Self-consistency, spin-orbit and other advances in the FDMNES code to simulate XANES and RXD experiments

A Graph Neural Network-Based Approach to XANES Data Analysis

The determination of three-dimensional structures (3D structures) is crucial for understanding the correlation between the structural attributes of materials and their functional performance. X-ray absorption near edge structure (XANES) is an indispensable tool to characterize the atomic-scale local 3D structure of the system. Here, we present an approach to simulate XANES based on a customized 3D graph neural network (3DGNN) model, XAS3Dabs, which takes directly the 3D structure of the system as input, and the inherent relation between the fine structure of spectrum and local geometry is considered during the model construction. It turns out to be faster than the traditional XANES fitting method when the simulation approach and XANES optimization algorithm are combined to fit the 3D structure of the given system. The geometric features of the system are included in the weighted message passing block of XAS3Dabs and their importance is investigated. XAS3Dabs model demonstrates superior accuracy in XANES prediction compared to most machine learning models. By extracting graphs constituted by edges related to the absorbing atom, our model reduces redundant information, thereby not only enhancing the model's performance but also improving its robustness across different hyperparameters. XAS3Dabs model can be generalized to simulate the spectra for the systems with the absorber having the designed absorption edge so as to meet the expectations of online data processing. The method is expected to be the key part of the online 3D structure analysis framework for the XAS-related beamlines of high-energy photon source (HEPS) now under construction.

Resolving the Nanostructure of Carbon Nitride-Supported Single-Atom Catalysts

Single-atom catalysts (SACs) are gathering significant attention in chemistry due to their unique properties, offering uniform active site distribution and enhanced selectivity. However, their precise structure often remains unclear, with multiple models proposed in the literature. Understanding the coordination environment of the active site at the atomic level is crucial for explaining catalytic activity. Here, a comprehensive study of SACs made of carbon nitride (CNx) containing isolated nickel atoms is presented. Using a combination of synthesis techniques and characterization methods including Fourier-transform infrared spectroscopy, X-ray absorption spectroscopy (XAS), and density functional theory (DFT) calculations, the local environment of nickel active centers in CNx-supported SACs is investigated. These results challenge conventional structural models and propose a new architecture that better aligns with current experimental evidence. This new structure serves as a foundational step toward a rational approach to catalyst development and can facilitate more precise design and application of these innovative catalysts.

Deconvolution of X-ray natural and magnetic circular dichroism in chiral Dy-ferroborate

Structural chirality and magnetism, when intertwined, can have profound implications on materials properties. Using X-ray imaging and spectroscopic measurements that leverage the natural and magnetic circular dichroic effects present in magnetized chiral crystal structures, we probe the interplay between chirality and magnetism across the field-induced spin-flop transition of Dy ferroborate, DyFe 3 ( BO 3 )4 . Deconvolution of natural and magnetic circular dichroic signals at the Fe K and Dy L2 , 3 absorption edges of the non-centrosymmetric structure was enabled by use of tunable temperature and magnetic field, providing access to element-specific magnetic information across the spin-flop transition. The magnetic response of Fe and Dy sublattices was found to be independent of domain chirality. The chiral domains were robust against both the (chirality preserving) R32 to P31 21/P32 21 structural phase transition at 280 K, and application of magnetic field up to 4 Tesla. A third flavor of X-ray dichroism, magneto-chiral dichroism, was not detected within the accuracy of our measurements. The absence of significant Fe magnetization along the screw, c-axis for the magnetic field strength used in this study, together with non-linear coupling of magnetic field to electric polarization across the spin-flop transition, may hinder observation of magneto-chiral dichroic effects in this system.

Web-CONEXS: an inroad to theoretical X-ray absorption spectroscopy

Accurate analysis of the rich information contained within X-ray spectra usually calls for detailed electronic structure theory simulations. However, density functional theory (DFT), time-dependent DFT and many-body perturbation theory calculations increasingly require the use of advanced codes running on high-performance computing (HPC) facilities. Consequently, many researchers who would like to augment their experimental work with such simulations are hampered by the compounding of nontrivial knowledge requirements, specialist training and significant time investment. To this end, we present Web-CONEXS, an intuitive graphical web application for democratizing electronic structure theory simulations. Web-CONEXS generates and submits simulation workflows for theoretical X-ray absorption and X-ray emission spectroscopy to a remote computing cluster. In the present form, Web-CONEXS interfaces with three software packages: ORCA, FDMNES and Quantum ESPRESSO, and an extensive materials database courtesy of the Materials Project API. These software packages have been selected to model diverse materials and properties. Web-CONEXS has been conceived with the novice user in mind; job submission is limited to a subset of simulation parameters. This ensures that much of the simulation complexity is lifted and preliminary theoretical results are generated faster. Web-CONEXS can be leveraged to support beam time proposals and serve as a platform for preliminary analysis of experimental data.

Area normalization of HERFD-XANES spectra

The normalization of X-ray absorption near-edge structure (XANES) spectra is required for comparing spectral features and extracting quantitative information in analytical techniques such as linear combination analysis, principal component analysis and multivariate curve resolution. Most published data are normalized to the edge-jump, but normalization to the spectral area has also been applied. The latter is particularly attractive if only a small energy range around the absorption can be recorded reliably. Here, the two normalization methods are compared at the L3-edge of Pt, Pd and Rh, and at the Ni K-edge using experimental and calculated spectra. Normalization to the spectral area is found to be a viable approach if the range for the area normalization is sufficiently large.

Emerging Atomistic Modeling Methods for Heterogeneous Electrocatalysis

Heterogeneous electrocatalysis lies at the center of various technologies that could help enable a sustainable future. However, its complexity makes it challenging to accurately and efficiently model at an atomic level. Here, we review emerging atomistic methods to simulate the electrocatalytic interface with special attention devoted to the components/effects that have been challenging to model, such as solvation, electrolyte ions, electrode potential, reaction kinetics, and pH. Additionally, we review relevant computational spectroscopy methods. Then, we showcase several examples of applying these methods to understand and design catalysts relevant to green hydrogen. We also offer experimental views on how to bridge the gap between theory and experiments. Finally, we provide some perspectives on opportunities to advance the field.

L3-edge X-ray spectroscopy of rhodium and palladium compounds

L3-edge high-energy-resolution fluorescence-detection X-ray absorption near-edge structure (XANES) spectra for palladium and rhodium compounds are presented, with focus on their electronic structures. The data are compared with transmission XANES spectra recorded at the K-edge. A correlation between the absorption edge energy and the metal ion oxidation state is not observed. Despite the different filling of the 4d orbitals and different local coordination, the Rh and Pd compounds show remarkably similar spectral shapes. Calculation of the density of states and of the L3-XANES data reproduce the experimental results.

Tracking nuclear motion in single-molecule magnets using femtosecond X-ray absorption spectroscopy

The development of new data storage solutions is crucial for emerging digital technologies. Recently, all-optical magnetic switching has been achieved in dielectrics, proving to be faster than traditional methods. Despite this, single-molecule magnets (SMMs), which are an important class of magnetic materials due to their nanometre size, remain underexplored for ultrafast photomagnetic switching. Herein, we report femtosecond time-resolved K-edge X-ray absorption spectroscopy (TR-XAS) on a Mn(III)-based trinuclear SMM. Exploiting the elemental specificity of XAS, we directly track nuclear dynamics around the metal ions and show that the ultrafast dynamics upon excitation of a crystal-field transition are dominated by a magnetically active Jahn-Teller mode. Our results, supported by simulations, reveal minute bond length changes from 0.01 to 0.05 Å demonstrating the sensitivity of the method. These geometrical changes are discussed in terms of magneto-structural relationships and consequently our results illustrate the importance of TR-XAS for the emerging area of ultrafast molecular magnetism.

Excited-State Identification of a Nickel-Bipyridine Photocatalyst by Time-Resolved X-ray Absorption Spectroscopy

Photoassisted catalysis using Ni complexes is an emerging field for cross-coupling reactions in organic synthesis. However, the mechanism by which light enables and enhances the reactivity of these complexes often remains elusive. Although optical techniques have been widely used to study the ground and excited states of photocatalysts, they lack the specificity to interrogate the electronic and structural changes at specific atoms. Herein, we report metal-specific studies using transient Ni L- and K-edge X-ray absorption spectroscopy of a prototypical Ni photocatalyst, (dtbbpy)Ni(o-tol)Cl (dtb = 4,4'-di-tert-butyl, bpy = bipyridine, o-tol = ortho-tolyl), in solution. We unambiguously confirm via direct experimental evidence that the long-lived (∼5 ns) excited state is a tetrahedral metal-centered triplet state. These results demonstrate the power of ultrafast X-ray spectroscopies to unambiguously elucidate the nature of excited states in important transition-metal-based photocatalytic systems.

Deep Reinforcement Learning Environment Approach Based on Nanocatalyst XAS Diagnostics Graphic Formalization

The most in-demand instrumental methods for new functional nanomaterial diagnostics employ synchrotron radiation, which is used to determine a material's electronic and local atomic structure. The high time and resource costs of researching at international synchrotron radiation centers and the problems involved in developing an optimal strategy and in planning the control of the experiments are acute. One possible approach to solving these problems involves the use of deep reinforcement learning agents. However, this approach requires the creation of a special environment that provides a reliable level of response to the agent's actions. As the physical experimental environment of nanocatalyst diagnostics is potentially a complex multiscale system, there are no unified comprehensive representations that formalize the structure and states as a single digital model. This study proposes an approach based on the decomposition of the experimental system into the original physically plausible nodes, with subsequent merging and optimization as a metagraphic representation with which to model the complex multiscale physicochemical environments. The advantage of this approach is the possibility to directly use the numerical model to predict the system states and to optimize the experimental conditions and parameters. Additionally, the obtained model can form the basic planning principles and allow for the optimization of the search for the optimal strategy with which to control the experiment when it is used as a training environment to provide different abstraction levels of system state reactions.

Interplay between Transition-Metal K-edge XMCD and Magnetism in Prussian Blue Analogs

To disentangle the information contained in transition-metal K-edge X-ray magnetic circular dichroism (XMCD), two series of Prussian blue analogs (PBAs) were investigated as model compounds. The number of 3d electrons and the magnetic orbitals have been varied on both sites of the bimetallic cyanide polymer by combining with the hexacyanoferrate or the hexacyanochromate entities' various divalent metal ions A²⁺ (Mn²⁺, Fe²⁺, Co²⁺, Ni²⁺, and Cu²⁺). These PBA were studied by Fe and Cr X-ray absorption spectroscopy and XMCD. The results, compared to those obtained at the A K-edges in a previous work, show that transition-metal K-edge XMCD is very sensitive to orbital symmetry and can therefore give valuable information on the local structure of the magnetic centers. Expressions of the intensity of the main 1s → 4p contribution to the signal are proposed for all K-edges and all compounds. The results pave the way toward a new tool for molecular materials able to give access to valuable information on the local orientation of the magnetic moments or to better understand the role of 4p orbitals involved in their magnetic properties.

Theoretical Perspective on Operando Spectroscopy of Fluxional Nanocatalysts

Improvements in operando spectroscopy have enabled the catalysis community to investigate the dynamic nature of catalysts under operating conditions with increasing detail. Still, the highly dynamic nature of some catalysts, such as fluxional supported subnano clusters, presents a formidable challenge even for the most state-of-the-art techniques. The reason is that such fluxional catalytic interfaces contain a variety of thermally accessible states. Operando spectroscopies used in catalysis generally fall into two categories: ensemble-based techniques, which provide spectra containing the signals of the entire ensemble of states of the catalyst and are not necessarily dominated by the most active species, and localized techniques, which provide atomistic-level information about the dynamics of active sites in a very small area, which might not include the most active species. Combining many different kinds of techniques can provide detailed insight; however, we propose that effective utilization of specific computational techniques and approaches within the fluxionality paradigm can fill the gap and enable atomistic characterization of the most relevant catalytic sites.

Toward Quantitative Magnetic Information from Transition Metal K-Edge XMCD of Prussian Blue Analogs

Two series of Prussian blue analogs (PBA) were used as model compounds in order to disentangle the information contained in X-ray magnetic circular dichroism (XMCD) at the K-edges of transition metals. The number of 3d electrons on one site of the bimetallic cyanide polymer has been varied by associating to the [Fe(CN)₆]^3- or the [Cr(CN)₆]^3- precursors various divalent metal ions A²⁺ (Mn²⁺, Fe²⁺, Co²⁺, Ni²⁺, and Cu²⁺). The compounds were studied by X-ray diffraction and SQUID magnetometry, as well as by X-ray absorption spectroscopy and XMCD at the K-edges of the A²⁺ transition metal ion. The study shows that the 1s → 4p contribution to the A K-edge XMCD signal can be related to the electronic structure and the magnetic behavior of the probed A²⁺ ion: the shape of the signal to the filling of the 3d orbitals, the sign of the signal to the direction of the magnetic moment with respect to the applied magnetic field, the intensity of the signal to the total spin number S_A, and the area under curve to the Curie constant C_A. The whole study hence demonstrates that PBAs are particularly well-adapted for understanding the information contained in the transition metals K-edge XMCD signals. It also offers new perspectives toward the full disentangling of the information contained in these signals and access to new insights into materials magnetic properties.

Active Site Fluxional Restructuring as a New Paradigm in Triggering Reaction Activity for Nanocluster Catalysis

The rationale of the catalytic activity observed in experiments is a crucial task in fundamental catalysis studies. Efficient catalyst design relies on an accurate understanding of the origin of the activity at the atomic level. Theoretical studies have been widely developed to reach such a fundamental atomic scale understanding of catalytic activity. Current theories ascribe the catalytic activity to the geometric and electronic structure of the active site, in which the geometrical and electronic structure effects are derived from the equilibrium geometry of active sites characterizing the static property of the catalyst; however catalysts, especially in the form of nanoclusters, may present fluxional and dynamic structure under reaction conditions, and the effect of this fluxional behavior is not yet widely recognized. Therefore, this Account will focus on the fluxionality of the active sites, which is driven by thermal fluctuations under finite temperature.Under reaction conditions, nanocluster catalysts can readily restructure, either being promoted to another metastable isomer (named as plastic fluxionality) or presenting ample deformations around their equilibrium geometry (named as elastic fluxionality). This Account summarizes our recent studies on the fluxionality of the nanoclusters and how plastic and elastic fluxionalities play roles in highly efficient reaction pathways. Our results show that the low energy metastable isomers formed by plastic fluxionality can manifest high reactivity despite their minor occurrence probability in the mixture of catalyst isomers. In the end, the highly active metastable isomer may dominate the total observed reactivity. In addition, the isomerization between the global minimum structure and the highly active metastable isomer can be a central step in catalytic transformations in order to circumvent some difficult reaction steps and may govern the overall mechanism. In addition, the thermal fluctuation driven elastic fluxionality is also found to play a key role, complementary to plastic fluxionality. The elastic fluxionality creates substantial structural deformations of the active site, and these deformed geometries enable low activation energies and high catalytic activity, which cannot be found from the static equilibrium geometry of the catalyst. A dedicated global activity search algorithm is proposed to search for the optimal reaction pathway on fluxional nanoclusters. In summary, our studies demonstrate that thermal-driven fluxionality provides a different paradigm for understanding the high activity of nanoclusters under reaction conditions beyond the static description of geometric and electronic structure. We first summarize our previous results and then provide a perspective for further studies on how to investigate and take the advantage of the fluxional geometry of nanoclusters. We will defend in this Account that the static picture for the active site is not complete and might miss critical reaction pathways that are highly efficient and only open after thermally induced restructuring of the active site.

The Application of HEXS and HERFD XANES for Accurate Structural Characterisation of Actinide Nanomaterials: The Case of ThO2

The structural characterisation of actinide nanoparticles (NPs) is of primary importance and hard to achieve, especially for non-homogeneous samples with NPs less than 3 nm. By combining high-energy X-ray scattering (HEXS) and high-energy-resolution fluorescence-detected X-ray absorption near-edge structure (HERFD XANES) analysis, we have characterised for the first time both the short- and medium-range order of ThO2 NPs obtained by chemical precipitation. By using this methodology, a novel insight into the structures of NPs at different stages of their formation has been achieved. The pair distribution function revealed a high concentration of ThO2 small units similar to thorium hexamer clusters mixed with 1 nm ThO2 NPs in the initial steps of formation. Drying the precipitates at around 150 °C promoted the recrystallisation of the smallest units into more thermodynamically stable ThO2 NPs. HERFD XANES analysis at the thorium M4 edge, a direct probe for f states, showed variations that we have correlated with the breakdown of the local symmetry around the thorium atoms, which most likely concerns surface atoms. Together, HEXS and HERFD XANES are a powerful methodology for investigating actinide NPs and their formation mechanism.

Ternary Sn-Ti-O Electrocatalyst Boosts the Stability and Energy Efficiency of CO2 Reduction

Simultaneously improving energy efficiency (EE) and material stability in electrochemical CO₂ conversion remains an unsolved challenge. Among a series of ternary Sn-Ti-O electrocatalysts, 3D ordered mesoporous (3DOM) Sn_0.3 Ti_0.7 O₂ achieves a trade-off between active-site exposure and structural stability, demonstrating up to 71.5 % half-cell EE over 200 hours, and a 94.5 % Faradaic efficiency for CO at an overpotential as low as 430 mV. DFT and X-ray absorption fine structure analyses reveal an electron density reconfiguration in the Sn-Ti-O system. A downshift of the orbital band center of Sn and a charge depletion of Ti collectively facilitate the dissociative adsorption of the desired intermediate COOH* for CO formation. It is also beneficial in maintaining a local alkaline environment to suppress H₂ and formate formation, and in stabilizing oxygen atoms to prolong durability. These findings provide a new strategy in materials design for efficient CO₂ conversion and beyond.

X-ray absorption linear dichroism at the Ti K-edge of rutile (001) TiO2 single crystal

X-ray absorption linear dichroism of rutile TiO2 at the Ti K-edge provides information about the electronic states involved in the pre-edge transitions. Here, linear dichroism with high energy resolution is analyzed in combination with ab initio finite difference method calculations and spherical tensor analysis. It provides an assignment of the three pre-edge peaks beyond the octahedral crystal field splitting approximation and estimates the spatial extension of the corresponding final states. It is then discussed for the first time the X-ray absorption (XAS) of pentacoordinated titanium atoms due to oxygen vacancies and it is found that, similarly to anatase TiO2, rutile is expected to exhibit a transition on the low-energy side of peak A3. Its apparent absence in the experiment is related to the degree of p-d orbital mixing which is small in rutile due to its centrosymmetric point group. A recent XAS linear dichroism study on anatase TiO2 single crystals has shown that peak A2 has an intrinsic origin and is due to a quadrupolar transition to the 3d energy levels. In rutile, due to its centrosymmetric point group, the corresponding peak A2 has a small dipole moment explaining the weak transition. The results are confronted with recent picosecond X-ray absorption spectroscopy on rutile TiO2 nanoparticles.

Proposal of X-ray absorption spectroscopy and magnetic circular dichroism using broadband free-electron lasers

X-ray free-electron lasers (XFELs) have been widely used for applications such as X-ray crystallography and magnetic spin probes because of their unprecedented performance. Recently, time-resolved X-ray magnetic circular dichroism (XMCD) with ultrafast XFEL pulses have made it possible to achieve an instantaneous view of atomic de-excitation. However, owing to the narrow bandwidth and coherence of XFELs, X-ray absorption spectroscopy (XAS) and XMCD are time- and effort-consuming for both machine scientists and users of XFELs. In this work, an efficient scheme using a broadband XFEL pulse and single-shot X-ray spectrometer is proposed, in which the XAS and XMCD measurements can be accomplished with the same machine conditions. An evolutionary multi-objective optimization algorithm is used to maximize the XFEL bandwidth offered by the Shanghai Soft X-ray FEL user facility without additional hardware. A numerical example using MnO is demonstrated, showing that, by using approximately 1000 consecutive XFEL shots with a central photon energy of 650 eV and full bandwidth of 4.4%, precise spectral measurements for XAS and XMCD can be achieved. Additional considerations related to single-shot XAS and XMCD are discussed.

Ab Initio Study of Covalency in the Ground versus Core-Excited States and X-ray Absorption Spectra of Actinide Complexes

Relativistic multireference ab initio wave function calculations within the restricted active space (RAS) framework were performed to calculate metal and ligand X-ray absorption (XAS) near-edge spectroscopy (XANES) intensities for the metal M_4,5 edges of [PuO₂(H₂O)₅]²⁺, [An^VIO₂]²⁺ (An = U, Np, Pu), and [AmCl₆]^3- and the Cl K edge of the Am complex. The extent of An(5f)-ligand bonding was determined via natural localized molecular orbital analyses of the relevant spin-orbit coupled multireference states. The calculated spectra are in good agreement with experiments and allow a detailed assignment of the observed spectral features. The XANES M_4,5-edge spectra are representative of the actinide orbital covalency in the probed core-excited states, which may be different from the ground-state covalency. An assignment of ground-state An orbital covalency based on XAS spectra should therefore be made with caution.

Band Filling Control of the Dzyaloshinskii-Moriya Interaction in Weakly Ferromagnetic Insulators

We observe and explain theoretically a dramatic evolution of the Dzyaloshinskii-Moriya interaction (DMI) in the series of isostructural weak ferromagnets, MnCO_{3}, FeBO_{3}, CoCO_{3}, and NiCO_{3}. The sign of the interaction is encoded in the phase of the x-ray magnetic diffraction amplitude, observed through interference with resonant quadrupole scattering. We find very good quantitative agreement with first-principles electronic structure calculations, reproducing both sign and magnitude through the series, and propose a simplified "toy model" to explain the change in sign with 3d shell filling. The model gives insight into the evolution of the DMI in Mott and charge transfer insulators.

Alternative difference analysis scheme combining R-space EXAFS fit with global optimization XANES fit for X-ray transient absorption spectroscopy

Time-resolved X-ray absorption spectroscopy (TR-XAS), based on the laser-pump/X-ray-probe method, is powerful in capturing the change of the geometrical and electronic structure of the absorbing atom upon excitation. TR-XAS data analysis is generally performed on the laser-on minus laser-off difference spectrum. Here, a new analysis scheme is presented for the TR-XAS difference fitting in both the extended X-ray absorption fine-structure (EXAFS) and the X-ray absorption near-edge structure (XANES) regions. R-space EXAFS difference fitting could quickly provide the main quantitative structure change of the first shell. The XANES fitting part introduces a global non-derivative optimization algorithm and optimizes the local structure change in a flexible way where both the core XAS calculation package and the search method in the fitting shell are changeable. The scheme was applied to the TR-XAS difference analysis of Fe(phen)₃ spin crossover complex and yielded reliable distance change and excitation population.