1
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S A, Ramanathan K, Selvaraj M, Cautero M, Richter R, Pal N, Chiarinelli J, Bolognesi P, Avaldi L, Vinitha MV, Jureddy CS, Kadhane UR. In search of universalities in the dissociative photoionization of PANHs via isomerizations. J Chem Phys 2023; 159:104308. [PMID: 37702355 DOI: 10.1063/5.0158189] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2023] [Accepted: 08/21/2023] [Indexed: 09/14/2023] Open
Abstract
In search of the cause behind the similarities often seen in the fragmentation of PANHs, vacuum ultraviolet (VUV) photodissociation of two pairs of isomers quinoline-isoquinoline and 2-naphthylamine-3-methyl-quinoline are studied using the velocity map imaging technique. The internal energy dependence of all primary fragmentation channels is obtained for all four target molecules. The decay dynamics of the four molecules is studied by comparing their various experimental signatures. The dominant channel for the first pair of isomers is found to be hydrogen cyanide (HCN) neutral loss, while the second pair of isomers lose HCNH neutral as its dominant channel. Despite this difference in their primary decay products and the differences in the structures of the four targets, various similarities in their experimental signatures are found, which could be explained by isomerization mechanisms to common structures. The fundamental role of these isomerization in controlling different dissociative channels is explored via a detailed analysis of the experimental photoelectron-photoion coincidences and the investigation of the theoretical potential energy surface. These results add to the notion of a universal PANH fragmentation mechanism and suggests the seven member isomerization as a key candidate for this universal mechanism. The balance between isomerization, dissociation, and other key mechanistic processes in the reaction pathways, such as hydrogen migrations, is also highlighted for the four molecules.
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Affiliation(s)
- Arun S
- Indian Institute of Space Science and Technology, Thiruvananthapuram 695547, Kerala, India
| | - Karthick Ramanathan
- Indian Institute of Space Science and Technology, Thiruvananthapuram 695547, Kerala, India
| | | | - Marco Cautero
- Elettra-Sincrotrone Trieste, Strada Statale 14 - km 163, 5 in AREA Science Park, Basovizza, TS 34149, Italy
| | - Robert Richter
- Elettra-Sincrotrone Trieste, Strada Statale 14 - km 163, 5 in AREA Science Park, Basovizza, TS 34149, Italy
| | - Nitish Pal
- Elettra-Sincrotrone Trieste, Strada Statale 14 - km 163, 5 in AREA Science Park, Basovizza, TS 34149, Italy
| | - Jacopo Chiarinelli
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1, Monterotondo, Roma 00015, Italy
| | - Paola Bolognesi
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1, Monterotondo, Roma 00015, Italy
| | - Lorenzo Avaldi
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1, Monterotondo, Roma 00015, Italy
| | - M V Vinitha
- Indian Institute of Space Science and Technology, Thiruvananthapuram 695547, Kerala, India
| | - Chinmai Sai Jureddy
- Indian Institute of Space Science and Technology, Thiruvananthapuram 695547, Kerala, India
| | - Umesh R Kadhane
- Indian Institute of Space Science and Technology, Thiruvananthapuram 695547, Kerala, India
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2
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Bull JN, Bolognesi P, Anstöter CS, Ashworth EK, Navarro Navarrete JE, Zhu B, Richter R, Pal N, Chiarinelli J, Avaldi L, Zettergren H, Stockett MH. Autoionization from the plasmon resonance in isolated 1-cyanonaphthalene. J Chem Phys 2023; 158:241101. [PMID: 37347125 DOI: 10.1063/5.0153058] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/04/2023] [Accepted: 06/05/2023] [Indexed: 06/23/2023] Open
Abstract
Polycyclic aromatic hydrocarbons have widely been conjectured to be ubiquitous in space, as supported by the recent discovery of two isomers of cyanonaphthalene, indene, and 2-cyanoindene in the Taurus molecular cloud-1 using radioastronomy. Here, the photoionization dynamics of 1-cyanonaphthalene (1-CNN) are investigated using synchrotron radiation over the hν = 9.0-19.5 eV range, revealing that prompt autoionization from the plasmon resonance dominates the photophysics for hν = 11.5-16.0 eV. Minimal photo-induced dissociation, whether originating from an excited state impulsive bond rupture or through internal conversion followed by a statistical bond cleavage process, occurs over the microsecond timescale (as limited by the experimental setup). The direct photoionization cross section and photoelectron angular distributions are simulated using an ezDyson model combining Dyson orbitals with Coulomb wave photoejection. When considering these data in conjunction with recent radiative cooling measurements on 1-CNN+, which showed that cations formed with up to 5 eV of internal energy efficiently stabilize through recurrent fluorescence, we conclude that the organic backbone of 1-CNN is resilient to photodestruction by VUV and soft XUV radiation. These dynamics may prove to be a common feature for the survival of small polycyclic aromatic hydrocarbons in space, provided that the cations have a suitable electronic structure to support recurrent fluorescence.
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Affiliation(s)
- James N Bull
- School of Chemistry, Norwich Research Park, University of East Anglia, Norwich NR4 7TJ, United Kingdom
- Centre for Photonics and Quantum Science, University of East Anglia, Norwich NR4 7TJ, United Kingdom
| | - Paola Bolognesi
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1, Rome, Italy
| | - Cate S Anstöter
- Department of Chemistry, University of York, Heslington, York YO10 5DD, United Kingdom
| | - Eleanor K Ashworth
- School of Chemistry, Norwich Research Park, University of East Anglia, Norwich NR4 7TJ, United Kingdom
| | | | - Boxing Zhu
- Department of Physics, Stockholm University, SE-10691 Stockholm, Sweden
| | | | - Nitish Pal
- Elettra Sincrotrone Trieste, Trieste, Italy
| | - Jacopo Chiarinelli
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1, Rome, Italy
| | - Lorenzo Avaldi
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1, Rome, Italy
| | | | - Mark H Stockett
- Department of Physics, Stockholm University, SE-10691 Stockholm, Sweden
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3
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Barreiro-Lage D, Chiarinelli J, Bolognesi P, Richter R, Zettergren H, Stockett MH, Díaz-Tendero S, Avaldi L. Photofragmentation specificity of photoionized cyclic amino acids (diketopiperazines) as precursors of peptide building blocks. Phys Chem Chem Phys 2023. [PMID: 37166113 DOI: 10.1039/d3cp00608e] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/12/2023]
Abstract
The photoionisation and photofragmentation of the two cyclic dipetides cyclo(alanyl-glycine) cGA and cyclo(glycyl-glycine) cGG, have been studied combining experiments and simulations. State selected fragments from the ionized molecules are detected using photo-electron photo-ion coincidence (PEPICO) measurements and specific fragmentation paths are identified and characterized via the use of ion-neutral coincidence maps. The simulations, performed using Quantum Chemistry methods, allow us to infer the fragmentation mechanisms of the ionized and excited molecules. We show that ring opening is followed by emission of the neutral fragments CO and HNCO. In the case of cGG the emission of neutral CO leads to a metastable structure that breaks producing small cationic fragments. The studied cyclic dipeptides evolve under ionizing radiation generating different small aziridin moieties and oxazolidinones. These two species are key reactants to elongate producing peptide chains. The corresponding mechanisms have been computed and show that the reaction requires very low energy and may occur in the presence of ionizing radiation.
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Affiliation(s)
- Darío Barreiro-Lage
- Departamento de Química, Universidad Autónoma de Madrid, 28049 Madrid, Spain.
| | - Jacopo Chiarinelli
- Institute of Structure of Matter-CNR (ISM-CNR), 00015 Monterotondo, Italy.
| | - Paola Bolognesi
- Institute of Structure of Matter-CNR (ISM-CNR), 00015 Monterotondo, Italy.
| | - Robert Richter
- Elettra Sincrotrone Trieste, 34149 Basovizza, Trieste, Italy
| | | | - Mark H Stockett
- Department of Physics, Stockholm University, Se-10691 Stockholm, Sweden
| | - Sergio Díaz-Tendero
- Departamento de Química, Universidad Autónoma de Madrid, 28049 Madrid, Spain.
- Condensed Matter Physics Center (IFIMAC), Universidad Autónoma de Madrid, 28049 Madrid, Spain
- Institute for Advanced Research in Chemical Science (IAdChem), Universidad Autónoma de Madrid, 28049 Madrid, Spain
| | - Lorenzo Avaldi
- Institute of Structure of Matter-CNR (ISM-CNR), 00015 Monterotondo, Italy.
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4
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Mattioli G, Avaldi L, Bolognesi P, Casavola A, Morini F, Van Caekenberghe T, Bozek JD, Castrovilli MC, Chiarinelli J, Domaracka A, Indrajith S, Maclot S, Milosavljević AR, Nicolafrancesco C, Nicolas C, Rousseau P. A study of the valence photoelectron spectrum of uracil and mixed water-uracil clusters. J Chem Phys 2023; 158:114301. [PMID: 36948841 DOI: 10.1063/5.0135574] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/24/2023] Open
Abstract
The valence ionization of uracil and mixed water-uracil clusters has been studied experimentally and by ab initio calculations. In both measurements, the spectrum onset shows a red shift with respect to the uracil molecule, with the mixed cluster characterized by peculiar features unexplained by the sum of independent contributions of the water or uracil aggregation. To interpret and assign all the contributions, we performed a series of multi-level calculations, starting from an exploration of several cluster structures using automated conformer-search algorithms based on a tight-binding approach. Ionization energies have been assessed on smaller clusters via a comparison between accurate wavefunction-based approaches and cost-effective DFT-based simulations, the latter of which were applied to clusters up to 12 uracil and 36 water molecules. The results confirm that (i) the bottom-up approach based on a multilevel method [Mattioli et al. Phys. Chem. Chem. Phys. 23, 1859 (2021)] to the structure of neutral clusters of unknown experimental composition converges to precise structure-property relationships and (ii) the coexistence of pure and mixed clusters in the water-uracil samples. A natural bond orbital (NBO) analysis performed on a subset of clusters highlighted the special role of H-bonds in the formation of the aggregates. The NBO analysis yields second-order perturbative energy between the H-bond donor and acceptor orbitals correlated with the calculated ionization energies. This sheds light on the role of the oxygen lone-pairs of the uracil CO group in the formation of strong H-bonds, with a stronger directionality in mixed clusters, giving a quantitative explanation for the formation of core-shell structures.
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Affiliation(s)
- Giuseppe Mattioli
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1, CP 10 Monterotondo Scalo, Italy
| | - Lorenzo Avaldi
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1, CP 10 Monterotondo Scalo, Italy
| | - Paola Bolognesi
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1, CP 10 Monterotondo Scalo, Italy
| | - Annarita Casavola
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1, CP 10 Monterotondo Scalo, Italy
| | - Filippo Morini
- X-lab, Faculty of Sciences, University of Hasselt, Campus Diepenbeek, BE 3590 Diepenbeek, Belgium
| | - Thomas Van Caekenberghe
- X-lab, Faculty of Sciences, University of Hasselt, Campus Diepenbeek, BE 3590 Diepenbeek, Belgium
| | - John D Bozek
- Synchrotron SOLEIL, L'Orme de Merisiers, 91192, Saint Aubin, BP48, 1192 Gif-sur-Yvette Cedex, France
| | - Mattea C Castrovilli
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1, CP 10 Monterotondo Scalo, Italy
| | - Jacopo Chiarinelli
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1, CP 10 Monterotondo Scalo, Italy
| | - Alicja Domaracka
- Normandie University, ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
| | | | - Sylvain Maclot
- Institut Lumière Matière, UMR5306 CNRS, Université Claude Bernard Lyon 1, 69622 Villeurbanne CEDEX, France
| | | | - Chiara Nicolafrancesco
- Synchrotron SOLEIL, L'Orme de Merisiers, 91192, Saint Aubin, BP48, 1192 Gif-sur-Yvette Cedex, France
| | - Christophe Nicolas
- Synchrotron SOLEIL, L'Orme de Merisiers, 91192, Saint Aubin, BP48, 1192 Gif-sur-Yvette Cedex, France
| | - Patrick Rousseau
- Normandie University, ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
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5
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Carlini L, Montorsi F, Wu Y, Bolognesi P, Borrego-Varillas R, Casavola AR, Castrovilli MC, Chiarinelli J, Mocci D, Vismarra F, Lucchini M, Nisoli M, Mukamel S, Garavelli M, Richter R, Nenov A, Avaldi L. Electron and ion spectroscopy of azobenzene in the valence and core shells. J Chem Phys 2023; 158:054201. [PMID: 36754795 DOI: 10.1063/5.0133824] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/19/2023] Open
Abstract
Azobenzene is a prototype and a building block of a class of molecules of extreme technological interest as molecular photo-switches. We present a joint experimental and theoretical study of its response to irradiation with light across the UV to x-ray spectrum. The study of valence and inner shell photo-ionization and excitation processes combined with measurement of valence photoelectron-photoion coincidence and mass spectra across the core thresholds provides a detailed insight into the site- and state-selected photo-induced processes. Photo-ionization and excitation measurements are interpreted via the multi-configurational restricted active space self-consistent field method corrected by second order perturbation theory. Using static modeling, we demonstrate that the carbon and nitrogen K edges of azobenzene are suitable candidates for exploring its photoinduced dynamics thanks to the transient signals appearing in background-free regions of the NEXAFS and XPS.
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Affiliation(s)
- L Carlini
- CNR-Istituto di Struttura Della Materia, CNR-ISM, Area Della Ricerca di Roma 1, Monterotondo, Italy
| | - F Montorsi
- Dipartimento di Chimica Industriale, Università Degli Studi di Bologna, Bologna, Italy
| | - Y Wu
- Dipartimento di Fisica, Politecnico di Milano, Piazza Leonardo da Vinci 32, Milano, Italy
| | - P Bolognesi
- CNR-Istituto di Struttura Della Materia, CNR-ISM, Area Della Ricerca di Roma 1, Monterotondo, Italy
| | - R Borrego-Varillas
- CNR-Istituto di Fotonica e Nanotecnologie, CNR-IFN, Piazza Leonardo da Vinci 32, Milano, Italy
| | - A R Casavola
- CNR-Istituto di Struttura Della Materia, CNR-ISM, Area Della Ricerca di Roma 1, Monterotondo, Italy
| | - M C Castrovilli
- CNR-Istituto di Struttura Della Materia, CNR-ISM, Area Della Ricerca di Roma 1, Monterotondo, Italy
| | - J Chiarinelli
- CNR-Istituto di Struttura Della Materia, CNR-ISM, Area Della Ricerca di Roma 1, Monterotondo, Italy
| | - D Mocci
- Dipartimento di Fisica, Politecnico di Milano, Piazza Leonardo da Vinci 32, Milano, Italy
| | - F Vismarra
- Dipartimento di Fisica, Politecnico di Milano, Piazza Leonardo da Vinci 32, Milano, Italy
| | - M Lucchini
- Dipartimento di Fisica, Politecnico di Milano, Piazza Leonardo da Vinci 32, Milano, Italy
| | - M Nisoli
- Dipartimento di Fisica, Politecnico di Milano, Piazza Leonardo da Vinci 32, Milano, Italy
| | - S Mukamel
- Department of Chemistry and Department of Physics and Astronomy, University of California, Irvine, California 92697, USA
| | - M Garavelli
- Dipartimento di Chimica Industriale, Università Degli Studi di Bologna, Bologna, Italy
| | - R Richter
- Elettra Sincrotrone Trieste, Area Science Park, Basovizza, Italy
| | - A Nenov
- Dipartimento di Chimica Industriale, Università Degli Studi di Bologna, Bologna, Italy
| | - L Avaldi
- CNR-Istituto di Struttura Della Materia, CNR-ISM, Area Della Ricerca di Roma 1, Monterotondo, Italy
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6
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Carlini L, Chiarinelli J, Mattioli G, Castrovilli MC, Valentini V, De Stefanis A, Bauer EM, Bolognesi P, Avaldi L. Insights into the Thermally Activated Cyclization Mechanism in a Linear Phenylalanine-Alanine Dipeptide. J Phys Chem B 2022; 126:2968-2978. [PMID: 35438499 PMCID: PMC9059117 DOI: 10.1021/acs.jpcb.1c10736] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
![]()
Dipeptides, the prototype
peptides, exist in both linear (l-) and cyclo (c-) structures. Since the
first mass spectrometry experiments, it has been observed that some l-structures may turn into the cyclo ones, likely via a
temperature-induced process. In this work, combining several different
experimental techniques (mass spectrometry, infrared and Raman spectroscopy,
and thermogravimetric analysis) with tight-binding and ab initio simulations,
we provide evidence that, in the case of l-phenylalanyl-l-alanine, an irreversible cyclization mechanism, catalyzed
by water and driven by temperature, occurs in the condensed phase.
This process can be considered as a very efficient strategy to improve
dipeptide stability by turning the comparatively fragile linear structure
into the robust and more stable cyclic one. This mechanism may have
played a role in prebiotic chemistry and can be further exploited
in the preparation of nanomaterials and drugs.
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Affiliation(s)
- Laura Carlini
- CNR-Istituto di Struttura della Materia (CNR-ISM), Area della Ricerca di Roma 1, Monterotondo Scalo 00015, Italy
| | - Jacopo Chiarinelli
- CNR-Istituto di Struttura della Materia (CNR-ISM), Area della Ricerca di Roma 1, Monterotondo Scalo 00015, Italy
| | - Giuseppe Mattioli
- CNR-Istituto di Struttura della Materia (CNR-ISM), Area della Ricerca di Roma 1, Monterotondo Scalo 00015, Italy
| | - Mattea Carmen Castrovilli
- CNR-Istituto di Struttura della Materia (CNR-ISM), Area della Ricerca di Roma 1, Monterotondo Scalo 00015, Italy
| | - Veronica Valentini
- CNR-Istituto di Struttura della Materia (CNR-ISM), Area della Ricerca di Roma 1, Monterotondo Scalo 00015, Italy
| | - Adriana De Stefanis
- CNR-Istituto di Struttura della Materia (CNR-ISM), Area della Ricerca di Roma 1, Monterotondo Scalo 00015, Italy
| | - Elvira Maria Bauer
- CNR-Istituto di Struttura della Materia (CNR-ISM), Area della Ricerca di Roma 1, Monterotondo Scalo 00015, Italy
| | - Paola Bolognesi
- CNR-Istituto di Struttura della Materia (CNR-ISM), Area della Ricerca di Roma 1, Monterotondo Scalo 00015, Italy
| | - Lorenzo Avaldi
- CNR-Istituto di Struttura della Materia (CNR-ISM), Area della Ricerca di Roma 1, Monterotondo Scalo 00015, Italy
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7
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Castrovilli MC, Tempesta E, Cartoni A, Plescia P, Bolognesi P, Chiarinelli J, Calandra P, Cicco N, Verrastro MF, Centonze D, Gullo L, Del Giudice A, Galantini L, Avaldi L. Fabrication of a New, Low-Cost, and Environment-Friendly Laccase-Based Biosensor by Electrospray Immobilization with Unprecedented Reuse and Storage Performances. ACS Sustain Chem Eng 2022; 10:1888-1898. [PMID: 35154910 PMCID: PMC8830555 DOI: 10.1021/acssuschemeng.1c07604] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/09/2021] [Revised: 01/10/2022] [Indexed: 05/06/2023]
Abstract
The fabrication of enzyme-based biosensors has received much attention for their selectivity and sensitivity. In particular, laccase-based biosensors have attracted a lot of interest for their capacity to detect highly toxic molecules in the environment, becoming essential tools in the fields of white biotechnology and green chemistry. The manufacturing of a new, metal-free, laccase-based biosensor with unprecedented reuse and storage capabilities has been achieved in this work through the application of the electrospray deposition (ESD) methodology as the enzyme immobilization technique. Electrospray ionization (ESI) has been used for ambient soft-landing of laccase enzymes on a carbon substrate, employing sustainable chemistry. This study shows how the ESD technique can be successfully exploited for the fabrication of a new promising environment-friendly electrochemical amperometric laccase-based biosensor, with storage capability up to two months without any particular care and reuse performance up to 63 measurements on the same electrode just prepared and 20 measurements on the one-year-old electrode subjected to redeposition. The laccase-based biosensor has been tested for catechol detection in the linear range 2-100 μM, with a limit of detection of 1.7 μM, without interference from chrome, cadmium, arsenic, and zinc and without any memory effects.
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Affiliation(s)
- Mattea Carmen Castrovilli
- Istituto
di Struttura della Materia-CNR (ISM-CNR), Area della Ricerca di Roma 1, 00015 Monterotondo, Italy
| | - Emanuela Tempesta
- CNR-Institute
of Environmental Geology and Geoengineering (CNR-IGAG), Area della Ricerca Roma1, Via Salaria
km 29.300, 00015 Monterotondo, Italy
| | - Antonella Cartoni
- Department
of Chemistry, Sapienza University, P.le Aldo Moro 5, 00185 Roma, Italy
| | - Paolo Plescia
- CNR-Institute
of Environmental Geology and Geoengineering (CNR-IGAG), Area della Ricerca Roma1, Via Salaria
km 29.300, 00015 Monterotondo, Italy
| | - Paola Bolognesi
- Istituto
di Struttura della Materia-CNR (ISM-CNR), Area della Ricerca di Roma 1, 00015 Monterotondo, Italy
| | - Jacopo Chiarinelli
- Istituto
di Struttura della Materia-CNR (ISM-CNR), Area della Ricerca di Roma 1, 00015 Monterotondo, Italy
| | - Pietro Calandra
- CNR-Institute
for the Study of Nanostructured Materials (CNR-ISMN), Area della Ricerca Roma1, Via Salaria
km 29.300, 00015 Monterotondo, Italy
| | - Nunzia Cicco
- CNR-Institute
of Methodologies for Environmental Analysis (CNR-IMAA), Contrada Santa Loja, Tito Scalo, 85050 Potenza, Italy
| | - Maria Filomena Verrastro
- Istituto
di Struttura della Materia-CNR (ISM-CNR), Contrada Santa Loja, Tito
Scalo 85050, Potenza, Italy
| | - Diego Centonze
- Dipartimento
di Scienze Agrarie, degli Alimenti e dell’Ambiente, Università degli Studi di Foggia, via Napoli, 25, 71122 Foggia, Italy
| | - Ludovica Gullo
- Department
of Chemistry, Sapienza University, P.le Aldo Moro 5, 00185 Roma, Italy
| | | | - Luciano Galantini
- Department
of Chemistry, Sapienza University, P.le Aldo Moro 5, 00185 Roma, Italy
| | - Lorenzo Avaldi
- Istituto
di Struttura della Materia-CNR (ISM-CNR), Area della Ricerca di Roma 1, 00015 Monterotondo, Italy
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8
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Chiarinelli J, Barreiro-Lage D, Bolognesi P, RICHTER R, Zettergren H, Stockett MH, Díaz-Tendero S, Avaldi L. Electron and ion spectroscopy of the cyclo-alanine-alanine dipeptide. Phys Chem Chem Phys 2022; 24:5855-5867. [DOI: 10.1039/d1cp05811h] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The VUV photoionisation and photofragmentation of cyclo-alanine-alanine (cAA) has been studiedin a joint experimental and theoretical work. The photoelectron spectrum and the photoelectron-photoion coincidence (PEPICO) measurements, which enable a control...
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9
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Satta M, Casavola AR, Cartoni A, Castrovilli MC, Catone D, Chiarinelli J, Borocci S, Avaldi L, Bolognesi P. Ionization of 2- and 4(5)-Nitroimidazoles Radiosensitizers: A "Kinetic Competition" Between NO 2 and NO Losses. Chemphyschem 2021; 22:2387-2391. [PMID: 34597457 PMCID: PMC9293481 DOI: 10.1002/cphc.202100629] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/28/2021] [Revised: 09/23/2021] [Indexed: 12/27/2022]
Abstract
Nitroimidazoles are a class of chemicals with a remarkable broad spectrum of applications from the production of explosives to the use as radiosensitizers in radiotherapy. The understanding of thedynamics of their fragmentation induced by ionizing sources is of fundamental interest. The goal of this work is to theoretically investigate the kinetic competition between the two most important decomposition channels of 2, 4 and 5‐Nitroimidazole cations: the NO and NO2 losses. The calculated rate constants of the two processes are in very good agreement with the experimental Photoelectron‐Photoion Coincidence (PEPICO) branching ratio. This study solves the intriguing and theoretically unexplained experimental observation that 2‐Nitroimidazole, at variance with the other two regio‐isomers is a source for only NO at low energies (<12.76 eV). This is a key point for biomedical application of the nitroimidazoles, because NO is the vasodilator that favors the reoxigenation of hypoxic tumor tissues.
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Affiliation(s)
- Mauro Satta
- Istituto per lo Studio dei Materiali Nanostrutturati (ISMN-CNR), Dipartimento di Chimica, Università degli studi di Roma La Sapienza, P.le Aldo Moro 5, 00185, Roma, Italy
| | - Anna Rita Casavola
- Istituto di Struttura della Materia (ISM-CNR), Area della Ricerca di Roma 1, Via Salaria Km 29,300, 00016, Monterotondo Scalo (RM), Italy
| | - Antonella Cartoni
- Dipartimento di Chimica, Università degli studi di Roma La Sapienza, Pl.e Aldo Moro 5, 00185, Roma, Italy
| | - Mattea Carmen Castrovilli
- Istituto di Struttura della Materia (ISM-CNR), Area della Ricerca di Roma 1, Via Salaria Km 29,300, 00016, Monterotondo Scalo (RM), Italy
| | - Daniele Catone
- Istituto di Struttura della Materia (ISM-CNR), Area della Ricerca di Roma 2, Via del Fosso del Cavaliere 10, 00133, Roma, Italy
| | - Jacopo Chiarinelli
- Istituto di Struttura della Materia (ISM-CNR), Area della Ricerca di Roma 1, Via Salaria Km 29,300, 00016, Monterotondo Scalo (RM), Italy
| | - Stefano Borocci
- Dipartimento per l'Innovazione nei Sistemi Biologici, Agroalimentari e Forestali (DIBAF), Università della Tuscia, Viterbo, Italy
| | - Lorenzo Avaldi
- Istituto di Struttura della Materia (ISM-CNR), Area della Ricerca di Roma 1, Via Salaria Km 29,300, 00016, Monterotondo Scalo (RM), Italy
| | - Paola Bolognesi
- Istituto di Struttura della Materia (ISM-CNR), Area della Ricerca di Roma 1, Via Salaria Km 29,300, 00016, Monterotondo Scalo (RM), Italy
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10
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Barreiro-Lage D, Bolognesi P, Chiarinelli J, Richter R, Zettergren H, Stockett MH, Carlini L, Diaz-Tendero S, Avaldi L. "Smart Decomposition" of Cyclic Alanine-Alanine Dipeptide by VUV Radiation: A Seed for the Synthesis of Biologically Relevant Species. J Phys Chem Lett 2021; 12:7379-7386. [PMID: 34324354 DOI: 10.1021/acs.jpclett.1c01788] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
A combined experimental and theoretical study shows how the interaction of VUV radiation with cyclo-(alanine-alanine), one of the 2,5-diketopiperazines (DKPs), produces reactive oxazolidinone intermediates. The theoretical simulations reveal that the interaction of these intermediates with other neutral and charged fragments, released in the molecular decomposition, leads either to the reconstruction of the cyclic dipeptide or to the formation of longer linear peptide chains. These results may explain how DKPs could have, on one hand, survived hostile chemical environments and, on the other, provided the seed for amino acid polymerization. Shedding light on the mechanisms of production of such prebiotic building blocks is of paramount importance to understanding the abiotic synthesis of relevant biologically active compounds.
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Affiliation(s)
- Darío Barreiro-Lage
- Departamento de Química, Módulo 13, Universidad Autónoma de Madrid, 28049 Madrid, Spain
| | - Paola Bolognesi
- Institute of Structure of Matter-CNR (ISM-CNR), Area della Ricerca di Roma 1, Via Salaria km 29.300, 00015 Monterotondo, Italy
| | - Jacopo Chiarinelli
- Institute of Structure of Matter-CNR (ISM-CNR), Area della Ricerca di Roma 1, Via Salaria km 29.300, 00015 Monterotondo, Italy
| | - Robert Richter
- Elettra Sincrotrone Trieste, 34149 Basovizza, Trieste, Italy
| | | | - Mark H Stockett
- Department of Physics, Stockholm University, Se-10691 Stockholm, Sweden
| | - Laura Carlini
- Institute of Structure of Matter-CNR (ISM-CNR), Area della Ricerca di Roma 1, Via Salaria km 29.300, 00015 Monterotondo, Italy
| | - Sergio Diaz-Tendero
- Departamento de Química, Módulo 13, Universidad Autónoma de Madrid, 28049 Madrid, Spain
- Condensed Matter Physics Center (IFIMAC), Universidad Autónoma de Madrid, 28049 Madrid, Spain
- Institute for Advanced Research in Chemical Science (IAdChem), Universidad Autónoma de Madrid, 28049 Madrid, Spain
| | - Lorenzo Avaldi
- Institute of Structure of Matter-CNR (ISM-CNR), Area della Ricerca di Roma 1, Via Salaria km 29.300, 00015 Monterotondo, Italy
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11
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Mattioli G, Avaldi L, Bolognesi P, Bozek JD, Castrovilli MC, Chiarinelli J, Domaracka A, Indrajith S, Maclot S, Milosavljević AR, Nicolafrancesco C, Rousseau P. Water-biomolecule clusters studied by photoemission spectroscopy and multilevel atomistic simulations: hydration or solvation? Phys Chem Chem Phys 2021; 23:15049-15058. [PMID: 34231588 DOI: 10.1039/d1cp02031e] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
The properties of mixed water-uracil nanoaggregates have been probed by core electron-photoemission measurements to investigate supramolecular assembly in the gas phase driven by weak interactions. The interpretation of the measurements has been assisted by multilevel atomistic simulations, based on semi-empirical tight-binding and DFT-based methods. Our protocol established a positive-feedback loop between experimental and computational techniques, which has enabled a sound and detailed atomistic description of such complex heterogeneous molecular aggregates. Among biomolecules, uracil offers interesting and generalized skeletal features; its structure encompasses an alternation of hydrophilic H-bond donor and acceptor sites and hydrophobic moieties, typical in biomolecular systems, that induces a supramolecular core-shell-like organization of the mixed clusters with a water core and an uracil shell. This structure is far from typical models of both solid-state hydration, with water molecules in defined positions, or liquid solvation, where disconnected uracil molecules are completely surrounded by water.
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Affiliation(s)
- Giuseppe Mattioli
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1, CP 10, Monterotondo Scalo, Italy.
| | - Lorenzo Avaldi
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1, CP 10, Monterotondo Scalo, Italy.
| | - Paola Bolognesi
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1, CP 10, Monterotondo Scalo, Italy.
| | - John D Bozek
- Synchrotron SOLEIL, L'Orme de Merisiers, 91192, Saint Aubin, BP48, 1192, Gif-sur-Yvette Cedex, France
| | - Mattea C Castrovilli
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1, CP 10, Monterotondo Scalo, Italy.
| | - Jacopo Chiarinelli
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1, CP 10, Monterotondo Scalo, Italy.
| | - Alicja Domaracka
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
| | | | - Sylvain Maclot
- Physics Department, University of Gothenburg, Origovägen 6B, 41296 Göteborg, Sweden
| | | | - Chiara Nicolafrancesco
- Synchrotron SOLEIL, L'Orme de Merisiers, 91192, Saint Aubin, BP48, 1192, Gif-sur-Yvette Cedex, France and Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
| | - Patrick Rousseau
- Normandie Univ., ENSICAEN, UNICAEN, CEA, CNRS, CIMAP, 14000 Caen, France
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12
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Erdmann E, Aguirre NF, Indrajith S, Chiarinelli J, Domaracka A, Rousseau P, Huber BA, Bolognesi P, Richter R, Avaldi L, Díaz-Tendero S, Alcamí M, Łabuda M. A general approach to study molecular fragmentation and energy redistribution after an ionizing event. Phys Chem Chem Phys 2021; 23:1859-1867. [PMID: 33439170 DOI: 10.1039/d0cp04890a] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
We propose to combine quantum chemical calculations, statistical mechanical methods, and photoionization and particle collision experiments to unravel the redistribution of internal energy of the furan cation and its dissociation pathways. This approach successfully reproduces the relative intensity of the different fragments as a function of the internal energy of the system in photoelectron-photoion coincidence experiments and the different mass spectra obtained when ions ranging from Ar+ to Xe25+ or electrons are used in collision experiments. It provides deep insights into the redistribution of the internal energy in the ionized molecule and its influence on the dissociation pathways and resulting charged fragments. The present pilot study demonstrates the efficiency of a statistical exchange of excitation energy among various degrees of freedom of the molecule and proves that the proposed approach is mature to be extended to more complex systems.
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Affiliation(s)
- Ewa Erdmann
- Faculty of Applied Physics and Mathematics, Gdańsk University of Technology, Narutowicza 11/12, 80-233 Gdańsk, Poland.
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13
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Casavola AR, Cartoni A, Castrovilli MC, Borocci S, Bolognesi P, Chiarinelli J, Catone D, Avaldi L. VUV Photofragmentation of Chloroiodomethane: The Iso-CH 2I-Cl and Iso-CH 2Cl-I Radical Cation Formation. J Phys Chem A 2020; 124:7491-7499. [PMID: 32786965 PMCID: PMC8010789 DOI: 10.1021/acs.jpca.0c05754] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
![]()
Dihalomethanes
XCH2Y (X and Y = F, Cl, Br, and I) are a class of compounds
involved in several processes leading to the release of halogen atoms,
ozone consumption, and aerosol particle formation. Neutral dihalomethanes
have been largely studied, but chemical physics properties and processes
involving their radical ions, like the pathways of their decomposition,
have not been completely investigated. In this work the photodissociation
dynamics of the ClCH2I molecule has been explored in the
photon energy range 9–21 eV using both VUV rare gas discharge
lamps and synchrotron radiation. The experiments show that, among
the different fragment ions, CH2I+ and CH2Cl+, which correspond to the Cl- and I-losses,
respectively, play a dominant role. The experimental ionization energy
of ClCH2I and the appearance energies of the CH2I+ and CH2Cl+ ions are in agreement
with the theoretical results obtained at the MP2/CCSD(T) level of
theory. Computational investigations have been also performed to study
the isomerization of geminal [ClCH2I]•+ into the iso-chloroiodomethane isomers: [CH2I–Cl]•+ and [CH2Cl–I]•+.
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Affiliation(s)
- Anna Rita Casavola
- Institute of Structure of Matter-CNR (ISM-CNR), Area della Ricerca di Roma 1, Via Salaria km 29.300, 00015 Monterotondo, Italy
| | - Antonella Cartoni
- Institute of Structure of Matter-CNR (ISM-CNR), Area della Ricerca di Roma 1, Via Salaria km 29.300, 00015 Monterotondo, Italy.,Department of Chemistry, Sapienza University of Rome, P.le Aldo Moro 5, 00185 Rome, Italy
| | - Mattea Carmen Castrovilli
- Institute of Structure of Matter-CNR (ISM-CNR), Area della Ricerca di Roma 1, Via Salaria km 29.300, 00015 Monterotondo, Italy
| | - Stefano Borocci
- Department for Innovation in Biological, Agrofood and Forest Systems, University of Tuscia, Viterbo 01100, Italy.,Institute for Biological Systems-CNR (ISB-CNR), Area della Ricerca di Roma 1, Via Salaria, Km 29.500,, 00015 Monterotondo, Italy
| | - Paola Bolognesi
- Institute of Structure of Matter-CNR (ISM-CNR), Area della Ricerca di Roma 1, Via Salaria km 29.300, 00015 Monterotondo, Italy
| | - Jacopo Chiarinelli
- Institute of Structure of Matter-CNR (ISM-CNR), Area della Ricerca di Roma 1, Via Salaria km 29.300, 00015 Monterotondo, Italy
| | - Daniele Catone
- Institute of Structure of Matter-CNR (ISM-CNR), Area della Ricerca di Tor Vergata, Via del Fosso del Cavaliere, 00133 Rome, Italy
| | - Lorenzo Avaldi
- Institute of Structure of Matter-CNR (ISM-CNR), Area della Ricerca di Roma 1, Via Salaria km 29.300, 00015 Monterotondo, Italy
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14
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Chiarinelli J, Bolognesi P, Avaldi L. Ion optics simulation of an ion beam setup coupled to an electrospray ionization source, strengths, and limitations. Rev Sci Instrum 2020; 91:073203. [PMID: 32752820 DOI: 10.1063/5.0006641] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/05/2020] [Accepted: 07/02/2020] [Indexed: 06/11/2023]
Abstract
A unified approach to achieve a start-to-end ion optics simulation of an ion beam apparatus coupled to an electrospray ionization source is presented. We demonstrate that simulations enable reliable information on the behavior and operation of the apparatus to be obtained, but due to the collisions with the buffer gas in the initial stages of the setup, the results concerning the kinetic energy of the ion beam must be treated with care.
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Affiliation(s)
- J Chiarinelli
- CNR-ISM, Area della Ricerca Roma 1, Monterotondo Scalo, Roma 00015, Italy
| | - P Bolognesi
- CNR-ISM, Area della Ricerca Roma 1, Monterotondo Scalo, Roma 00015, Italy
| | - L Avaldi
- CNR-ISM, Area della Ricerca Roma 1, Monterotondo Scalo, Roma 00015, Italy
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15
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Castrovilli MC, Bolognesi P, Chiarinelli J, Avaldi L, Cartoni A, Calandra P, Tempesta E, Giardi MT, Antonacci A, Arduini F, Scognamiglio V. Electrospray deposition as a smart technique for laccase immobilisation on carbon black-nanomodified screen-printed electrodes. Biosens Bioelectron 2020; 163:112299. [PMID: 32568697 DOI: 10.1016/j.bios.2020.112299] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2020] [Revised: 05/10/2020] [Accepted: 05/12/2020] [Indexed: 01/11/2023]
Abstract
Enzymes immobilisation represents a critical issue in the design of biosensors to achieve standardization as well as suitable analytical performances in terms of sensitivity, selectivity, and stability. In this work electrospray deposition (ESD) has been exploited as a novel technique for the immobilisation of laccase enzyme on carbon black modified screen-printed electrodes. The aim is to fabricate an amperometric biosensor for phenolic compound detection. The electrodes produced by ESD have been analysed by scanning electron microscopy and characterised electrochemically to prove that this immobilisation technique is suited to manufacture high performance biosensors. The results show that the laccase enzyme maintains its activity after undergoing the electrospray ionisation process and deposition and the fabricated biosensor has improved performances in terms of storage (up to 3 months at room temperature) and working (up to 25 measurements on the same electrode) stability. The laccase-based biosensor has been tested for phenolic compound detection, with catechol as target analyte, in the linear range 2.5-50 μM, with 2.0 μM limit of detection, without interference from lead, cadmium, atrazine, and paraoxon, and without matrix effect in drinking, surface, and wastewater.
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Affiliation(s)
- Mattea Carmen Castrovilli
- Institute of Structure of Matter, National Research Council, Area Della Ricerca di Roma 1, Via Salaria Km 29.300, 00015, Monterotondo, Italy
| | - Paola Bolognesi
- Institute of Structure of Matter, National Research Council, Area Della Ricerca di Roma 1, Via Salaria Km 29.300, 00015, Monterotondo, Italy
| | - Jacopo Chiarinelli
- Institute of Structure of Matter, National Research Council, Area Della Ricerca di Roma 1, Via Salaria Km 29.300, 00015, Monterotondo, Italy
| | - Lorenzo Avaldi
- Institute of Structure of Matter, National Research Council, Area Della Ricerca di Roma 1, Via Salaria Km 29.300, 00015, Monterotondo, Italy
| | | | - Pietro Calandra
- Institute of Nanostructured Materials, National Research Council, Area Della Ricerca di Roma 1, Via Salaria Km 29.300, 00015, Monterotondo, Italy
| | - Emanuela Tempesta
- Institute of Environmental Geology and Geoengineering, National Research Council, Via Salaria Km 29.300, 00015, Monterotondo, Italy
| | - Maria Teresa Giardi
- Institute of Crystallography, National Research Council, Area Della Ricerca di Roma 1, Via Salaria Km 29.300, 00015, Monterotondo, Italy; Biosensor Srl, Via Degli Olmetti 4, 00060, Formello, Rome, Italy
| | - Amina Antonacci
- Institute of Crystallography, National Research Council, Area Della Ricerca di Roma 1, Via Salaria Km 29.300, 00015, Monterotondo, Italy
| | - Fabiana Arduini
- Department of Chemical Science and Technologies, University of Rome "Tor Vergata", Via Della Ricerca Scientifica, 00133, Rome, Italy; SENSE4MED, Via Renato Rascel 30, 00128, Rome, Italy
| | - Viviana Scognamiglio
- Institute of Crystallography, National Research Council, Area Della Ricerca di Roma 1, Via Salaria Km 29.300, 00015, Monterotondo, Italy.
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16
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Castrovilli MC, Bolognesi P, Chiarinelli J, Avaldi L, Calandra P, Antonacci A, Scognamiglio V. The convergence of forefront technologies in the design of laccase-based biosensors – An update. Trends Analyt Chem 2019. [DOI: 10.1016/j.trac.2019.07.026] [Citation(s) in RCA: 25] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022]
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17
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Chiarinelli J, Casavola AR, Castrovilli MC, Bolognesi P, Cartoni A, Wang F, Richter R, Catone D, Tosic S, Marinkovic BP, Avaldi L. Radiation Damage Mechanisms of Chemotherapeutically Active Nitroimidazole Derived Compounds. Front Chem 2019; 7:329. [PMID: 31157205 PMCID: PMC6528692 DOI: 10.3389/fchem.2019.00329] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/22/2019] [Accepted: 04/24/2019] [Indexed: 11/15/2022] Open
Abstract
Photoionization mass spectrometry, photoelectron-photoion coincidence spectroscopic technique, and computational methods have been combined to investigate the fragmentation of two nitroimidazole derived compounds: the metronidazole and misonidazole. These molecules are used in radiotherapy thanks to their capability to sensitize hypoxic tumor cells to radiation by "mimicking" the effects of the presence of oxygen as a damaging agent. Previous investigations of the fragmentation patterns of the nitroimidazole isomers (Bolognesi et al., 2016; Cartoni et al., 2018) have shown their capacity to produce reactive molecular species such as nitric oxide, carbon monoxide or hydrogen cyanide, and their potential impact on the biological system. The results of the present work suggest that different mechanisms are active for the more complex metronidazole and misonidazole molecules. The release of nitric oxide is hampered by the efficient formation of nitrous acid or nitrogen dioxide. Although both metronidazole and misonidazole contain imidazole ring in the backbone, the side branches of these molecules lead to very different bonding mechanisms and properties.
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Affiliation(s)
- Jacopo Chiarinelli
- CNR-Istituto di Struttura Della Materia (CNR-ISM), Area della Ricerca di Roma 1, Monterotondo Scalo, Italy
- Dipartimento di Scienze, Università di Roma Tre, Rome, Italy
| | - Anna Rita Casavola
- CNR-Istituto di Struttura Della Materia (CNR-ISM), Area della Ricerca di Roma 1, Monterotondo Scalo, Italy
| | - Mattea Carmen Castrovilli
- CNR-Istituto di Struttura Della Materia (CNR-ISM), Area della Ricerca di Roma 1, Monterotondo Scalo, Italy
| | - Paola Bolognesi
- CNR-Istituto di Struttura Della Materia (CNR-ISM), Area della Ricerca di Roma 1, Monterotondo Scalo, Italy
| | - Antonella Cartoni
- CNR-Istituto di Struttura Della Materia (CNR-ISM), Area della Ricerca di Roma 1, Monterotondo Scalo, Italy
- Dipartimento di Chimica, Sapienza Università di Roma, Rome, Italy
| | - Feng Wang
- Molecular Modelling Discovery Laboratory, Department of Chemistry and Biotechnology, Faculty of Science, Engineering and Technology, Swinburne University of Technology, Melbourne, VIC, Australia
| | - R. Richter
- Elettra-Sincrotrone Trieste, Trieste, Italy
| | - Daniele Catone
- CNR-Istituto di Struttura Della Materia, Area della Ricerca di Tor Vergata, Rome, Italy
| | - Sanja Tosic
- Institute of Physics, Laboratory for Atomic Collision Processes, University of Belgrade, Belgrade, Serbia
| | - Bratislav P. Marinkovic
- Institute of Physics, Laboratory for Atomic Collision Processes, University of Belgrade, Belgrade, Serbia
| | - Lorenzo Avaldi
- CNR-Istituto di Struttura Della Materia (CNR-ISM), Area della Ricerca di Roma 1, Monterotondo Scalo, Italy
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18
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Bolognesi P, Carravetta V, Sementa L, Barcaro G, Monti S, Manjari Mishra P, Cartoni A, Castrovilli MC, Chiarinelli J, Tosic S, Marinkovic BP, Richter R, Avaldi L. Core Shell Investigation of 2-nitroimidazole. Front Chem 2019; 7:151. [PMID: 31001511 PMCID: PMC6454003 DOI: 10.3389/fchem.2019.00151] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/04/2019] [Accepted: 02/28/2019] [Indexed: 02/01/2023] Open
Abstract
Tunability and selectivity of synchrotron radiation have been used to study the excitation and ionization of 2-nitroimidazole at the C, N, and O K-edges. The combination of a set of different measurements (X-ray photoelectron spectroscopy, near-edge photoabsorption spectroscopy, Resonant Auger electron spectroscopy, and mass spectrometry) and computational modeling have successfully disclosed local effects due to the chemical environment on both excitation/ionization and fragmentation of the molecule.
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Affiliation(s)
- Paola Bolognesi
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1, Montelibretti, Italy
| | | | - Luca Sementa
- CNR-Istituto per i Processi Chimico Fisici, Pisa, Italy
| | | | - Susanna Monti
- CNR-Istituto di Chimica dei Composti Organo Metallici, Pisa, Italy
| | - Preeti Manjari Mishra
- Stored and Cooled Ions Division, Max Planck Institute for Nuclear Physics, Heidelberg, Germany
| | - Antonella Cartoni
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1, Montelibretti, Italy.,Dipartimento di Chimica, Sapienza Università di Roma, Rome, Italy
| | - Mattea C Castrovilli
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1, Montelibretti, Italy
| | - Jacopo Chiarinelli
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1, Montelibretti, Italy.,Dipartimento di Scienze, Università degli Studi di Roma 3, Rome, Italy
| | - Sanja Tosic
- Institute of Physics, University of Belgrade, Belgrade, Serbia
| | | | - Robert Richter
- Elettra Sincrotrone Trieste, Area Science Park, Trieste, Italy
| | - Lorenzo Avaldi
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1, Montelibretti, Italy
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19
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Chiarinelli J, Markus P, Bolognesi P, Avaldi L, Turco Liveri V, Calandra P. Photo-fragmentation of alkyl phosphates in the gas-phase. J Photochem Photobiol A Chem 2018. [DOI: 10.1016/j.jphotochem.2018.07.017] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
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20
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Cartoni A, Casavola AR, Bolognesi P, Castrovilli MC, Catone D, Chiarinelli J, Richter R, Avaldi L. Insights into 2- and 4(5)-Nitroimidazole Decomposition into Relevant Ions and Molecules Induced by VUV Ionization. J Phys Chem A 2018; 122:4031-4041. [DOI: 10.1021/acs.jpca.8b01144] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- A. Cartoni
- Istituto di Struttura della Materia (ISM), Consiglio Nazionale delle Ricerche (CNR), Area della Ricerca di Roma 1, via Salaria Km 29,300, Monterotondo Scalo (RM), 00016, Italy
- Dipartimento di Chimica, Sapienza Università di Roma, P.le Aldo Moro 5, 00185, Roma, Italy
| | - A. R. Casavola
- Istituto di Struttura della Materia (ISM), Consiglio Nazionale delle Ricerche (CNR), Area della Ricerca di Roma 1, via Salaria Km 29,300, Monterotondo Scalo (RM), 00016, Italy
| | - P. Bolognesi
- Istituto di Struttura della Materia (ISM), Consiglio Nazionale delle Ricerche (CNR), Area della Ricerca di Roma 1, via Salaria Km 29,300, Monterotondo Scalo (RM), 00016, Italy
| | - M. C. Castrovilli
- Istituto di Struttura della Materia (ISM), Consiglio Nazionale delle Ricerche (CNR), Area della Ricerca di Roma 1, via Salaria Km 29,300, Monterotondo Scalo (RM), 00016, Italy
| | - D. Catone
- Istituto di Struttura della Materia (ISM), Consiglio Nazionale delle Ricerche (CNR), Area della Ricerca di Roma 2, via del Fosso del Cavaliere 10, 00133, Roma, Italy
| | - J. Chiarinelli
- Istituto di Struttura della Materia (ISM), Consiglio Nazionale delle Ricerche (CNR), Area della Ricerca di Roma 1, via Salaria Km 29,300, Monterotondo Scalo (RM), 00016, Italy
| | - R. Richter
- Elettra Sincrotrone Trieste, Area Science
Park, 34149, Basovizza, Trieste, Italy
| | - L. Avaldi
- Istituto di Struttura della Materia (ISM), Consiglio Nazionale delle Ricerche (CNR), Area della Ricerca di Roma 1, via Salaria Km 29,300, Monterotondo Scalo (RM), 00016, Italy
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21
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Chiarinelli J, Bolognesi P, Domaracka A, Rousseau P, Castrovilli MC, Richter R, Chatterjee S, Wang F, Avaldi L. Insights into the dissociative ionization of glycine by PEPICO experiments. Phys Chem Chem Phys 2018; 20:22841-22848. [PMID: 30151535 DOI: 10.1039/c8cp03473g] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
The fragmentation of glycine (NH2CH2COOH) has been studied by photoelectron–photoion coincidence, PEPICO, experiments at 60 eV photon energy.
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Affiliation(s)
- Jacopo Chiarinelli
- Dipartimento di Scienze, Università di Roma Tre
- Roma
- Italy
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1
- Monterotondo Scalo
| | - Paola Bolognesi
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1
- Monterotondo Scalo
- Italy
| | - Alicja Domaracka
- Normandie Univ, ENSICAEN, UNICAEN, CEA, CNRS, CIMAP
- 14000 Caen
- France
| | - Patrick Rousseau
- Normandie Univ, ENSICAEN, UNICAEN, CEA, CNRS, CIMAP
- 14000 Caen
- France
| | | | - Robert Richter
- Molecular Modelling Discovery Laboratory, Department of Chemistry and Biotechnology
- Faculty of Science, Engineering and Technology, Swinburne University of Technology, Melbourne
- Vic 3122
- Australia
| | | | - Feng Wang
- Elettra-Sincrotrone Trieste, Strada Statale 14-km 163.5
- Basovizza
- Italy
| | - Lorenzo Avaldi
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma 1
- Monterotondo Scalo
- Italy
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Bolognesi P, Casavola AR, Cartoni A, Richter R, Markus P, Borocci S, Chiarinelli J, Tošić S, Sa’adeh H, Masič M, Marinković B, Prince K, Avaldi L. Communication: “Position” does matter: The photofragmentation of the nitroimidazole isomers. J Chem Phys 2016; 145:191102. [DOI: 10.1063/1.4967770] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022] Open
Affiliation(s)
- P. Bolognesi
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma1, Monterotondo, Italy
| | - A. R. Casavola
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma1, Monterotondo, Italy
| | - A. Cartoni
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma1, Monterotondo, Italy
- Dipartimento di Chimica, Sapienza Università di Roma, Roma, Italy
| | - R. Richter
- Elettra-Sincrotrone Trieste, Basovizza, Italy
| | - P. Markus
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma1, Monterotondo, Italy
| | - S. Borocci
- Dipartimento per l’Innovazione nei Sistemi Biologici, Agroalimentari e Forestali (DIBAF), Università della Tuscia, Viterbo, Italy
| | - J. Chiarinelli
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma1, Monterotondo, Italy
| | - S. Tošić
- Institute of Physics Belgrade, University of Belgrade, Belgrade, Serbia
| | - H. Sa’adeh
- Department of Physics, The University of Jordan, Amman, Jordan
| | - M. Masič
- School of Chemistry, Cardiff University, Cardiff, United Kingdom
| | - B.P. Marinković
- Institute of Physics Belgrade, University of Belgrade, Belgrade, Serbia
| | - K.C. Prince
- Elettra-Sincrotrone Trieste, Basovizza, Italy
| | - L. Avaldi
- CNR-Istituto di Struttura della Materia, Area della Ricerca di Roma1, Monterotondo, Italy
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