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Mitochondria form tubular networks that undergo coordinated cycles of fission and fusion. Emerging evidence suggests that a direct yet unresolved interaction of the mechanoenzymatic GTPase dynamin-related protein 1 (Drp1) with mitochondrial outer membrane-localized cardiolipin (CL), externalized under stress conditions including mitophagy, catalyzes essential mitochondrial hyperfragmentation. Here, using a comprehensive set of structural, biophysical, and cell biological tools, we have uncovered a CL-binding motif (CBM) conserved between the Drp1 variable domain (VD) and the unrelated ADP/ATP carrier (AAC/ANT) that intercalates into the membrane core to effect specific CL interactions. CBM mutations that weaken VD-CL interactions manifestly impair Drp1-dependent fission under stress conditions and induce "donut" mitochondria formation. Importantly, VD membrane insertion and GTP-dependent conformational rearrangements mediate only transient CL nonbilayer topological forays and high local membrane constriction, indicating that Drp1-CL interactions alone are insufficient for fission. Our studies establish the structural and mechanistic bases of Drp1-CL interactions in stress-induced mitochondrial fission.

Lipid model membranes are important tools in the study of biophysical processes such as lipid self-assembly and lipid-lipid interactions in cell membranes. The use of model systems to adequate and modulate complexity helps in the understanding of many events that occur in cellular membranes, that exhibit a wide variety of components, including lipids of different subfamilies (e.g., phospholipids, sphingolipids, sterols…), in addition to proteins and sugars. The capacity of lipids to segregate by themselves into different phases at the nanoscale (nanodomains) is an intriguing feature that is yet to be fully characterized in vivo due to the proposed transient nature of these domains in living systems. Model lipid membranes, instead, have the advantage of (usually) greater phase stability, together with the possibility of fully controlling the system lipid composition. Atomic force microscopy (AFM) is a powerful tool to detect the presence of meso- and nanodomains in a lipid membrane. It also allows the direct quantification of nanomechanical resistance in each phase present. In this review, we explore the main kinds of lipid assemblies used as model membranes and describe AFM experiments on model membranes. In addition, we discuss how these assemblies have extended our knowledge of membrane biophysics over the last two decades, particularly in issues related to the variability of different model membranes and the impact of supports/cytoskeleton on lipid behavior, such as segregated domain size or bilayer leaflet uncoupling.

Familial hypercholesterolaemia (FH) is an autosomal disorder of lipid metabolism presenting with increased cardiovascular risk. LDLR mutations are the cause of disease in 90% of the cases but functional studies have only been performed for about 15% of all LDLR variants. In the Portuguese Familial Hypercholesterolemia Study (PFHS), 142 unique LDLR alterations were identified and 44 (30%) lack functional characterization. The aim of the present work is to increase evidence for variant classification by performing functional characterization of 13 LDLR missense alterations found in Portugal and in 20 other countries.

Broadly neutralizing antibodies (bnAbs) against HIV-1 are frequently associated with the presence of autoreactivity/polyreactivity, a property that can limit their use as therapeutic agents. The bnAb 4E10, targeting the conserved Membrane proximal external region (MPER) of HIV-1, displays almost pan-neutralizing activity across globally circulating HIV-1 strains but exhibits nonspecific off-target interactions with lipid membranes. The hydrophobic apex of the third complementarity-determining region of the heavy chain (CDRH3) loop, which is essential for viral neutralization, critically contributes to this detrimental effect. Here, we have replaced the aromatic/hydrophobic residues from the apex of the CDRH3 of 4E10 with a single aromatic molecule through chemical modification to generate a variant that preserves the neutralization potency and breadth of 4E10 but with reduced autoreactivity. Collectively, our study suggests that the localized accumulation of aromaticity by chemical modification provides a pathway to ameliorate the adverse effects triggered by the CDRH3 of anti-HIV-1 MPER bnAbs.

Rhodopsin (RHO) is a light-sensitive pigment in the retina and the main prototypical protein of the G-protein-coupled receptor (GCPR) family. After receiving a light stimulus, RHO and its cofactor retinylidene undergo a series of structural changes that initiate an intricate transduction mechanism. Along with RHO, other partner proteins play key roles in the signaling pathway. These include transducin, a GTPase, kinases that phosphorylate RHO, and arrestin (Arr), which ultimately stops the signaling process and promotes RHO regeneration. A large number of RHO genetic mutations may lead to very severe retinal dysfunction and eventually to impaired dark adaptation disease called autosomal dominant retinitis pigmentosa (adRP). In this study, we used molecular dynamics (MD) simulations to evaluate the different behaviors of the dimeric form of wild-type RHO (WT dRHO) and its mutant at position 135 of arginine to leucine (dR135L), both in the free (noncomplexed) and in complex with the transducin-like protein (Gtl). Gtl is a heterotrimeric model composed of a mixture of human and bovine G proteins. Our calculations allow us to explain how the mutation causes structural changes in the RHO dimer and how this can affect the signal that transducin generates when it is bound to RHO. Moreover, the structural modifications induced by the R135L mutation can also account for other misfunctions observed in the up- and downstream signaling pathways. The mechanism of these dysfunctions, together with the transducin activity reduction, provides structure-based explanations of the impairment of some key processes that lead to adRP.

The infection caused by the protozoan Trypanosoma cruzi affects humans and is called as Chagas disease. Currently, the main measures available to reduce the incidence of this disease are drug treatment and vector control. Traditionally, the development of vaccines occurs mainly through the use of antigenic candidates of the etiologic agent in the form of a vaccine preparation. Virus-like particles (VLPs) are structures analogous to viral capsids composed essentially of structural proteins and are widely used in vaccination protocols because of their immunostimulatory properties. In this context, the objective of this study was to use strategies in a murine immunization model to characterize the immunostimulatory capacity of VLPs from Triatoma virus (TrV-VLPs), analysed in the presence or absence of the aluminium vaccine adjuvant. In parallel, to characterize the immunogenic behaviour of four T. cruzi chimeric recombinant proteins (mix-IBMP) associated with TrV-VLPs or aluminium vaccine adjuvant.

Atypical sensory processing is currently included within the diagnostic criteria of autism. The cerebellum is known to integrate sensory inputs of different modalities through its connectivity to the cerebral cortex. Interestingly, cerebellar malformations are among the most replicated features found in postmortem brain of individuals with autism. We studied sensory processing in the cerebellum in a mouse model of autism, knock-out (KO) for the Cntnap2 gene. Cntnap2 is widely expressed in Purkinje cells (PCs) and has been recently reported to regulate their morphology. Further, individuals with CNTNAP2 mutations display cerebellar malformations and CNTNAP2 antibodies are associated with a mild form of cerebellar ataxia. Previous studies in the Cntnap2 mouse model show an altered cerebellar sensory learning. However, a physiological analysis of cerebellar function has not been performed yet. We studied sensory evoked potentials in cerebellar Crus I/II region on electrical stimulation of the whisker pad in alert mice and found striking differences between wild-type and Cntnap2 KO mice. In addition, single-cell recordings identified alterations in both sensory-evoked and spontaneous firing patterns of PCs. These changes were accompanied by altered intrinsic properties and morphologic features of these neurons. Together, these results indicate that the Cntnap2 mouse model could provide novel insight into the pathophysiological mechanisms of autism core sensory deficits.

With a large amount of research dedicated to decoding how metallic species bind to proteins, in silico methods are interesting allies for experimental procedures. To date, computational predictors mostly work by identifying the best possible sequence or structural match of the target protein with metal-binding templates. These approaches are fundamentally focused on the first coordination sphere of the metal. Here, we present the BioMetAll predictor that is based on a different postulate: the formation of a potential metal-binding site is related to the geometric organization of the protein backbone. We first report the set of convenient geometric descriptors of the backbone needed for the algorithm and their parameterization from a statistical analysis. Then, the successful benchmark of BioMetAll on a set of more than 90 metal-binding X-ray structures is presented. Because BioMetAll allows structural predictions regardless of the exact geometry of the side chains, it appears extremely valuable for systems whose structures (either experimental or theoretical) are not optimal for metal-binding sites. We report here its application on three different challenging cases: (i) the modulation of metal-binding sites during conformational transition in human serum albumin, (ii) the identification of possible routes of metal migration in hemocyanins, and (iii) the prediction of mutations to generate convenient metal-binding sites for de novo biocatalysts. This study shows that BioMetAll offers a versatile platform for numerous fields of research at the interface between inorganic chemistry and biology and allows to highlight the role of the preorganization of the protein backbone as a marker for metal binding. BioMetAll is an open-source application available at https://github.com/insilichem/biometall.

Gain of function (GOF) mutations of PCSK9 cause autosomal dominant familial hypercholesterolemia as they reduce the abundance of LDL receptor (LDLR) more efficiently than wild-type PCSK9. In contrast, PCSK9 loss of function (LOF) variants are associated with a hypocholesterolemic phenotype. Dozens of PCSK9 variants have been reported, but most remain of unknown significance since their characterization has not been conducted.

High-density lipoproteins (HDL) are key players in cholesterol metabolism homeostasis since they are responsible for transporting excess cholesterol from peripheral tissues to the liver. Imbalance in this process, due to either excessive accumulation or impaired clearance, results in net cholesterol accumulation and increases the risk of cardiovascular disease (CVD). Therefore, significant effort has been focused on the development of therapeutic tools capable of either directly or indirectly enhancing HDL-guided reverse cholesterol transport (RCT). More recently, in light of the emergence of precision nanomedicine, there has been renewed research interest in attempting to take advantage of the development of advanced recombinant HDL (rHDL) for both therapeutic and diagnostic purposes. In this review, we provide an update on the different approaches that have been developed using rHDL, focusing on the rHDL production methodology and rHDL applications in theranostics. We also compile a series of examples highlighting potential future perspectives in the field.

This work explores the potential for strategizing pulmonary surfactant (PS) for drug delivery over the respiratory air-liquid interface: the interfacial delivery. The efficacy of PS- and interface-assisted drug vehiculization was determined both in vitro and in vivo using a native purified porcine PS combined with the hydrophobic anti-inflammatory drug Tacrolimus (TAC), a calcineurin inhibitor. In vitro assays were conducted in a novel double surface balance setup designed to emulate compression-expansion dynamics applied to interfacially connected drug donor and recipient compartments. In this setup, PS transported TAC efficiently over air-liquid interfaces, with compression/expansion breathing-like dynamics enhancing rapid interface-assisted diffusion and drug release. The efficacy of PS-assisted TAC vehiculization was also evaluated in vivo in a mouse model of lipopolysaccharide (LPS)-induced acute lung injury (ALI). In anesthetized mice, TAC combined with PS was intra-nasally (i.n) instilled prior administering i.n. LPS. PS/TAC pre-treatment caused greater TAC internalization into a higher number of lung cells obtained from bronchoalveolar lavages (BAL) than TAC pre-treatment alone. Additionally, the PS/TAC combination but not TAC or PS alone attenuated the LPS-induced pro-inflammatory effects reducing cells and proteins in BAL fluid. These findings indicated that PS-mediated increase in TAC uptake blunted the pro-injurious effects of LPS, suggesting a synergistic anti-inflammatory effect of PS/drug formulations. These in vitro and in vivo results establish the potential utility of PS to open novel effective delivery strategies for inhaled drugs.

Retrasmisión: https://youtu.be/_N8BVCIjqHI Diseño de la tarjeta: Muñoz Fernández, Jesús

Introducción. La praxis de la odontología requiere el desarrollo adecuado de las habilidades de comunicación, competencia transversal que ha de estar garantizada durante los estudios de grado. Esto supone un reto institucional, por cuanto las facultades han de poner los mecanismos académicos para evaluar el nivel de desarrollo de dichas habilidades. Métodos. Se plantea un plan integral de carácter colaborativo para el desarrollo de las habilidades comunicativas en el grado en Odontología de la Universidad del País Vasco/Euskal Herriko Unibertsitatea, que contempla cuatro fases: a) recogida y socialización de la información sobre el desarrollo de la competencia; b) diseño de desarrollo trasversal y vertical de la competencia; c) implementación y análisis de resultados; y d) recogida de evidencias del proceso y divulgación de los resultados. Resultados. Tras la detección de las fortalezas y debilidades, se definieron 40 habilidades comunicacionales, estructuradas en cinco bloques (comunicación oral con pacientes/familiares, comunicación oral con otros profesionales, comunicación escrita con pacientes/familiares, comunicación escrita con otros profesionales sanitarios y técnicas de comunicación odontólogo-paciente) y tres niveles de desempeño (identificación de la información, desempeño con alta supervisión y desempeño autónomo con moderada supervisión). Para su desarrollo, se diseñaron 19 actividades formativas y de evaluación, actualmente en implementación. Conclusión. El plan se está desarrollando con éxito, y las evidencias del proceso, recogidas en un portafolio, servirán para el seguimiento de la titulación.

In recent decades, problems related to the accessibility and sustainability of science have increased, both in terms of the acquisition and dissemination of knowledge and its generation. Policymakers, academics, and, increasingly, citizens themselves have developed various approaches to this issue. Among them, citizen science is distinguished by making possible the generation of scientific knowledge by anyone with an interest in doing so. However, participation alone does not guarantee knowledge generation, which represents an epistemological challenge for citizen science. Simultaneously, economic and socio-institutional difficulties in science governance and maintenance have grown. To solve those problems, several market elements have been introduced, a solution rejected by those who consider science as a public good that states must guarantee. Alternatively, research and work on the commons are growing worldwide, the concept being extended from natural resources to knowledge resources. In this chapter, we propose science as a commons, underlining the essential role of citizen science. Difficulties also apply to citizen science itself, but the increasing development of a multitude of projects based on cooperation favours the conditions required for its sustainability and quality. Our philosophical proposal is based on empirical knowledge about citizen science coupled with socio-economic concepts, according to a sociopolitical epistemology.

The capacity to learn new efficient systemic behavior is a fundamental issue of contemporary biology. We have recently observed, in a preliminary analysis, the emergence of conditioned behavior in some individual amoebae cells. In these experiments, cells were able to acquire new migratory patterns and remember them for long periods of their cellular cycle, forgetting them later on. Here, following a similar conceptual framework of Pavlov’s experiments, we have exhaustively studied the migration trajectories of more than 2000 individual cells belonging to three different species: Amoeba proteus, Metamoeba leningradensis, and Amoeba borokensis. Fundamentally, we have analyzed several relevant properties of conditioned cells, such as the intensity of the responses, the directionality persistence, the total distance traveled, the directionality ratio, the average speed, and the persistence times. We have observed that cells belonging to these three species can modify the systemic response to a specific stimulus by associative conditioning. Our main analysis shows that such new behavior is very robust and presents a similar structure of migration patterns in the three species, which was characterized by the presence of conditioning for long periods, remarkable straightness in their trajectories and strong directional persistence. Our experimental and quantitative results, compared with other studies on complex cellular responses in bacteria, protozoa, fungus-like organisms and metazoans that we discus here, allow us to conclude that cellular associative conditioning might be a widespread characteristic of unicellular organisms. This new systemic behavior could be essential to understand some key principles involved in increasing the cellular adaptive fitness to microenvironments.

Visna/Maedi virus (VMV) is a lentivirus that infects the cells of the monocyte/macrophage lineage in sheep, goats and wild ruminants. Infection with VMV causes a multisystemic inflammatory disorder, which includes pneumonia, encephalitis, mastitis or arthritis. The immune response to VMV infection is complex, and the infection and pathogenesis of this virus are not totally characterized yet. In this work, a gene expression microarray was used to identify the differentially ex-pressed genes in VMV infection and disease development by comparing sheep with different serologic status and with presence of VM-characteristic clinical lesions. The expression profile analysis has revealed many interesting genes that may be associated with the viral infection process. Among them, the OXT gene appeared significantly up-regulated, so the oxytocin-secreting system could play an essential role in VM disease. Moreover, some of the most significantly enriched functions in up-regulated genes appeared the complement pathway, which (in combination with the Toll-like receptor signaling network) could compose a mechanism in the VMV pathogenesis. Identifying the host genetic factors associated with VMV infection can be applied to develop strategies for preventing infection and develop effective vaccines that lead to therapeutic treatments.

A quasi-1D superconductor with an odd number of Fermi surfaces is expected to exhibit a nondegenerate Majorana bound state at the Fermi level at its boundary with an insulator (where the latter could be an actual insulator material or vacuum, for a terminated sample). Previous explicit theoretical demonstrations of this property were done for specific microscopic models of the bulk Hamiltonian and, most importantly, of the boundary. In this work, we theoretically demonstrate that this property holds for the whole class of systems, using the symmetry-based formalism of low-energy continuum models and general boundary conditions. We derive the general form of the Bogoliubov–de Gennes low-energy Hamiltonian that is subject only to charge-conjugation symmetry C+ of the type C2+=+1 and a few minimal assumptions. Crucially, we also derive the most general form of the boundary conditions describing the boundary with an insulator, subject only to the fundamental principle of the probability-current conservation and C+ symmetry. Such normal-reflection boundary conditions do not contain scattering between electrons and holes. We find that for an odd number of Fermi surfaces a Majorana bound state always exists as long as the bulk is in the gapped superconducting state, irrespective of the parameters of the bulk Hamiltonian and boundary conditions. Importantly, our general model includes a possible Fermi-point mismatch, when the two Fermi points are not at exactly opposite momenta, which disfavors superconductivity. We find that the Fermi-point mismatch does not have a direct destructive effect on the Majorana bound state, in the sense that once the bulk gap is opened the bound state is always present.

MicroRNAs (miRNAs) represent important tools in medicine and nutrition as new biomarkers, and can act as mediators of nutritional and pharmacological interventions. The aim of the present study was to analyse the effect of grape pomace supplementation on the expression of seven selected miRNAs and their potential relationship with the observed positive effect on glycaemic control, in order to shed light on the mechanism underlying the beneficial effect of this dietary intervention. For this purpose, plasma samples were obtained from 49 subjects with metabolic syndrome. After supplementation with grape pomace (6 weeks), these subjects were categorised as responders (n = 23) or non-responders (n = 26) according to the changes in their fasting insulin rate. MiRNA expression at baseline and at the end of the supplementation was analysed by RT-PCR, and the MiRecords Database was used to identify potential target genes for the studied miRNAs. The increase observed in miR-23a in the whole cohort was present in both subgroups of participants. The increase in miR-181a was significant among non-responders but not responders. The decrease in miR-30c and miR-222 was found in the responders, but not in the non-responders. No changes were observed in miR-10a, miR-151a, miR-181a, and miR-let-7a expressions. After analysing these results, a potential involvement of the reduced expression of miR-30c and miR-222, two microRNAs associated with insulin resistance and diabetes, in the improvement of glycaemic control produced by grape pomace administration, can be proposed. Further research is needed to confirm the involvement of glycolytic enzymes, PI3K, AMPK, and IRS-1 in the effect of grape pomace, as suggested by the changes induced in microRNAs.

Chiral graphene nanoribbons are extremely interesting structures due to their narrow band gaps and potential development of spin-polarized edge states. Here, we study their band structure on low work function silver surfaces. The use of a curved Ag single crystal provides, within the same sample, regions of disparate step structure and step density. Whereas the former leads to distinct azimuthal growth orientations of the graphene nanoribbons atop, the latter modulates the substrate’s work function and thereby the interface energy level alignment. In turn, we disclose the associated charge transfer from the substrate to the ribbon and assess its effect on the nanoribbon’s properties and the edge state magnetization.

Atlantic horse mackerel (Trachurus trachurus) fillets were coated by gallic acid and chitosan solutions, including chitosan nanoparticles, and fish quality and shelf life were assessed during chilled storage for 13 days. All chitosan-containing coatings decreased microorganisms’ growth in more than 2 log cycles up to late storage stages; however, those with chitosan nanoparticles resulted to be more effective, probably due to a greater contact surface with fish muscle. Furthermore, the lowest total volatile basic nitrogen (TVB-N) values, as well as pH values below 7, were found for horse mackerel fillets coated by those solutions with chitosan nanoparticles. Additionally, horse mackerel fillets coated by solutions with chitosan nanoparticles also showed the lowest thiobarbituric acid reactive substances (TBARS) values, maybe owing to a more sustained release of gallic acid. In this regard, it is worth noting that, although gallic acid solution showed no antimicrobial activity, this prevented lipid oxidation and, therefore, preserved color and texture during the chilling storage.

The suitability of the charcoal obtained from woody biomass pyrolysis in a continuous screw reactor at 573, 773, 973, 1173 K temperature profile as fuel and reducing agent in metallurgical applications has been evaluated, in order to reduce the CO2 emissions in these processes. On the one hand, a comparative study between charcoal and commercial reducers has been carried out. On the other hand, different proportions of this charcoal have been added to an industrial coking coal blend and carbonized together in a semi-pilot movable wall oven, to study the influence in the plastic and mechanical properties of the produced biocoke. The charcoal obtained fulfills the requirements to be used as fuel and reducer in non-ferrous processes where no mechanical strength is required, like rotary kilns, in substitution of fossil reducers. Its higher heating value (>32 MJ kg−1) is in the range or over those of fossil coals, with the advantage of not containing polluting elements (S, N) and having less ash. The addition of up to 0.9 wt.% almost does not affect the quality of the biocoke; but the addition of ≥2 wt.% degrades the biocoke mechanical and plastic properties below the demanded requirements. Moreover, biocoke reactivity seems independent of the amount of charcoal added.

Lyme carditis is an extracutaneous manifestation of Lyme disease characterized by episodes of atrioventricular block of varying degrees and additional, less reported cardiomyopathies. The molecular changes associated with the response to Borrelia burgdorferi over the course of infection are poorly understood. Here, we identify broad transcriptomic and proteomic changes in the heart during infection that reveal a profound down-regulation of mitochondrial components. We also describe the long-term functional modulation of macrophages exposed to live bacteria, characterized by an augmented glycolytic output, increased spirochetal binding and internalization, and reduced inflammatory responses. In vitro, glycolysis inhibition reduces the production of tumor necrosis factor (TNF) by memory macrophages, whereas in vivo, it produces the reversion of the memory phenotype, the recovery of tissue mitochondrial components, and decreased inflammation and spirochetal burdens. These results show that B. burgdorferi induces long-term, memory-like responses in macrophages with tissue-wide consequences that are amenable to be manipulated in vivo.

This thesis tackles the theoretical description of atomic-scale features in plasmonic nanostructures asprobed by light and swift electrons. Plasmonic nanostuctures are known to localize and enhanceelectromagnetic fields in their proximity, and thus serve as building blocks to perform improved andenhanced molecular spectroscopy on them. We focus on the analysis of the effect of atomic-scale featuresin the overall response of plasmonic nanoparticles and nanocavities. We apply ab initio atomisticquantum time-dependent density functional theory (TDDFT) to unveil the near-field distribution aroundmetallic antennas, and describe "classically" various atomic-scale features such as continuous protrusionson the surfaces of the metal using a Boundary Element Method (BEM), providing an extra localization ofthe field. Moreover, we propose an analytical model to address the signal increase observed in surfaceenhancedRaman scattering (SERS) spectra related to local variations of the electron density associated toatomic-scale defects. Last, we identify the excitation of confined bulk plasmons (CBP) within theTDDFT calculations for the electron energy loss (EEL) probability of atomistic clusters, and provide asemi-analytical expression within a Hydrodynamic Model (HDM) to address such excitations.

Strong coupling between molecular vibrations and microcavity modes has been demonstrated to modify physical and chemical properties of the molecular material. Here, we study the less explored coupling between lattice vibrations (phonons) and microcavity modes. Embedding thin layers of hexagonal boron nitride (hBN) into classical microcavities, we demonstrate the evolution from weak to ultrastrong phonon-photon coupling when the hBN thickness is increased from a few nanometers to a fully filled cavity. Remarkably, strong coupling is achieved for hBN layers as thin as 10 nm. Further, the ultrastrong coupling in fully filled cavities yields a polariton dispersion matching that of phonon polaritons in bulk hBN, highlighting that the maximum light-matter coupling in microcavities is limited to the coupling strength between photons and the bulk material. Tunable cavity phonon polaritons could become a versatile platform for studying how the coupling strength between photons and phonons may modify the properties of polar crystals.

We study the strength of the electron-phonon interaction on Fe single adatoms on MgO/Ag(100) based on many-body ab initio spin collinear calculations. In particular, we analyze the relative importance of the substrate and, among other results, we conclude that the interface electron state of Ag(100) plays a prominent role in determining the electron-phonon coupling of localized Fe electron states. The analysis of the hybridization of the adatom with the substrate reveals qualitative differences for even or odd coverages of MgO, affecting significantly the spectral structure and strength of the electron-phonon coupling. Our calculations indicate that the electron-phonon interaction is very strong for ≤ 1 layers of MgO, while it is sharply suppressed for larger coverages, a trend that is consistent with recent experimental findings.

Spin-charge interconversion in systems with spin-orbit coupling has provided a new route for the generation and detection of spin currents in functional devices for memory and logic such as spin-orbit torque switching in magnetic memories or magnetic-state reading in spin-based logic. Disentangling the bulk (spin Hall effect) from the interfacial (inverse spin galvanic effect) contribution has been a common issue to properly quantify the spin-charge interconversion in these systems, being the case of Au paradigmatic. Here, we obtain a large spin-charge interconversion at a highly conducting Au/Cu interface which is experimentally shown to arise from the inverse spin galvanic effect of the interface and not from the spin Hall effect of bulk Au. We use two parameters independent of the microscopic details to properly quantify the spin-charge interconversion and the spin losses due to the interfacial spin-orbit coupling, providing an adequate benchmarking to compare with any spin-charge interconversion system. The good performance of this metallic interface, not based in Bi, opens the path to the use of much simpler light/heavy-metal systems.

Adsorbed atoms (adatoms) coupled to the matrix of solid state host materials as impurities can significantly modify their properties. Especially in low-dimensional materials, such as one-dimensional organic polymer chains or quasi-one-dimensional graphene nanoribbons, intriguing manipulation of the optical properties, such as the absorption cross section, is possible. The most widely used approach to couple quantum emitters to optical antennas is based on the Purcell effect. This formalism, however, does not comprise charge transfer from the emitter to the antenna, but only spontaneous emission of the quantum emitter into the tailored photonic environment, that is evoked by the antenna. To capture such effects, we present a tight-binding formalism to couple an adatom to a finite Su-Schrieffer-Heeger chain, where the former is treated as a two-level system and the latter acts as an optical antenna. We systematically analyze how the coupling strength and the position of the adatom influence the optical properties of the molecular chains in the model. We take into account charge transfer from the adatom to the chain and vice versa via an intersystem hopping parameter, and also include Coulomb interaction within the chain as well as between the adatom and the chain. We show that coupling the adatom to one of the bulk atoms of the linear chain results in a substantial change in optical properties already for comparatively small coupling strengths. We also find that the position of the adatom crucially determines if and how the optical properties of the chains are altered. Therefore, we identify this adatom-chain hybrid system as a tunable platform for light-matter interaction at the nanoscale.

One of the main aims of current biology is to understand the origin of the molecular organization that underlies the complex dynamic architecture of cellular life. Here, we present an overview of the main sources of biomolecular order and complexity spanning from the most elementary levels of molecular activity to the emergence of cellular systemic behaviors. First, we have addressed the dissipative self-organization, the principal source of molecular order in the cell. Intensive studies over the last four decades have demonstrated that self-organization is central to understand enzyme activity under cellular conditions, functional coordination between enzymatic reactions, the emergence of dissipative metabolic networks (DMN), and molecular rhythms. The second fundamental source of order is molecular information processing. Studies on effective connectivity based on transfer entropy (TE) have made possible the quantification in bits of biomolecular information flows in DMN. This information processing enables efficient self-regulatory control of metabolism. As a consequence of both main sources of order, systemic functional structures emerge in the cell; in fact, quantitative analyses with DMN have revealed that the basic units of life display a global enzymatic structure that seems to be an essential characteristic of the systemic functional metabolism. This global metabolic structure has been verified experimentally in both prokaryotic and eukaryotic cells. Here, we also discuss how the study of systemic DMN, using Artificial Intelligence and advanced tools of Statistic Mechanics, has shown the emergence of Hopfield-like dynamics characterized by exhibiting associative memory. We have recently confirmed this thesis by testing associative conditioning behavior in individual amoeba cells. In these Pavlovian-like experiments, several hundreds of cells could learn new systemic migratory behaviors and remember them over long periods relative to their cell cycle, forget

Background: Long non-coding RNAs (lncRNAs) are involved in several immune processes, including the immune response to vaccination, but most of them remain uncharacterised in livestock species. The mechanism of action of aluminium adjuvants as vaccine components is neither not fully understood. Results: We built a transcriptome from sheep PBMCs RNA-seq data in order to identify unannotated lncRNAs and analysed their expression patterns along protein coding genes. We found 2284 novel lncRNAs and assessed their conservation in terms of sequence and synteny. Differential expression analysis performed between animals inoculated with commercial vaccines or aluminium adjuvant alone and the co-expression analysis revealed lncRNAs related to the immune response to vaccines and adjuvants. A group of co-expressed genes enriched in cytokine signalling and production highlighted the differences between different treatments. A number of differentially expressed lncRNAs were correlated with a divergently located protein-coding gene, such as the OSM cytokine. Other lncRNAs were predicted to act as sponges of miRNAs involved in immune response regulation. Conclusions: This work enlarges the lncRNA catalogue in sheep and puts an accent on their involvement in the immune response to repetitive vaccination, providing a basis for further characterisation of the non-coding sheep transcriptome within different immune cells.

We have optimized a synthetic approach to (±)-Ferrugine in 8 steps starting from 5-aminocyclohept-1-ene and using the Brønsted acid-catalyzed pseudotransannular ring-opening of the epoxide derived from this cycloheptene as the key step for the construction of the 8-azabicyclo[3.2.1]octane central core. While attempting the enantioselective synthesis of this natural product from enantiopure 2-hydroxy-8-azabicyclo[3.2.1]octane we have found that this compound shows a pronounced tendency to racemize via an achiral symmetric aziridinium intermediate. This racemization side process has been studied in detail using both experimental and computational methods.

Tip-enhanced Raman spectroscopy (TERS) of a single molecule is commonly described by considering the change in the polarizability of the molecule with respect to a normal coordinate induced by homogeneous illumination. However, the local fields induced by nanoscale and atomic-scale features at the surface of metallic clusters and nanogaps show strong inhomogeneities in their spatial distribution, which induces breaking of Raman selection rules. In this context, the spatial extension of the molecular electronic states subjected to strongly varying local fields challenges the validity of the point–dipole approximation as an adequate description of TERS in such configurations. Here, we introduce a general treatment to simulate single-molecule TERS spectra and their energy-filtered vibrational fingerprints maps, in which the polarization properties of the single molecule and that of the optical enhancing nanoresonator can be calculated separately and then conveniently combined to obtain the total Raman cross section of the molecule under the strongly inhomogeneous field. We apply the general method to study tip-enhanced scanning Raman picoscopy of a 4,4′-bipyridine and biphenyl molecules in the proximity of a silver icosahedral cluster with a few atoms at the tip apex mimicking an enhancing picocavity. The polarization of the molecules is calculated within density functional theory (DFT), and the optical response of the tip is calculated within a classical atomistic discrete–dipole approximation. The Raman spectra are found to be extremely sensitive to the spatial distribution of the local fields and to the orientation of the molecule. Our calculations show that the spatial mapping of molecular vibrational fingerprints, as probed by a tip with atomic protrusions, is capable to reveal intramolecular features of a single molecule in real space and thus establish a robust basis for scanning Raman picoscopy.

We present an exhaustive study of Andreev crystals (ACs)—quasi-one-dimensional superconducting wires with a periodic distribution of magnetic regions. The exchange field in these regions is assumed to be much smaller than the Fermi energy. Hence, the transport through the magnetic region can be described within the quasiclassical approximation. In the first part of the paper, by assuming that the separation between the magnetic regions is larger than the coherence length, we derive the effective nearest-neighbor tight-binding equations for ACs with a helical magnetic configuration. The spectrum within the gap of the host superconductor shows a pair of energy-symmetric bands. By increasing the strength of the magnetic impurities in ferromagnetic ACs, these bands cross without interacting. However, in any other helical configuration, there is a value of the magnetic strength at which the bands touch each other, forming a Dirac point. Further increase of the magnetic strength leads to a system with an inverted gap. We study junctions between ACs with inverted spectrum and show that junctions between (anti)ferromagnetic ACs (always) never exhibit bound states at the interface. In the second part, we extend our analysis beyond the nearest-neighbor approximation by solving the Eilenberger equation for infinite ACs and junctions between semi-infinite ACs with collinear magnetization. From the obtained quasiclassical Green functions, we compute the local density of states and the local spin polarization in anti- and ferromagnetic ACs. We show that these junctions may exhibit bound states at the interface and fractionalization of the surface spin polarization.

Transparent NaLuF4 glass-ceramics (GCs) doped with Tm3+ and Tm3+/Yb3+ have been prepared by melting-quenching followed by thermal treatment at temperatures near the glass transition temperature. The crystallization process has been studied using X-ray diffraction (XRD) and high-resolution transmission electron microscopy (HRTEM). NaLuF4 nanocrystals (NCs) ranging 9–30 nm in size are the only crystalline phase, the crystal size increasing with the dopant concentration. Energy dispersive X-ray (EDX) measurements confirm the Tm3+ and Yb3+ incorporation in the NCs. Optical characterization included the analysis of up-conversion (UC) as well as the Near-infrared (NIR) luminescence. NIR emission spectra of Tm3+ and Yb3+ in co-doped samples confirmed an efficient energy transfer between both ions. No UC emissions are observed in Tm3+ single-doped glass and GCs. Yb3+ incorporation favors the Tm3+-Tm3+ UC processes resulting in Tm3+ blue, yellowish-red and NIR UC emissions after excitation at 975 nm. Blue UC emission is also observed in the codoped samples after Tm3+ excitation at 791 nm. These effects were more evident for the GCs compared to the base glasses, confirming the RE ions incorporation in the NCs. As a result, these GCs can be used to tune the UC emission from NIR to blue by selective excitation.

The problem of light collection in random lasers (RLs) is addressed. As the radiation emitted by this system is Lambertian due to its spatial incoherence, a device based on an ellipsoidal revolution mirror is designed, developed, and tested in order to optimize the harvesting of the radiation emitted by the RL. The system provides a simple injection procedure of the emitted energy at the entrance of a multimode optical fiber. The results obtained show that the device has a net energy efficiency of 35%, close to the theoretically expected one.

The optical response of a system formed by a quantum emitter and a plasmonic gap nanoantenna is theoretically addressed within the frameworks of classical electrodynamics and the time-dependent density functional theory (TDDFT). A fully quantum many-body description of the electron dynamics within TDDFT allows for analyzing the effect of electronic coupling between the emitter and the nanoantenna, usually ignored in classical descriptions of the optical response. We show that the hybridization between the electronic states of the quantum emitter and those of the metallic nanoparticles strongly modifies the energy, the width, and the very existence of the optical resonances of the coupled system. We thus conclude that the application of a quantum many-body treatment that correctly addresses charge-transfer processes between the emitter and the nanoantenna is crucial to address complex electronic processes involving plasmon–exciton interactions directly impacting optoelectronic applications.

Nanometer-thick epitaxial Co films intercalated between graphene (Gr) and a heavy metal (HM) substrate are promising systems for the development of spin–orbitronic devices due to their large perpendicular magnetic anisotropy (PMA). A combination of theoretical modeling and experiments reveals the origin of the PMA and explains its behavior as a function of the Co thickness. High quality epitaxial Gr/Con/HM(111) (HM = Pt,Ir) heterostructures are grown by intercalation below graphene, which acts as a surfactant that kinetically stabilizes the pseudomorphic growth of highly perfect Co face-centered tetragonal (fct) films, with a reduced number of stacking faults as the only structural defect observable by high-resolution scanning transmission electron microscopy (STEM). Magneto-optic Kerr effect (MOKE) measurements show that such heterostructures present PMA up to large Co critical thicknesses of about 4 nm (20 ML) and 2 nm (10 ML) for Pt and Ir substrates, respectively. X-ray magnetic circular dichroism (XMCD) measurements show an inverse power law of the anisotropy of the orbital moment with Co thickness, reflecting its interfacial nature, that changes sign at about the same critical values. First principles calculations show that, regardless of the presence of graphene, ideal Co fct films on HM buffers do not sustain PMAs beyond around 6 mLs due to the in-plane contribution of the inner bulk-like Co layers. The large experimental critical thicknesses sustaining PMA can only be retrieved by the inclusion of structural defects that promote a local hcp stacking such as twin boundaries or stacking faults. Remarkably, a layer resolved analysis of the orbital momentum anisotropy reproduces its interfacial nature, and reveals that the Gr/Co interface contribution is comparable to that of the Co/Pt(Ir).

Metal halides are a class of layered materials with promising electronic and magnetic properties persisting down to the two-dimensional limit. While most recent studies focused on the trihalide components of this family, the rather unexplored metal dihalides are also van der Waals layered systems with distinctive magnetic properties. Here we show that the dihalide NiBr2 grows epitaxially on a Au(111) substrate and exhibits semiconducting and magnetic behavior starting from a single layer. Through a combination of a low-temperature scanning-tunneling microscopy, low-energy electron diffraction, X-ray photoelectron spectroscopy, and photoemission electron microscopy, we identify two competing layer structures of NiBr2 coexisting at the interface and a stoichiometrically pure layer-by-layer growth beyond. Interestingly, X-ray absorption spectroscopy measurements revealed a magnetically ordered state below 27 K with in-plane magnetic anisotropy and zero-remanence in the single layer of NiBr2/Au(111), which we attribute to a noncollinear magnetic structure. The combination of such two-dimensional magnetic order with the semiconducting behavior down to the 2D limit offers the attractive perspective of using these films as ultrathin crystalline barriers in tunneling junctions and low-dimensional devices.

Understanding the mechanism of molecular dissociation under applied bias is a fundamental requirement to progress in (electro)-catalysis as well as in (opto)-electronics. The working conditions of a molecular-based device and the stability of chemical bonds can be addressed in metal–organic junctions by injecting electrons in tunneling conditions. Here, we have correlated the energy of de-bromination of an aryl group with its density of states in a self-assembled dimeric structure of 4′-bromo-4-mercaptobiphenyl adsorbed on a Au(111) surface. We have observed that the electron-energy range where the molecule is chemically stable can be extended, shifting the bias threshold for the rupture of the –C–Br bond continuously from about 2.4 to 4.4 V by changing the electron current. Correspondingly, the power needed for the dissociation drops sharply at 3.6 V, identifying different reaction regimes and the contribution of different molecular resonance states.

The crystallization and morphology of two linear diblock copolymers based on polymethylene (PM) and poly(vinylidene fluoride) (PVDF) with compositions PM23-b-PVDF77 and PM38-b-PVDF62 (where the subscripts indicate the relative compositions in wt%) were compared with blends of neat components with identical compositions. The samples were studied by SAXS (Small Angle X-ray Scattering), WAXS (Wide Angle X-ray Scattering), PLOM (Polarized Light Optical Microscopy), TEM (Transmission Electron Microscopy), DSC (Differential Scanning Calorimetry), BDS (broadband dielectric spectroscopy), and FTIR (Fourier Transform Infrared Spectroscopy). The results showed that the blends are immiscible, while the diblock copolymers are miscible in the melt state (or very weakly segregated). The PVDF component crystallization was studied in detail. It was found that the polymorphic structure of PVDF was a strong function of its environment. The number of polymorphs and their amount depended on whether it was on its own as a homopolymer, as a block component in the diblock copolymers or as an immiscible phase in the blends. The cooling rate in non-isothermal crystallization or the crystallization temperature in isothermal tests also induced different polymorphic compositions in the PVDF crystals. As a result, we were able to produce samples with exclusive ferroelectric phases at specific preparation conditions, while others with mixtures of paraelectric and ferroelectric phases.

For two external spherical tips with equal positive charges, the ground state of a hydrogen molecule is variationally determined within the quantum Monte Carlo scheme. For finiteness, the system is enclosed in a spherical container with randomly reflecting unstructured walls. The 12-dimensional system of two protons and two electrons is investigated ab initio without any adiabatic restrictions. We focus on the hydrogen center of mass (COM) distribution in continuation of previous work on ground state and vibration modes at a COM that was fixed in space. Our general purpose is to control the molecule’s position and orientation by external means, such as by two charged tips. To this end, knowledge is needed in order to find specific COM regions with a desired molecular orientation in the container at significant probability density of the molecule.

Graphene is a two-dimensional material, with exceptional mechanical, electrical, and thermal properties. Graphene-based materials are, therefore, excellent candidates for use in nanocomposites. We investigated reduced graphene oxide (rGO), which is produced easily by oxidizing and exfoliating graphite in calcium silicate hydrate (CSHs) composites, for use in cementitious materials. The density functional theory was used to study the binding of moieties, on the rGO surface (e.g., hydroxyl-OH/rGO and epoxide/rGO groups), to CSH units, such as silicate tetrahedra, calcium ions, and OH groups. The simulations indicate complex interactions between OH/rGO and silicate tetrahedra, involving condensation reactions and selective repairing of the rGO lattice to reform pristine graphene. The condensation reactions even occurred in the presence of calcium ions and hydroxyl groups. In contrast, rGO/CSH interactions remained close to the initial structural models of the epoxy rGO surface. The simulations indicate that specific CSHs, containing rGO with different interfacial topologies, can be manufactured using coatings of either epoxide or hydroxyl groups. The results fill a knowledge gap, by establishing a connection between the chemical compositions of CSH units and rGO, and confirm that a wet chemical method can be used to produce pristine graphene by removing hydroxyl defects from rGO.

This paper aims to study the adhesion mechanism of polyvinyl alcohol (PVA) fiber within alkali-activated slag/fly ash (AASF) matrix using molecular dynamics (MD) simulation in combination with systematic experimental characterization. The adhesion of PVA to C-(N-)A-S-H gel with different Ca/(Si+Al) and Al/Si ratios was modeled using MD simulation, with the related adsorption enthalpy calculated and the adhesion mechanism explored. The experimentally attained chemical bonding energy of PVA fiber in AASF coincides well with the simulation results. In both cases, the adhesion enhances primarily with increasing Ca/(Si+Al) ratio of C-(N-)A-S-H gel. Additionally, MD simulation indicates preferential element distributions of Ca around PVA molecule, which was confirmed experimentally by the detection of the Ca-rich C-(N-)A-S-H gel in the interfacial transition zone (ITZ). This study provides further insights into the adhesion mechanism of PVA fiber to C-(N-)A-S-H gel formed in AASF, which is particularly valuable for the future development of PVA-based high-performance alkali-activated composites.

A high dimensional and accurate atomistic neural network potential energy surface (ANN-PES) that describes the interaction between one O2 molecule and a highly oriented pyrolytic graphite (HOPG) surface has been constructed using the open-source package (aenet). The validation of the PES is performed by paying attention to static characteristics as well as by testing its performance in reproducing previous ab initio molecular dynamics simulation results. Subsequently, the ANN-PES is used to perform quasi-classical molecular dynamics calculations of the alignment-dependent scattering of O2 from HOPG. The results are obtained for 200 meV O2 molecules with different initial alignments impinging with a polar incidence angle with respect to the surface normal of 22.5° on a thermalized (110 and 300 K) graphite surface. The choice of these initial conditions in our simulations is made to perform comparisons to recent experimental results on this system. Our results show that the scattering of O2 from the HOPG surface is a rather direct process, that the angular distributions are alignment dependent, and that the final translational energy of end-on molecules is around 20% lower than that of side-on molecules. Upon collision with the surface, the molecules that are initially aligned perpendicular to the surface become highly rotationally excited, whereas a very small change in the rotational state of the scattered molecules is observed for the initial parallel alignments. The latter confirms the energy transfer dependence on the stereodynamics for the present system. The results of our simulations are in overall agreement with the experimental observations regarding the shape of the angular distributions and the alignment dependence of the in-plane reflected molecules.

We study a periodic arrangement of magnetic regions in a quasi-one-dimensional superconducting wire. Due to the local exchange field, each region supports Andreev bound states that hybridize, forming Bloch bands in the subgap spectrum of what we call the Andreev crystal (AC). As an illustration, ACs with ferromagnetic and antiferromagnetic alignment of the magnetic regions are considered. We relate the spectral asymmetry index of a spin-resolved Hamiltonian to the spin polarization and identify it as the observable that quantifies the closing and reopening of the excitation gap. In particular, antiferromagnetic ACs exhibit a sequence of gapped phases separated by gapless Dirac phase boundaries. Heterojunctions between antiferromagnetic ACs in neighboring phases support spin-polarized bound states at the interface. In close analogy to the charge fractionalization in Dirac systems with a mass inversion, we find a fractionalization of the interface spin.

Combining on-surface synthetic methods with the power of scanning tunneling microscopy to characterize novel materials at the single molecule level, we show how to steer the reactivity of one anthracene-based precursor towards different product nanostructures. Whereas using a Au(111) surface with three-fold symmetry results in the dominant formation of a starphene derivative, the two-fold symmetry of a reconstructed Au(110) surface allows the selective growth of non-benzenoid linear conjugated polymers. We further assess the electronic properties of each of the observed product structures via tunneling spectroscopy and DFT calculations, altogether advancing the synthesis and characterization of molecular structures of notable scientific interest that have been only scarcely investigated to date, as applies both to starphenes and to non-benzenoid conjugated polymers.

Frequency-resolved photon correlations have proven to be a useful resource to unveil nonlinearities hidden in standard observables such as the spectrum or the standard (color-blind) photon correlations. In this manuscript, we analyze the frequency-resolved correlations of the photons being emitted from an optomechanical system where light is nonlinearly coupled to the quantized motion of a mechanical mode of a resonator, but where the quantum nonlinear response is typically hard to evidence. We present and unravel a rich landscape of frequency-resolved correlations, and discuss how the time-delayed correlations can reveal information about the dynamics of the system. We also study the dependence of correlations on relevant parameters such as the single-photon coupling strength, the filtering linewidth, or the thermal noise in the environment. This enriched understanding of the system can trigger new experiments to probe nonlinear phenomena in optomechanics, and provide insights into dynamics of generic nonlinear systems.