On the equivalence of LIST and DIIS methods for convergence acceleration

Self-consistent field extrapolation methods play a pivotal role in quantum chemistry and electronic structure theory. We here demonstrate the mathematical equivalence between the recently proposed family of LIST methods [J. Chem. Phys. 134, 241103 (2011); J. Chem. Theory Comput. 7, 3045 (2011)] with Pulay's DIIS [Chem. Phys. Lett. 73, 393 (1980)]. Our results also explain the differences in performance among the various LIST methods

Actinide chemistry using singlet-paired coupled cluster and its combinations with density functionals

Singlet-paired coupled cluster doubles (CCD0) is a simplification of CCD that relinquishes a fraction of dynamic correlation in order to be able to describe static correlation. Combinations of CCD0 with density functionals that recover specifically the dynamic correlation missing in the former have also been developed recently. Here, we assess the accuracy of CCD0 and CCD0+DFT (and variants of these using Brueckner orbitals) as compared to well-established quantum chemical methods for describing ground-state properties of singlet actinide molecules. The $f^0$ actinyl series (UO$_2^{2+}$, NpO$_2^{2+}$, PuO$_2^{2+}$), the isoelectronic NUN, and Thorium (ThO, ThO$^{2+}$) and Nobelium (NoO, NoO$_2$) oxides are studied.Comment: 8 page

Comparison of self-consistent field convergence acceleration techniques

The recently proposed ADIIS and LIST methods for accelerating self-consistent field (SCF) convergence are compared to the previously proposed energy-DIIS (EDIIS) + DIIS technique. We here show mathematically that the ADIIS functional is identical to EDIIS for Hartree-Fock wavefunctions. Convergence failures of EDIIS + DIIS reported in the literature are not reproduced with our codes. We also show that when correctly implemented, the EDIIS + DIIS method is generally better than the LIST methods, at least for the cases previously examined in the literature. We conclude that, among the family of DIIS methods, EDIIS + DIIS remains the method of choice for SCF convergence acceleration

Capturing static and dynamic correlations by a combination of projected Hartree-Fock and density functional theories

This paper explores the possibility of combining projected Hartree-Fock and density functional theories for treating static and dynamic correlations in molecular systems with mean-field computational cost. The combination of spin-projected unrestricted Hartree-Fock (SUHF) with the TPSS correlation functional (SUHF+TPSS) yields excellent results for non-metallic molecular dissociations and singlet-triplet splittings. However, SUHF+TPSS fails to provide the qualitatively correct dissociation curve for the notoriously difficult case of the chromium dimer. By tuning the TPSS correlation parameters and adding complex conjugation symmetry breaking and restoration to SUHF, the right curve shape for Cr2 can be obtained; unfortunately, such a combination is found to lead to overcorrelation in the general case

Reaction Mechanism of the Selective Reduction of CO2_2 to CO by a Tetraaza [CoII^\text{II}N4_4H]2+^{2+} Complex in the Presence of Protons

The tetraaza [Co$^\text{II}$N$_4$H]$^{2+}$ complex (\textbf{1}) is remarkable for its ability to selectively reduce CO$_2$ to CO with 45\% Faradaic efficiency and a CO to H$_2$ ratio of 3:2. We employ density functional theory (DFT) to determine the reasons behind the unusual catalytic properties of \textbf{1} and the most likely mechanism for CO$_2$ reduction. The selectivity for CO$_2$ over proton reduction is explained by analyzing the catalyst's affinity for the possible ligands present under typical reaction conditions: acetonitrile, water, CO$_2$, and bicarbonate. After reduction of the catalyst by two electrons, formation of [Co$^\text{I}$N$_4$H]$^{+}$-CO$_{2}^{-}$ is strongly favored. Based on thermodynamic and kinetic data, we establish that the only likely route for producing CO from here consists of a protonation step to yield [Co$^\text{I}$N$_4$H]$^{+}$-CO$_{2}$H, followed by reaction with CO$_2$ to form [Co$^\text{II}$N$_4$H]$^{2+}$-CO and bicarbonate. This conclusion corroborates the idea of a direct role of CO$_2$ as a Lewis acid to assist in {C-O} bond dissociation, a conjecture put forward by other authors to explain recent experimental observations. The pathway to formic acid is predicted to be forbidden by high activation barriers, in accordance with the products that are known to be generated by \textbf{1}. Calculated physical observables such as standard reduction potentials and the turnover frequency for our proposed catalytic cycle are in agreement with available experimental data reported in the literature. The mechanism also makes a prediction that may be experimentally verified: that the rate of CO formation should increase linearly with the partial pressure of CO$_2$.Comment: 8 pages, 2 figure

Conformational Preferences of trans-1,2- and cis-1,3- Cyclohexanedicarboxylic Acids in Water and Dimethyl Sulfoxide as a Function of the Ionization State As Determined from NMR Spectroscopy and Density Functional Theory Quantum Mechanical Calculations

The populations of diaxial (aa) and diequatorial (ee) conformers of trans-1,2- and cis-1,3-cyclohexanedicarboxylic acids (CDCAs; 1 and 2, respectively) and their salts were determined in water and dimethyl sulfoxide (DMSO) solutions from vicinal proton–proton NMR J couplings (3J_(HH)). Optimized geometries and free energies for these compounds were obtained at the M06-2X/cc-pVTZ(-f)++ level. Although carboxylic acid groups in cyclohexane rings are generally believed to be far more stable (~2 kcal/mol) in equatorial than axial positions, this investigation demonstrated that an aa conformation (normally assumed to be completely insignificant for these compounds) can be favored depending on the medium and ionization state: strong ee preferences (>90%) were observed in water and DMSO for both diacids and their salts, except for the dianion of 1 in DMSO, which was found to be substantially aa (~57%). The possibility of intramolecular hydrogen bonding (H-bonding) was also investigated; the ratios of the ionization constants (K_1/K_2) indicated an absence of intramolecular H-bonding because K_1/K_2 « 10^4 (a standard criterion for non-H-bonding in dicarboxylic acids) for both 1 and 2 in water and also for 2 in DMSO. For 1, K_1/K_2 increased drastically in DMSO (K_1/K_2 = 4 × 10^6), where ^3J_(HH) and the ratio K_1/K_E = 10, K_E being the acidity constant of the monomethyl ester of 1, indicated the formation of an intramolecular H-bond for the monoanion in this solvent. An explanation for the observation of compact dianions in solution in terms of the generalized Born equation is also provided

Species-specific metabolic reprogramming in human and mouse microglia during inflammatory pathway induction

Metabolic reprogramming is a hallmark of the immune cells in response to inflammatory stimuli. This metabolic process involves a switch from oxidative phosphorylation (OXPHOS) to glycolysis or alterations in other metabolic pathways. However, most of the experimental findings have been acquired in murine immune cells, and little is known about the metabolic reprogramming of human microglia. In this study, we investigate the transcriptomic, proteomic, and metabolic profiles of mouse and iPSC-derived human microglia challenged with the TLR4 agonist LPS. We demonstrate that both species display a metabolic shift and an overall increased glycolytic gene signature in response to LPS treatment. The metabolic reprogramming is characterized by the upregulation of hexokinases in mouse microglia and phosphofructokinases in human microglia. This study provides a direct comparison of metabolism between mouse and human microglia, highlighting the species-specific pathways involved in immunometabolism and the importance of considering these differences in translational research.</p

Evaluación de métodos de extracción de prolina como indicador de osmoprotección en dos especies de la familia chenopodiaceae.

El aumento de sales en los suelos representa una notable amenaza para la supervivencia de las plantas, y repercute consecuentemente en los niveles agroalimentarios, disminuyendo la capacidad de producción y cosecha en los suelos agrícolas generando grandes pérdidas, tanto económicas, como biológicas considerando las áreas de cultivo. En la presente investigación se determinó mediante espectrofotometría de luz visible, el contenido de prolina libre en las hojas, tallos y raíces de Suaeda nigra y Atriplex canescens, especies de la familia Chenopodiaceae, extraída por diferentes métodos. Los valores promedio del contenido de este aminoácido para ambas especies van de 25.614 a 2.457 µmoles/mg para S. nigra y A. canescensrespectivamente. Los métodos de extracción no influyeron en el contenido de prolina de S. nigra, mientras que en A. canescens, cuando el extracto fue obtenido por el método de macerado más sonicado con dilución previa, los resultados son más altos y estadísticamente diferentes a los obtenidos cuando la muestra fue extraída únicamente por el método de sonicado y con dilución posterior