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35 results on '"Catalini, Sara"'

1. BGO relaxation dynamics probed with heterodyne detected optical transient gratings

Author

Fainozzi, Danny, Catalini, Sara, torre, Renato, Masciovecchio, Claudio, and Svetina, Cristian

Subjects
Condensed Matter - Mesoscale and Nanoscale Physics, 78, 80
Abstract

We used optical laser pulses to create transient gratings (TGs) with sub-10 {\mu}m spatial periodicity in a Bismuth Germanate (310) (Bi4Ge3O12) single crystal at room temperature. The TG launches phonon modes, whose dynamics were revealed via forward diffraction of a third, time-delayed, heterodyne-detected optical pulse. Acoustic oscillations have been clearly identified in a time-frequency window not covered by previous spectroscopic studies and their characteristic dynamic parameters have been measured as a function of transferred momenta magnitude and direction., Comment: 6 pages, 4 figures

Published
2023

2. Hindered intermolecular stacking of anti-parallel telomeric G-quadruplexes.

Author

Bertini, Luca, Libera, Valeria, Catalini, Sara, Schirò, Giorgio, Orecchini, Andrea, Campanella, Renzo, Arciuolo, Valentina, Pagano, Bruno, Petrillo, Caterina, De Michele, Cristiano, Comez, Lucia, and Paciaroni, Alessandro

Subjects
SMALL-angle X-ray scattering, NUCLEOTIDE sequence, QUADRUPLEX nucleic acids, SYNTHETIC biology, DNA sequencing
Abstract

Telomeric G-quadruplexes (G4s) are non-canonical DNA structures composed of TTAGGG repeats. They are extensively studied both as biomolecules key for genome stability and as promising building blocks and functional elements in synthetic biology and nanotechnology. This is why it is extremely important to understand how the interaction between G4s is affected by their topology. We used small-angle x-ray scattering to investigate the end-to-end stacking of antiparallel telomeric G-quadruplexes formed by the sequence AG3(T2AG3)3. To represent the experimental data, we developed a highly efficient coarse-grained fitting tool, which successfully described the samples as an equilibrium mixture of monomeric and dimeric G4 species. Our findings indicate that the antiparallel topology prevents the formation of long multimeric structures under self-crowding conditions, unlike the hybrid/parallel structures formed by the same DNA sequence. This result supports the idea that the stacking of monomeric G-quadruplexes is strongly affected by the presence of diagonal loops. [ABSTRACT FROM AUTHOR]

Published
2024
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5. Hard X-ray Transient Grating Spectroscopy on Bismuth Germanate

Author

Rouxel, Jeremy R., Fainozzi, Danny, Mankowsky, Roman, Rosner, Benedikt, Seniutinas, Gediminas, Mincigrucci, Riccardo, Catalini, Sara, Foglia, Laura, Cucini, Riccardo, Doring, Florian, Kubec, Adam, Koch, Frieder, Bencivenga, Filippo, Haddad, Andre Al, Gessini, Alessandro, Maznev, Alexei A., Cirelli, Claudio, Gerber, Simon, Pedrini, Bill, Mancini, Giulia F., Razzoli, Elia, Burian, Max, Ueda, Hiroki, Pamfilidis, Georgios, Ferrari, Eugenio, Deng, Yunpei, Mozzanica, Aldo, Johnson, Philip J. M., Ozerov, Dmitry, Izzo, Maria G., Bottari, Cettina, Arrell, Christopher, Divall, Edwin J., Zerdane, Serhane, Sander, Mathias, Knopp, Gregor, Beaud, Paul, Lemke, Henrik T., Milne, Chris J., David, Christian, Torre, Renato, Chergui, Majed, Nelson, Keith A., Masciovecchio, Claudio, Staub, Urs, Patthey, Luc, and Svetina, Cristian

Subjects
Physics - Optics, Condensed Matter - Materials Science
Abstract

Optical-domain Transient Grating (TG) spectroscopy is a versatile background-free four-wave-mixing technique used to probe vibrational, magnetic and electronic degrees of freedom in the time domain. The newly developed coherent X-ray Free Electron Laser sources allow its extension to the X-ray regime. Xrays offer multiple advantages for TG: their large penetration depth allows probing the bulk properties of materials, their element-specificity can address core-excited states, and their short wavelengths create excitation gratings with unprecedented momentum transfer and spatial resolution. We demonstrate for the first time TG excitation in the hard X-ray range at 7.1 keV. In Bismuth Germanate (BGO), the nonresonant TG excitation generates coherent optical phonons detected as a function of time by diffraction of an optical probe pulse. This experiment demonstrates the ability to probe bulk properties of materials and paves the way for ultrafast coherent four-wave-mixing techniques using X-ray probes and involving nanoscale TG spatial periods., Comment: 11 pages, 4 figures

Published
2021
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6. Element- and enantiomer-selective visualization of ibuprofen dimer vibrations

Author

Mincigrucci, R., Rouxel, Jeremy, Rossi, Barbara, Principi, Emiliano, Bottari, Cettina, Catalini, Sara, Fainozzi, Danny, Foglia, Laura, Simoncig, Alberto, Matruglio, Alessia, Kurdi, Gabor, Capotondi, Flavio, Pedersoli, Emanuele, Perucchi, Andrea, Piccirilli, Federica, Gessini, Alessandro, Giarola, Marco, Mariotto, Gino, Mukamel, Shaul, Bencivenga, Filippo, Chergui, Majed, and Masciovecchio, Claudio

Subjects
Condensed Matter - Soft Condensed Matter
Abstract

In chemistry, biology and materials science, the ability to access interatomic interactions and their dynamical evolution has become possible with the advent of femtosecond lasers. In particular, the observation of vibrational wave packets via optical (UV-visible-IR) spectroscopies has been a major achievement as it can track the motion of nuclei within the system. However, optical spectroscopies only detect the effect of the interatomic vibrations on the global electronic surfaces. New tuneable, pulsed and polarized sources of short-wavelength radiation, such as X-Ray Free electron lasers, can overcome this limitation, allowing for chemical and, of primary importance in biochemistry, enantiomeric selectivity. This selectivity may be complemented by taking into account the chemical shifts of atoms belonging to different molecular moieties

Published
2020

11. Multiple length-scale control of Boc-protected diphenylalanine aggregates through solvent composition

Author

Catalini, Sara, primary, Bagni, Francesco, additional, Cicchi, Stefano, additional, Di Donato, Mariangela, additional, Iagatti, Alessandro, additional, Lapini, Andrea, additional, Foggi, Paolo, additional, Petrillo, Caterina, additional, Di Michele, Alessandro, additional, Paolantoni, Marco, additional, Schiro, Giorgio, additional, Comez, Lucia, additional, and Paciaroni, Alessandro, additional

Published
2024
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14. Contributors

Author

Banno, Motohiro, primary, Barman, Ishan, additional, Bhargava, Rohit, additional, Bottari, Cettina, additional, Catalini, Sara, additional, Coutaz, Jean-Louis, additional, D’Amico, Francesco, additional, da Silva, Daniel L., additional, De Boni, Leonardo, additional, Dwivedi, Yashashchandra, additional, Fujisawa, Tomotsumi, additional, Gessini, Alessandro, additional, Gupta, V.P., additional, Han, Xiaoxia, additional, Hasselbrink, Eckart, additional, Higham, Anna, additional, Ishibashi, Taka-aki, additional, Iyer, E. Siva Subramaniam, additional, Krajczewski, Jan, additional, Kudelski, Andrzej, additional, Kumar, Vikas, additional, Lee, Yuan-Pern, additional, Maithani, Sanchi, additional, Maity, Abhijit, additional, Masciovecchio, Claudio, additional, Mendonca, Cleber R., additional, Mittal, Anirudh, additional, Mittal, Shachi, additional, Okuno, Masanari, additional, Paidi, Santosh Kumar, additional, Pandey, Rishikesh, additional, Pradhan, Manik, additional, Rossi, Barbara, additional, Schlücker, Sebastian, additional, Shkurinov, Alexander P., additional, Tanabe, Ichiro, additional, Thakur, Surya N., additional, Tsuge, Masashi, additional, Unno, Masashi, additional, Vivas, Marcelo G., additional, Yeh, Kevin, additional, Yui, Hiroharu, additional, and Zhao, Bing, additional

Published
2020
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15. Water–lipid interface in lipidic mesophases with excess water.

Author

Yao, Yang, Catalini, Sara, Foggi, Paolo, and Mezzenga, Raffaele

Abstract

This study investigates the influence of excess water on the lipidic mesophase during the phase transition from diamond cubic phase (Pn3¯m) to reverse hexagonal phase (HII). Using a combination of small angle X-ray scattering (SAXS), broadband dielectric spectroscopy (BDS), and Fourier transform infrared (FTIR) techniques, we explore the dynamics of lipids and their interaction with water during phase transition. Our BDS results reveal three relaxation processes originating from lipids, all of which exhibit a kink during the phase transition. With the excess water, these processes accelerate due to the plasticizing effect of water. Additionally, our results demonstrate that the headgroups in the HII phase are more densely packed than those in the Pn3¯m phase, which agrees with the FTIR results. Meanwhile, we investigate the influence of excess water on the lipid headgroups, the H-bond network of water, the lipid tail, and the interface carbonyl group between the head and tail of the lipid molecule. The results indicate that excess water permeates the lipid interface and forms additional hydrogen bonds with the carbonyl groups. As a result, the headgroups are more flexible in a lipidic mesophase with excess water than those in mesophases without excess water. [ABSTRACT FROM AUTHOR]

Published
2024
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16. Author Correction: Hard X-ray transient grating spectroscopy on bismuth germanate

Author

Rouxel, Jérémy R., Fainozzi, Danny, Mankowsky, Roman, Rösner, Benedikt, Seniutinas, Gediminas, Mincigrucci, Riccardo, Catalini, Sara, Foglia, Laura, Cucini, Riccardo, Döring, Florian, Kubec, Adam, Koch, Frieder, Bencivenga, Filippo, Al Haddad, Andre, Gessini, Alessandro, Maznev, Alexei A., Cirelli, Claudio, Gerber, Simon, Pedrini, Bill, Mancini, Giulia F., Razzoli, Elia, Burian, Max, Ueda, Hiroki, Pamfilidis, Georgios, Ferrari, Eugenio, Deng, Yunpei, Mozzanica, Aldo, Johnson, Philip J. M., Ozerov, Dmitry, Izzo, Maria Grazia, Bottari, Cettina, Arrell, Christopher, Divall, Edwin James, Zerdane, Serhane, Sander, Mathias, Knopp, Gregor, Beaud, Paul, Lemke, Henrik T., Milne, Chris J., David, Christian, Torre, Renato, Chergui, Majed, Nelson, Keith A., Masciovecchio, Claudio, Staub, Urs, Patthey, Luc, and Svetina, Cristian

Published
2021
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19. Hard X-ray transient grating spectroscopy on bismuth germanate

Author

Massachusetts Institute of Technology. Department of Chemistry, Rouxel, Jérémy R., Fainozzi, Danny, Mankowsky, Roman, Rösner, Benedikt, Seniutinas, Gediminas, Mincigrucci, Riccardo, Catalini, Sara, Foglia, Laura, Cucini, Riccardo, Döring, Florian, Kubec, Adam, Koch, Frieder, Bencivenga, Filippo, Haddad, Andre Al, Gessini, Alessandro, Maznev, Alexei A., Cirelli, Claudio, Gerber, Simon, Pedrini, Bill, Mancini, Giulia F., Razzoli, Elia, Burian, Max, Ueda, Hiroki, Pamfilidis, Georgios, Ferrari, Eugenio, Deng, Yunpei, Mozzanica, Aldo, Johnson, Philip J. M., Ozerov, Dmitry, Izzo, Maria Grazia, Bottari, Cettina, Arrell, Christopher, Divall, Edwin James, Zerdane, Serhane, Sander, Mathias, Knopp, Gregor, Beaud, Paul, Lemke, Henrik T., Milne, Chris J., David, Christian, Torre, Renato, Chergui, Majed, Nelson, Keith A., Masciovecchio, Claudio, Staub, Urs, Patthey, Luc, Svetina, Cristian, Massachusetts Institute of Technology. Department of Chemistry, Rouxel, Jérémy R., Fainozzi, Danny, Mankowsky, Roman, Rösner, Benedikt, Seniutinas, Gediminas, Mincigrucci, Riccardo, Catalini, Sara, Foglia, Laura, Cucini, Riccardo, Döring, Florian, Kubec, Adam, Koch, Frieder, Bencivenga, Filippo, Haddad, Andre Al, Gessini, Alessandro, Maznev, Alexei A., Cirelli, Claudio, Gerber, Simon, Pedrini, Bill, Mancini, Giulia F., Razzoli, Elia, Burian, Max, Ueda, Hiroki, Pamfilidis, Georgios, Ferrari, Eugenio, Deng, Yunpei, Mozzanica, Aldo, Johnson, Philip J. M., Ozerov, Dmitry, Izzo, Maria Grazia, Bottari, Cettina, Arrell, Christopher, Divall, Edwin James, Zerdane, Serhane, Sander, Mathias, Knopp, Gregor, Beaud, Paul, Lemke, Henrik T., Milne, Chris J., David, Christian, Torre, Renato, Chergui, Majed, Nelson, Keith A., Masciovecchio, Claudio, Staub, Urs, Patthey, Luc, and Svetina, Cristian

Abstract

Optical-domain transient grating (TG) spectroscopy is a versatile background-free four-wave-mixing technique that is used to probe vibrational, magnetic and electronic degrees of freedom in the time domain1. The newly developed coherent X-ray free-electron laser sources allow its extension to the X-ray regime. X-rays offer multiple advantages for TG: their large penetration depth allows probing the bulk properties of materials, their element specificity can address core excited states, and their short wavelengths create excitation gratings with unprecedented momentum transfer and spatial resolution. Here, we demonstrate TG excitation in the hard X-ray range at 7.1 keV. In bismuth germanate (BGO), the non-resonant TG excitation generates coherent optical phonons detected as a function of time by diffraction of an optical probe pulse. This experiment demonstrates the ability to probe bulk properties of materials and paves the way for ultrafast coherent four-wave-mixing techniques using X-ray probes and involving nanoscale TG spatial periods.

Published
2022

24. Hard X-ray transient grating spectroscopy on bismuth germanate

Author

Rouxel, Jérémy R., primary, Fainozzi, Danny, additional, Mankowsky, Roman, additional, Rösner, Benedikt, additional, Seniutinas, Gediminas, additional, Mincigrucci, Riccardo, additional, Catalini, Sara, additional, Foglia, Laura, additional, Cucini, Riccardo, additional, Döring, Florian, additional, Kubec, Adam, additional, Koch, Frieder, additional, Bencivenga, Filippo, additional, Haddad, Andre Al, additional, Gessini, Alessandro, additional, Maznev, Alexei A., additional, Cirelli, Claudio, additional, Gerber, Simon, additional, Pedrini, Bill, additional, Mancini, Giulia F., additional, Razzoli, Elia, additional, Burian, Max, additional, Ueda, Hiroki, additional, Pamfilidis, Georgios, additional, Ferrari, Eugenio, additional, Deng, Yunpei, additional, Mozzanica, Aldo, additional, Johnson, Philip J. M., additional, Ozerov, Dmitry, additional, Izzo, Maria Grazia, additional, Bottari, Cettina, additional, Arrell, Christopher, additional, Divall, Edwin James, additional, Zerdane, Serhane, additional, Sander, Mathias, additional, Knopp, Gregor, additional, Beaud, Paul, additional, Lemke, Henrik T., additional, Milne, Chris J., additional, David, Christian, additional, Torre, Renato, additional, Chergui, Majed, additional, Nelson, Keith A., additional, Masciovecchio, Claudio, additional, Staub, Urs, additional, Patthey, Luc, additional, and Svetina, Cristian, additional

Published
2021
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34. Hydrogen Bonding and Solvation of a Proline-Based Peptide Model in Salt Solutions

Author

Paolo Foggi, Mariagrazia Tortora, Claudio Masciovecchio, Barbara Rossi, Sara Catalini, Fabio Bruni, Alessandro Gessini, Catalini, Sara, Rossi, Barbara, Tortora, Mariagrazia, Foggi, Paolo, Gessini, Alessandro, Masciovecchio, Claudio, and Bruni, Fabio

Subjects
Circular dichroism, Hydrogen bond, Chemistry, Science, UV resonance Raman, Resonance Raman spectroscopy, Solvation, Paleontology, Tripeptide, hydrogen bonding, Article, peptide, General Biochemistry, Genetics and Molecular Biology, Crystallography, Solvation shell, Space and Planetary Science, Molecule, proline, Conformational isomerism, Ecology, Evolution, Behavior and Systematics
Abstract

The hydrogen bonding of water and water/salt mixtures around the proline-based tripeptide model glycyl-l-prolyl-glycinamide·HCl (GPG-NH2) is investigated here by multi-wavelength UV resonance Raman spectroscopy (UVRR) to clarify the role of ion–peptide interactions in affecting the conformational stability of this peptide. The unique sensitivity and selectivity of the UVRR technique allow us to efficiently probe the hydrogen bond interaction between water molecules and proline residues in different solvation conditions, along with its influence on trans to cis isomerism in the hydrated tripeptide. The spectroscopic data suggest a relevant role played by the cations in altering the solvation shell at the carbonyl site of proline., while the fluoride and chloride anions were found to promote the establishment of the strongest interactions on the C=O site of proline. This latter effect is reflected in the greater stabilization of the trans conformers of the tripeptide in the presence of these specific ions. The molecular view provided by UVRR experiments was complemented by the results of circular dichroism (CD) measurements that show a strong structural stabilizing effect on the β-turn motif of GPG-NH2 observed in the presence of KF as a co-solute.

Published
2021

35. Aqueous solvation of glutathione probed by UV resonance Raman spectroscopy

Author

Sara Catalini, Fabio Bruni, Barbara Rossi, Claudio Masciovecchio, Paolo Foggi, Catalini, Sara, Rossi, Barbara, Foggi, Paolo, Masciovecchio, Claudio, and Bruni, Fabio

Subjects
Materials Chemistry2506 Metals and Alloys, UV resonant Raman spectroscopy, Atomic and Molecular Physics, and Optic, Resonance Raman spectroscopy, 02 engineering and technology, Tripeptide, Condensed Matter Physic, 010402 general chemistry, Photochemistry, 01 natural sciences, chemistry.chemical_compound, Materials Chemistry, Molecule, Amide band, Physical and Theoretical Chemistry, Spectroscopy, Chemistry, Hydrogen bond, Amide bands, Electronic, Optical and Magnetic Material, Solvation, Glutathione, 021001 nanoscience & nanotechnology, Condensed Matter Physics, Peptide aqueous solvation, Atomic and Molecular Physics, and Optics, 0104 chemical sciences, Electronic, Optical and Magnetic Materials, Solvation shell, Hydrogen-bonds network, 0210 nano-technology, Isomerization
Abstract

The specific interactions of water molecules with the tripeptide glutathione are investigated by UV Resonance Raman spectroscopy taking advantage of its sensitivity and selectivity. The peptide-solvent interactions at different chemical sites of glutathione, i.e. the peptide backbone and the side groups of the molecule, are investigated. With the aim of gaining new insights on the mechanism regulating the hydration of glutathione, intimately related to its biological functionality, the spectra of the tripeptide solutions are examined as a function of different concentration, pH and temperature. The Amide and the OH stretching spectral regions result very sensitive to the variations of the explored experimental parameters. Our observations provide a picture of the hydrogen-bonding network around glutathione. The number and the strength of hydrogen bonds increase in the deprotonated form of tripeptide that exhibits also a more marked capacity in decreasing the intermolecular order of water in its hydration shell. According to this view, a progressive reduction in the strength of hydrogen bond interactions on amide sites is probed upon the increment of thermal motion, accompanied by conformational changes involving the trans-cis isomerization of glutathione.

Published
2019

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