee, tea, Coca-Cola, red wine, colloidal silver disinfectant, nicotine, artificial saliva, cigarette smoke, and different combinations of saliva with some of the previous solutions). Subsequently, the chemical–physical characterization was investigated by micro-Raman spectroscopy. Results: The analysis of the spectra acquired for all the specimens showed no difference in the exposure to the different solvents at 10 and 15 days. Furthermore, having ascertained the heterogeneous surface morphology of the PET-G material due to thermoforming, various deposits were present on all the samples whose consistency and concentration depended on the substance used. Conclusion: The spectroscopic investigations have provided a precise and detailed analysis of the qualitative and structural data of the PET-G material under examination. No significant structural modifications of the thermoplastic polymer were found after immersion in different solutions in the exposure times adopted.
Keywords	clear aligners ; PET-G ; thermoplastic materials ; staining substances ; chemical–physical characterization ; micro-Raman spectroscopy.
Language	English
Publishing date	2023-05-29
Publisher	Thieme Medical and Scientific Publishers Pvt. Ltd.
Publishing place	Stuttgart ; New York
Document type	Article
ZDB-ID	2491711-4
ISSN	1305-7464 ; 1305-7456 ; 1305-7464
ISSN (online)	1305-7464
ISSN	1305-7456 ; 1305-7464
DOI	10.1055/s-0043-1764424
Database	Thieme publisher's database

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Article ; Online: Assessment on the Achievable Throughput of Multi-Band ITU-T G.652.D Fiber Transmission Systems

Ferrari, A. / Napoli, A. / Fischer, J.K. / Costa, N. / D'Amico, A. / Pedro, J. / Forysiak, W. / Pincemin, E. / Lord, A. / Stavdas, A. / Gimenez, J.P.F.-P. / Roelkens, G. / Calabretta, N. / Abrate, S. / Sommerkorn-Krombholz, B. / Curri, V.

2020

Abstract: ... fiber transmission bands. As transmission fiber, we focus exclusively on the ITU-T G.652.D, since it is ...

Abstract	S.4279-4291 Fiber-optic multi-band transmission (MBT) aims at exploiting the low-loss spectral windows of single-mode fibers (SMFs) for data transport, expanding by ~11× the available bandwidth of C-band line systems and by ~5× C+L-band line systems'. MBT offers a high potential for cost-efficient throughput upgrades of optical networks, even in absence of available dark-fibers, as it utilizes more efficiently the existing infrastructures. This represents the main advantage compared to approaches such as multi-mode/-core fibers or spatial division multiplexing. Furthermore, the industrial trend is clear: the first commercial C+L-band systems are entering the market and research has moved toward the neighboring S-band. This article discusses the potential and challenges of MBT covering the ITU-T optical bands O RT L. MBT performance is assessed by addressing the generalized SNR (GSNR) including both the linear and non-linear fiber propagation effects. Non-linear fiber propagation is taken into account by computing the generated non-linear interference by using the generalized Gaussian-noise (GGN) model, which takes into account the interaction of non-linear fiber propagation with stimulated Raman scattering (SRS), and in general considers wavelength-dependent fiber parameters. For linear effects, we hypothesize typical components' figures and discussion on components' limitations, such as transceivers,' amplifiers' and filters' are not part of this work. We focus on assessing the transmission throughput that is realistic to achieve by using feasible multi-band components without specific optimizations and implementation discussion. So, results are meant to address the potential throughput scaling by turning-on excess fiber transmission bands. As transmission fiber, we focus exclusively on the ITU-T G.652.D, since it is the most widely deployed fiber type worldwide and the mostly suitable to multi-band transmission, thanks to its ultra-wide low-loss single-mode high-dispersion spectral region. Similar analyses ...
Keywords	621 ; 535
Subject code	621
Language	English
Publishing country	de
Document type	Article ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Ligand binding to G-quadruplex DNA: new insights from ultraviolet resonance Raman spectroscopy.

Di Fonzo, Silvia / Amato, Jussara / D'Aria, Federica / Caterino, Marco / D'Amico, Francesco / Gessini, Alessandro / Brady, John W / Cesàro, Attilio / Pagano, Bruno / Giancola, Concetta

Physical chemistry chemical physics : PCCP

2020 Volume 22, Issue 15, Page(s) 8128–8140

Abstract: G-Quadruplexes (G4s) are noncanonical nucleic acid structures involved in the regulation ...

Abstract	G-Quadruplexes (G4s) are noncanonical nucleic acid structures involved in the regulation of several biological processes of many organisms. The rational design of G4-targeting molecules developed as potential anticancer and antiviral therapeutics is a complex problem intrinsically due to the structural polymorphism of these peculiar DNA structures. The aim of the present work is to show how Ultraviolet Resonance Raman (UVRR) spectroscopy can complement other techniques in providing valuable information about ligand/G4 interactions in solution. Here, the binding of BRACO-19 and Pyridostatin - two of the most potent ligands - to selected biologically relevant G4s was investigated by polarized UVRR scattering at 266 nm. The results give new insights into the binding mode of these ligands to G4s having different sequences and topologies by performing an accurate analysis of peaks assigned to specific groups and their changes upon binding. Indeed, the UVRR data not only show that BRACO-19 and Pyridostatin interact with different G4 sites, but also shed light on the ligand and G4 chemical groups really involved in the interaction. In addition, UVRR results complemented by circular dichroism data clearly indicate that the binding mode of a ligand can also depend on the conformation(s) of the target G4. Overall, these findings demonstrate the utility of using UVRR spectroscopy in the investigation of G4s and G4-ligand interactions in solution.
MeSH term(s)	Circular Dichroism ; DNA/chemistry ; G-Quadruplexes ; Ligands ; Protein Binding ; Spectrum Analysis, Raman ; Ultraviolet Rays
Chemical Substances	Ligands ; DNA (9007-49-2)
Language	English
Publishing date	2020-04-04
Publishing country	England
Document type	Journal Article
ZDB-ID	1476244-4
ISSN	1463-9084 ; 1463-9076
ISSN (online)	1463-9084
ISSN	1463-9076
DOI	10.1039/d0cp01022g
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