Article
Chemistry, Analytical
Jihee Yun, Jae-Yoon Jo, Sami T. Tuomivaara, Jae-Min Lim
Summary: Robust mass spectrometry-based methods for quantitative glycomics rely heavily on stable isotope labeling, which allows for high-precision, high-speed analysis of glycans. The introduction of stable isotopes through metabolic, enzymatic, and chemical approaches covers a wide range of sample types, including purified glycans and clinical specimens.
MICROCHEMICAL JOURNAL
(2021)
Article
Chemistry, Applied
Junfu Ji, Xinyu Liu, Xiaosong Hu, Fang Chen, Christoph Bueschl, Rainer Schuhmacher, Andrew L. Waterhouse, Lingjun Ma
Summary: This study successfully identified quinone reaction products in wine using a stable-isotope labelling approach combined with high-resolution mass spectrometry. Different nucleophiles were found to react in white wines and red wines.
Article
Pharmacology & Pharmacy
Sabrina Wohlfart, Michael Kilian, Philip Storck, Thomas Gutsmann, Klaus Brandenburg, Walter Mier
Summary: A novel method for precise quantification of Pep19-2.5 in biological samples has been developed in this study, which is crucial for the treatment of sepsis. The method utilizes mass spectrometry and labeled amino acid residues to reliably quantify the peptide content.
Review
Chemistry, Analytical
Di Yu, Lina Zhou, Xinyu Liu, Guowang Xu
Summary: The introduction of stable isotope labeling (SIL) technology has become a routine tool for functional metabolomics studies and allows for a deeper understanding of dynamic metabolic regulation in organisms. Mass spectrometry (MS) techniques have shown great vitality in this field by utilizing the different mass spectrometric characteristics between endogenous metabolites and their isotope-labeling forms. Recent advances in MS-based stable isotope-resolved metabolomics (SIRM) methods have expanded the breadth and depth of SIRM research by improving sample pretreatment, MS analysis, and data analysis. This review describes the recent progress of SIRM methods, summarizes their applications in metabolite identification, accurate quantification, and metabolic flux analysis, and discusses current limitations and challenges.
TRAC-TRENDS IN ANALYTICAL CHEMISTRY
(2023)
Review
Spectroscopy
Xiaobo Tian, Hjalmar P. Permentier, Rainer Bischoff
Summary: This article summarizes the advances in liquid chromatography and mass spectrometry in proteome quantification approaches, focusing on the principles, benefits, and limitations of chemical isotope labeling-based methods. It also discusses the potential and limitations of multiplex isotope labeling approaches for data-independent acquisition mode.
MASS SPECTROMETRY REVIEWS
(2023)
Article
Marine & Freshwater Biology
Eric Bollinger, Jochen P. Zubrod, Marco Konschak, Ralf Schulz, Mirco Bundschuh
Summary: Stable isotope analysis is an important technique in food web ecology, but its effectiveness can be unclear in complex systems. The use of heavy isotope tracers has been suggested as a way to enhance the utility of stable isotope analysis, but this study found that labeling could potentially affect isotopic fractionation and bias conclusions. While the physiological and activity levels of organisms in autotrophy-based and detritus-based aquatic food webs were not significantly affected by labeling, the study supported the isotopic redundancy hypothesis, which suggests that metabolic processes can be altered by discrete quantum mechanical states.
AQUATIC TOXICOLOGY
(2023)
Article
Chemistry, Analytical
Xiaoling Su, Deying Chen, Liang Li, Lanjuan Li
Summary: The study demonstrates that perfusion can significantly alter the liver metabolome, recommending the use of non-perfused liver for comprehensive liver metabolomics analysis for high coverage.
ANALYTICA CHIMICA ACTA
(2021)
Article
Chemistry, Analytical
Konomi Suda, Sachiko Sakamoto, Akira Iguchi, Hideyuki Tamaki
Summary: Anaerobic microbial acetogenesis is widely present on Earth and has a significant impact on the global carbon cycle. A new, simple method has been developed to investigate carbon flow in acetogen metabolic reactions by accurately determining the relative abundance of individual isotopomers. By using gas chromatography-mass spectrometry (GC-MS) combined with direct aqueous sample injection, the validity of this method was demonstrated and applied to study the carbon fixation mechanism of Acetobacterium woodii. The results showed that methanol was not the sole carbon precursor of acetate methyl group, and a certain percentage of the methyl group was formed from CO2.
Review
Biochemistry & Molecular Biology
Rocco J. Rotello, Timothy D. Veenstra
Summary: In the era of genomics research, mass spectrometry has become a vital tool for quantitatively comparing proteins within cells and organisms, despite the complexity of identifying quantitative changes in proteomes due to their dynamic nature and limitations in technology coverage. The combined development of sample preparation and MS methods has enabled the quantitation of thousands of proteins obtained from cells and organisms.
CURRENT PROTEIN & PEPTIDE SCIENCE
(2021)
Article
Agronomy
Leonard Bonilha Piveta, Nilda Roma-Burgos, Jose Alberto Noldin, Vivian Ebeling Viana, Claudia de Oliveira, Fabiane Pinto Lamego, Luis Antonio de Avila
Summary: Rice, the staple food for many people worldwide, is affected by climatic changes impacting its yield and quality. Weedy rice, with high genetic diversity, is crucial for rice crop improvement. This study analyzed the physiological and molecular profiles of rice cultivars and weedy rice under heat and drought stress, revealing genotype-specific responses to stress conditions. Research suggests that certain genotypes perform well under stress conditions and can be used as a source of genetic diversity for rice breeding.
Article
Chemistry, Analytical
Yanxin Li, Chong Ma, Jinmao You, Shijuan Zhang
Summary: The study prepared deuterated dansylhydrazine through a one-step simple reaction, applied it to stable isotope labeling of aldehydes, enhanced quantitation accuracy, and minimized matrix effect.
MICROCHEMICAL JOURNAL
(2022)
Article
Chemistry, Analytical
Cemil Can Eylem, Ipek Baysal, Acelya Erikci, Samiye Yabanoglu-Ciftci, Song Zhang, Sedef Kir, Andre Terzic, Petras Dzeja, Emirhan Nemutlu
Summary: A new H-2[O-18] based stable isotope marker was introduced for tracking oxygen exchange rates in different segments of Krebs cycle, increasing selectivity and sensitivity. The method was successfully applied to track the cancer-induced shift in Krebs cycle dynamics in Caco-2 cells, revealing the Warburg effect. The O-18 labeling of Krebs cycle metabolites expands the techniques for monitoring cellular metabolism dynamics.
ANALYTICA CHIMICA ACTA
(2021)
Article
Biology
Deyang Yao, Yukun Li, Sheng Zeng, Zhifan Li, Zahir Shah, Bigui Song, Jinglei Liu, Yi Wu, Liang Yang, Qi Long, Wenqian Wang, Zhijuan Hu, Haite Tang, Xingguo Liu
Summary: Our study showed that S-OPA1 acts as a molecular chaperone in the intermembrane space (IMS) of mitochondria, protecting substrate proteins from aggregation and enhancing thermotolerance in E. coli. S-OPA1 also confers thermotolerance on IMS proteins such as neurolysin, suggesting its chaperone activity is crucial for maintaining IMS homeostasis within mitochondria.
SCIENCE CHINA-LIFE SCIENCES
(2022)
Review
Genetics & Heredity
Xiulan Chen, Yaping Sun, Tingting Zhang, Lian Shu, Peter Roepstorff, Fuquan Yang
Summary: Isobaric labeling technology has become a key tool for comparing protein expression in biological samples, although challenges remain in terms of quantitative accuracy and precision. The different types of isobaric mass tags and advantages and disadvantages of the labeling method are detailed, along with precautions needed at each step of the workflow for reliable quantification results. The broad applications of isobaric labeling technology in biological and clinical studies, with a focus on thermal proteome profiling and proteogenomics, are also discussed.
GENOMICS PROTEOMICS & BIOINFORMATICS
(2021)
Article
Chemistry, Analytical
Hua-Ming Xiao, Shuai Zhao, Ru-Ting Fan, Dilshad Hussain, Xian Wang
Summary: A novel analytical approach with high sensitivity and selectivity was developed for simultaneous identification and determination of short-chain fatty alcohols in seed oil and biodiesel samples. Stable isotope labeling assisted liquid chromatography-mass spectrometry (SIL-LC-MS) was successfully applied in the analysis. The results indicated that the composition of short-chain fatty alcohols changed during the simulated real-time aging process of different types of long-chain fatty acids and fatty acid methyl esters.
Article
Biochemistry & Molecular Biology
Gudrun Rutsdottir, Johan Harmark, Yoran Weide, Hans Hebert, Morten I. Rasmussen, Sven Wernersson, Michal Respondek, Mikael Akke, Peter Hojrup, Philip J. B. Koeck, Christopher A. G. Soderberg, Cecilia Emanuelsson
JOURNAL OF BIOLOGICAL CHEMISTRY
(2017)
Article
Biochemistry & Molecular Biology
Gudrun Rutsdottir, Morten I. Rasmussen, Peter Hojrup, Katja Bernfur, Cecilia Emanuelsson, Christopher A. G. Soderberg
PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
(2018)
Article
Multidisciplinary Sciences
Christopher A. G. Soderberg, Cecilia Mansson, Katja Bernfur, Gudrun Rutsdottir, Johan Harmark, Sreekanth Rajan, Salam Al-Karadaghi, Morten Rasmussen, Peter Hojrup, Hans Hebert, Cecilia Emanuelsson
SCIENTIFIC REPORTS
(2018)
Article
Biochemistry & Molecular Biology
Ragna Peterson Wulff, Joakim Lundqvist, Gudrun Rutsdottir, Andreas Hansson, Anne Stenbaek, Dominika Elmlund, Hans Elmlund, Poul Erik Jensen, Mats Hansson
Article
Cell Biology
Wietske Lambert, Gudrun Rutsdottir, Rasha Hussein, Katja Bernfur, Sven Kjellstrom, Cecilia Emanuelsson
CELL STRESS & CHAPERONES
(2013)
Article
Multidisciplinary Sciences
Christopher A. G. Soderberg, Wietske Lambert, Sven Kjellstrom, Alena Wiegandt, Ragna Peterson Wulff, Cecilia Mansson, Gudrun Rutsdottir, Cecilia Emanuelsson
Article
Biochemistry & Molecular Biology
Wietske Lambert, Christopher A. G. Soderberg, Gudrun Rutsdottir, Wilbert C. Boelens, Cecilia Emanuelsson
Article
Biochemistry & Molecular Biology
Rosa S. Gisladottir, Erna Ivarsdottir, Agnar Helgason, Lina Jonsson, Nanna K. Hannesdottir, Gudrun Rutsdottir, Gudny A. Arnadottir, Astros Skuladottir, Benedikt A. Jonsson, Gudmundur L. Norddahl, Magnus O. Ulfarsson, Hannes Helgason, Bjarni Halldorsson, Muhammad S. Nawaz, Vinicius Tragante, Gardar Sveinbjornsson, Thorgeir Thorgeirsson, Asmundur Oddsson, Ragnar P. Kristjansson, Gyda Bjornsdottir, Gudmundur Thorgeirsson, Ingileif Jonsdottir, Hilma Holm, Daniel F. Gudbjartsson, Unnur Thorsteinsdottir, Hreinn Stefansson, Patrick Sulem, Kari Stefansson
Article
Cardiac & Cardiovascular Systems
Hildur M. Aegisdottir, Rosa B. Thorolfsdottir, Gardar Sveinbjornsson, Olafur A. Stefansson, Bjarni Gunnarsson, Vinicius Tragante, Gudmar Thorleifsson, Lilja Stefansdottir, Thorgeir E. Thorgeirsson, Egil Ferkingstad, Patrick Sulem, Gudmundur Norddahl, Gudrun Rutsdottir, Karina Banasik, Alex Hoerby Christensen, Christina Mikkelsen, Ole Birger Pedersen, Soren Brunak, Mie Topholm Bruun, Christian Erikstrup, Rikke Louise Jacobsen, Kaspar Rene Nielsen, Erik Sorensen, Michael L. Frigge, Kristjan E. Hjorleifsson, Erna Ivarsdottir, Anna Helgadottir, Solveig Gretarsdottir, Valgerdur Steinthorsdottir, Asmundur Oddsson, Hannes P. Eggertsson, Gisli H. Halldorsson, David A. Jones, Jeffrey L. Anderson, Kirk U. Knowlton, Lincoln D. Nadauld, D. B. D. S. Genomic Consortium DBDS Genomic Consortium, Magnus Haraldsson, Gudmundur Thorgeirsson, Henning Bundgaard, David O. Arnar, Unnur Thorsteinsdottir, Daniel F. Gudbjartsson, Sisse R. Ostrowsk, Hilma Holm, Kari Stefansson
Summary: This study investigates the genetics of syncope and provides insight into its pathophysiology and prognostic implications. The results show that syncope has a distinct genetic architecture involving neural regulatory processes and a complex relationship with heart rate and blood pressure regulation. There is also a shared genetic background with poor cardiovascular health. Thorough assessment is important for individuals presenting with syncope.
EUROPEAN HEART JOURNAL
(2023)