Article
Chemistry, Applied
Mengyu Chen, Wenjie Huang, Zhibin Yin, Wenyang Zhang, Qian Kong, Shaowen Wu, Wenyan Li, Zhao Bai, Alisdair R. Fernie, Xiaodan Huang, Shijuan Yan
Summary: The research found metabolic differences among black wolfberry fruits grown in different geographical regions, with some samples showing significantly different metabolite profiles with higher levels of beneficial components, providing a new direction for further studies on the health benefits of black wolfberry fruits.
Article
Pharmacology & Pharmacy
Weiwei Li, Hui Chen, Yihan Qian, Shouchuan Wang, Zichen Luo, Jinjun Shan, Xiaoni Kong, Yueqiu Gao
Summary: This study used lipidomics and metabolomics techniques to summarize the metabolic characteristics of four commonly used acute intrahepatic cholestasis models. The results showed that the bile acid profile was altered in all models. Additionally, different models exhibited distinct metabolic profiles, revealing the differences in the mechanisms of acute cholestasis.
FRONTIERS IN PHARMACOLOGY
(2022)
Article
Chemistry, Analytical
Cemil Can Eylem, Emirhan Nemutlu, Aysegul Dogan, Vedat Acik, Selcuk Matyar, Yurdal Gezercan, Suleyman Altintas, Ali Ihsan Okten, Nursabah Elif Basci Akduman
Summary: To gain deeper insights into the molecular mechanisms in biological systems, it is necessary to comprehensively examine a wide range of molecular species. This study develops a high-throughput and robust metabolomics and lipidomics analysis method to simultaneously analyze metabolites and lipids from a single sample, by optimizing sample preparation and method parameters. The results show that the methanol:water:chloroform (3:1:3, v/v/v) mixture is the most superior extraction solvent combination. The efficiency of derivatization steps and chromatographic parameters were also tested.
MICROCHEMICAL JOURNAL
(2022)
Article
Biochemistry & Molecular Biology
Simon Lagies, Roman Pichler, Georg Vladimirov, Jana Gawron, Fabian Bazner, Annabell Schreiner, Dajana Kadena, Dietmar A. Plattner, Soeren S. Lienkamp, Bernd Kammerer
Summary: Research has found that the concentration of vancomycin in the kidneys far exceeds plasma levels, potentially leading to nephrotoxic reactions. By studying animal models and cell lines, it was discovered that exposure to vancomycin resulted in metabolic and lipidomic alterations in kidney cells.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Review
Biochemistry & Molecular Biology
Atiah H. Almalki
Summary: Lung cancer is the leading cause of cancer-related death worldwide. This review presents recent trends in the analytical techniques used for metabolome mapping of lung cancer, and discusses the potential applications of these techniques in the analysis of biological samples, providing new avenues for treatment strategies and monitoring drug responses.
Review
Chemistry, Analytical
Muhammad Waris, Engin Kocak, Ekrem Murat Gonulalan, L. Omur Demirezer, Sedef Kir, Emirhan Nemutlu
Summary: Plant-based metabolomics studies aim to discover new active compounds, determine vegetation period, investigate adulteration, evaluate correlation activity and metabolite levels, and monitor quality control of medicinal plants. However, the chemical differences of primary and secondary metabolites in complex natural products present challenges for analysis, ranging from sample collection to preparation, and from analysis to metabolite annotation and quantification. A comprehensive evaluation of current and new trends in plant metabolomics helps researchers in designing their studies holistically.
TRAC-TRENDS IN ANALYTICAL CHEMISTRY
(2022)
Article
Chemistry, Applied
Ting Zeng, Baohua Fang, Fenglin Huang, Li Dai, Zhi Tang, Jinglin Tian, Guodong Cao, Xuanlin Meng, Yuanchen Liu, Bo Lei, Minghua Lu, Zongwei Cai
Summary: Through metabolomics analysis, it was found that under cadmium stress, most carbohydrates and amino acids were down-regulated as the cadmium concentration increased in rice grains, except for myoinositol which can prevent cadmium toxicity. D-Mannitol and L-cysteine were up-regulated in low-cadmium-accumulating rice with the increase of cadmium concentration. Organic acids, especially 13-(S)-hydroperoxy-9(Z),11(E),15(Z)-octadecatrienoic acid related to alphalinolenic acid metabolism and jasmonic acid production, were activated.
Article
Chemistry, Medicinal
Carlos Sanchez-Arcos, Debora Paris, Valerio Mazzella, Mirko Mutalipassi, Maria Costantini, Maria Cristina Buia, Eric von Elert, Adele Cutignano, Valerio Zupo
Summary: This study investigated the metabolic profiles of the macroalga Ulva prolifera under acidified and normal conditions using a multi-omics approach. The results showed that U. prolifera grows faster in acidified environments, with metabolic pathways being modulated and lipid biosynthesis being remodeled. These findings have implications for both the marine ecosystem and potential nutraceutical applications.
Article
Genetics & Heredity
Jeany Delafiori, Rinaldo Focaccia Siciliano, Arthur Noin de Oliveira, Jose Carlos Nicolau, Geovana Manzan Sales, Talia Falcao Dalcoquio, Estela Natacha Brandt Busanello, Adriana Eguti, Diogo Noin de Oliveira, Adriadne Justi Bertolin, Luiz Augusto dos Santos, Rocio Salsoso, Fabiana G. Marcondes-Braga, Nelson Duran, Mauricio Wesley Perroud Jr, Ester Cerdeira Sabino, Leonardo Oliveira Reis, Wagner Jose Favaro, Rodrigo Ramos Catharino
Summary: In this study, skin imprints and plasma samples were analyzed to study the metabolomics of COVID-19. The results showed that plasma samples outperformed skin imprints in diagnosing COVID-19, while skin imprints were excellent for assessing disease severity. Specific lipid molecules were identified as discriminative biomarkers for identifying hospitalized patients through skin imprinting. This research confirms the potential utility of skin imprinting as a non-invasive sampling method for COVID-19 screening.
JOURNAL OF MOLECULAR MEDICINE-JMM
(2023)
Article
Biochemical Research Methods
Xinxin Ye, Bin Zhu, Yang Chen, Yingfeng Wang, Dan Wang, Zhigang Zhao, Zhongfeng Li
Summary: This study performed integrated metabolomics and lipidomics analysis on healthy subjects and cerebral infarction patients, identifying metabolite and lipid biomarkers and enriching disturbed pathways. The results suggest that the approach could contribute to understanding the metabolic dysregulation associated with cerebral infarction pathogenesis and may aid in its early diagnosis.
JOURNAL OF PROTEOME RESEARCH
(2022)
Article
Biochemical Research Methods
Xinxin Ye, Bin Zhu, Yang Chen, Yingfeng Wang, Dan Wang, Zhigang Zhao, Zhongfeng Li
Summary: This study integrated metabolomics and lipidomics analysis to identify 49 metabolite and 68 lipid biomarkers associated with the pathogenesis of cerebral infarction. A support vector machine model constructed using these biomarkers showed excellent predictive ability for early diagnosis.
JOURNAL OF PROTEOME RESEARCH
(2022)
Article
Immunology
Leila B. Giron, Harsh Dweep, Xiangfan Yin, Han Wang, Mohammad Damra, Aaron R. Goldman, Nicole Gorman, Clovis S. Palmer, Hsin-Yao Tang, Maliha W. Shaikh, Christopher B. Forsyth, Robert A. Balk, Netanel F. Zilberstein, Qin Liu, Andrew Kossenkov, Ali Keshavarzian, Alan Landay, Mohamed Abdel-Mohsen
Summary: The disruption of crosstalk between the gut and lung is implicated as a driver of severity in respiratory-related diseases. Severe COVID-19 is associated with high levels of markers indicating disrupted gut permeability, microbial translocation, and systemic inflammation, which correlate strongly with other disruptions in the body and higher mortality rates. It highlights the importance of gut functions in contributing to the severity of COVID-19.
FRONTIERS IN IMMUNOLOGY
(2021)
Review
Chemistry, Analytical
Adriana Leandra Santoro, Pedro H. Vendramini, Deisi L. Braga, Lucas Gelain Martins, Gabriel F. Dos Santos, Gesiane S. Lima, Ljubica Tasic, Marcelo A. Mori
Summary: This review presents the main steps involved in C. elegans lipidomics and metabolomics analyses, discussing the advantages and drawbacks of different methods and listing commonly used protocols and applications.
TRAC-TRENDS IN ANALYTICAL CHEMISTRY
(2023)
Article
Agriculture, Multidisciplinary
Bo-Min Kim, Hyeon-Jeong Lee, Yeong H. Song, Hyun-Jin Kim
Summary: Increasing NaCl concentration led to decreased growth and mineral imbalance in spinach plants. NaCl irrigation resulted in decreased levels of most metabolites, affecting the nutritional quality of spinach.
JOURNAL OF THE SCIENCE OF FOOD AND AGRICULTURE
(2021)
Article
Biochemistry & Molecular Biology
Veronica Ghini, Laura Maggi, Alessio Mazzoni, Michele Spinicci, Lorenzo Zammarchi, Alessandro Bartoloni, Francesco Annunziato, Paola Turano
Summary: The H-1 NMR spectra of sera were used to analyze the changes induced by vaccination with Pfizer-BioNTech vaccine in COVID-19-recovered and COVID-19-naive subjects. The results show that vaccination does not significantly affect the metabolome, but causes changes in lipoprotein levels. The effects differ between the recovered and naive subjects, suggesting that prior infection reduces the vaccine's modulation of lipoprotein composition.
FRONTIERS IN MOLECULAR BIOSCIENCES
(2022)
Article
Multidisciplinary Sciences
Aaron E. Robinson, Aleksandra Binek, Komal Ramani, Niveda Sundararaman, Lucia Barbier-Torres, Ben Murray, Vidya Venkatraman, Simion Kreimer, Angela Mc Ardle, Mazen Noureddin, David Fernandez-Ramos, Fernando Lopitz-Otsoa, Virginia Gutierrez de Juan, Oscar Millet, Jose M. Mato, Shelly C. Lu, Jennifer E. Van Eyk
Summary: Methionine adenosyltransferase 1a (MAT1A) gene is responsible for the synthesis of hepatic S-adenosyl-L-methionine (SAMe). Deficiency of MAT1A results in hepatic SAMe depletion and development of nonalcoholic steatohepatitis (NASH), which can be reversed by SAMe administration. In this study, alterations in the proteome/phosphoproteome were examined in pre-disease and NASH Mat1a(-/-) mice, and compared to human nonalcoholic fatty liver disease (NAFLD). Common proteomic/phosphoproteomic signatures and metabolomic characteristics were found betweenMat1a(-/-) mice and a specific subtype of human NAFLD, suggesting potential implications for pathophysiology and therapy.
Article
Biology
Ganeko Bernardo-Seisdedos, Andreas Schedlbauer, Tania Pereira-Ortuzar, Jose M. Mato, Oscar Millet
Summary: In this study, it was demonstrated that human frataxin can bind to zinc in a structurally similar way to iron, but with lower affinity. In addition, both iron-loaded and zinc-loaded frataxins specifically associate with protoporphyrin IX. These findings expand the understanding of frataxin's molecular targets and provide insights into its unknown roles in iron regulation and metabolism.
Article
Biology
Eider Nunez, Frederick Jones, Arantza Muguruza-Montero, Janire Urrutia, Alejandra Aguado, Covadonga Malo, Ganeko Bernardo-Seisdedos, Carmen Domene, Oscar Millet, Nikita Gamper, Alvaro Villarroel, Henry M. Colecraft
Summary: Neuronal K(V)7 channels are highly sensitive to reactive oxygen species, and the S2S3 linker of the voltage sensor plays a crucial role in redox modulation of the channels. Recent structural studies have revealed interactions between this linker and the Ca2+-binding loop of calmodulin, specifically the EF3 hand, which is essential for the signaling. Disrupting Ca2+ binding to EF3 abolishes the oxidation-induced enhancement of K(V)7.4 currents. Furthermore, the loading of EF3 with Ca2+ is critical for the reorientation of the AB fork, which translates the Ca2+ signals.
Article
Gastroenterology & Hepatology
Ferenc E. Mozes, Jenny A. Lee, Yasaman Vali, Osama Alzoubi, Katharina Staufer, Michael Trauner, Rafael Paternostro, Rudolf E. Stauber, Adriaan G. Holleboom, Anne-Marieke van Dijk, Anne Linde Mak, Jerome Boursier, Marc de Saint Loup, Toshihide Shima, Elisabetta Bugianesi, Silvia Gaia, Angelo Armandi, Shalimar, Monica Lupsor-Platon, Vincent Wai-Sun Wong, Guanlin Li, Grace Lai-Hung Wong, Jeremy Cobbold, Thomas Karlas, Johannes Wiegand, Giada Sebastiani, Emmanuel Tsochatzis, Antonio Liguori, Masato Yoneda, Atsushi Nakajima, Hannes Hagstrom, Camilla Akbari, Masashi Hirooka, Wah-Kheong Chan, Sanjiv Mahadeva, Ruveena Rajaram, Ming-Hua Zheng, Jacob George, Mohammed Eslam, Salvatore Petta, Grazia Pennisi, Mauro Vigano, Sofia Ridolfo, Guruprasad Padur Aithal, Naaventhan Palaniyappan, Dae Ho Lee, Mattias Ekstedt, Patrik Nasr, Christophe Cassinotto, Victor de Ledinghen, Annalisa Berzigotti, Yuly P. Mendoza, Mazen Noureddin, Emily Truong, Celine Fournier-Poizat, Andreas Geier, Miljen Martic, Theresa Tuthill, Quentin M. Anstee, Stephen A. Harrison, Patrick M. Bossuyt, Michael Pavlides
Summary: Non-invasive tests show comparable prognostic performance to histologically assessed fibrosis in predicting clinical outcomes in NAFLD patients, suggesting they could be considered as alternatives to liver biopsy.
LANCET GASTROENTEROLOGY & HEPATOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Nathan H. Raines, Dominick A. Leone, Cristina O'Callaghan-Gordo, Oriana Ramirez-Rubio, Juan Jose Amador, Damaris Lopez Pilarte, Iris S. Delgado, Jessica H. Leibler, Nieves Embade, Ruben Gil-Redondo, Chiara Bruzzone, Maider Bizkarguenaga, Madeleine K. Scammell, Samir M. Parikh, Oscar Millet, Daniel R. Brooks, David J. Friedman
Summary: Mesoamerican nephropathy (MeN) is a chronic kidney disease that mainly affects young men in Mesoamerica, and its pathogenesis is poorly understood. A study comparing the urine metabolome of men engaged in strenuous agricultural labor in Nicaragua with different referent groups revealed distinguishing metabolic features in the high-risk group, including increased gut-derived metabolites and decreased metabolites related to central energy metabolism. Additionally, a higher kynurenate/tryptophan ratio was found in the high-risk group, suggesting an elevated inflammatory state.
Article
Cell Biology
Alba Capelo-Diz, Sofia Lachiondo-Ortega, David Fernandez-Ramos, Jorge Canas-Martin, Naroa Goikoetxea-Usandizaga, Marina Serrano-Macia, Maria J. Gonzalez-Rellan, Laura Mosca, Joan Blazquez-Vicens, Alberto Tinahones-Ruano, Marcos F. Fondevila, Mason Buyan, Teresa C. Delgado, Virginia Gutierrez de Juan, Paula Ayuso-Garcia, Alejandro Sanchez-Rueda, Sergio Velasco-Aviles, Hector Fernandez-Susavila, Cristina Riobello-Suarez, Bartlomiej Dziechciarz, Cristina Montiel-Duarte, Fernando Lopitz-Otsoa, Maider Bizkarguenaga, Jon Bilbao-Garcia, Ganeko Bernardo-Seisdedos, Ana Senra, Mario Soriano-Navarro, Oscar Millet, Angel Diaz-Lagares, Ana B. Crujeiras, Aida Bao-Caamano, Diana Cabrera, Sebastiaan van Liempd, Miguel Tamayo-Caro, Luigi Borzacchiello, Beatriz Gomez-Santos, Xabier Buque, Diego Saenz de Urturi, Francisco Gonzalez-Romero, Jorge Simon, Ruben Rodriguez-Agudo, Asier Ruiz, Carlos Matute, Daniel Beiroa, Juan M. Falcon-Perez, Patricia Aspichueta, Juan Rodriguez-Cuesta, Marina Porcelli, Maria A. Pajares, Cristina Ameneiro, Miguel Fidalgo, Ana M. Aransay, Tomas Lama-Diaz, Miguel G. Blanco, Miguel Lopez, Ricardo Villa-Bellosta, Timo D. Mueller, Ruben Nogueiras, Ashwin Woodhoo, Maria Luz Martinez-Chantar, Marta Varela-Rey
Summary: This study reveals that hepatic S-adenosylmethionine (SAMe) acts as a metabolic sensor of nutrition and fine-tunes the fasting response by regulating various cellular processes in mice. It shows that SAMe modulates PEMT activity, ER-mitochondria contacts, lipid oxidation, ATP production in the liver, and FGF21-mediated lipolysis and thermogenesis in adipose tissues. Additionally, the study highlights the role of glucagon-induced SAMe synthesis in preventing excessive lipid oxidation and mitochondrial ATP synthesis, thereby protecting against ER stress and liver injury.
Article
Gastroenterology & Hepatology
Laila Aldars-Garcia, Ruben Gil-Redondo, Nieves Embade, Sabino Riestra, Montserrat Rivero, Ana Gutierrez, Iago Rodriguez-Lago, Luis Fernandez-Salazar, Daniel Ceballos, Jose Manuel Benitez, Mariam Aguas, Iria Baston-Rey, Fernando Bermejo, Maria Jose Casanova, Rufo Lorente, Yolanda Ber, Daniel Ginard, Maria Esteve, Ruth de Francisco, Maria Jose Garcia, Ruben Frances, Ainhoa Rodriguez Pescador, Benito Velayos, Elena Guerra del Rio, Sandra Marin Pedrosa, Alejandro Minguez Sabater, Manuel Barreiro-de Acosta, Alicia Algaba, Cristina Verdejo Gil, Olga Rivas, Vanesa Royo, Montserrat Aceituno, Ana Garre, Montserrat Baldan-Martin, Cristina Ramirez, Ancor Sanz-Garcia, Juan J. Lozano, Julia Sidorova, Oscar Millet, David Bernardo, Javier P. Gisbert, Maria Chaparro
Summary: This study investigates the metabolic differences in different subgroups of newly diagnosed treatment-naive IBD patients. The results indicate alterations in energy and amino acid metabolism in IBD patients, with an increased demand for ketone bodies. The differences in metabolites are more pronounced in Crohn's disease patients compared to ulcerative colitis patients, and in serum compared to urine. Cluster analysis identifies three distinct patient profiles with significant differences in clinical, anthropometric, and metabolomic variables.
INFLAMMATORY BOWEL DISEASES
(2023)
Article
Chemistry, Analytical
Ricardo Conde, Nadia Oliveira, Elisabete Morais, Ana Paula Amaral, Adriana Sousa, Goncalo Graca, Ignacio Verde
Summary: Decreased levels of tyrosine, glutamate, valine, leucine, and isoleucine are associated with worsening pathological cognitive decline. Decreased levels of isobutyrate, histidine, acetone, and unknown-1 metabolite are potential biomarkers with neuroprotective and antioxidant actions for cognitive decline.
JOURNAL OF PHARMACEUTICAL AND BIOMEDICAL ANALYSIS
(2024)
Article
Endocrinology & Metabolism
Maria J. Gonzalez-Rellan, Tamara Parracho, Violeta Heras, Amaia Rodriguez, Marcos F. Fondevila, Eva Novoa, Natalia Lima, Marta Varela-Rey, Ana Senra, Maria D. P. Chantada-Vazquez, Cristina Ameneiro, Ganeko Bernardo, David Fernandez-Ramos, Fernando Lopitz-Otsoa, Jon Bilbao, Diana Guallar, Miguel Fidalgo, Susana Bravo, Carlos Dieguez, Maria L. Martinez-Chantar, Oscar Millet, Jose M. Mato, Markus Schwaninger, Vincent Prevot, Javier Crespo, Gema Fruhbeck, Paul Iruzubieta, Ruben Nogueiras
Summary: O-GlcNAcylation is a post-translational modification that affects protein function and localization, and its deregulation is associated with various human diseases. This study reveals the role of O-GlcNAcylation in the progression of NAFLD, providing new avenues for therapeutic intervention.
MOLECULAR METABOLISM
(2023)
Article
Urology & Nephrology
Samantha M. M. Hall, Nathan H. H. Raines, Oriana Ramirez-Rubio, Juan Jose Amador, Damaris Lopez-Pilarte, Cristina O'Callaghan-Gordo, Ruben Gil-Redondo, Nieves Embade, Oscar Millet, Xiaojing Peng, Selene Vences, Sinead A. A. Keogh, Iris S. S. Delgado, David J. J. Friedman, Daniel R. R. Brooks, Jessica H. H. Leibler
Summary: The urine analysis of young Nicaraguan participants revealed that glycine concentration was higher in high-risk regions of CKDnt, possibly due to greater heat exposure or renal stress; low eGFR was associated with decreased pyruvate concentration, and citric acid cycle metabolites were likely related to mitochondrial respiration rates in the kidneys; participants with low eGFR experienced a decline in the concentration of 1-methylnicotinamide, an anti-fibrosis metabolite in tubule cells. These findings are important for understanding the origins of CKDnt.
Article
Multidisciplinary Sciences
Aaron E. Robinson, Aleksandra Binek, Komal Ramani, Niveda Sundararaman, Lucia Barbier-Torres, Ben Murray, Vidya Venkatraman, Simion Kreimer, Angela Mc Ardle, Mazen Noureddin, David Fernandez-Ramos, Fernando Lopitz-Otsoa, Virginia Gutierrez de Juan, Oscar Millet, Jose M. Mato, Shelly C. Lu, Jennifer E. Van Eyk
Summary: Methionine adenosyltransferase 1a (MAT1A) is responsible for hepatic S-adenosyl-L-methionine (SAMe) biosynthesis. Mat1a(-/-) mice develop nonalcoholic steatohepatitis (NASH) due to hepatic SAMe depletion, which can be reversed with SAMe administration. Temporal alterations in the proteome/phosphoproteome were observed in pre-disease and NASH Mat1a(-/-) mice, with persistent alterations in lipid metabolism proteins. Hyperphosphorylation signature consistent with CK2a and AKT1 activation was found in both pre-disease and NASH livers, which could be normalized with SAMe administration. A metabolomic signature resembling Mat1a(-/-) mice was discovered in human NAFLD with the M-subtype. These findings have important implications for the pathophysiology and treatment of NAFLD.
Meeting Abstract
Cardiac & Cardiovascular Systems
R. Conde, R. Gil-Redondo, M. Bizkarguenaga, C. Bruzzone, A. Lain, B. Gonzalez-Valle, L. Egia-Mendikute, N. Embade, A. Palazon, J. M. Mato, O. Millet
Meeting Abstract
Gastroenterology & Hepatology
Maria de los Reyes Luque Urbano, Jon Bilbao, David Fernandez Ramos, Fernando Lopitz Otsoa, Virginia Gutierrez de Juan, Ganeko Bernardo-Seisdedos, Luis Manuel Cervera Seco, Urko M. Marigorta, Lucia Barbier Torres, Shelly C. Lu, Oscar Millet, Jose M. Mato
JOURNAL OF HEPATOLOGY
(2023)