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This review highlights examples of synthetic organic chemistry used in the context of studying terpene-derived oxidation products in the atmosphere, with a focus on species produced from biogenic isoprene, pinene and caryophyllene.

Most engineering domains abound with models derived from first principles that have beenproven to be effective for decades. These models are not only a valuable source of knowledge, but they also form the basis of simulations. The recent trend of digitization has complemented these models with data in all forms and variants, such as process monitoring time series, measured material characteristics, and stored production parameters. Theory-inspired machine learning combines the available models and data, reaping the benefits of established knowledge and the capabilities of modern, data-driven approaches. Compared to purely physics- or purely data-driven models, the models resulting from theory-inspired machine learning are often more accurate and less complex, extrapolate better, or allow faster model training or inference. In this short survey, we introduce and discuss several prominent approaches to theory-inspired machine learning and show how they were applied in the fields of welding, joining, additive manufacturing, and metal forming.

Background: Diminished systemic serum butyrylcholinesterase (BChE), a biomarker for chronic inflammation, cachexia, and advanced tumor stage, has shown to play a prognostic role in various malignancies. Aim of this study was to investigate the prognostic value of pretherapeutic BChE levels in patients with resectable adenocarcinoma of the gastroesophageal junction (AEG), treated with or without neoadjuvant therapy. Methods: Data of a consecutive series of patients with resectable AEG at the Department for General Surgery, Medical University of Vienna were analyzed. Preoperative serum BChE levels were correlated to clinic-pathological parameters as well as treatment response. Prognostic impact of serum BChE levels on disease free (DFS) and overall survival (OS) were evaluated by univariate and multivariate cox regression analysis, Kaplan-Meier curves used for illustration. Results: 319 patients were included in this study, with an overall mean (Standard deviation, SD) pretreatment serum BChE level of 6.22 (+/-1.91) IU/l. In univariate models, diminished preoperative serum BChE levels were significantly associated with shorter overall (OS, pConclusion: Serum BChE serves as strong, independent, and cost-effective prognostic biomarker for worse outcome in patients with resectable AEG who had received neoadjuvant chemotherapy. Synopsis Diminished systemic serum Butyrylcholinesterase (BChE) serves as a strong and independent prognostic biomarker for shortened DFS and OS in patients with resectable adenocarcinoma of the gastroesophageal junction (AEG) after preoperative neoadjuvant treatment. BChE levels could be of use in clinical practice when measured prior to surgery, especially in those patients who had received neoadjuvant chemotherapy.

Recent discoveries in molecular diagnostics and drug treatments have improved the treatment of patients with advanced (inoperable) non-squamous non-small cell lung cancer (NSCLC) from solely platinum-based chemotherapy to more personalized treatment, including targeted therapies and immunotherapies. However, these improvements come at considerable costs, highlighting the need to assess their cost-effectiveness in order to optimize lung cancer care. Traditionally, costeffectiveness models for the evaluation of new lung cancer treatments were based on the findings of the randomized control trials (RCTs). However, the strict RCT inclusion criteria make RCT patients not representative of patients in the real-world. Patients in RCTs have a better prognosis than patients in a real-world setting. Therefore, in this study, we developed and validated a diagnosis-treatment decision model for patients with advanced (inoperable) non-squamous NSCLC based on real-world data in the Netherlands. The model is a patient-level microsimulation model implemented as discrete event simulation with five health events. Patients are simulated from diagnosis to death, including at most three treatment lines. The base-model (non-personalized strategy) was populated using real-world data of patients treated with platinum-based chemotherapy between 2008 and 2014 in one of six Dutch teaching hospitals. To simulate personalized care, molecular tumor characteristics were incorporated in the model based on the literature. The impact of novel targeted treatments and immunotherapies was included based on published RCTs. To validate the model, we compared survival under a personalized treatment strategy with observed real-world survival. This model can be used for health-care evaluation of personalized treatment for patients with advanced (inoperable) NSCLC in the Netherlands.

The second-order nonlinear susceptibility, chi(2), in the Stern layer, and the total interfacial potential drop, Phi(0)tot, across the oxide:water interface are estimated from SHG amplitude and phase measurements for divalent cations (Mg2+, Ca2+, Sr2+, Ba2+) at the silica:water interface at pH 5.8 and various ionic strengths. We find that interfacial structure and total potential depend strongly on ion valency. We observe statistically significant differences between the experimentally determined chi(2) value for NaCl and that of the alkali earth series, but smaller differences between ions of the same valency in that series. These differences are particularly pronounced at intermediate salt concentrations, which we attribute to the influence of hydration structure in the Stern layer. Furthermore, we corroborate the differences by examining the effects of anion substitution (SO4 2- for Cl-). Finally, we identify that hysteresis in measuring the reversibility of ion adsorption and desorption at fused silica in forward and reverse titrations manifests itself both in Stern layer structure and in total interfacial potential for some of the salts, most notable CaCl2 and MgSO4, but less so for BaCl2 and NaCl.

The surface activity of ten atmospherically relevant α-pinene-derived dimers having varying terminal functional groups and backbone stereochemistry is reported. We find ~10 percent differences in surface activity between diastereomers of the same dimer, demonstrating that surface activity depends upon backbone stereochemistry. Octanol¬–water (KOW) and octanol–ammonium sulfate partitioning coefficient (KOAS) measurements of our standards align well with the surface activity measurements, with the more surface-active dimers exhibiting increased hydrophobicity. Our findings establish a link between molecular chirality and cloud activation potential of secondary organic aerosol particles. Given the diurnal variations in enantiomeric excess of biogenic emissions, possible contributions of such a link to biosphere:atmosphere feedbacks as well as aerosol particle viscosity and phase separation are discussed.

The C-H and O-H oscillators on the surfaces of thin films of human-derived skin oil and squalene are probed under ambient conditions (300 K, 1 atm total pressure, 40% RH) using second-order vibrational spectroscopy and contact angle goniometry before and after exposure to ppb amounts of ozone. Skin oil and squalene are found to produce different vibrational sum frequency generation spectra in the C-H stretching region, while exposure to ozone results in surface spectra for both materials that is consistent with a loss of C-H oscillators. The measured contact angles show that the hydrophobicity of the films increases following exposure to ozone, consistent with the reduction in C═C···H

Second harmonic generation amplitude and phase measurements are acquired in real time from fused silica:water interfaces that are subjected to ionic strength transitions conducted at pH 5.8. In conjunction with atomistic modeling, we identify correlations between structure in the Stern layer, encoded in the total second-order nonlinear susceptibility, chi(2)tot, and in the diffuse layer, encoded in the product of chi(2)tot and the total interfacial potential, phi(0)tot. chi(2)tot:phi(0)tot correlation plots indicate that the dynamics in the Stern and diffuse layers are decoupled from one another under some conditions (large change in ionic strength), while they change in lockstep under others (smaller change in ionic strength) as the ionic strength in the aqueous bulk solution varies. The quantitative structural and electrostatic information obtained also informs on the molecular origin of hysteresis in ionic strength cycling over fused silica. Atomistic simulations suggest a prominent role of contact ion pairs (as opposed to solvent-separated ion pairs) in the Stern layer. Those simulations also indicate that net water alignment is limited to the first 2 nm from the interface, even at 0 M ionic strength, highlighting water's polarization as an important contributor to nonlinear optical signal generation., Pe-edited version, 21 pages main text, 6 Figures, Supporting Information available upon request

Human skin oils are significant scavengers of atmospheric oxidants in occupied indoor environments, and squalene is a major ozone-active constituent. Here, we present a combined spectroscopic and atomistic modeling approach to elucidate the conformational and orientational preferences of squalene at the air/oil interface and their implications for reactions with ozone. We find that squalene chains have a tendency to align with the surface normal, resulting in different concentrations of the various types of its double bonds and thus different reactivities. We also observe the presence of water at the surface of this hydrophobic compound. Both findings have possible implications for the design and outcomes of kinetic models describing this important aspect of indoor air chemistry.

OBJECTIVES Anomaly detection systems can potentially uncover the entire spectrum of pathologies through deviations from a learned norm, meaningfully supporting the radiologist's workflow. We aim to report on the utility of a weakly supervised machine learning (ML) tool to detect pathologies in head computed tomography (CT) and adequately triage patients in an unselected patient cohort. MATERIALS AND METHODS All patients having undergone a head CT at a tertiary care hospital in March 2020 were eligible for retrospective analysis. Only the first scan of each patient was included. Anomaly detection was performed using a weakly supervised ML technique. Anomalous findings were displayed on voxel-level and pooled to an anomaly score ranging from 0 to 1. Thresholds for this score classified patients into the 3 classes: "normal," "pathological," or "inconclusive." Expert-validated radiological reports with multiclass pathology labels were considered as ground truth. Test assessment was performed with receiver operator characteristics analysis; inconclusive results were pooled to "pathological" predictions for accuracy measurements. External validity was tested in a publicly available external data set (CQ500). RESULTS During the investigation period, 297 patients were referred for head CT of which 248 could be included. Definite ratings into normal/pathological were feasible in 167 patients (67.3%); 81 scans (32.7%) remained inconclusive. The area under the curve to differentiate normal from pathological scans was 0.95 (95% confidence interval, 0.92-0.98) for the study data set and 0.87 (95% confidence interval, 0.81-0.94) in external validation. The negative predictive value to exclude pathology if a scan was classified as "normal" was 100% (25/25), and the positive predictive value was 97.6% (137/141). Sensitivity and specificity were 100% and 86%, respectively. In patients with inconclusive ratings, pathologies were found in 26 (63%) of 41 cases. CONCLUSIONS Our study provides the first clinical evaluation of a weakly supervised anomaly detection system for brain imaging. In an unselected, consecutive patient cohort, definite classification into normal/diseased was feasible in approximately two thirds of scans, going along with an excellent diagnostic accuracy and perfect negative predictive value for excluding pathology. Moreover, anomaly heat maps provide important guidance toward pathology interpretation, also in cases with inconclusive ratings.

The electric double layer governs the processes of all charged surfaces in aqueous solutions, however elucidating the structure of the water molecules is challenging for even the most advanced spectroscopic techniques. Here, we present the individual Stern layer and diffuse layer OH stretching spectra at the silica/water interface in the presence of NaCl over a wide pH range using a combination of vibrational sum frequency generation and heterodyned second harmonic generation techniques and streaming potential measurements. We find that the Stern layer water molecules and diffuse layer water molecules respond differently to pH changes: unlike the diffuse layer, whose water molecules remain net-oriented in one direction, water molecules in the Stern layer flip their net orientation as the solution pH is reduced from basic to acidic. We obtain an experimental estimate of the non-Gouy-Chapman (Stern) potential contribution to the total potential drop across the insulator/electrolyte interface and discuss it in the context of dipolar, quadrupolar, and higher order potential contributions. We quantify how these contributions result in a considerable influence on the vibrational lineshapes. Our findings show that a purely Gouy-Chapman (Stern) view is insufficient to accurately describe the electrical double layer of aqueous interfaces.

Objective Improving shared decision‐making (SDM) enables more tailored cancer treatment decisions. We evaluated a Time Out consultation (TOC) with the general practitioner (GP), between cancer diagnosis and treatment decision, which aims at supporting SDM and improving continuity of primary care. This study aims to evaluate the effects of a TOC on perceived SDM, information provision and self‐efficacy. Methods This randomised controlled trial included newly diagnosed patients with curable cancer (breast, lung, colorectal, gynaecologic and melanoma) from four Dutch hospitals. Primary outcome is perceived SDM and secondary outcomes are information provision and self‐efficacy. Results One hundred fifty‐four patients (control n = 77, intervention n = 77) – female: 75%, mean age: 61 (SD ± 11.9). In the intervention group, 80.5% (n = 62) had a TOC, of which 82.3% (n = 51) took place after treatment decision. Perceived SDM was lower in the intervention group (−8.9 [95% CI: 0.6–17.1]). Among those with a TOC before treatment decision (n = 11), perceived SDM was comparable to the control group (66.5 ± 27.2 vs. 67.9 ± 26.1). Conclusion Even though patients are motivated to have a TOC, implementing a TOC between diagnosis and treatment decision is challenging. Effects of a timely TOC could not be established. Non‐timely TOC decreased perceived SDM. Planning of the TOC should be optimised, and future research should establish if adequately timed TOC results in improved SDM in cancer patients.

Solvated soft matter, both biological and synthetic, can now be imaged in liquids using liquid-cell transmission electron microscopy (LCTEM). However, such systems are usually composed solely of or...

BackgroundDysphagia remains the most significant concern after anti-reflux surgery, including magnetic sphincter augmentation (MSA). The aim of this study was to evaluate postoperative dysphagia rates, its risk factors, and management after MSA.MethodsFrom a prospectively collected database of all 357 patients that underwent MSA at our institution, a total of 268 patients were included in our retrospective study. Postoperative dysphagia score, gastrointestinal symptoms, proton pump inhibitor intake, GERD-HRQL, Alimentary Satisfaction, and serial contrast swallow imaging were evaluated within standardized follow-up appointments. To determine patients’ characteristics and surgical factors associated with postoperative dysphagia, a multivariable logistic regression analysis was performed.ResultsAt a median follow-up of 23 months, none of the patients presented with severe dysphagia, defined as the inability to swallow solids or/and liquids. 1% of the patients underwent endoscopic dilatation, and 1% had been treated conservatively for dysphagia. 2% of the patients needed re-operation, most commonly due to recurrent hiatal hernia. Two patients underwent device removal due to unspecific discomfort and pain. No migration of the device or erosion by the device was seen. The LINX® device size ≤ 13 was found to be the only factor associated with postoperative dysphagia (OR 5.90 (95% CI 1.4–24.8)). The postoperative total GERD-HRQL score was significantly lower than preoperative total score (2 vs. 19; p = 0.001), and daily heartburn, regurgitations, and respiratory complains improved in 228/241 (95%), 131/138 (95%) and 92/97 (95%) of patients, respectively.ConclusionsDysphagia requiring endoscopic or surgical intervention was rare after MSA in a large case series. LINX® devices with a size

Maintaining a robust, stable source of energy for doing chemical and physical work is essential to all living organisms. In eukaryotes, metabolic energy (ATP) production and consumption occurs in two separate compartments, the mitochondrial matrix and the cytosol. As a result, understanding eukaryotic metabolism requires knowledge of energy metabolism in each compartment and how metabolism in the two compartments is coordinated. Central to energy metabolism is the adenylate energy state ([ATP]/[ADP][Pi]). ATP is synthesized by oxidative phosphorylation (mitochondrial matrix) and glycolysis (cytosol) and each compartment provides the energy to do physical work and to drive energetically unfavorable chemical syntheses. The energy state in the cytoplasmic compartment has been established by analysis of near equilibrium metabolic reactions localized in that compartment. In the present paper, analysis is presented for energy-dependent reactions localized in the mitochondrial matrix using data obtained from both isolated mitochondria and intact tissues. It is concluded that the energy state ([ATP]

The electric double layer governs the processes of all charged surfaces in aqueous solutions, however elucidating the structure of the water molecules is challenging for even the most advanced spectroscopic techniques. Here, we present the individual Stern layer and diffuse layer OH stretching spectra at the silica/water interface in the presence of NaCl over a wide pH range using a combination of vibrational sum frequency generation and heterodyned second harmonic generation techniques, streaming potential measurements, and the maximum entropy method. We find that the Stern layer water molecules and diffuse layer water molecules respond differently to pH changes: unlike the diffuse layer, whose water molecules remain net-oriented in one direction, water molecules in the Stern layer flip their net orientation as the solution pH is reduced from basic to acidic. We obtain an experimental estimate of the dipole potential contribution to the total potential drop across the insulator/electrolyte interface and find it to dominate over the Coulomb-only (Gouy-Chapman, Gouy-Chapman-Stern) contribution. We quantify how these contributions result in a considerable influence on the vibrational lineshapes. Our findings show that a purely Coulombic view is insufficient to accurately describe the electrical double layer over aqueous interfaces.

AIMS: Glucokinase (GK) is expressed in the glucose-sensing cells of the islets of Langerhans and plays a critical role in glucose homeostasis. Here, we tested the hypothesis that genetic actvation of GK in a small subset of β-cells is sufficient to change the glucose set-point of the whole islet. MATERIAL AND METHODS: Mouse models of cell-type specific GK deficiency (GKKO) and genetic enzyme activation (GKKI) in a subset of β-cells were obtained by crossing the αGSU (gonadotropin alpha subunit)-Cre transgene with the appropriate GK mutant alleles. Metabolic analyses consisted of glucose tolerance tests, perifusion of isolated islets and intracellular calcium measurements. KEY FINDINGS: The αGSU-Cre transgene produced genetically mosaic islets, as Cre was active in 15 ± 1.2% of β-cells. While mice deficient for GK in a subset of islet cells were normal, unexpectedly, GKKI mice were chronically hypoglycemic, glucose intolerant, and had a lower threshold for glucose stimulated insulin secretion. GKKI mice exhibited an average fasting blood glucose level of 3.5 mM. GKKI islets responded with intracellular calcium signals already at that spread through the whole islets at 1 mM, and secreted insulin at 3 mM glucose. SIGNIFICANCE: Genetic activation of GK in a minority of β-cells is sufficient to change the glucose threshold for insulin secretion in the entire islet and thereby glucose homeostasis in the whole animal. These data support the model in which β-cells with higher GK activity function as ‘hub’ or ‘trigger’ cells and thus control insulin secretion by the β-cell collective within the islet.

SummaryMultiple islet autoantibodies (AAb) predict type 1 diabetes (T1D) and hyperglycemia within 10 years. By contrast, T1D develops in just ∼15% of single AAb+ (generally against glutamic acid decarboxylase, GADA+) individuals; hence the single GADA+ state may represent an early stage of T1D amenable to interventions. Here, we functionally, histologically, and molecularly phenotype human islets from non-diabetic, GADA+ and T1D donors. Similar to the few remaining beta cells in T1D islets, GADA+ donor islets demonstrated a preserved insulin secretory response. By contrast, alpha cell glucagon secretion was dysregulated in both T1D and GADA+ islets with impaired glucose suppression of glucagon secretion. Single cell RNA sequencing (scRNASeq) of GADA+ alpha cells revealed distinct abnormalities in glycolysis and oxidative phosphorylation pathways and a marked downregulation of PKIB, providing a molecular basis for the loss of glucose suppression and the increased effect of IBMX observed in GADA+ donor islets. The striking observation of a distinct early defect in alpha cell function that precedes beta cell loss in T1D suggests that not only overt disease, but also the progression to T1D itself, is bihormonal in nature.

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We report the detection of charge reversal induced by the adsorption of an aqueous cationic polyelectrolyte, poly(allylamine hydrochloride) (PAH), to supported lipid bilayers (SLBs) used as idealized model biological membranes. Through the use of an α-quartz reference crystal, we quantify the total interfacial potential at the interface in absolute units using heterodyne-detected second harmonic generation (HD-SHG) as an optical voltmeter. This quantification is made possible by isolating the phase-shifted potential-dependent third-order susceptibility from other contributions to the total SHG response. We detect the sign and magnitude of the surface potential and the point of charge reversal at buried interfaces without prior information or complementary data

Given the global epidemic in type 2 diabetes, novel antidiabetic drugs with increased efficacy and reduced side effects are urgently needed. Previous work has shown that M3 muscarinic acetylcholine (ACh) receptors (M3Rs) expressed by pancreatic β cells play key roles in stimulating insulin secretion and maintaining physiological blood glucose levels. In the present study, we tested the hypothesis that a positive allosteric modulator (PAM) of M3R function can improve glucose homeostasis in mice by promoting insulin release. One major advantage of this approach is that allosteric agents respect the ACh-dependent spatiotemporal control of M3R activity. In this study, we first demonstrated that VU0119498, a drug known to act as a PAM at M3Rs, significantly augmented ACh-induced insulin release from cultured β cells and mouse and human pancreatic islets. This stimulatory effect was absent in islets prepared from mice lacking M3Rs, indicative of the involvement of M3Rs. VU0119498 treatment of wild-type mice caused a significant increase in plasma insulin levels, accompanied by a striking improvement in glucose tolerance. These effects were mediated by β-cell M3Rs, since they were absent in mutant mice selectively lacking M3Rs in β cells. Moreover, acute VU0119498 treatment of obese, glucose-intolerant mice triggered enhanced insulin release and restored normal glucose tolerance. Interestingly, doses of VU0119498 that led to pronounced improvements in glucose homeostasis did not cause any significant side effects due to activation of M3Rs expressed by other peripheral cell types. Taken together, the data from this proof-of-concept study strongly suggest that M3R PAMs may become clinically useful as novel antidiabetic agents.

We examine synthesized standards of structurally related β-caryophyllene ozonolysis products at the air/water and air/ammonium sulfate (aq) interfaces using polarization-resolved standard- and high...

We present a comparison of statistical and principal component analyses (PCA) for reducing the amount of near-field data required as an input to a time-domain spherical-multipole near-to-far-field transformation. Such transformations are necessary for finite-difference time-domain (FDTD) simulations that typically only model the near-field. The authors demonstrate their approach for the case of far-fields scattered by a dielectric sphere. For a threshold value of 10 6 , the PCA technique reduced the data required by 32%, using 12 components. A similar compression was achieved with statistical analysis, when the threshold is set at 10 − 7 σ . Their work shows that the proposed statistical compression is preferable because it has simpler implementation and low-cost processing, when implemented together with the NFF transformation code.

o accurately simulate the foam core in composite parts on a macroscopic scale the morphology, the characterisation, and the nonlinear behaviour of thefoam must be understood properly. Accounting for the heterogeneity and the mechanical properties of the foam core affects the dimensioning of the final part.In the present study the microstructure of the foam samples were characterized using scanning electron microscopy. To determine the bulk material behavior and the strength limitations of the nonlinear foam, shear and compressions tests are performed. All numerical calculations were carried out on the macroscopic level.A basic challenge in the finite element modelling of hyperelastic materials by means of test data is the identification of material model coefficients which are appropriate to describe the behaviour of the considered foam.

In glucose homeostasis, glucose concentration is sensed by its metabolism through glucokinase (GCK) and oxidative phosphorylation. Because oxidative phosphorylation is an integral part of the sensory system, glucose sensing is necessarily dependent on oxygen pressure. Much of the dependence on oxygen is suppressed by location of glucose sensing cells in tissues with well-regulated blood flow. In healthy individuals the oxygen dependence is primarily observed in response to transient global hypoxia events such as during birth or transition to high altitude. The GCK sensing system is, however, used to control release of both insulin and glucagon, the preeminant hormonal regulators of blood glucose, as well as glucose sensitive neuronal activity. Suppression of oxygen delivery to glucose-sensing cells or interference with regulation of tissue blood flow by either local or systemic causes, stresses the glucose regulatory system. This is true whether the stress is imposed locally, such as by altered oxygen delivery to the pancreas, or globally, as in pulmonary insufficiency or exposure to high altitude. It may be expected that chronic application of this stress predisposes individuals to developing diabetes. Type 2 diabetes is a broad class of diseases characterized by disturbance of glucose homeostasis, i.e., having either hyperglycemia and/or decreased sensitivity to insulin. Given the role of oxidative phosphorylation in glucose sensing, tissue oxygen deprivation may predispose individuals to developing diabetes as well as contributing to the disease itself. This is particularly true in age-related diabetes because the incidence of vascular insufficiency increases markedly with increasing age.NEW & NOTEWORTHY Glucose sensing requires glucose metabolism through glycolysis and oxidative phosphorylation. Dependence of the latter on oxygen concentration imposes an oxygen dependence on glucose sensing. We have used a validated computational model to quantify that dependence. Evidence is presented that tissue oxygenation plays an important role in predisposition of individuals to developing type 2 diabetes and in progression of the disease.

The surface charge densities, apparent equilibrium binding constants, and free energies of binding of nickel ions to supported and suspended lipid membranes prepared from POPC and two types of lipopolysaccharide (LPS) are reported. Second- and third-order nonlinear optical mixing shows that rough LPS (rLPS)-incorporated bilayers carry the highest charge density and provide the most binding sites for nickel ions while LPS-free bilayers exhibit the lowest charge density and fewest binding sites. Ni2+ binding is almost fully reversible at low concentrations but less so at higher Ni2+ concentrations. Ni2+ adsorption isotherms exhibit hysteresis loops. The role of interfacial depth on the observed second harmonic generation (SHG) responses is discussed in the context of complementary dynamic light scattering, X-ray spectroscopy, and cryogenic transmission electron microscopy experiments. The latter reveal considerable Ni2+-induced structural deformations to the bacterial membrane models containing the short, O-antigen-free rLPS, consistent with complex formation on the vesicle surfaces that involve Ni2+ ions and carboxylate groups in the inner core of rLPS. In contrast, Ni2+ ion complexation to the charged groups (phosphates and carboxylate) of the considerably longer O-antigen units in sLPS appears to protect the phospholipid backbone against metal binding and thus preserve the vesicle structure.

We report ionic strength-dependent phase shifts in second harmonic generation (SHG) signals from charged interfaces that verify a recent model in which dispersion between the fundamental and second harmonic beams modulates observed signal intensities. We show how phase information can be used to unambiguously separate the χ(2) and interfacial potential-dependent χ(3) terms that contribute to the total signal and provide a path to test primitive ion models and mean field theories for the electrical double layer with experiments to which theory must conform. Finally, we demonstrate the new method on supported lipid bilayers and comment on the ability of our new instrument to identify hyper-Rayleigh scattering contributions to common homodyne SHG measurements in reflection geometries.

Two Jesuits accompanied duke Maximilian’s campaign from Munich to Prague in 1620 in their courtly functions and recorded in Latin diaries the advance through Upper and Lower Austria and Bohemia as eyewitnesses. Johann Buslidius was the prince’s archivist, Jeremias Drexel his court preacher, one of the most important and successful religious writers of the epoch. This essay attempts to describe the conditions for recording and publishing war depictions in the context of Upper German Catholic denominational culture. Discussed are the differences between incident and recording (on the basis of different diary entries concerning a mutiny in Linz, Upper Austria), the thematization of war in Drexel’s religious writings, the differences between recording and printing in official publications about the war campaign (journal, pamphlet, panegyric, sermon) as well as the denominational differences in the evaluation and historical classification of the Thirty Years War.

Humans' voice offers the widest variety of motor phenomena of any human activity. However, its clinical evaluation in people with movement disorders such as Parkinson's disease (PD) lags behind current knowledge on advanced analytical automatic speech processing methodology. Here, we use deep learning-based speech processing to differentially analyze voice recordings in 14 people with PD before and after dopaminergic medication using personalized Convolutional Recurrent Neural Networks (p-CRNN) and Phone Attribute Codebooks (PAC). p-CRNN yields an accuracy of 82.35% in the binary classification of ON and OFF motor states at a sensitivity/specificity of 0.86/0.78. The PAC-based approach's accuracy was slightly lower with 73.08% at a sensitivity/specificity of 0.69/0.77, but this method offers easier interpretation and understanding of the computational biomarkers. Both p-CRNN and PAC provide a differentiated view and novel insights into the distinctive components of the speech of persons with PD. Both methods detect voice qualities that are amenable to dopaminergic treatment, including active phonetic and prosodic features. Our findings may pave the way for quantitative measurements of speech in persons with PD.

Living organisms require continuous input of energy for their existence. As a result, life as we know it is based on metabolic processes that extract energy from the environment and make it available to support life (energy metabolism). This metabolism is based on, and regulated by, the underlying thermodynamics. This is important because thermodynamic parameters are stable whereas kinetic parameters are highly variable. Thermodynamic control of metabolism is exerted through near equilibrium reactions that determine. (1) the concentrations of metabolic substrates for enzymes that catalyze irreversible steps and (2) the concentrations of small molecules (AMP, ADP, etc.) that regulate the activity of irreversible reactions in metabolic pathways. The result is a robust homeostatic set point (−ΔGATP) with long term (virtually unlimited) stability. The rest of metabolism and its regulation is constrained to maintain this set point. Thermodynamic control is illustrated using the ATP producing part of glycolysis, glyceraldehyde-3-phosphate oxidation to pyruvate. Flux through the irreversible reaction, pyruvate kinase (PK), is primarily determined by the rate of ATP consumption. Change in the rate of ATP consumption causes mismatch between use and production of ATP. The resulting change in [ATP]/[ADP][Pi], through near equilibrium of the reactions preceding PK, alters the concentrations of ADP and phosphoenolpyruvate (PEP), the substrates for PK. The changes in ADP and PEP alter flux through PK appropriately for restoring equality of ATP production and consumption. These reactions appeared in the very earliest lifeforms and are hypothesized to have established the set point for energy metabolism. As evolution included more metabolic functions, additional layers of control were needed to integrate new functions into existing metabolism without changing the homeostatic set point. Addition of gluconeogenesis, for example, resulted in added regulation to PK activity to prevent futile cycling; PK needs to be turned off during gluconeogenesis because flux through the enzyme would waste energy (ATP), subtracting from net glucose synthesis and decreasing overall efficiency.

Additional file 5. Reduced representation sequencing (RRS) laboratory protocol based on the protocol from Peterson et al. (2012) [15]. The protocol is scaled for use with 192 samples and with restriction enzymes EcoRI and MspI; the reagent volumes can be scaled down/up to suit other sample numbers; if other enzymes are used, the respective reaction conditions must be adjusted.

Additional file 7. Results from parameter optimization for de novo assembly and genotyping. Eight parameter optimization series were conducted following Rochette & Catchen (2017) [45] to identify optimal parameters to genotype reduced representation sequencing (RRS) data with Stacks v2.4 (Rochette et al. 2019) [21]; one test series for each species/species complex. The Stacks parameter m was kept constant (m = 3), while parameters M and n were varied together from 1 to 9. Subsequently, only loci present in 80% of the samples were retained and for each M = n parameter the number of loci and polymorphic loci was plotted, as well as the proportion of these loci containing 0 to 10 or > 10 SNPs. In ostracods, the library contained DNA from a species-complex, resulting in very few shared loci across 80% of the samples. Therefore, in this case results based on loci shared by 50% of samples are shown. Optimal M = n values were decided in all cases with this information (and reported in Table 5). Note, however, that it is impossible to make absolute calls regarding the ideal value.

Additional file 1. Samples used for reduced representation sequencing (RRS) optimization. DNA from these samples was used for empirical restriction enzyme digestions with different enzymes (single digest EcoRI, PstI, MspI, or double digest EcoRI-MspI) and for RRS pilot libraries. Some samples were extracted twice as replicates (marked as _rep in sample ID). Three samples per species (family in the case of ostracods) were used for empirical digestions. The amphipod (C. obesa and E. pontomedon) samples and one T. loennbergii were used for empirical digestions, but not included in any RRS library.

Additional file 2. In silico estimates of the number of fragments. Estimates were produced through in silico restriction enzyme digestions for reduced representation sequencing (RRS) optimized for approximately 30× coverage. The number of fragments depends on the restriction enzyme/combination, the size window, the assumed genome size, and the reference genome used for in silico digestion. Reference genomes of related species were used as well as simulated genomes; in this case the size and GC content used to simulate the genomes are listed. The number of fragments were extrapolated to the assumed genome size. Only two different enzyme and size selection setups per target species are listed here (for RRS setups optimized for HiSeq 2500 or HiSeq 4000 sequencing runs, respectively; the same as in Table 4, Table 5, Additional File 4); further estimates can be found in spreadsheets available at https://doi.org/10.5281/zenodo.5045574 .

Additional file 6. Reduced representation sequencing (RRS) laboratory protocol based on the protocol from Elshire et al. (2011) [14]. The protocol is scaled for use with 192 samples and with restriction enzymes PstI or ApeKI; the reagent volumes can be scaled down/up to suit other sample numbers; if other enzymes are used, the respective reaction conditions must be adjusted.