Review
Biochemistry & Molecular Biology
Montse Baldan-Martin, Maria Chaparro, Javier P. Gisbert
Summary: Inflammatory bowel diseases (IBDs) are chronic and inflammatory conditions affecting the gastrointestinal tract. Despite endoscopy being the gold standard test for assessing IBD, it is invasive and uncomfortable for patients. Therefore, non-invasive biomarkers for IBD diagnosis are urgently needed. This review summarizes proteomics and metabolomics studies in animals and humans, identifying urinary biomarkers for IBD diagnosis. Large-scale multi-omics studies with collaboration between clinicians, researchers, and industry are necessary for the development of sensitive and specific diagnostic biomarkers for personalized medicine.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Review
Biochemistry & Molecular Biology
John Oloche Onuh, Hongyu Qiu
Summary: Detecting pathogenesis early through metabolomics profiling offers new insights on disease mechanisms and potential in diagnosing clinical hypertension early. This review summarizes the latest progress in metabolomics and discusses current trends in applying it to clinical hypertension, exploring associated mechanisms and research challenges for future perspectives. The information enhances understanding of hypertension development and encourages clinical application of metabolomics in hypertension and cardiovascular complications.
Article
Food Science & Technology
Muyao Xi, Giorgia La Barbera, Jane Nygaard Eriksen, August Pilegaard Prahm, Palle Bekker Jeppesen, Lars Ove Dragsted
Summary: This study investigated changes in metabolites before and after spinach intake, identifying three candidate biomarkers and 69 altered metabolites. The results provide insights into the potential health effects of consuming spinach and suggest further validation of the candidate biomarkers in independent studies.
MOLECULAR NUTRITION & FOOD RESEARCH
(2022)
Article
Engineering, Environmental
Anen He, Juan Li, Zhao Li, Yao Lu, Yong Liang, Zhen Zhou, Zhuo Man, Jitao Lv, Yawei Wang, Guibin Jiang
Summary: Per- and polyfluoroalkyl substances (PFAS) are receiving significant research attention due to their potential adverse effects on human health. This study provides evidence that urine can serve as an indicator of the adverse health effects of high levels of exposure to PFAS on the kidneys.
ENVIRONMENTAL SCIENCE & TECHNOLOGY
(2023)
Article
Chemistry, Multidisciplinary
Zhangjian Chen, Shuo Han, Jiahe Zhang, Pai Zheng, Xiaodong Liu, Yuanyuan Zhang, Guang Jia
Summary: This study identified potential biomarkers of occupational exposure to low concentrations of TiO2 NPs in urine samples of workers through metabolomics analysis. A total of 1760 differentially expressed metabolites were found, with 60 confirmed as potential biomarkers. Among these biomarkers, 10 showed good sensitivity and specificity, including compounds like dibenzyl ether and quassimarin. Pathway enrichment analysis revealed significant alterations in the metabolic pathway related to long chain acyl-coa dehydrogenase deficiency. These findings provide insights into early health effects of TiO2 NPs exposure.
Review
Biochemistry & Molecular Biology
Peter McGranaghan, Jennifer A. Kirwan, Mariel A. Garcia-Rivera, Burkert Pieske, Frank Edelmann, Florian Blaschke, Sandeep Appunni, Anshul Saxena, Muni Rubens, Emir Veledar, Tobias Daniel Trippel
Summary: Lipid metabolism plays a crucial role in the pathogenesis of CVD, with metabolomic technologies allowing for the measurement of thousands of metabolites to provide a metabolic fingerprint for individual patients. Studies in humans have highlighted the significance of lipid metabolites such as phospholipids, sphingolipids/ceramides, and fatty acids in understanding the mechanisms of CVD.
Review
Biochemistry & Molecular Biology
Ana Rita Lima, Joana Pinto, Filipa Amaro, Maria de Lourdes Bastos, Marcia Carvalho, Paula Guedes de Pinho
Summary: Prostate cancer is the second most diagnosed cancer in men worldwide. Metabolomics studies have found consistent alterations in specific metabolites in prostate cancer tissue and urine, suggesting the potential for novel biomarker discovery. Valencia, taurine, leucine, and citrate were found to be commonly altered in both urine and tissue studies, indicating a promising strategy for prostate cancer diagnosis.
Article
Biochemistry & Molecular Biology
Muyao Xi, Lars Ove Dragsted, Mikkel Tullin, Madeleine Ernst, Nazikussabah Zaharudin, Giorgia La Barbera
Summary: This study used an untargeted metabolomics approach to discover novel intake biomarkers for seaweeds, providing crucial information for assessing their health effects. By analyzing urine samples from participants who consumed Laminaria digitate and Undaria pinnatifida, four potential intake biomarkers were identified. Further research and validation are needed to assess the specificity and robustness of these biomarkers.
Article
Pharmacology & Pharmacy
Jinying Zhang, Ning Zhou, Yongxiang Wang, Tong Liu, Yumin Cao, Weisheng Feng, Xiaoke Zheng
Summary: This study evaluated the therapeutic effect of five different fractions of Descurainia sophia seeds (DS) on pulmonary edema through metabolomics analysis. The results showed that these fractions attenuated lung injury to different degrees, with oligosaccharides, flavonoid glycosides, and fat oil fraction being the most potent. Metabolomics analysis revealed that these fractions improved pulmonary edema by modulating the metabolism of taurine, tryptophan, and phenylalanine. Overall, the study demonstrated the synergistic effect of DS and its fractions on pulmonary edema, with oligosaccharides, flavonoid glycosides, and fat oil fraction being the most efficacious and potential alternatives to DS.
FRONTIERS IN PHARMACOLOGY
(2023)
Article
Food Science & Technology
Hyunju Kim, Alice H. Lichtenstein, Kari E. Wong, Lawrence J. Appel, Josef Coresh, Casey M. Rebholz
Summary: The study investigates the similarity of urine metabolomic markers of the DASH diet and found that 9 out of 10 predictive metabolites of the DASH-high sodium and DASH-low sodium diets are identical. Most candidate biomarkers from the DASH trial replicated in urine, including N-methylproline, chiro-inositol, stachydrine, and theobromine. Replicated influential metabolites are likely to be objective biomarkers of the DASH diet.
MOLECULAR NUTRITION & FOOD RESEARCH
(2021)
Article
Multidisciplinary Sciences
Neslihan Sarigul, Leyla Bozatli, Ilhan Kurultak, Filiz Korkmaz
Summary: This study investigates the diagnostic potential of Attenuated Total Reflectance-Fourier Transform Infrared (ATR-FTIR) spectroscopy in children with Autism Spectrum Disorder (ASD). The results show differences in urine components between children with ASD and typically developing children, suggesting that ATR-FTIR can serve as a practical method for screening ASD.
SCIENTIFIC REPORTS
(2023)
Review
Biochemistry & Molecular Biology
Eric Yi-Liang Shen, U. Mei Ran Abellona, I. Jane Cox, Simon D. Taylor-Robinson
Summary: This article introduces the application of mass spectrometry (MS) technology in liver cancer research, including the discovery of new biomarkers for early diagnosis, prognosis, and stratification purposes. It also discusses the current challenges and the direction for future research.
Article
Cell Biology
Rui Chang, Ying Zhu, Jing Xu, Lin Chen, Guannan Su, Aize Kijlstra, Peizeng Yang
Summary: The diagnosis of Vogt-Koyanagi-Harada (VKH) disease relies on complex clinical manifestations with lack of objective laboratory biomarkers. This study identified differential metabolites in urine of VKH patients compared to healthy controls, and between active VKH and inactive VKH patients. The abnormal metabolites could potentially serve as diagnostic and disease activity markers for VKH, but further confirmation is needed.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2021)
Review
Immunology
Jose E. Belizario, Joel Faintuch, Miguel Garay Malpartida
Summary: Exhaled breath contains thousands of metabolites and volatile organic compounds that can serve as biomarkers for various human diseases. By studying VOC fingerprints generated by cellular and microbial metabolic pathways, potential biomarkers for disease diagnosis and classification can be identified.
FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY
(2021)
Article
Geriatrics & Gerontology
Di Liu, Lijuan Zhao, Yu Jiang, Liya Li, Muyao Guo, Yibing Mu, Honglin Zhu
Summary: In this study, plasma and urine samples from newly diagnosed IIM patients were analyzed using untargeted metabolomics. The results showed that IIM subtypes have specific metabolic signatures and pathways in both plasma and urine. This study provides valuable insights for understanding the molecular mechanisms, identifying potential diagnosis biomarkers, and finding therapeutic targets for IIM.
JOURNAL OF CACHEXIA SARCOPENIA AND MUSCLE
(2022)
Article
Automation & Control Systems
Miguel Figueiredo, Stamatios Giannoukos, Serge Rudaz, Renato Zenobi, Julien Boccard
Summary: A novel chemometric approach, called Rebalanced ASCA (RASCA), is proposed to analyze high-dimensional data from unbalanced designs of experiments. It was compared with other methods and found to provide consistent results and handle unbalanced designs effectively, producing unbiased parameter estimators and rigorously orthogonal effect matrices.
JOURNAL OF CHEMOMETRICS
(2023)
Article
Neurosciences
David Pamies, Tatjana Vujic, Domitille Schvartz, Julien Boccard, Cendrine Repond, Carolina Nunes, Serge Rudaz, Jean-Charles Sanchez, Victor Gonzalez-Ruiz, Marie-Gabrielle Zurich
Summary: This study found that the activation of human ReN-derived astrocytes is closely related to energy metabolism, and increased glycolysis may be considered as an endpoint for detecting astrocyte activation by potentially neurotoxic compounds in vitro. This is important for studying the mechanisms of neurotoxicity and the direct effects of chemicals on astrocytes.
MOLECULAR NEUROBIOLOGY
(2023)
Article
Chemistry, Analytical
Gioele Visconti, Julien Boccard, Max Feinberg, Serge Rudaz
Summary: In the past two decades, liquid chromatography coupled to mass-spectrometry (LC-MS) has become the gold standard for qualitative and quantitative analysis of small molecules. The design of calibration curves has evolved with instrumental advances, introducing innovative approaches to improve accuracy and efficiency. This tutorial covers the advances in LC-MS quantitative analysis for small molecules in complex matrices, including fundamental aspects in calibration, modern methodologies, and applications. The importance of international guidelines for analytical method validation that align with calibration strategies and analytical instrumentation is emphasized.
ANALYTICA CHIMICA ACTA
(2023)
Letter
Toxicology
Daniela Pelclova, Karel Lach
CLINICAL TOXICOLOGY
(2023)
Article
Biochemical Research Methods
Sergey Girel, Davy Guillarme, Szabolcs Fekete, Serge Rudaz, Victor Gonzalez-Ruiz
Summary: Monitoring the central carbon metabolism network using LC-MS analysis is challenging due to the diverse chemical nature of analytes and non-specific adsorption on metal surfaces. In this study, different chromatographic methods were investigated for untargeted analysis of energy metabolism-related analytes in biological samples, and the best performance was achieved with sulfoalkylbetaine HILIC. Additionally, an extra hydrophilic modulation may be necessary for better resolution of carboxylic acids in zHILIC mode.
JOURNAL OF CHROMATOGRAPHY A
(2023)
Article
Chemistry, Analytical
Miguel de Figueiredo, Jonas Saugy, Martial Saugy, Raphael Faiss, Olivier Salamin, Raul Nicoli, Tiia Kuuranne, Serge Rudaz, Francesco Botre, Julien Boccard
Summary: A novel approach is proposed to generate individual adaptive reference ranges by simultaneously monitoring multiple biomarkers, improving the detection of testosterone administration. The combination of urine and serum biomarkers reduces the number of false-negatives, highlighting the complementarity between urine and blood sampling in doping control.
ANALYTICA CHIMICA ACTA
(2023)
Article
Chemistry, Analytical
Miguel de Figueiredo, Serge Rudaz, Julien Boccard
Summary: This study proposes a new method to handle unbalanced groups in multifactorial experimental designs. The method extends a prior rebalancing strategy and uses ANOVA for decomposition, while preserving within-group variation and orthogonal effect matrices, avoiding confusion of effects and improving model interpretation. It can be combined with any multivariate method for high-dimensional data analysis.
ANALYTICA CHIMICA ACTA
(2023)
Article
Chemistry, Analytical
Gioele Visconti, Miguel de Figueiredo, Oriane Strassel, Julien Boccard, Nicolas Vuilleumier, David Jaques, Belen Ponte, Serge Rudaz
Summary: The study proposes a multitargeted internal calibration (MTIC) approach for accurate quantitative analysis in liquid chromatography-mass spectrometry (LC-MS) for endogenous compound quantification when there is no blank matrix available. The approach integrates stable isotope labeled (SIL) standards as internal calibrants, allowing simultaneous quantification of analytes using within sample calibration. The developed MTIC workflow demonstrates reliable quantification of metabolites related to chronic kidney disease (CKD) in small serum or plasma samples.
ANALYTICAL CHEMISTRY
(2023)
Article
Chemistry, Analytical
William Bello, Julian Pezzatti, Markoulina Berger-Gryllaki, Serge Rudaz, Farshid Sadeghipour
Summary: Prefilled plastic packaging in hospital pharmacy is beneficial for preventing waste, errors, contamination, and accidents. A new sensitive method based on LC-HRMS has been developed to analyze plastic additives in the prefilled drug solutions prepared in hospital pharmacies. Plastic additives can be rapidly identified and their toxicology can be assessed using this method.
JOURNAL OF PHARMACEUTICAL AND BIOMEDICAL ANALYSIS
(2023)
Article
Chemistry, Analytical
Elena Tobolkina, David Pamies, Marie-Gabrielle Zurich, Serge Rudaz, Victor Gonzalez-Ruiz
Summary: In this study, the limitations of CE-MS in untargeted metabolomics were overcome by using standardized CE-MS conditions and automatically converting CE-MS files into electrophoretic mobility scale. CE-MS-based metabolomics was used to analyze low-volume samples generated during the toxicological risk assessment, resulting in the annotation of 68 metabolites. Multivariate analysis was performed to compare the metabolic profiles induced by different compounds.
MICROCHEMICAL JOURNAL
(2023)
Article
Chemistry, Analytical
Gioele Visconti, Miguel de Figueiredo, Oriane Strassel, Julien Boccard, Nicolas Vuilleumier, David Jaques, Belen Ponte, Serge Rudaz
Summary: Accurate quantitative analysis in liquid chromatography-mass spectrometry (LC-MS) can be achieved by generating calibration curves in the same matrix as the study sample. The multitargeted internal calibration (MTIC) approach, which utilizes stable isotope labeled (SIL) standards as internal calibrants, is a promising method for the quantification of endogenous compounds. A study using MTIC workflow was conducted to quantify metabolites related to chronic kidney disease (CKD) in serum or plasma samples. The results demonstrated the feasibility of this approach for absolute quantification of endogenous biomarkers.
ANALYTICAL CHEMISTRY
(2023)
