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result(s) for
"Nunes J Pedro F"
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Imaging CF3I conical intersection and photodissociation dynamics with ultrafast electron diffraction
by
Weathersby, Stephen
,
Li, Zheng
,
Zhu, Xiaolei
in
Bifurcations
,
Chemical reactions
,
Diffraction
2018
Motion picture of a conical intersectionIn most chemical reactions, electrons move earlier and faster than nuclei. It is therefore common to model reactions by using potential energy surfaces that depict nuclear motion in a particular electronic state. However, in certain cases, two such surfaces connect in a conical intersection that mingles ultrafast electronic and nuclear rearrangements. Yang et al. used electron diffraction to obtain time-resolved images of CF3I molecules traversing a conical intersection in the course of photolytic cleavage of the C–I bond (see the Perspective by Fielding).Science, this issue p. 64; see also p. 30Conical intersections play a critical role in excited-state dynamics of polyatomic molecules because they govern the reaction pathways of many nonadiabatic processes. However, ultrafast probes have lacked sufficient spatial resolution to image wave-packet trajectories through these intersections directly. Here, we present the simultaneous experimental characterization of one-photon and two-photon excitation channels in isolated CF3I molecules using ultrafast gas-phase electron diffraction. In the two-photon channel, we have mapped out the real-space trajectories of a coherent nuclear wave packet, which bifurcates onto two potential energy surfaces when passing through a conical intersection. In the one-photon channel, we have resolved excitation of both the umbrella and the breathing vibrational modes in the CF3 fragment in multiple nuclear dimensions. These findings benchmark and validate ab initio nonadiabatic dynamics calculations.
Journal Article
Direct observation of ultrafast hydrogen bond strengthening in liquid water
2021
Water is one of the most important, yet least understood, liquids in nature. Many anomalous properties of liquid water originate from its well-connected hydrogen bond network
1
, including unusually efficient vibrational energy redistribution and relaxation
2
. An accurate description of the ultrafast vibrational motion of water molecules is essential for understanding the nature of hydrogen bonds and many solution-phase chemical reactions. Most existing knowledge of vibrational relaxation in water is built upon ultrafast spectroscopy experiments
2
–
7
. However, these experiments cannot directly resolve the motion of the atomic positions and require difficult translation of spectral dynamics into hydrogen bond dynamics. Here, we measure the ultrafast structural response to the excitation of the OH stretching vibration in liquid water with femtosecond temporal and atomic spatial resolution using liquid ultrafast electron scattering. We observed a transient hydrogen bond contraction of roughly 0.04 Å on a timescale of 80 femtoseconds, followed by a thermalization on a timescale of approximately 1 picosecond. Molecular dynamics simulations reveal the need to treat the distribution of the shared proton in the hydrogen bond quantum mechanically to capture the structural dynamics on femtosecond timescales. Our experiment and simulations unveil the intermolecular character of the water vibration preceding the relaxation of the OH stretch.
Liquid ultrafast electron scattering measures structural responses in liquid water with femtosecond temporal and atomic spatial resolution to reveal a transient hydrogen bond contraction then thermalization preceding relaxation of the OH stretch.
Journal Article
Spectroscopic and structural probing of excited-state molecular dynamics with time-resolved photoelectron spectroscopy and ultrafast electron diffraction
by
Wolf, Thomas J. A
,
Nunes, J. Pedro F
,
Li, Renkai
in
Adiabatic approximation
,
ATOMIC AND MOLECULAR PHYSICS
,
Atomic properties
2020
Pump-probe measurements aim to capture the motion of electrons and nuclei on their natural timescales (femtoseconds to attoseconds) as chemical and physical transformations take place, effectively making “molecular movies” with short light pulses. However, the quantum dynamics of interest are filtered by the coordinate-dependent matrix elements of the chosen experimental observable. Thus, it is only through a combination of experimental measurements and theoretical calculations that one can gain insight into the internal dynamics. Here, we report on a combination of structural (relativistic ultrafast electron diffraction, or UED) and spectroscopic (time-resolved photoelectron spectroscopy, or TRPES) measurements to follow the coupled electronic and nuclear dynamics involved in the internal conversion and photodissociation of the polyatomic molecule, diiodomethane (CH2I2). While UED directly probes the 3D nuclear dynamics, TRPES only serves as an indirect probe of nuclear dynamics via Franck-Condon factors, but it is sensitive to electronic energies and configurations, via Koopmans’ correlations and photoelectron angular distributions. These two measurements are interpreted with trajectory surface hopping calculations, which are capable of simulating the observables for both measurements from the same dynamics calculations. The measurements highlight the nonlocal dynamics captured by different groups of trajectories in the calculations. For the first time, both UED and TRPES are combined with theory capable of calculating the observables in both cases, yielding a direct view of the structural and nonadiabatic dynamics involved.
Journal Article
Imaging the ring opening reaction of 1,3-cyclohexadiene with MeV ultrafast electron diffraction
by
Nunes, J. Pedro. F.
,
Parrish, Robert M.
,
Veccione, Theodore
in
Electron diffraction
,
Electrons
,
Ring opening
2019
We resolve the structural dynamics of the ultrafast photoinduced ring opening reaction of 1,3-cyclohexadiene in space and time employing megaelectronvolt gas phase ultrafast electron diffraction. We, furthermore, observe coherent large amplitude motions of the photoproduct.
Journal Article
Capturing the generation and structural transformations of molecular ions
2024
Molecular ions are ubiquitous and play pivotal roles
1
–
3
in many reactions, particularly in the context of atmospheric and interstellar chemistry
4
–
6
. However, their structures and conformational transitions
7
,
8
, particularly in the gas phase, are less explored than those of neutral molecules owing to experimental difficulties. A case in point is the halonium ions
9
–
11
, whose highly reactive nature and ring strain make them short-lived intermediates that are readily attacked even by weak nucleophiles and thus challenging to isolate or capture before they undergo further reaction. Here we show that mega-electronvolt ultrafast electron diffraction (MeV-UED)
12
–
14
, used in conjunction with resonance-enhanced multiphoton ionization, can monitor the formation of 1,3-dibromopropane (DBP) cations and their subsequent structural dynamics forming a halonium ion. We find that the DBP
+
cation remains for a substantial duration of 3.6 ps in aptly named ‘dark states’ that are structurally indistinguishable from the DBP electronic ground state. The structural data, supported by surface-hopping simulations
15
and ab initio calculations
16
, reveal that the cation subsequently decays to
iso
-DBP
+
, an unusual intermediate with a four-membered ring containing a loosely bound
17
,
18
bromine atom, and eventually loses the bromine atom and forms a bromonium ion with a three-membered-ring structure
19
. We anticipate that the approach used here can also be applied to examine the structural dynamics of other molecular ions and thereby deepen our understanding of ion chemistry.
The use of mega-electronvolt ultrafast electron diffraction combined with resonance-enhanced multiphoton ionization yields data that can reveal the formation and subsequent structural relaxation of a molecular ion on an ultrafast timescale.
Journal Article
Imaging CF 3 I conical intersection and photodissociation dynamics with ultrafast electron diffraction
by
Weathersby, Stephen
,
Li, Zheng
,
Heinz, Tony F.
in
INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CHEMISTRY
2018
In most chemical reactions, electrons move earlier and faster than nuclei. It is therefore common to model reactions by using potential energy surfaces that depict nuclear motion in a particular electronic state. However, in certain cases, two such surfaces connect in a conical intersection that mingles ultrafast electronic and nuclear rearrangements. Yang
et al.
used electron diffraction to obtain time-resolved images of CF
3
I molecules traversing a conical intersection in the course of photolytic cleavage of the C–I bond (see the Perspective by Fielding).
Science
, this issue p.
64
; see also p.
30
Electron diffraction reveals the interplay of electronic and nuclear motion during light-induced scission of a C–I bond.
Conical intersections play a critical role in excited-state dynamics of polyatomic molecules because they govern the reaction pathways of many nonadiabatic processes. However, ultrafast probes have lacked sufficient spatial resolution to image wave-packet trajectories through these intersections directly. Here, we present the simultaneous experimental characterization of one-photon and two-photon excitation channels in isolated CF
3
I molecules using ultrafast gas-phase electron diffraction. In the two-photon channel, we have mapped out the real-space trajectories of a coherent nuclear wave packet, which bifurcates onto two potential energy surfaces when passing through a conical intersection. In the one-photon channel, we have resolved excitation of both the umbrella and the breathing vibrational modes in the CF
3
fragment in multiple nuclear dimensions. These findings benchmark and validate ab initio nonadiabatic dynamics calculations.
Journal Article
Rehybridization dynamics into the pericyclic minimum of an electrcyclic reaction imaged in real-time
by
Sanchez, David M
,
Wolf, Thomas J A
,
Nunes, J Pedro F
in
Electron diffraction
,
Excitation
,
Internal conversion
2022
Electrocyclic reactions are characterized by the concerted formation and cleavage of both {\\sigma} and {\\pi} bonds through a cyclic structure. This structure is known as a pericyclic transition state for thermal reactions and a pericyclic minimum in the excited state for photochemical reactions. However, the structure of the pericyclic geometry has yet to be observed experimentally. We use a combination of ultrafast electron diffraction and excited state wavepacket simulations to image structural dynamics through the pericyclic minimum of a photochemical electrocyclic ring-opening reaction in the molecule {\\alpha}-terpinene. The structural motion into the pericyclic minimum is dominated by rehybridization of two carbon atoms, which is required for the transformation from two to three conjugated {\\pi} bonds. The {\\sigma} bond dissociation largely happens after internal conversion from the pericyclic minimum to the electronic ground state. These findings may be transferrable to electrocyclic reactions in general.
Structure retrieval in liquid-phase electron scattering
by
Wolf, Thomas J A
,
Nunes, J Pedro F
,
Deponte, Daniel P
in
Carbon tetrachloride
,
Chloroform
,
Dichloromethane
2020
Electron scattering on liquid samples has been enabled recently by the development of ultrathin liquid sheet technologies. The data treatment of liquid-phase electron scattering has been mostly reliant on methodologies developed for gas electron diffraction, in which theoretical inputs and empirical fittings are often needed to account for the atomic form factor and remove the inelastic scattering background. The accuracy and impact of these theoretical and empirical inputs has not been benchmarked for liquid-phase electron scattering data. In this work, we present an alternative data treatment method that requires neither theoretical inputs nor empirical fittings. The merits of this new method are illustrated through the retrieval of real-space molecular structure from experimental electron scattering patterns of liquid water, carbon tetrachloride, chloroform, and dichloromethane.
The Trehalose 6-Phosphate/SnRK1 Signaling Pathway Primes Growth Recovery following Relief of Sink Limitation
by
O'Hara, Liam E.
,
Primavesi, Lucia F.
,
Wingler, Astrid
in
Arabidopsis - drug effects
,
Arabidopsis - growth & development
,
Arabidopsis - metabolism
2013
Trehalose 6-P (T6P) is a sugar signal in plants that inhibits SNF1-related protein kinase, SnRK1, thereby altering gene expression and promoting growth processes. This provides a model for the regulation of growth by sugar. However, it is not known how this model operates under sink-limited conditions when tissue sugar content is uncoupled from growth. To test the physiological importance of this model, T6P, SnRK1 activities, sugars, gene expression, and growth were measured in Arabidopsis (Arabidopsis thaliana) seedlings after transfer to cold or zero nitrogen compared with sugar feeding under optimal conditions. Maximum in vitro activities of SnRK1 changed little, but T6P accumulated up to 55-fold, correlating with tissue Sue content in all treatments. SnRK1-induced and -repressed marker gene expression strongly related to T6P above and below a threshold of 0.3 to 0.5 nmol T6P g⁻¹ fresh weight close to the dissociation constant (4 µM) of the T6P/SnRK1 complex. This occurred irrespective of the growth response to Sue. This implies that T6P is not a growth signal per se, but through SnRK1, T6P primes gene expression for growth in response to Sue accumulation under sink-limited conditions. To test this hypothesis, plants with genetically decreased T6P content and SnRK1 overexpression were transferred from cold to warm to analyze the role of T6P/SnRK1 in relief of growth restriction. Compared with the wild type, these plants were impaired in immediate growth recovery. It is concluded that the T6P/SnRK1 signaling pathway responds to Sue induced by sink restriction that enables growth recovery following relief of limitations such as low temperature.
Journal Article
The respiratory syncytial virus vaccine landscape: lessons from the graveyard and promising candidates
by
Greenough, Anne
,
Knezevic, Ivana
,
Langedijk, Annefleur C
in
Adults
,
Antibodies, Monoclonal - immunology
,
Antibodies, Viral - immunology
2018
The global burden of disease caused by respiratory syncytial virus (RSV) is increasingly recognised, not only in infants, but also in older adults (aged ≥65 years). Advances in knowledge of the structural biology of the RSV surface fusion glycoprotein have revolutionised RSV vaccine development by providing a new target for preventive interventions. The RSV vaccine landscape has rapidly expanded to include 19 vaccine candidates and monoclonal antibodies (mAbs) in clinical trials, reflecting the urgency of reducing this global health problem and hence the prioritisation of RSV vaccine development. The candidates include mAbs and vaccines using four approaches: (1) particle-based, (2) live-attenuated or chimeric, (3) subunit, (4) vector-based. Late-phase RSV vaccine trial failures highlight gaps in knowledge regarding immunological protection and provide lessons for future development. In this Review, we highlight promising new approaches for RSV vaccine design and provide a comprehensive overview of RSV vaccine candidates and mAbs in clinical development to prevent one of the most common and severe infectious diseases in young children and older adults worldwide.
Journal Article