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This paper explores the application of affect control theory (ACT) to the study of morality. A concise statement of ACT sets the stage for presenting examples of applying the theory to morality. This includes exploring the moral implications or overtones of social concepts (social identities, behaviors, traits, and settings); computer simulations of impressions created by moral and immoral events; and a discussion of several studies directly applying ACT to morality. The paper concludes with a detailed discussion of what ACT can contribute to moral psychology and the sociology of morality.

Nuclear magnetic resonance (NMR) spectroscopy is commonly employed in a wide range of metabolomic research. Unfortunately, due to its relatively low sensitivity, smaller samples become challenging to study by NMR. Cryoprobes can be used to increase sensitivity by cooling the coil and preamplifier, offering sensitivity improvements of ∼3 to 4

Compartmentalized chemical reactions at the microscale are important in biotechnology, yet monitoring the molecular content at these small scales is challenging. To address this challenge, we integrate a compact, reconfigurable reaction cell featuring electrochemical functionality with high‐resolution NMR spectroscopy. We demonstrate the operation of this system by monitoring the activity of enzymes immobilized in chemically distinct layers within a multi‐layered chitosan hydrogel assembly. As a benchmark, we observed the parallel activities of urease (Urs), catalase (Cat), and glucose oxidase (GOx) by monitoring reagent and product concentrations in real‐time. Simultaneous monitoring of an independent enzymatic process (Urs) together with a cooperative process (GOx + Cat) was achieved, with chemical conversion modulation of the GOx + Cat process demonstrated by varying the order in which the hydrogel was assembled., We integrate a compact, reconfigurable reaction cell featuring electrochemical functionality with high‐resolution NMR spectroscopy. This system is used to monitor the activity of enzymes immobilized in chemically distinct layers within a multi‐layered chitosan hydrogel assembly. We observed the parallel activities of urease, catalase, and glucose oxidase by monitoring reagent and product concentrations in real‐time.

A labeling strategy for in vivo

Improved technologies are needed for sustainable conversion of cellulosic waste to valuable products. Here we demonstrate the successful integration of a synthetic microbial consortium (SynCONS) based consolidated bioprocessing with pyrolysis to produce commodity chemicals from cellulose. Promising microbial partners were rationally identified from 7626 organisms via comparative metabolic mapping which led to establishing two promising SynCONS with abilities to convert cellulose to ethanol and lactate in bioreactors. The partners in the two SynCONS were a) the mesophilic fungus Trichoderma reesei grown sequentially with the thermophilic bacterium Parageobacillus thermoglucosidasius NCIMB 11955 (TrPt) and b) a thermophilic bacterium Thermobifida fusca grown together with Parageobacillus thermoglucosidasius NCIMB 11955 (TfPt). TrPt sequential bioprocessing resulted in 39% (g/g) cellulose consumption with product yields up to 9.3% g/g (ethanol + lactate). The TfPt co-cultures demonstrated a cellulose consumption of 30% (g/g) and combined yields of ethanol and lactic acid up to 23.7% g/g of consumed cellulose. The total product yields were further enhanced (51% g/g cellulose) when commercially available cellulases were used in place of T. fusca. Furthermore, when the metabolically engineered ethanol-producing strain of P. thermoglucosidasius TM242 (TfPt242) was substituted in the thermophilic TfPt co-culture consortium, ethanol yields were substantially higher (32.7% g/g of consumed cellulose). Finally, subjecting the residual cellulose and microbial biomass to pyrolysis resulted in carbon material with physicochemical properties similar to commercially available activated carbon as analysed using Scanning Electron Microscopy, X-Ray Diffraction and Raman spectroscopy. Overall, the integration of this synthetic microbial consortia-based bioprocessing strategy with pyrolysis demonstrated a promising strategy for conversion of waste cellulose to chemicals, biofuels, and industrial carbon potentially suitable for several industrial applications.

Combining microfluidic devices with nuclear magnetic resonance (NMR) has the potential of unlocking their vast sample handling and processing operation space for use with the powerful analytics provided by NMR. One particularly challenging class of integrated functional elements from the perspective of NMR are conductive structures. Metallic electrodes could be used for electrochemical sample interaction for example, yet they can cause severe NMR spectral and SNR degradation. These issues are more entangled at the micro-scale since the distorted volume occupies a higher ratio of the sample volume. In this study, a combination of simulation and experimental validation was used to identify an electrode geometry that, in terms of NMR spectral parameters, performs as well as for the case when no electrodes are present. By placing the metal tracks in the side-walls of a microfluidic channel, we found that NMR RF excitation performance was actually enhanced, without compromising B0 homogeneity. Monitoring in situ deposition of chitosan in the microfluidic platform is presented as a proof-of-concept demonstration of NMR characterisation of an electrochemical process.

Band selectivity to address specific resonances in a spectrum enables one to encode individual settings for diffusion experiments. In a single experiment, this could include different gradient strengths (enabling coverage of a larger range of diffusion constants), different diffusion delays, or different gradient directions (enabling anisotropic diffusion measurement). In this report a selective variant of the bipolar pulsed gradient, eddy-current delay (BPP-LED) experiment enabling selective encoding of three resonances was implemented. As proof-of-principle, the diffusion encoding gradient amplitude was assigned a range dependent on the selected signal, thereby allowing the extraction of the diffusion coefficient for water and a tripeptide (Met-Ala-Ser) with optimal settings in a single experiment.

In this prospective paper we consider the opportunities and challenges of miniaturized nuclear magnetic resonance. As the title suggests, (irreverently borrowing from E.F. Schumacher's famous book), miniaturized NMR will feature a few small windows of opportunity for the analyst. We look at what these are, speculate on some open opportunities, but also comment on the challenges to progress., 9 pages, 4 figures, Accept 2019 Journal of Magnetic Resonance

Nuclear magnetic resonance at low field strength is an insensitive spectroscopic technique, precluding portable applications with small sample volumes, such as needed for biomarker detection in body fluids. Here we report a compact double resonant chip stack system that implements in situ dynamic nuclear polarisation of a 130 nL sample volume, achieving a signal enhancement of 54 w.r.t. the thermal equilibrium level at a microwave power level of 0.5W. This work overcomes instrumental barriers to the use of NMR detection for point-of-care applications.

Compartmentalized chemical reactions at the microscale are interesting from many perspectives including (multi)functional surfaces and biotechnology. Monitoring the molecular content as a measure of functional performance at these small scales is challenging. As a means to address this challenge, we leverage microtechnology and biocompatible materials to integrate a compact, reconfigurable reaction cell featuring electrochemical functionality with high-resolution nuclear magnetic resonance spectroscopy (NMR). We demonstrate the operation of this system by monitoring the activity of enzymes immobilized in chemically distinct layers within a multi-layered chitosan hydrogel assembly. As a benchmark, we observed the parallel activities of urease (Urs), catalase (Cat), and glucose oxidase (GOx) by recording NMR spectra to extract reagent and product concentrations in real-time. As a result, simultaneous monitoring of a cooperative enzymatic process (GOx + Cat) together with an independent process (Urs) is achieved. Using Michaelis-Menten progress curve analysis of the NMR data, kinetic data is extracted: in the case of GOx, the Michaelis constants (KM) are consistent with previous reports, while for Urs, deviations are observed, attributed to an inhibitory effect under our reaction conditions. The system therefore enables the construction of complex reaction cascades with spatial control, as would be interesting in, for example, metabolic engineering and multiplexed sensing applications.

Nuclear magnetic resonance at low field strength is an insensitive spectroscopic technique, precluding portable applications with small sample volumes, such as needed for biomarker detection in body fluids. Here we report a compact double resonant chip stack system that implements in situ dynamic nuclear polarisation of a 130 nL sample volume, achieving signal enhancements of up to − 60 w.r.t. the thermal equilibrium level at a microwave power level of 0.5 W. This work overcomes instrumental barriers to the use of NMR detection for point-of-care applications.

Combining microfluidic devices with nuclear magnetic resonance (NMR) has the potential of unlocking their vast sample handling and processing operation space for use with the powerful analytics provided by NMR. One particularly challenging class of integrated functional elements from the perspective of NMR are conductive structures. Metallic electrodes could be used for electrochemical sample interaction for example, yet they can cause severe NMR spectral and SNR degradation. These issues are more entangled at the micro-scale since the distorted volume occupies a higher ratio of the sample volume. In this study, a combination of simulation and experimental validation was used to identify an electrode geometry that, in terms of NMR spectral parameters, performs as well as for the case when no electrodes are present. By placing the metal tracks in the side-walls of a microfluidic channel, we found that NMR RF excitation performance was actually enhanced, without compromising B0 homogeneity. Monitoring in situ deposition of chitosan in the microfluidic platform is presented as a proof-of-concept demonstration of NMR characterisation of an electrochemical process.

BackgroundThe novel coronavirus SARS-CoV-2 (COVID-19) emerged in December 2019 in Wuhan, China and has spread since then to around 210 countries and territories by April 2020. Consequently, countries have adopted physical distance measures in an attempt to mitigate the uncontrolled spread of the virus. A critical question for policymakers to inform evidence-based practice is if and how physical distance measures slowed the propagation of COVID-19 in the early phase of the pandemic.MethodsThis study aims to quantify the effects of physical distance mitigation measures on the propagation of the COVID-19 pandemic. Data from John Hopkins University on confirmed cases and testing data from the Our World in Data were used in an interrupted time series analysis to estimate the effects of physical distance measures on the growth rates of the pandemic in 12 countries of Asia, Africa, and Europe.FindingsWe found that physical distance measures produced a significant decrease in the growth rates of the COVID-19 pandemic in five countries (Austria, Belgium, Italy, Malaysia, and South Korea). The test-positivity rate was significant in understanding the slowing growth rate of COVID-19 cases caused by the mitigation measures, as it provides important context that is missing from analysis based only on confirmed case data.InterpretationPhysical distance interventions effectively slowed the progression of the COVID-19 pandemic. The results of this study could inform infectious disease mitigation policies based on physical distance measures by quantifying the differential health outcomes of a pandemic with and without physical distance interventions.RESEARCH IN CONTEXTEvidence before this studyThe SARS-CoV-2 is a new virus identified in December 2019 in the province of Wuhan, China and as never before, a remarkable number of studies and reports have been released since the start of the pandemic. Several studies have used confirmed COVID-19 cases to estimate the growth rate of the pandemic. However, many studies have discussed limitations of including only confirmed cases attributable to the lack of information about testing protocols and testing rates among different countries. Finally, some researchers proposed the analysis of reported deaths by COVID-19 as a potential solution. However, this metric results in biased estimates because deaths by COVID-19 are known to be underreported.Added value of this studyWe designed and implemented analytic methods based on our previous research applied to different infectious disease epidemics, to add evidence related to the impact of non-pharmaceutical containment strategies on the temporal progression of the COVID-19 pandemic. Specifically, this study adds quantitative evidence about the effects of physical distance measures on limiting the propagation of COVID-19 pandemics in different countries. Additionally, we included testing data in the analysis to assess intra- and inter-country variation in testing growth rates. We hypothesized that the test-positivity rate is an approximation to the incidence of the COVID-19 pandemics in countries with high testing rates. Additionally, we hypothesize that a significant decrease in the pandemic over time could be identified by a significant decrease in the confirmed cases along with a significant decrease in the test-positivity rate. Our results quantified the potential effects of physical distance interventions on the COVID-19 pandemic progression under different levels of testing and enforcement of mitigation policies.Implications of all the available evidenceOur analysis could lead to better approaches for estimating the effects of physical distance measures on the time course of infectious diseases. In addition, our analysis highlights the potential bias of estimated COVID-19 growth rates based only on confirmed cases. The results from our study could inform strategies for mitigating the COVID-19 or other future pandemics, especially in countries in an earlier stage of a pandemic.

Complex mixture analysis is routinely encountered in NMR-based investigations. With the aim of component identification, spectral complexity may be addressed chromatographically or spectroscopically, the latter being favored to reduce sample handling requirements. An attractive experiment is selective total correlation spectroscopy (sel-TOCSY), which is capable of providing tremendous spectral simplification and thereby enhancing assignment capability. Unfortunately, isolating a well resolved resonance is increasingly difficult as the complexity of the mixture increases and the assumption of single spin system excitation is no longer robust. We present TOCSY optimized mixture elucidation (TOOMIXED), a technique capable of performing spectral assignment particularly in the case where the assumption of single spin system excitation is relaxed. Key to the technique is the collection of a series of 1D sel-TOCSY experiments as a function of the isotropic mixing time ( τ m ), resulting in a series of resonance intensities indicative of the underlying molecular structure. By comparing these τ m -dependent intensity patterns with a library of pre-determined component spectra, one is able to regain assignment capability. After consideration of the technique’s robustness, we tested TOOMIXED firstly on a model mixture. As a benchmark we were able to assign a molecule with high confidence in the case of selectively exciting an isolated resonance. Assignment confidence was not compromised when performing TOOMIXED on a resonance known to contain multiple overlapping signals, and in the worst case the method suggested a follow-up sel-TOCSY experiment to confirm an ambiguous assignment. TOOMIXED was then demonstrated on two realistic samples (whisky and urine), where under our conditions an approximate limit of detection of 0.6 mM was determined. Taking into account literature reports for the sel-TOCSY limit of detection, the technique should reach on the order of 10 μ M sensitivity. We anticipate this technique will be highly attractive to various analytical fields facing mixture analysis, including metabolomics, foodstuff analysis, pharmaceutical analysis, and forensics.

Comparison of system-wide metabolic pathways among microbes provides valuable insights of organisms' metabolic capabilities that can further assist in rationally screening organisms in silico for various applications. In this work, we present a much needed, efficient and user-friendly Genome to KEGG Orthology (G2KO) pipeline tool that facilitates efficient comparison of system wide metabolic networks of multiple organisms simultaneously. The optimized strategy primarily involves automatic retrieval of the KEGG Orthology (KO) identifiers of user defined organisms from the KEGG database followed by overlaying and visualization of the metabolic genes using the KEGG Mapper reconstruct pathway tool. We demonstrate the applicability of G2KO via two case studies in which we processed 24,314 genes across 15 organisms, mapped on to 530 reference pathways in KEGG, while focusing on pathways of interest. First, an in-silico designing of synthetic microbial consortia towards bioprocessing of cellulose to valuable products by comparing the cellulose degradation and fermentative pathways of microbes was undertaken. Second, we comprehensively compared the amino acid biosynthetic pathways of multiple microbes and demonstrated the potential of G2KO as an efficient tool for metabolic studies. We envisage the tool will find immensely useful to the metabolic engineers as well as systems biologists. The tool's web-server, along with tutorial is publicly available at https://faculty.iitmandi.ac.in/~shyam/tools/g2ko/g2ko.cgi . Also, standalone tool can be downloaded freely from https://sourceforge.net/projects/g2ko/ , and from the supplementary.

We implemented continuous-flow SABRE NMR spectroscopy on a chip, unlocking low-volume chemosensing of strongly diluted analytes., Complex mixtures, commonly encountered in metabolomics and food analytics, are now routinely measured by nuclear magnetic resonance (NMR) spectroscopy. Since many samples must be measured, one-dimensional proton (1D 1H) spectroscopy is the experiment of choice. A common challenge in complex mixture 1H NMR spectroscopy is spectral crowding, which limits the assignment of molecular components to those molecules in relatively high abundance. This limitation is exacerbated when the sample quantity itself is limited and concentrations are reduced even further during sample preparation for routine measurement. To address these challenges, we report a novel microfluidic NMR platform integrating signal enhancement via parahydrogen induced hyperpolarisation. The platform simultaneously addresses the challenges of handling small sample quantities through microfluidics, the associated decrease in signal given the reduced sample quantity by Signal Amplification by Reversible Exchange (SABRE), and overcoming spectral crowding by taking advantage of the chemosensing aspect of the SABRE effect. SABRE at the microscale is enabled by an integrated PDMS membrane alveolus, which provides bubble-free hydrogen gas contact with the sample solution. With this platform, we demonstrate high field NMR chemosensing of microliter sample volumes, nanoliter detection volumes, and micromolar concentrations corresponding to picomole molecular sensitivity.

Magnetic resonance tomography typically applies the Fourier transform to k-space signals repeatedly acquired from a frequency encoded spatial region of interest, therefore requiring a stationary object during scanning. Any movement of the object results in phase errors in the recorded signal, leading to deformed images, phantoms, and artifacts, since the encoded information does not originate from the intended region of the object. However, if the type and magnitude of movement is known instantaneously, the scanner or the reconstruction algorithm could be adjusted to compensate for the movement, directly allowing high quality imaging with non-stationary objects. This would be an enormous boon to studies that tie cell metabolomics to spontaneous organism behaviour, eliminating the stress otherwise necessitated by restraining measures such as anesthesia or clamping. In the present theoretical study, we use a phantom of the animal model C. elegans to examine the feasibility to automatically predict its movement and position, and to evaluate the impact of movement prediction, within a sufficiently long time horizon, on image reconstruction. For this purpose, we use automated image processing to annotate body parts in freely moving C. elegans, and predict their path of movement. We further introduce an MRI simulation platform based on bright field videos of the moving worm, combined with a stack of high resolution transmission electron microscope (TEM) slice images as virtual high resolution phantoms. A phantom provides an indication of the spatial distribution of signal-generating nuclei on a particular imaging slice. We show that adjustment of the scanning to the predicted movements strongly reduces distortions in the resulting image, opening the door for implementation in a high-resolution NMR scanner., PLoS Computational Biology, 15 (12), ISSN:1553-734X, ISSN:1553-7358

Detection of prostate cancer (PCa) and distinguishing indolent versus aggressive forms of the disease is a critical clinical challenge. The current clinical test is circulating prostate-specific antigen levels, which faces particular challenges in cancer diagnosis in the range of 4 to 10 ng/mL. Thus, a concerted effort toward building a noninvasive biomarker panel has developed. In this report, the hypothesis that nuclear magnetic resonance (NMR)-derived metabolomic profiles measured in the urine of biopsy-negative versus biopsy-positive individuals would nominate a selection of potential biomarker signals was investigated. 1H NMR spectra of urine samples from 317 individuals (111 biopsy-negative, 206 biopsy-positive) were analyzed. A double cross-validation partial least squares-discriminant analysis modeling technique was utilized to nominate signals capable of distinguishing the two classes. It was observed that after variable selection protocols were applied, a subset of 29 variables produced an area under the curve (AUC) value of 0.94 after logistic regression analysis, whereas a “master list” of 18 variables produced a receiver operating characteristic ROC) AUC of 0.80. As proof of principle, this study demonstrates the utility of NMR-based metabolomic profiling of urine biospecimens in the nomination of PCa-specific biomarker signals and suggests that further investigation is certainly warranted.

We describe a novel stacked split-ring type microwave (MW) resonator that is integrated into a 10 mm by 10 mm sized microfluidic chip. A straightforward and scalable batch fabrication process renders the chip suitable for single-use applications. The resonator volume can be conveniently loaded with liquid sample via microfluidic channels patterned into the mid layer of the chip. The proposed MW resonator offers an alternative solution for compact in-field measurements, such as low-field magnetic resonance (MR) experiments requiring convenient sample exchange. A microstrip line was used to inductively couple MWs into the resonator. We characterised the proposed resonator topology by electromagnetic (EM) field simulations, a field perturbation method, as well as by return loss measurements. Electron paramagnetic resonance (EPR) spectra at X-band frequencies were recorded, revealing an electron-spin sensitivity of View the MathML source3.7·1011spins·Hz-1/2G-1 for a single EPR transition. Preliminary time-resolved EPR experiments on light-induced triplet states in pentacene were performed to estimate the MW conversion efficiency of the resonator.

Pyrolysis of patterned polymers is a widespread technique for obtaining miniaturised carbon structures and devices. This process is performed at ≥ 900°C, which limits the device fabrication to rigid, high-temperature resistant substrates such as silicon. We obtain carbon patterns on commercially available polyimide films by a controlled laser writing, which induces a pyrolysis-like effect and causes the partial conversion of the polyimide into an electrically conductive, high-surface area carbon material. These flexible carbon patterns are characterised using microscopic and spectroscopic techniques, and are used as electrodes for the electrodeposition of chitosan. Subsequently, urease enzyme is immobilised on the chitosan film, and this composite electrode assembly is used for pH-based urea detection. This lithography-free, low-cost, and rapid fabrication process is capable of polyimide surface patterning with any desired shape in the micro- to millimeter range. Electrodeposited chitosan films can be used for the immobilisation of a variety of enzymes and chemical moieties for biosensing applications.

Continuous development of fabrication technologies, such as two-photon polymerization (2PP), allows the exact reconstruction of specific volume shapes at micro- and nanometer precision. Advancements in the engineering of new materials, such as ionic liquids (ILs), are bringing superior advantages in terms of material characteristics, facilitating a combination of optical and electrical properties, as well as lithographic capabilities. In this paper, 2PP is utilized for structuring of a novel IL–polymer composite in a single-step manufacturing process with high resolution, down to 200 nm, and high aspect ratio, up to 1:20. The composition, based on a photosensitive photoresist (e.g., IP-L 780 or SU-8) and the IL 1-butyl-3-methylimidazolium dicyanamide, possesses a good ionic conductivity (in the range of 1–10 mS cm−1) over a wide frequency bandwidth (1 kHz–1 MHz), an electrochemical window of 2.7 V, and a good optical transparency (transmission value of 90% for a 170 μm thick film). The fabricated structures are characterized and the phenomenon of enhanced conductivity (up to 4 S cm−1) is explained. Two potential applications, including temperature and relative humidity sensing, are demonstrated as examples. The results suggest a new advanced approach for material structuring that can be regarded as highly most promising for a wide range of applications.

A severe form of Parkinson’s disease (PD) is the Kufor-Rakeb syndrome. Here mutations in the ATP13A2 (PARK9) gene lead to an early juvenile-onset Parkinsonism often accompanied by dementia. ATP13A2 encodes a lysosomal P-type ATPase. Its ortholog in Caenorhabditis elegans is the catp-6 gene where phenotypes with mutations in the alleles ok3473 and tm3190 show high mortality and low reproduction. Since PD is difficult to study in humans we wanted to investigate the potential to use C. elegans as model for the Kufor-Rakeb syndrome. As it is difficult to obtain enough catp-6 mutant worms for standard NMR metabolic profiling, we explored focused ultrasonication extraction and miniaturized NMR as techniques to overcome this limitation. One- and two-dimensional NMR experiments (1 H, JRES, TOCSY) were performed with a commercial high-resolution magic angle spinning (HR-MAS) probe (25 µL sample volume). Significant features were identified through analysis of variance (ANOVA, p 1.5), PCA, and PLS-DA. Assignment of statistically relevant peaks resulted in the identification of twenty altered metabolites. Previous studies on catp-6 mutants identified strong morphological and functional changes in their mitochondria. Our findings of altered TCA metabolites (fumarate, succinate), branched-chain amino acids (leucine, isoleucine and valine) and nucleotides (AMP, ATP and GTP), formate and hypoxanthine appear to support these findings. Highest fold changes (< −5) in wildtype relative to both catp-6 strains were found for GTP. Formic acid is known to inhibit the mitochondrial respiratory chain complex IV and high hypoxanthine in catp-6 indicates an increased nucleotide salvage pathway. Alterations in most of the remaining metabolites may be the result of the recently discovered activation of AMPK (AMP-activated protein kinase) and inhibition of mTOR (mechanistic target of rapamycin) pathways together with a catabolic response to recover energy production. If the effect of the catp-6 mutation in C. elegans at the level of metabolites is correlated to the metabolic dysfunction in the human PARK9 ortholog, then it may be possible to uncover the molecular mechanism behind Parkinsonism and the Kufor-Rakeb syndrome.

Biosensing applications have taken advantage of lab-on-a-chip technologies for sample handling and sensors integration for highly sensitive, specific detection with high throughput. These systems are based on 2.5D fabrication principles with sensing elements restricted to an array format in two dimensions. In this report, a sensing platform that recovers biosensing capabilites in three spatial dimensions is presented. This is achieved by leveraging chitosan, a stimulus responsive polyaminosaccharide that undergoes a sol-gel transition driven by a change of pH. This process can be repeated, resulting in a multilayered hydrogel stack where each layer carries a unique chemical identity. In addition, the functionality of chitosan can be modified prior to or during the assembly process. This is demonstrated by introducing both a carboxylic acid functionality and additional primary amines to the base chitosan polymer. The assembly process is shown to be compatible with microfluidic dimensions.

Nuclear magnetic resonance based measurements of small molecule mixtures continues to be confronted with the challenge of spectral assignment. While multi-dimensional experiments are capable of addressing this challenge, the imposed time constraint becomes prohibitive, particularly with the large sample sets commonly encountered in metabolomic studies. Thus, one-dimensional spectral assignment is routinely performed, guided by two-dimensional experiments on a selected sample subset; however, a publicly available graphical interface for aiding in this process is currently unavailable. We have collected spectral information for 360 unique compounds from publicly available databases including chemical shift lists and authentic full resolution spectra, supplemented with spectral information for 25 compounds collected in-house at a proton NMR frequency of 900 MHz. This library serves as the basis for MetaboID, a Matlab-based user interface designed to aid in the one-dimensional spectral assignment process. The tools of MetaboID were built to guide resonance assignment in order of increasing confidence, starting from cursory compound searches based on chemical shift positions to analysis of authentic spike experiments. Together, these tools streamline the often repetitive task of spectral assignment. The overarching goal of the integrated toolbox of MetaboID is to centralize the one dimensional spectral assignment process, from providing access to large chemical shift libraries to providing a straightforward, intuitive means of spectral comparison. Such a toolbox is expected to be attractive to both experienced and new metabolomic researchers as well as general complex mixture analysts.

A key challenge in micro- and nanotechnology is the direct patterning of functional structures. For example, it is highly desirable to possess the ability to create three-dimensional (3D), conductive, and optically transparent structures. Efforts in this direction have, to date, yielded less than optimal results since the polymer composites had low optical transparency over the visible range, were only slightly conductive, or incompatible with high resolution structuring. We have previously presented the novel cross-linkable, conductive, highly transparent composite material based on a photoresist (IP-L 780, OrmoComp, or SU-8) and the ionic liquid 1-butyl-3-methylimidazolium dicyanamide. Material patterning by conventional and two-photon photolithography has been demonstrated as proof-of-concept. Aiming to increase the resolution and to extend the spectrum of exciting applications we continued our research into identifying new ionic liquid - polymer composites. In this paper, we report the precise 3D single-step structuring of optically transparent and electrically conductive ionic liquid - polymer nanostructures with the highest spatial resolution (down to 150 nm) achieved to date. This was achieved via the development of novel cross-linkable composite based on the photoresist IP-G 780 and the ionic liquid 1-butyl-3-methylimidazolium dicyanamide. The successful combination of the developed material with the advanced direct laser writing technique enabled the time- and cost-saving direct manufacturing of transparent, electrically conductive components. We believe that the excellent characteristics of the structured material will open a wider range of exciting applications.

The in vivo analysis of a model organism, such as the nematode Caenorhabditis elegans, en‐ ables fundamental biomedical studies, including development, genetics, and neurobiolo‐ gy. In recent years, microfluidics technology has emerged as an attractive and enabling tool for the study of the multicellular organism. Advances in the application of microflui‐ dics to C. elegans assays facilitate the manipulation of nematodes in high-throughput for‐ mat and allow for the precise spatial and temporal control of their environment. In this chapter, we aim to illustrate the current microfluidic approaches for the investigation of behavior and neurobiology in C. elegans and discuss the trends of future development.

We present a completely revised generation of a modular micro-NMR detector, featuring an active sample volume of ��� 100 nL, and an improvement of 87% in probe efficiency. The detector is capable of rapidly screening different samples using exchangeable, applicationspecific, MEMS-fabricated, microfluidic sample containers. In contrast to our previous design, the sample holder chips can be simply sealed with adhesive tape, with excellent adhesion due to the smooth surfaces surrounding the fluidic ports, and so withstand pressures of ���2.5 bar, while simultaneously enabling high spectral resolution up to 0.62 Hz for H2 O, due to its optimised geometry. We have additionally reworked the coil design and fabrication processes, replacing liquid photoresists by dry film stock, whose final thickness does not depend on accurate volume dispensing or precise levelling during curing. We further introduced mechanical alignment structures to avoid time-intensive optical alignment of the chip stacks during assembly, while we exchanged the laser-cut, PMMA spacers by diced glass spacers, which are not susceptible to melting during cutting. Doing so led to an overall simplification of the entire fabrication chain, while simultaneously increasing the yield, due to an improved uniformity of thickness of the individual layers, and in addition, due to more accurate vertical positioning of the wirebonded coils, now delimited by a post base plateau. We demonstrate the capability of the design by acquiring a1 H spectrum of ��� \11 nmol sucrose dissolved in D2 O, where we achieved a linewidth of 1.25 Hz for the TSP reference peak. Chemical shift imaging experiments were further recorded from voxel volumes of only ��� 1.5nL, which corresponded to amounts of just 1.5 nmol per voxel for a 1 M concentration. To extend the micro-detector to other nuclei of interest, we have implemented a trap circuit, enabling heteronuclear spectroscopy, demonstrated by two 1H/13 C 2D HSQC experiments. �� 2016 Spengler et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

In an effort to address the variable correspondence problem across large sample cohorts common in metabolomic/metabonomic studies, we have developed a prealignment protocol that aims to generate spectral segments sharing a common target spectrum. Under the assumption that a single reference spectrum will not correctly represent all spectra of a data set, the goal of this approach is to perform local alignment corrections on spectral regions which share a common "most similar" spectrum. A natural beneficial outcome of this procedure is the automatic definition of spectral segments, a feature that is not common to all alignment methods. This protocol is shown to specifically improve the quality of alignment in (1)H NMR data sets exhibiting large intersample compositional variation (e.g., pH, ionic strength). As a proof-of-principle demonstration, we have utilized two recently developed alignment algorithms specific to NMR data, recursive segment-wise peak alignment and interval correlated shifting, and applied them to two data sets composed of 15 aqueous cell line extract and 20 human urine (1)H NMR profiles. Application of this protocol represents a fundamental shift from current alignment methodologies that seek to correct misalignments utilizing a single representative spectrum, with the added benefit that it can be appended to any alignment algorithm.

The metabolism of an organism is regulated at the cellular level, yet is strongly influenced by its environment. The precise metabolomic study of living organisms is currently hampered by measurement sensitivity; most metabolomic measurement techniques involve some compromise, whereby averaging is performed over a volume significantly larger than a single cell, or require the invasion of the organism, or an arrested state of the organism. Nuclear magnetic resonance (NMR) is an inherently noninvasive chemometric and imaging method, and hence, in principle, suitable for metabolomic measurements. The digital twin of metabolomics is computational systems biology, such that NMR microscopy is potentially a viable approach to joining the theoretical and experimental explorations of the metabolomic and behavioural responses of organisms. In this study, we consider the challenge of performing in vivo NMR-based metabolomics on the small organism Caenorhabditis elegans, point he way towards possible solutions created using techniques specific to micro-electromechanical systems (MEMS) fabrication, and highlight currently insurmountable challenges.

We present a new fabrication process to create sub-mm micro tubes with embedded conductive patterns. Based on common 2D patterning techniques and a specially designed rolling process, it achieves 3D structures featuring potentially complex, embedded electrical, mechanical and micro-fluidic functions. We demonstrate the advantage in creating freeform electrical conductors around sub-mm tubes, such as needed for a tube-integrated micro heater. The production of the 2D patterns is flexible, and we demonstrate that both additive manufacturing (fast, accessible) and conventional micro-fabrication processes (cleanroom, wafer-scale) are compatible with the rolling process. To adapt the rolling process for high frequency applications, the patterned tracks can be directly electroplated, with good adhesion, to reduce electrical resistance. For the first time, we achieve saddle-geometry NMR micro detectors. They feature 100 wide, 10 thick conductive tracks on 25 thick polyimide film, and were successfully tested in a 500 MHz (11.7 T) NMR spectrometer. Using a 620 diameter coil, we measured the single-shot SNR of deionized water sample, which corresponded to a mole sensitivity of 18.78 , and a water line shape of 1.52/26.8/37.3 Hz (50, 0.55, 0.11% of the maximum height) from a sample volume of only 82 nl.

3D glassy carbon structures with percolated macropores are obtained by pyrolysis of chemically synthesized cryogels featuring tunable porosity. These batch-fabricated structures are used as scaffolds for culturing neural stem cells (NSCs) and are characterized by magnetic resonance imaging (MRI). With the aid of MRI, the successful cultivation of NSCs on a glassy carbon surface and the precise 3D locations of these cell clusters within the opaque scaffold are demonstrated. MRI also yields pore morphology and porosity analyses, pre- and post-pyrolysis. This integrated approach yields a complete 3D dataset of the NSC network, which enables the visual inspection of the morphological details of individual cell clusters without disturbing them or destroying the scaffold. Reported experimental methodology is expected to have an impact on studies designed to understand the mechanism of neurodegenerative disease (ND) development, and can serve as a protocol for the culture of various other types of cells that display compatibility with glassy carbon surfaces.

The ability to trigger a destabilization of the membrane integrity of liposomes bound to environmentally sensitive hydrophobically modified core-shell hydrogel beads is demonstrated. Hydrogel beads with a core composed of poly(N-isopropylacrylamide) lightly cross-linked with bisacrylamide (BA) (pNIPAM) and a shell composed of NIPAM highly cross-linked with BA and containing varying amounts of acrylic acid (AA) [p(NIPAM-co-AA)] undergo a volume phase transition (VPT) at approximately 32 degrees C, as determined from (1)H magic angle spinning (MAS) NMR, regardless of the AA content of the shell. When the shell was hydrophobically modified with either decylamine or tetradecylamine, binding of extruded large unilamellar vesicles (eLUVs) composed of 1-palmitoyl-2-oleoylphosphatidylcholine (POPC) was quantitative, as determined via fluorescence spectroscopy. Fluorescence microscopy showed that such bound eLUVs did not fuse. Hydrogel-bound eLUV membrane permeability was assessed using (31)P MAS NMR in the presence of the chemical shift agent praseodymium and demonstrated that only at lower degrees of hydrophobic modification of the core-shell hydrogels was eLUV membrane barrier integrity maintained when T < VPT. At a low degree of hydrophobic modification, cycling the temperature above the VPT even for short periods caused the eLUV membranes to become leaky. Hence, eLUV membrane permeability was coupled to the hydrogel VPT, a situation that would be useful in applications requiring triggered release of liposomal contents.