Article
Engineering, Environmental
Dennys Leyva, Muhammad Usman Tariq, Rudolf Jaffe, Fahad Saeed, Francisco Fernandez-Lima
Summary: Dissolved Organic Matter (DOM) is a significant component of the global carbon cycle. This study used high-resolution mobility and ultrahigh-resolution Fourier transform ion cyclotron resonance tandem mass spectrometry (FT-ICR MS/MS) to compare four solid phase extracted (SPE) DOM samples from three freshwater ecosystems. Comparison of structural families revealed dissimilarities in the structural footprint of the samples. Inclusion of isomeric content in the structural family description suggested additional transformation pathways and/or source variations.
ENVIRONMENTAL SCIENCE & TECHNOLOGY
(2023)
Article
Agriculture, Multidisciplinary
Leopold Weidner, Jil Vittoria Cannas, Michael Rychlik, Philippe Schmitt-Kopplin
Summary: The emissions released during thermal processing of food provide important information for understanding food composition and controlling cooking processes.
JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY
(2023)
Article
Biochemistry & Molecular Biology
Julia Jensen-Kroll, Tobias Demetrowitsch, Ingrid Clawin-Radecker, Martin Klempt, Silvio Waschina, Karin Schwarz
Summary: The effects of milk oligosaccharides and galactooligosaccharides on Caco-2 cells were investigated in this study. It was found that these treatments significantly influenced the metabolism of the cells, with amino acid metabolism and carbohydrate metabolism being the most affected pathways. The study also showed that the effects were independent of the origin of the milk.
FRONTIERS IN MOLECULAR BIOSCIENCES
(2022)
Article
Green & Sustainable Science & Technology
Li Zhang, Yue You, Chundi Gao, Yongzhen Peng, Zhiguo Cao
Summary: The study found that the overlying water of the Beiyun River mainly consists of lignin and protein, with low lignin content and high protein content making the DON unstable. Upstream to downstream, lignin remains stable, while lipids and condensed aromatics are unstable.
JOURNAL OF CLEANER PRODUCTION
(2021)
Article
Chemistry, Analytical
Eduardo Sommella, Albino Carrizzo, Fabrizio Merciai, Veronica Di Sarno, Daniela Carbone, Massimiliano De Lucia, Simona Musella, Carmine Vecchione, Pietro Campiglia
Summary: This study investigated the potential effects of Spirulina platensis peptide SP6 on metabolic modulation in a high fat diet ApoE(-/-) mice atherosclerotic model. The results showed that SP6 peptide significantly decreased the levels of certain metabolites, including sphingolipids, glycerophospholipids, TCA cycle intermediates, and amino acids, which are key players in the atherosclerotic process and progression. The study suggests the potential of SP6 peptide in regulating atherosclerotic disease development and progression and demonstrates the utility of DI-FT-ICR as a fast analytical tool for metabolic changes.
JOURNAL OF PHARMACEUTICAL AND BIOMEDICAL ANALYSIS
(2021)
Article
Food Science & Technology
Qiang Shi, Hongbing Chen, Yong Wu, Ping Tong, Jinyan Gao
Summary: Ovotransferrin (OVT) is a natural protein with various nutritional and biological benefits. In this study, the functional effects, metabolic targets, and potential mechanisms of OVT were explored using Caenorhabditis elegans as the model organism. Results showed that OVT improved oxidative stress and prolonged lifespan in C. elegans through the enhancement of antioxidant enzyme activities and the reduction of malondialdehyde, lipofuscin, and reactive oxygen species levels. Furthermore, the upregulation of genes encoding Cytochrome P450 and sod-2, as well as the increase in polyunsaturated fatty acids and salidroside, were found to be closely associated with OVT's effects.
JOURNAL OF FUNCTIONAL FOODS
(2023)
Article
Engineering, Environmental
Yingxin Shang, Zhidan Wen, Kaishan Song, Ge Liu, Fengfa Lai, Lili Lyu, Sijia Li, Hui Tao, Junbin Hou, Chong Fang, Chen He, Quan Shi, Ding He
Summary: This study demonstrates the diverse sources and compositions for humic-rich lakes and protein-rich lakes in large-scale regions across China, linking them to optical components and molecular high-resolution mass spectrometry properties.
Article
Engineering, Environmental
Yingxin Shang, Zhidan Wen, Kaishan Song, Ge Liu, Fengfa Lai, Lili Lyu, Sijia Li, Hui Tao, Junbin Hou, Chong Fang, Chen He, Quan Shi, Ding He
Summary: DOM is crucial for the global carbon biogeochemical cycle in aquatic ecosystems, with diverse sources and compositions across different lake regions. Humic-rich lakes exhibit more complex molecular compositions and higher aromaticity compared to protein-rich lakes.
Article
Chemistry, Applied
Stefan A. Pieczonka, Daniel Hemmler, Franco Moritz, Marianna Lucio, Martin Zarnkow, Fritz Jacob, Michael Rychlik, Philippe Schmitt-Kopplin
Summary: The study utilized FT-ICR-MS to comprehensively analyze the Maillard reaction in beer, finding it to be a major driving force behind the molecular diversity in beer and leading to key compositional changes in the beer metabolome. Different visualization methods revealed the systematic nature of Maillard reaction derived compounds, while mass difference network analysis and shortest path analysis identified major compositional changes and general reaction sequences associated with successive Maillard intermediate phase reactions.
Article
Plant Sciences
Heng-An Lin, Harrison R. Coker, Julie A. Howe, Malak M. Tfaily, Elek M. Nagy, Sanjay Antony-Babu, Steve Hague, A. Peyton Smith
Summary: Drought-induced root exudates in cotton were analyzed using FT-ICR MS to identify over 700 unique metabolites. Pathways and modules associated with the biosynthesis of various secondary metabolites, such as flavonoids and plant hormones, were highly induced under severe drought. The potential biochemical transformations, including methylation and oxidation/hydroxylation, were also identified.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Engineering, Environmental
A. Butturini, P. Herzsprung, O. J. Lechtenfeld, P. Alcorlo, R. Benaiges-Fernandez, M. Berlanga, J. Boadella, Z. Freixinos Campillo, R. M. Gomez, M. M. Sanchez-Montoya, J. Urmeneta, A. M. Romani
Summary: This study investigates the availability and quality of dissolved organic matter (DOM) in the water column of hypersaline endorheic aquatic systems (H-SEAS). The research finds that during a hydrological wetting-drying-rewetting cycle, the DOM pool undergoes significant alterations in molecular composition, with the release of organic solutes originating from decaying microplankton under large osmotic stress at extremely high salinities.
Article
Energy & Fuels
Lidya Cardozo da Silva, Jeferson Valencia Davila, Felipe Pereira Fleming, Marianny Yajaira Combariza, Boniek Gontijo Vaz
Summary: In this study, laser desorption ionization (LDI) and collision-induced dissociation (CID) experiments were introduced as effective tools for characterizing asphaltene structures. These tools facilitated the analysis of asphaltene samples enriched in different structures and proposed corresponding structures. Additionally, correlations between asphaltene structures and their stability were attempted to be established through calculating the relative percentages of product ions.
Article
Nutrition & Dietetics
Lena Schillert, Daniela Wirtz, Nadine Weber, Franziska Schaller, Lisa Striegel, Philippe Schmitt-Kopplin, Michael Rychlik
Summary: Yeasts are rich in folates, which play important roles in various biosynthetic reactions. This study used LC/MS-MS methods and SIDA assays to analyze the quantitative changes of different forms of folates during the growth of Saccharomyces cerevisiae. The results showed that the folate content and forms of the yeast changed during cultivation, and two novel folate groups were discovered. These findings contribute to our understanding of yeast metabolism.
FRONTIERS IN NUTRITION
(2022)
Article
Microbiology
Christian Ayala-Ortiz, Nathalia Graf-Grachet, Viviana Freire-Zapata, Jane Fudyma, Gina Hildebrand, Roya AminiTabrizi, Cristina Howard-Varona, Yuri E. Corilo, Nancy Hess, Melissa B. Duhaime, Matthew B. Sullivan, Malak M. Tfaily
Summary: MetaboDirect is an open-source, command-line-based pipeline for the analysis, visualization, and presentation of FT-ICR MS data sets. It can generate a wide range of plots with a single line of code and automatically generate biochemical transformation networks based on mass differences.
Article
Environmental Sciences
Martin R. Kurek, Aron Stubbins, Travis W. Drake, Thorsten Dittmar, Jose M. S. Moura, R. Max Holmes, Helena Osterholz, Johan Six, Jose N. Wabakanghanzi, Bienvenu Dinga, Miyuki Mitsuya, Robert G. M. Spencer
Summary: The study compares the composition of dissolved organic matter (DOM) in the Congo and Amazon rivers. The results show that the quality of DOM in the Congo River remains stable across different hydrological conditions, while the composition of DOM in the Amazon River is highly susceptible to changes in hydrology. The DOM in the Congo River is more terrestrial in nature, while the DOM in the Amazon River is more characteristic of aquatic DOM. Additionally, the Congo River is more efficient in exporting specific formulae compared to other rivers.
GLOBAL BIOGEOCHEMICAL CYCLES
(2022)
Article
Chemistry, Physical
Imane Ellouzi, Souad El Hajjaji, Mourad Harir, Philippe Schmitt-Kopplin, Didier Robert, Larbi Laanab
Summary: New multidoped TiO2 nanomaterials with potential photochemical response were synthesized via an uncomplicated sol-gel process. The doped nanomaterials exhibited smaller crystallite size, larger surface area, and visible light absorption compared to undoped TiO2 P-25. Under visible light irradiation, the doped TiO2 nanomaterials showed 2 to 3 times higher photochemical response than TiO2 P-25, and the photocatalytic efficiency depended on the type and dosage of dopants. The synergistic effect of S, N, C, and Fe significantly influenced the crystalline structure, optical properties, pore volume, and surface area.
JOURNAL OF DISPERSION SCIENCE AND TECHNOLOGY
(2023)
Article
Biochemical Research Methods
Bastian Blume, Vera Schwantes, Michael Witting, Heiko Hayen, Philippe Schmitt-Kopplin, Patrick O. Helmer, Bernhard Michalke
Summary: Parkinson's disease (PD) is characterized by the loss of dopaminergic neurons in the substantia nigra pars compacta region of the brain. The cause and mechanisms of this specific localized neurodegeneration are currently unknown. However, experimental evidence suggests a link between PD progression and imbalanced metal homeostasis, specifically involving reactive oxygen species. This study used Caenorhabditis elegans as a model organism to investigate the cellular response to imbalanced metal homeostasis associated with neurodegenerative diseases.
JOURNAL OF PROTEOME RESEARCH
(2023)
Article
Plant Sciences
Sophie Trouvelot, Christelle Lemaitre-Guillier, Julie Vallet, Lucile Jacquens, Antonin Douillet, Mourad Harir, Philippe Larignon, Chloe Roullier-Gall, Philippe Schmitt-Kopplin, Marielle Adrian, Florence Fontaine
Summary: In the past, grapevine trunk diseases (GTDs) were controlled by treatments with sodium arsenite, but due to its banning, effective methods for GTDs management are lacking. This study investigates the effect of sodium arsenite on woody tissues, revealing its impact on both plant metabolome and structural barriers. The findings suggest that sodium arsenite stimulates plant secondary metabolites in wood, enhancing its fungicide effect and influencing phytotoxin patterns. This study contributes to a better understanding of the mode of action of sodium arsenite, aiding the development of sustainable strategies for GTDs management.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Geosciences, Multidisciplinary
Minako Hashiguchi, Dan Aoki, Kazuhiko Fukushima, Hiroshi Naraoka, Yoshinori Takano, Jason P. Dworkin, Karin E. Dworkin, Jose C. Aponte, Jamie E. Elsila, John M. Eiler, Yoshihiro Furukawa, Aogu Furusho, Daniel P. Glavin, Heather V. Graham, Kenji Hamase, Norbert Hertkorn, Junko Isa, Toshiki Koga, Hannah L. McLain, Hajime Mita, Yasuhiro Oba, Nanako O. Ogawa, Naohiko Ohkouchi, Francois-Regis Orthous-Daunay, Eric T. Parker, Alexander Ruf, Saburo Sakai, Philippe Schmitt-Kopplin, Haruna Sugahara, Roland Thissen, Veronique Vuitton, Cedric Wolters, Toshihiro Yoshimura, Hisayoshi Yurimoto, Tomoki Nakamura, Takaaki Noguchi, Ryuji Okazaki, Hikaru Yabuta, Kanako Sakamoto, Shogo Tachibana, Toru Yada, Masahiro Nishimura, Aiko Nakato, Akiko Miyazaki, Kasumi Yogata, Masanao Abe, Tomohiro Usui, Makoto Yoshikawa, Takanao Saiki, Satoshi Tanaka, Fuyuto Terui, Satoru Nakazawa, Sei-ichiro Watanabe, Yuichi Tsuda
Summary: We performed in-situ analysis on a 1 mm-sized grain A0080 returned by Hayabusa2 spacecraft to investigate the relationship of soluble organic matter (SOM) to minerals. The distribution of different compound classes of SOM and alkylated homologues exhibited a heterogeneous spatial distribution on the sample surface. The A0080 sample showed mineralogy similar to an Ivuna-type carbonaceous chondrite and contained two different lithologies. CHN compounds were more concentrated in one lithology, while CHO, CHO-Na, and CHNO compounds were distributed in both lithologies. The spatial distribution of SOM is likely influenced by interactions with minerals and fluid activity.
EARTH PLANETS AND SPACE
(2023)
Article
Genetics & Heredity
Yongtao Han, Amira Haouel, Elisabeth Georgii, Santiago Priego-Cubero, Christoph J. Wurm, Daniel Hemmler, Philippe Schmitt-Kopplin, Claude Becker, Joerg Durner, Christian Lindermayr
Summary: Histone deacetylation by HD2A and HD2B regulates gene expression and ABA biosynthesis, leading to enhanced drought resistance in Arabidopsis. The hd2ahd2b mutant displays hypersensitivity to exogenous ABA and shows upregulation of ABA-responsive genes and H4K5ac levels. HD2A/HD2B directly bind to specific ABA-responsive genes and repress ABA biosynthesis by deacetylating H4K5ac at NCED9. These findings highlight the important role of HD2A and HD2B in ABA signaling and their negative regulation in drought resistance.
Article
Plant Sciences
Olivier Fernandez, Christelle Lemaitre-Guillier, Aurelie Songy, Guillaume Robert-Siegwald, Marc-Henri Lebrun, Philippe Schmitt-Kopplin, Philippe Larignon, Marielle Adrian, Florence Fontaine
Summary: Grapevine trunk diseases pose a global threat to vineyards. These diseases are caused by multiple pathogenic microorganisms and have a long latent phase. Combined abiotic stresses exacerbate disease symptoms, especially with less virulent pathogens.
Article
Chemistry, Multidisciplinary
Philippe Diederich, Thomas Geisberger, Yingfei Yan, Christian Seitz, Alexander Ruf, Claudia Huber, Norbert Hertkorn, Philippe Schmitt-Kopplin
Summary: The authors report the formation of acetaldehydes and higher condensation products from a reaction between acetylene and carbon monoxide catalyzed by nickel sulfide under hydrothermal conditions. This finding is important for understanding the synthesis of aldehydes in the early Earth.
COMMUNICATIONS CHEMISTRY
(2023)
Article
Archaeology
Jasmine Hertzog, Hitomi Fujii, Rugile Zostautaite, Agnes Lattuati-Derieux, Pascale Richardin, Vincent Carre, Frederic Aubriet, Philippe Schmitt-Kopplin
Summary: Deciphering the biomolecular composition of archaeological organic materials is important for understanding ancient civilizations. This study used FTICR MS in combination with GC-MS and infrared spectroscopy to analyze embalming materials from Egyptian crocodile mummies. FTICR MS provided complementary information and advantages over GC-MS, such as easier sample preparation and detection of higher-mass compounds. The results confirmed the use of pine resin, beeswax, and animal and vegetal fat in the embalming process, and also assessed the oxidation of the samples. FTICR MS is a valuable tool for quickly analyzing biomolecular fingerprints and assessing sample degradation in archaeological materials.
JOURNAL OF ARCHAEOLOGICAL SCIENCE-REPORTS
(2023)
Review
Biochemical Research Methods
Michael Witting
Summary: Metabolomics, the measurement of small molecules in biological samples, is a rapidly growing field with various applications. Data sharing in metabolomics is not as widespread as in transcriptomics and proteomics, but more scientists are beginning to share their data. Sharing of reference data is crucial for improving data analysis tools, developing new analytical approaches, and enhancing metabolite annotation and identification. This review explores different possibilities for sharing (metabolomics) data and highlights recent approaches and applications in data reuse and analysis.
Review
Biochemistry & Molecular Biology
Daniel Marques de Sa e Silva, Marlene Thaitumu, Georgios Theodoridis, Michael Witting, Helen Gika
Summary: Volumetric absorptive microsampling (VAMS) has been widely used in pharmaceutical research, but it also shows great potential in biomarker analysis. This study comprehensively reviews the applicability of VAMS devices for the analysis of endogenous metabolites/biomarkers, highlighting their advantages in analyte stability and sample acquisition.
Article
Chemistry, Multidisciplinary
Philippe Diederich, Alexander Ruf, Thomas Geisberger, Leopold Weidner, Christian Seitz, Wolfgang Eisenreich, Claudia Huber, Philippe Schmitt-Kopplin
Summary: Chemical complexity is crucial for the origin of life and biological evolution. The chemical evolution of a complex prebiotic mixture containing acetylene, carbon monoxide, and nickel sulfide has been analyzed using mass spectrometry. Isotopic labeling reveals the presence of diverse compounds within the reaction mixture. Different degrees of labeling enable robust characterization of functional groups. The study also reveals a characteristic addition pattern and a high diversity of sulfur-containing compounds. The temporal analysis provides insights into the role of sulfur in the origin of life.
COMMUNICATIONS CHEMISTRY
(2023)
Article
Endocrinology & Metabolism
Liesa Salzer, Philippe Schmitt-Kopplin, Michael Witting
Summary: This study compared the application of capillary electrophoresis coupled to mass spectrometry (CE-MS) and hydrophilic interaction liquid chromatography coupled to mass spectrometry (HILIC-MS) for the analysis of polar metabolites in C. elegans. The results showed that CE-MS exhibited better performance in terms of separation, peak width, and linearity, and provided complementary information compared to HILIC-MS. CE-MS was successfully applied to recover known metabolites and identify novel putative biomarkers of longevity in C. elegans.
Article
Biochemical Research Methods
Leopold Weidner, Daniel Hemmler, Michael Rychlik, Philippe Schmitt-Kopplin
Summary: We developed DBDIpy, a Python library for processing and analyzing untargeted, time-sensitive plasma ionization MS datasets. It is capable of identifying in-source fragments and rivaling ionization pathways of the same analytes in time-sensitive datasets. DBDIpy also includes basic functions for processing untargeted metabolomics data and interfaces to existing tools for MS data analysis in Python.
Article
Chemistry, Analytical
Liesa Salzer, Elva Maria Novoa-del-Toro, Clement Frainay, Kohar Annie B. Kissoyan, Fabien Jourdan, Katja Dierking, Michael Witting
Summary: The APEX workflow is a powerful approach for metabolite annotation and identification by leveraging multiple experimental networks. By integrating diverse networks and refining the selection of seed nodes, APEX enables comprehensive annotation in metabolomics research, enabling a deeper understanding of the metabolome.
ANALYTICAL CHEMISTRY
(2023)