Article
Biochemical Research Methods
Yifan Xu, Haonan Li, Yiqun Han, Teng Wang, Yanwen Wang, Jicheng Gong, Ke Gao, Wu Chen, Weiju Li, Hongyin Zhang, Junxia Wang, Xinghua Qiu, Tong Zhu
Summary: Sphingolipids are a class of lipids with diverse structures and biological functions, and have been proposed as potential biomarkers for cardiometabolic diseases. The current methods for quantifying sphingolipids have limitations in terms of sample pretreatment and volume. In this study, a simple and rapid method using methanol for plasma sphingolipid extraction was developed, and 37 sphingolipids from 8 classes were successfully quantified using liquid chromatography coupled with tandem mass spectrometry. This method showed good performance and was applied successfully in an epidemiological study.
ANALYTICAL AND BIOANALYTICAL CHEMISTRY
(2022)
Article
Biochemical Research Methods
Cong Xi, Hua Zhao, Xue Lu, Tian-Jing Cai, Shuang Li, Ke-Hui Liu, Mei Tian, Qing-Jie Liu
Summary: The study utilized high-coverage targeted lipidomics to screen radiosensitive lipids, showing good sensitivity and specificity in triaging different radiation exposure levels by combined lipids. A novel strategy for radiation early triage and dose estimation was established using lipid panels, suggesting the feasibility of using targeted lipidomics for rapid, high-throughput triage in radiation biodosimetry.
JOURNAL OF PROTEOME RESEARCH
(2021)
Article
Biochemistry & Molecular Biology
Qingqing Wang, Miriam Hoene, Chunxiu Hu, Louise Fritsche, Robert Ahrends, Gerhard Liebisch, Kim Ekroos, Andreas Fritsche, Andreas L. Birkenfeld, Xinyu Liu, Xinjie Zhao, Qi Li, Benzhe Su, Andreas Peter, Guowang Xu, Rainer Lehmann
Summary: Reliability, robustness, and interlaboratory comparability of quantitative measurements in clinical lipidomics studies are crucial. The different ex vivo stability of lipids in blood poses a risk to data interpretation. Clear recommendations for blood sample collection are necessary. In this study, we used UHPLC-high resolution mass spectrometry to investigate the stability of 417 lipid species in EDTA whole blood under different temperature conditions and time points. Our data suggest that cooling whole blood immediately and continuously, and separating plasma within 4 hours, unless focusing on robust lipids, are recommended. Lists of lipids' ex vivo (in)stability and potential biomarkers in whole blood are provided. Overall, our results contribute to the international efforts in achieving reliable and comparable clinical lipidomics studies in the future.
JOURNAL OF LIPID RESEARCH
(2023)
Article
Chemistry, Applied
Zhiqing Liu, Mantong Zhao, Xinwen Wang, Chuan Li, Zhongyuan Liu, Xuanri Shen, Dayong Zhou
Summary: This study analyzed the lipid profiles of oyster Crassostrea gigas from Yellow Sea, East China Sea, and South China Sea using lipidomics strategy. The results showed that there were significant geographical differences in the lipid content, composition, and molecular profiles. Lipidomics could be a potential approach for geographical origin traceability of marine shellfishes.
Article
Chemistry, Analytical
Ian Oesterle, Manuel Pristner, Sabrina Berger, Mingxun Wang, Vinicius Verri Hernandes, Annette Rompel, Benedikt Warth
Summary: Polyphenols, abundant in plants and fungi, have beneficial bioactive properties. High-resolution mass spectrometry (HRMS) is favored for analyzing their complexity. This study evaluated the advantages of HRMS, using untargeted techniques and online resources, for annotating polyphenols and other molecules. Despite the sensitivity loss compared to low-resolution mass spectrometry (LRMS), HRMS is capable of comprehensively investigating human polyphenol exposure, linking it to human health effects and toxicological mixture effects with other xenobiotics.
ANALYTICAL CHEMISTRY
(2023)
Article
Biochemistry & Molecular Biology
Jiangang Zhang, Shuai Yang, Jingchun Wang, Yanquan Xu, Huakan Zhao, Juan Lei, Yu Zhou, Yu Chen, Lei Wu, Yongsheng Li
Summary: Recent epidemiological studies have shown that odd-chain fatty acids (OCFAs) are inversely associated with various disease risks. A targeted lipidomics method was developed to detect and quantify odd-chain fatty acyl-containing lipids. This method can be used for screening dysregulated odd-chain fatty acyl lipids and improving cancer diagnosis and prognosis evaluation using lipidomics.
JOURNAL OF LIPID RESEARCH
(2023)
Article
Biochemistry & Molecular Biology
Yuqi Lin, Xugui Li, Mengxiang Dai, Qiaoyu Li, Qingxin Shi, Lijun Zhang, Rongzeng Huang, Chengwu Song, Shuna Jin
Summary: This research identified and compared the distribution and sex differences of cardiolipins (CLs) in heart, liver, kidney, spleen, lung, skeletal muscle, and brain using ultra-high-performance liquid chromatography coupled with quadrupole time-of-flight mass spectrometry (UHPLC-QTOF-MS/MS). The results showed significant differences in the distribution of CLs in spleen, lung, and brain compared to heart, liver, kidney, and skeletal muscle. Sex differences of CLs in liver and kidney were also observed. These findings provide evidence for the dynamic states and sex differences of CLs, and shed light on the mitochondrial-related mechanism under physiological and pathological conditions.
Article
Biochemistry & Molecular Biology
JuDong Yeo, Christopher C. Parrish
Summary: Shotgun lipidomics was used to identify and quantify phospholipids in salmon muscle tissue, focusing on omega-3 fatty acids distribution and eicosanoids. 43 PL species were identified, with 16:0-22:6 PtdCho being predominant. Additionally, prostaglandin E2 and prostaglandin F3 alpha were identified for the first time in salmon muscle.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Biochemical Research Methods
Tanize Acunha, Viviani Nardini, Ana Paula Ferranti Peti, Morgana Kelly Borges Prado, Luiz Alberto Beraldo Moraes, Lucia Helena Faccioli
Summary: The Cytochrome P450 (CYP450) pathway is essential for the synthesis of various eicosanoids with important physiological and pathological functions. However, the metabolites of this pathway are not well explored due to the complex structures of CYP450-derived eicosanoids, posing a challenge for lipidomics studies.
JOURNAL OF MASS SPECTROMETRY
(2021)
Article
Engineering, Aerospace
Peng Zhang, Feifan Ouyang, Xianshuang Meng, Adil Farooq Lodhi, Mohib Ullah Kakar, Bo Li, Lin Feng
Summary: Irradiation and weightlessness are the main causes of neurological damage in astronauts. Serum lipidomic analysis can help to evaluate the long-term effects of radiation-induced brain damage. A systematic study can provide insights into the dose and time dependence of radiation damage and support the selection of targets for space radiation bio-protection.
Article
Chemistry, Analytical
Anna Laurent, Cindy Nix, Gael Cobraiville, Jacques Crommen, Marianne Fillet
Summary: In this study, the possibility of conducting reliable lipidomic studies using hemaPEN (R) microsampling devices was evaluated. Targeted lipidomic analysis was applied to investigate the impact of short and intense physical activity on blood lipid concentrations. It was found that the blood concentration of arachidonic acid, sphingosine, and lactic acid significantly increased after exercise, while the concentration of 14:0 lysophosphatidylcholine and 18:1 lysophosphatidylcholine significantly decreased.
JOURNAL OF PHARMACEUTICAL AND BIOMEDICAL ANALYSIS
(2023)
Review
Biochemistry & Molecular Biology
Kathy Tou, Adam Cawley, Christopher Bowen, David P. Bishop, Shanlin Fu
Summary: The current approach to equine anti-doping focuses on targeted detection, but there is a need for complementary monitoring methods to ensure integrity in the racing industry. Lipidomics, a growing field, has potential in characterizing lipids and their effects in the equine system. Eicosanoids, a class of lipids, have been studied as potential inflammatory markers for monitoring in equine anti-doping.
Article
Chemistry, Applied
Yajing Hu, Zhenxia Du, Xuechun Sun, Xin Ma, Jingdan Song, Haixia Sui, Augustine Atta Debrah
Summary: In this study, the dissolution precipitation method was used to extract small molecules in Polyamide (PA) kitchenware, and 64 different small molecules were identified through UPLC-QTOF-MS screening. Migration tests revealed that PA oligomers had the highest abundance among migrants. Risk assessment showed that most migrants were at a safe level of exposure, except for PA oligomers which exceeded their toxicological concern threshold (TTC).
Review
Chemistry, Analytical
Davide Coniglio, Giovanni Ventura, Cosima D. Calvano, Ilario Losito, Tommaso R. I. Cataldi
Summary: Arsenic-containing lipids, or arsenolipids, are organic compounds commonly found in marine organisms. Mass spectrometry techniques, such as ICP-MS and LC-ESI-MS, have played a key role in characterizing these lipids. Negative polarity and tandem MS analyses have further improved the identification of specific ions and the determination of the regiochemistry of these compounds.
JOURNAL OF PHARMACEUTICAL AND BIOMEDICAL ANALYSIS
(2023)
Article
Biochemical Research Methods
Hilaire Yam Fung Cheung, Cristina Coman, Philipp Westhoff, Mailin Manke, Albert Sickmann, Oliver Borst, Meinrad Gawaz, Steve P. Watson, Johan W. M. Heemskerk, Robert Ahrends
Summary: This study presents a quantitative targeted ion chromatography-mass spectrometry-based workflow for measuring phosphoinositides, which improves the accuracy of quantification. The workflow was validated in various tissues and demonstrated robustness for analyzing less-abundant phosphoinositides.
JOURNAL OF PROTEOME RESEARCH
(2021)
Article
Cell Biology
Andi Alijagic, Nikolai Scherbak, Oleksandr Kotlyar, Patrik Karlsson, Xuying Wang, Inger Odnevall, Oldrich Benada, Ali Amiryousefi, Lena Andersson, Alexander Persson, Jenny Felth, Henrik Andersson, Maria Larsson, Alexander Hedbrant, Samira Salihovic, Tuulia Hyoetylaeinen, Dirk Repsilber, Eva Saerndahl, Magnus Engwall
Summary: The physicochemical characterization of AMPs revealed their complexity in size, shape, and chemistry. The AMPs exhibited concentration-dependent effects on the cytoskeleton, mitochondria, and cell membranes. Metabolomics and lipidomics analysis provided insight into the inflammation-related metabolites and extensive membrane remodeling induced by AMPs. Overall, AMP exposure resulted in internalization, oxidative stress, cytoskeleton disruption, mitochondrial activation, membrane remodeling, and metabolic reprogramming of lung epithelial cells and macrophages. Integrating Cell Painting with metabolomics and lipidomics offers an advanced nanosafety methodology to capture cellular and molecular phenotypes and understand the biological mechanisms of (nano)particle exposure.
Review
Biochemistry & Molecular Biology
Vivek Bhakta Mathema, Partho Sen, Santosh Lamichhane, Matej Oresic, Sakda Khoomrung
Summary: Cancer progression is influenced by gene-environment interactions, and biomarkers can be used to improve diagnosis and treatment. High-throughput profiling technologies have enabled data-driven biomarker discoveries, but traditional statistical techniques have limitations. Machine learning and deep learning approaches have been increasingly used to investigate diseases and optimize prediction models.
COMPUTATIONAL AND STRUCTURAL BIOTECHNOLOGY JOURNAL
(2023)
Article
Cardiac & Cardiovascular Systems
Marion Laudette, Malin Lindbom, Muhammad Arif, Mathieu Cinato, Mario Ruiz, Stephen Doran, Azra Miljanovic, Mikael Rutberg, Linda Andersson, Martina Klevstig, Marcus Henricsson, Per-Olof Bergh, Entela Bollano, Nay Aung, J. Gustav Smith, Marc Pilon, Tuulia Hyotylainen, Matej Oresic, Rosie Perkins, Adil Mardinoglu, Malin C. Levin, Jan Boren
Summary: This study aimed to investigate the role of PCSK9 in the heart by analyzing mice with cardiomyocyte-specific Pcsk9 deficiency and silencing Pcsk9 in a cell culture model. The results showed that cardiomyocyte-specific deletion of Pcsk9 resulted in reduced contractile capacity, impaired cardiac function, and ventricular dilatation. Transcriptomic analyses revealed changes in signaling pathways associated with cardiomyopathy and energy metabolism.
CARDIOVASCULAR RESEARCH
(2023)
Article
Biochemistry & Molecular Biology
Cho-Cho Aye, Dean E. Hammond, Sergio Rodriguez-Cuenca, Mary K. Doherty, Phillip D. Whitfield, Marie M. Phelan, Chenjing Yang, Rafael Perez-Perez, Xiaoxin Li, Angels Diaz-Ramos, Gopal Peddinti, Matej Oresic, Antonio Vidal-Puig, Antonio Zorzano, Cristina Ugalde, Silvia Mora
Summary: CBL is rapidly phosphorylated upon insulin receptor activation. Mice with whole body CBL depletion show improved insulin sensitivity and glucose clearance, but the precise mechanisms are unknown. Depletion of CBL or its associated protein SORBS1/CAP in myocytes leads to increased mitochondrial mass, greater proton leak, reduced activity and assembly of mitochondrial respiratory complex I, and alterations in proteins involved in glycolysis and fatty acid degradation. These findings demonstrate that the CBL/CAP pathway links insulin signaling to efficient mitochondrial function and metabolism in muscle.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Letter
Biotechnology & Applied Microbiology
Robin Schmid, Steffen Heuckeroth, Ansgar Korf, Aleksandr Smirnov, Owen Myers, Thomas S. Dyrlund, Roman Bushuiev, Kevin J. Murray, Nils Hoffmann, Miaoshan Lu, Abinesh Sarvepalli, Zheng Zhang, Markus Fleischauer, Kai Duehrkop, Mark Wesner, Shawn J. Hoogstra, Edward Rudt, Olena Mokshyna, Corinna Brungs, Kirill Ponomarov, Lana Mutabdzija, Tito Damiani, Chris J. Pudney, Mark Earll, Patrick O. Helmer, Timothy R. Fallon, Tobias Schulze, Albert Rivas-Ubach, Aivett Bilbao, Henning Richter, Louis-Felix Nothias, Mingxun Wang, Matej Oresic, Jing-Ke Weng, Sebastian Boecker, Astrid Jeibmann, Heiko Hayen, Uwe Karst, Pieter C. Dorrestein, Daniel Petras, Xiuxia Du, Tomas Pluskal
NATURE BIOTECHNOLOGY
(2023)
Article
Microbiology
Yong Fan, Rene Klinkby Stoving, Samar Berreira Ibraim, Tuulia Hyotylainen, Florence Thirion, Tulika Arora, Liwei Lyu, Evelina Stankevic, Tue Haldor Hansen, Pierre Dechelotte, Tim Sinioja, Oddny Ragnarsdottir, Nicolas Pons, Nathalie Galleron, Benoit Quinquis, Florence Levenez, Hugo Roume, Gwen Falony, Sara Vieira-Silva, Jeroen Raes, Loa Clausen, Gry Kjaersdam Telleus, Fredrik Backhed, Matej Oresic, S. Dusko Ehrlich, Oluf Pedersen
Summary: This study investigated the role of gut microbiota in the pathogenesis of anorexia nervosa (AN) by analyzing metagenomics and metabolomics data from AN patients and healthy females. The results showed that AN patients exhibited alterations in gut microbiota composition and function, as well as increased levels of metabolites associated with reduced food intake. Microbiota transplantation experiments further confirmed the contribution of gut microbiota to AN behavior.
NATURE MICROBIOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Matilda Krakstrom, Alex M. Dickens, Marina Amaral Alves, Sofia D. Forssten, Arthur C. Ouwehand, Tuulia Hyotylainen, Matej Oresic, Santosh Lamichhane
Summary: Current evidence suggests that gut microbiome-derived lipids play a crucial role in regulating host lipid metabolism. This study used targeted and untargeted lipidomics to analyze in vitro-derived feces and found that the lipid profiles of the simulated intestinal chyme were influenced by the vessel and time. Various types of lipids, including phosphatidylcholines, sphingomyelins, triacylglycerols, and endocannabinoids, were found to be altered in different compartments of the human colon model over time.
Article
Multidisciplinary Sciences
Tuulia Hyotylainen, Bagavathy Shanmugam Karthikeyan, Tannaz Ghaffarzadegan, Eric W. Triplett, Matej Oresic, Johnny Ludvigsson
Summary: This study investigated metabolic profiles in cord serum of infants who later developed immune-mediated diseases, and found elevated levels of triacylglycerols and altered gut microbiota related metabolites, especially in infants who later developed hypothyroidism. The similarities in metabolic profiles across autoimmune diseases imply common metabolic phenotypes at birth that differentiate them from healthy controls.
Article
Endocrinology & Metabolism
Santosh Lamichhane, Partho Sen, Alex M. Dickens, Matilda Krakstrom, Jorma Ilonen, Johanna Lempainen, Heikki Hyoty, Riitta Lahesmaa, Riitta Veijola, Jorma Toppari, Tuulia Hyotylainen, Mikael Knip, Matej Oresic
Summary: Distinct metabolic patterns can differentiate rapid progressors (RP) from slow progressors (SP) in the development of type 1 diabetes. Metabolites mediated by gut microbiome play a key role in distinguishing RP from SP. Identification of specific metabolites and pathways may have implications for delaying the development of type 1 diabetes.
FRONTIERS IN ENDOCRINOLOGY
(2023)
Review
Biochemistry & Molecular Biology
Partho Sen, Matej Oresic
Summary: Genome-scale metabolic models (GEMs) are a robust framework for studying complex biological systems and have significantly contributed to our understanding of human metabolism and the relationship between the gut microbiome and host metabolism. However, ensuring reproducibility and enhancing prediction accuracy of GEMs pose critical challenges, which are discussed in this review. The role of machine learning in addressing these challenges within GEMs is also explored.
Article
Multidisciplinary Sciences
M. Karoliina Hirvonen, Niina Lietzen, Robert Moulder, Santosh D. Bhosale, Jaakko Koskenniemi, Mari Vaha-Makila, Mirja Nurmio, Matej Oresic, Jorma Ilonen, Jorma Toppari, Riitta Veijola, Heikki Hyoty, Harri Lahdesmaki, Mikael Knip, Lu Cheng, Riitta Lahesmaa
Summary: By analyzing samples from children with type 1 diabetes, researchers identified the relationship between protein levels and disease progression, which can improve prediction and monitoring of the disease.
SCIENTIFIC REPORTS
(2023)
Article
Chemistry, Applied
Jakob Karlsson, Patricia Lopez-Sanchez, Tatiana Milena Marques, Tuulia Hyotylainen, Victor Castro-Alves, Annika Krona, Anna Strom
Summary: Dietary fibre intake is important for human health and pea hull fibres can be used to increase fibre content in food products. This study found that heating of pea hull fibres increased its ability to structure water suspension, but did not enhance its production of short chain fatty acids during colonic fermentation.
FOOD HYDROCOLLOIDS
(2024)
Meeting Abstract
Gastroenterology & Hepatology
Samira Salihovic, Niklas Nystrom, Charlotte B. Mathisen, Svend Andersen, Christine Olbjorn, Gori Perminow, Randi Opheim, Trond Espen Detlie, Gert Huppertz-Hauss, Igor Bazov, Robert Kruse, Carl Marten Lindqvist, Charlotte R. Hedin, Marie Carlson, Lena Ohman, Maria K. Magnusson, Asa V. Keita, Johan D. Soderholm, Mauro D'Amato, Matej Oresic, Dirk Repsilber, Tuulia Hyotylainen, Marte L. Hoivik, Jonas Halfvarson
