Combined hydrophilic interaction liquid chromatography-scanning field asymmetric waveform ion mobility spectrometry-time-of-flight mass spectrometry for untargeted metabolomics

Untargeted metabolite profiling of biological samples is a challenge for analytical science due to the high degree of complexity of biofluids. Isobaric species may also not be resolved using mass spectrometry alone. As a result of these factors, many potential biomarkers may not be detected or are masked by co-eluting interferences in conventional LC-MS metabolomic analyses. In this study, a comprehensive liquid chromatography-mass spectrometry workflow incorporating a fast-scanning miniaturised high-field asymmetric waveform ion mobility spectrometry separation (LC-FAIMS-MS) is applied to the untargeted metabolomic analysis of human urine. The time-of-flight mass spectrometer used in the study was scanned at a rate of 20 scans s^-1 enabling a FAIMS CF spectrum to be acquired within a 1-s scan time, maintaining an adequate number of data points across each LC peak. The developed method is demonstrated to be able to resolve co-eluting isomeric species and shows good reproducibility (%RSD < 4.9%). The nested datasets obtained for fresh, aged, and QC urine samples were submitted for multivariate statistical analysis. Seventy unique biomarker ions showing a statistically significant difference between fresh and aged urine were identified with optimal transmission CF values obtained across the full CF spectrum. The potential of using FAIMS to select ions for in-source collision-induced dissociation is demonstrated for FAIMS-selected methylxanthine ions yielding characteristic fragment ion species indicative of the precursor. Graphical abstract.

Evaluation of postmortem biochemical markers: Completeness of data and assessment of implication in the field

Throughout the years an increase has been observed in research output on biochemical markers for determining the postmortem interval (PMI). However, to date, a complete overview is missing on the results of postmortem biochemical markers (PBM's) for PMI estimation. In this paper, literature was reviewed in order to identify the knowledge lacunae of PBM research from a practical point of view. A three-step approach was undertaken in order to achieve the set goal. Literature was collected, the PBM's were evaluated for completeness by means of a scorings index based on set criteria, and PBM's were subsequently evaluated in light of the Daubert &Frye criteria for scientific evidence in court. Seven PBM's were found to be well investigated, from which potassium had the highest completion score. However, none of these PBM's could be qualified as suitable for court evidence. Further, this study revealed that the majority of PBM's (94%) is not well investigated. Consequently, these PBM's did not meet Daubert &Frye criteria. In order to improve the assessment for use of PBM's as evidence in court regarding PMI estimation, PBM's should be investigated more thoroughly and data should be made readily available.

Sequential Orbitrap Secondary Ion Mass Spectrometry and Liquid Extraction Surface Analysis-Tandem Mass Spectrometry-Based Metabolomics for Prediction of Brain Tumor Relapse from Sample-Limited Primary Tissue Archives

We present here a novel surface mass spectrometry strategy to perform untargeted metabolite profiling of formalin-fixed paraffin-embedded pediatric ependymoma archives. Sequential Orbitrap secondary ion mass spectrometry (3D OrbiSIMS) and liquid extraction surface analysis-tandem mass spectrometry (LESA-MS/MS) permitted the detection of 887 metabolites (163 chemical classes) from pediatric ependymoma tumor tissue microarrays (diameter: <1 mm; thickness: 4 μm). From these 163 classes, 60 classes were detected with both techniques, whilst LESA-MS/MS and 3D OrbiSIMS individually allowed the detection of another 83 and 20 unique metabolite classes, respectively. Through data fusion and multivariate analysis, we were able to identify key metabolites and corresponding pathways predictive of tumor relapse, which were retrospectively confirmed by gene expression analysis with publicly available data. Altogether, this sequential mass spectrometry strategy has shown to be a versatile tool to perform high-throughput metabolite profiling on sample-limited tissue archives.

Exhaled Breath Reflects Prolonged Exercise and Statin Use during a Field Campaign

Volatile organic compounds (VOCs) in exhaled breath provide insights into various metabolic processes and can be used to monitor physiological response to exercise and medication. We integrated and validated in situ a sampling and analysis protocol using proton transfer reaction time-of-flight mass spectrometry (PTR-ToF-MS) for exhaled breath research. The approach was demonstrated on a participant cohort comprising users of the cholesterol-lowering drug statins and non-statin users during a field campaign of three days of prolonged and repeated exercise, with no restrictions on food or drink consumption. The effect of prolonged exercise was reflected in the exhaled breath of participants, and relevant VOCs were identified. Most of the VOCs, such as acetone, showed an increase in concentration after the first day of walking and subsequent decrease towards baseline levels prior to walking on the second day. A cluster of short-chain fatty acids including acetic acid, butanoic acid, and propionic acid were identified in exhaled breath as potential indicators of gut microbiota activity relating to exercise and drug use. We have provided novel information regarding the use of breathomics for non-invasive monitoring of changes in human metabolism and especially for the gut microbiome activity in relation to exercise and the use of medication, such as statins.

Non-Invasive Monitoring of Inflammation in Inflammatory Bowel Disease Patients during Prolonged Exercise via Exhaled Breath Volatile Organic Compounds

The aim of this study was to investigate volatile organic compounds (VOCs) in exhaled breath as possible non-invasive markers to monitor the inflammatory response in inflammatory bowel disease (IBD) patients as a result of repeated and prolonged moderate-intensity exercise. We included 18 IBD patients and 19 non-IBD individuals who each completed a 30, 40, or 50 km walking exercise over three consecutive days. Breath and blood samples were taken before the start of the exercise event and every day post-exercise to assess changes in the VOC profiles and cytokine concentrations. Proton transfer reaction time-of-flight mass spectrometry (PTR-ToF-MS) was used to measure exhaled breath VOCs. Multivariate analysis, particularly ANOVA-simultaneous component analysis (ASCA), was employed to extract relevant ions related to exercise and IBD. Prolonged exercise induces a similar response in breath butanoic acid and plasma cytokines for participants with or without IBD. Butanoic acid showed a significant correlation with the cytokine IL-6, indicating that butanoic acid could be a potential non-invasive marker for exercise-induced inflammation. The findings are relevant in monitoring personalized IBD management.

Discovery of a Novel Polymer for Xeno-Free, Long-Term Culture of Human Pluripotent Stem Cell Expansion

Human pluripotent stem cells (hPSCs) can be expanded and differentiated in vitro into almost any adult tissue cell type, and thus have great potential as a source for cell therapies with biomedical application. In this study, a fully-defined polymer synthetic substrate is identified for hPSC culture in completely defined, xenogenic (xeno)-free conditions. This system can overcome the cost, scalability, and reproducibility limitations of current hPSC culture strategies, and facilitate large-scale production. A high-throughput, multi-generational polymer microarray platform approach is used to test over 600 unique polymers and rapidly assess hPSC-polymer interactions in combination with the fully defined xeno-free medium, Essential 8 (E8). This study identifies a novel nanoscale phase separated blend of poly(tricyclodecane-dimethanol diacrylate) and poly(butyl acrylate) (2:1 v/v), which supports long-term expansion of hPSCs and can be readily coated onto standard cultureware. Analysis of cell-polymer interface interactions through mass spectrometry and integrin blocking studies provides novel mechanistic insight into the role of the E8 proteins in promoting integrin-mediated hPSC attachment and maintaining hPSC signaling, including ability to undergo multi-lineage differentiation. This study therefore identifies a novel substrate for long-term serial passaging of hPSCs in serum-free, commercial chemically-defined E8, which provides a promising and economic hPSC expansion platform for clinical-scale application.

Comment on "Promising blood-derived biomarkers for estimation of the postmortem interval" by I. Costa, F. Carvalho, T. Magalhães, P. G. de Pinho, R. Silvestre & R. J. Dinis-Oliveira. (Toxicol. Res., 2015, , 1443-1452)

Recently, Costa et al. published an article about promising biomarkers for estimating the postmortem interval. Instead of postmortem blood, antemortem blood was putrefied in vitro by exposing the blood to a temperature gradient. However, in this way several other influencing factors were excluded, hence, the accuracy of the proposed model is doubtful. Therefore, the aim of this comment is to discuss the methodology, results and shortcomings of the study of Costa et al.

Technical note: unsafe rectal temperature measurements due to delayed warming of the thermocouple by using a condom. An issue concerning the estimation of the postmortem interval by using Henßge's nomogram

In some cases, in the Netherlands, an additional layer is being added to the thermocouple, used to measure the rectal temperature in medicolegal death investigations. Because of this deviation from the standard method, questions arose regarding the accuracy and precision of the measured temperature. Therefore, a cooling experiment was carried out on a round body made of agar with an average thermal conductivity of 0.454 W/(m °C) while measuring the temperature with and without an additional layer around the thermocouple for three different starting temperatures: 36, 30, and 27 °C. The results show a significant difference between the measured values for the first 5 min when comparing with and without the additional layer. Further, a decrease in precision is present within the first minutes when using an additional layer. Therefore, it is concluded that it is best to measure the rectal temperature without an additional layer around the thermocouple and caution should be taken when measuring with an additional layer.

Odor characterization of the poultry red mite (Dermanyssus gallinae) for identification of volatile biomarkers of infestation across multiple commercial laying hen systems

Infestations by the poultry red mite (PRM) (Dermanyssus gallinae) in laying hen farms can have serious adverse effects on animal health and welfare, and lead to increased egg production costs. Early detection of the PRM is paramount to mitigate its negative impact and for effective pest control. However, current detection methods are labor-intensive and time-consuming. As poultry experts have reported that the presence of PRM is accompanied by a specific scent, opportunities lie in using odor-based detection methods. These methods may offer a fast and reliable alternative for identifying PRM infestations in early stages. To date, however, there is a lack of data on the odor profile of PRM as it has not been characterized. Therefore, in this study, the first step is taken towards determining the composition of the emitted scent of PRM. Samples of PRM and litter were collected across multiple commercial laying hen farms and subjected to TD-GC-MS analysis with subsequent multivariate analysis. Five highly specific volatile organic compound (VOC) targets were identified (1-vinyl-aziridine, 1H-pyrrole, 1-octen-3-one, heptanal and octanal), independent of housing type, feed and farm management. Although the metabolic origin of these VOCs could not be determined in this study, the odor character of several of these VOCs (1-octen-3-one, heptanal and octanal) matches the poultry experts' description. Furthermore, the specificity of all identified VOC targets to PRM samples make them highly interesting potential targets for odor-based detection of PRM infestation.

Lung cancer detection by electronic nose analysis of exhaled breath: a multicentre prospective external validation study

BACKGROUND

Electronic nose (eNose) analysis of exhaled breath shows potential for accurate and timely lung cancer diagnosis, yet prospective external validation studies are lacking. Our study primarily aimed to prospectively and externally validate a published eNose model for lung cancer detection in chronic obstructive pulmonary disease (COPD) patients and assess its diagnostic performance alongside a new eNose model, specifically tailored to the target population, in a more general outpatient population.

PATIENTS AND METHODS

This multicentre prospective external validation study included adults with clinical and/or radiological suspicion of lung cancer who were recruited from thoracic oncology outpatient clinics of two sites in the Netherlands. Breath profiles were collected using a cloud-connected eNose (SpiroNose®). The diagnostic performance of the original and new eNose models was assessed in various population subsets based on receiver operating characteristic-area under the curve (ROC-AUC), specificity, positive predictive value (PPV), and negative predictive value (NPV), targeting 95% sensitivity. For the new eNose model, a training cohort and a validation cohort were used.

RESULTS

Between March 2019 and November 2023, 364 participants were included. The original eNose model detected lung cancer with an ROC-AUC of 0.92 [95% confidence interval (CI) 0.85-0.99] in COPD patients (n = 98/116; 84%) and 0.80 (95% CI 0.75-0.85) in all participants (n = 216/364; 59%). At 95% sensitivity, the specificity, PPV, and NPV, were 72% and 51%, 95% and 74%, and 72% and 88%, respectively. In the validation cohort, the new eNose model identified lung cancer across all participants (n = 72/121; 60%) with an ROC-AUC of 0.83 (95% CI 0.75-0.91), sensitivity of 94%, specificity of 63%, PPV of 79%, and NPV of 89%. Notably, accurate detection was consistent across tumour characteristics, disease stage, diagnostic centres, and clinical characteristics.

CONCLUSION

This multicentre prospective external validation study confirms that eNose analysis of exhaled breath enables accurate lung cancer detection at thoracic oncology outpatient clinics, irrespective of tumour characteristics, disease stage, diagnostic centre, and clinical characteristics.

Real-Time Non-Invasive Monitoring of Short-Chain Fatty Acids in Exhaled Breath

Short-chain fatty acids (SCFAs) are important metabolites produced by the gut microbiome as a result of the fermentation of non-digestible polysaccharides. The most abundant SCFAs are acetic acid, propionic acid, and butyric acid which make up 95% of this group of metabolites in the gut. Whilst conventional analysis SCFAs is done using either blood or fecal samples, SCFAs can also be detected in exhaled breath using proton transfer reaction-time-of-flight- mass spectrometry (PTR-ToF-MS) using H₃O⁺ for ionization. However, no investigation has been performed to characterize the reactions of SCFAs with H₃O⁺ and with other reagent ions, such as O₂ ⁺ and NO⁺. Gas-phase samples of acetic acid, propionic acid, and butyric acid were analyzed with SRI/PTR-ToF-MS under dry and humid conditions. The ions generated and their distribution was determined for each reagent ion. It was found the humidity did not influence the product ion distribution for each SCFA. Using H₃O⁺ as a reagent ion, SRI/PTR-ToF-MS analysis of an exhaled breath sample was performed in real-time to demonstrate the methodology. The presence of SCFAs in exhaled breath was confirmed by thermal desorption-gas chromatography-mass spectrometry (TD-GC-MS). Breath sampling repeatability was within acceptable limits (<15%) for an analytical methodology for each investigated SCFA. Nutritional intervention studies could potentially benefit from real-time monitoring of exhaled SCFAs as an alternative to measuring SCFAs invasively in blood or fecal samples since it is non-invasive, and requires minimal time investment from participants.

Ultra-broadband coherent open-path spectroscopy for multi-gas monitoring in wastewater treatment

Wastewater treatment plants significantly contribute to greenhouse gas emissions, including nitrous oxide (N2O), carbon dioxide (CO2), and methane (CH4). Current methods to measure these emissions typically target specific molecular compounds, providing limited scope and potentially incomplete emissions profiles. Here, we show an innovative ultra-broadband coherent open-path spectroscopy (COPS) system capable of simultaneously monitoring multiple greenhouse gases. This novel approach combines Fourier transform spectroscopy with a coherent, ultra-broadband mid-infrared light source spanning 2-11.5 μm at approximately 3 W power. Positioned above an aeration tank, the COPS system selectively detected absorption signatures for CH4, CO2, N2O, ammonia (NH3), carbon monoxide (CO), and water vapor (H2O), enabling real-time, path-integrated concentration measurements with a temporal resolution of 40 s. Elevated concentrations of CH4 and CO2 were clearly identified within emission plumes traversing the beam path above the aeration tank. Additionally, CH4 emission patterns closely tracked variations in ammonium loading from incoming wastewater, whereas CO2 emissions correlated strongly with oxygen concentrations introduced during aeration. Measurements of N2O, NH3, and CO were stable and aligned closely with traditional point-based measurements from commercial gas analyzers. Our findings demonstrate that COPS offers a robust, comprehensive solution for the simultaneous real-time monitoring of multiple gases in complex and heterogeneous emission environments. This capability significantly enhances atmospheric and industrial emission assessments, potentially transforming the approach to emissions quantification and environmental management.