1
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Westhoff P, Weber APM. The role of metabolomics in informing strategies for improving photosynthesis. JOURNAL OF EXPERIMENTAL BOTANY 2024; 75:1696-1713. [PMID: 38158893 DOI: 10.1093/jxb/erad508] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/13/2023] [Accepted: 12/29/2023] [Indexed: 01/03/2024]
Abstract
Photosynthesis plays a vital role in acclimating to and mitigating climate change, providing food and energy security for a population that is constantly growing, and achieving an economy with zero carbon emissions. A thorough comprehension of the dynamics of photosynthesis, including its molecular regulatory network and limitations, is essential for utilizing it as a tool to boost plant growth, enhance crop yields, and support the production of plant biomass for carbon storage. Photorespiration constrains photosynthetic efficiency and contributes significantly to carbon loss. Therefore, modulating or circumventing photorespiration presents opportunities to enhance photosynthetic efficiency. Over the past eight decades, substantial progress has been made in elucidating the molecular basis of photosynthesis, photorespiration, and the key regulatory mechanisms involved, beginning with the discovery of the canonical Calvin-Benson-Bassham cycle. Advanced chromatographic and mass spectrometric technologies have allowed a comprehensive analysis of the metabolite patterns associated with photosynthesis, contributing to a deeper understanding of its regulation. In this review, we summarize the results of metabolomics studies that shed light on the molecular intricacies of photosynthetic metabolism. We also discuss the methodological requirements essential for effective analysis of photosynthetic metabolism, highlighting the value of this technology in supporting strategies aimed at enhancing photosynthesis.
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Affiliation(s)
- Philipp Westhoff
- CEPLAS Plant Metabolomics and Metabolism Laboratory, Heinrich-Heine-University, Universitätsstrasse 1, D-40225 Düsseldorf, Germany
| | - Andreas P M Weber
- Institute of Plant Biochemistry, Cluster of Excellence on Plant Science (CEPLAS), Heinrich-Heine-University, Universitätsstrasse 1, D-40225 Düsseldorf, Germany
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2
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Kopra K, Mahran R, Yli-Hollo T, Tabata S, Vuorinen E, Fujii Y, Vuorinen I, Ogawa-Iio A, Hirayama A, Soga T, Sasaki AT, Härmä H. Homogeneous luminescent quantitation of cellular guanosine and adenosine triphosphates (GTP and ATP) using QT-Luc GTP&ATP assay. Anal Bioanal Chem 2023; 415:6689-6700. [PMID: 37714971 PMCID: PMC10598090 DOI: 10.1007/s00216-023-04944-9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2023] [Revised: 09/04/2023] [Accepted: 09/07/2023] [Indexed: 09/17/2023]
Abstract
Guanosine triphosphate (GTP) and adenosine triphosphate (ATP) are essential nucleic acid building blocks and serve as energy molecules for a wide range of cellular reactions. Cellular GTP concentration fluctuates independently of ATP and is significantly elevated in numerous cancers, contributing to malignancy. Quantitative measurement of ATP and GTP has become increasingly important to elucidate how concentration changes regulate cell function. Liquid chromatography-coupled mass spectrometry (LC-MS) and capillary electrophoresis-coupled MS (CE-MS) are powerful methods widely used for the identification and quantification of biological metabolites. However, these methods have limitations related to specialized instrumentation and expertise, low throughput, and high costs. Here, we introduce a novel quantitative method for GTP concentration monitoring (GTP-quenching resonance energy transfer (QRET)) in homogenous cellular extracts. CE-MS analysis along with pharmacological control of cellular GTP levels shows that GTP-QRET possesses high dynamic range and accuracy. Furthermore, we combined GTP-QRET with luciferase-based ATP detection, leading to a new technology, termed QT-LucGTP&ATP, enabling high-throughput compatible dual monitoring of cellular GTP and ATP in a homogenous fashion. Collectively, GTP-QRET and QT-LucGTP&ATP offer a unique, high-throughput opportunity to explore cellular energy metabolism, serving as a powerful platform for the development of novel therapeutics and extending its usability across a range of disciplines.
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Affiliation(s)
- Kari Kopra
- Department of Chemistry, University of Turku, Henrikinkatu 2, 20500, Turku, Finland.
| | - Randa Mahran
- Department of Chemistry, University of Turku, Henrikinkatu 2, 20500, Turku, Finland
| | - Titta Yli-Hollo
- Department of Chemistry, University of Turku, Henrikinkatu 2, 20500, Turku, Finland
| | - Sho Tabata
- Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata, 997-0052, Japan
| | - Emmiliisa Vuorinen
- Department of Chemistry, University of Turku, Henrikinkatu 2, 20500, Turku, Finland
| | - Yuki Fujii
- Department of Internal Medicine, University of Cincinnati College of Medicine, 3125 Eden Ave, Cincinnati, OH, 45267-0508, USA
| | - Iida Vuorinen
- Department of Chemistry, University of Turku, Henrikinkatu 2, 20500, Turku, Finland
| | - Aki Ogawa-Iio
- Department of Internal Medicine, University of Cincinnati College of Medicine, 3125 Eden Ave, Cincinnati, OH, 45267-0508, USA
| | - Akiyoshi Hirayama
- Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata, 997-0052, Japan
| | - Tomoyoshi Soga
- Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata, 997-0052, Japan
| | - Atsuo T Sasaki
- Institute for Advanced Biosciences, Keio University, Tsuruoka, Yamagata, 997-0052, Japan
- Department of Internal Medicine, University of Cincinnati College of Medicine, 3125 Eden Ave, Cincinnati, OH, 45267-0508, USA
- Department of Clinical and Molecular Genetics, Hiroshima University Hospital, Hiroshima, 734-8551, Japan
| | - Harri Härmä
- Department of Chemistry, University of Turku, Henrikinkatu 2, 20500, Turku, Finland
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3
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Kiseleva OI, Kurbatov IY, Arzumanian VA, Ilgisonis EV, Zakharov SV, Poverennaya EV. The Expectation and Reality of the HepG2 Core Metabolic Profile. Metabolites 2023; 13:908. [PMID: 37623852 PMCID: PMC10456947 DOI: 10.3390/metabo13080908] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2023] [Revised: 07/29/2023] [Accepted: 08/01/2023] [Indexed: 08/26/2023] Open
Abstract
To represent the composition of small molecules circulating in HepG2 cells and the formation of the "core" of characteristic metabolites that often attract researchers' attention, we conducted a meta-analysis of 56 datasets obtained through metabolomic profiling via mass spectrometry and NMR. We highlighted the 288 most commonly studied compounds of diverse chemical nature and analyzed metabolic processes involving these small molecules. Building a complete map of the metabolome of a cell, which encompasses the diversity of possible impacts on it, is a severe challenge for the scientific community, which is faced not only with natural limitations of experimental technologies, but also with the absence of transparent and widely accepted standards for processing and presenting the obtained metabolomic data. Formulating our research design, we aimed to reveal metabolites crucial to the Hepg2 cell line, regardless of all chemical and/or physical impact factors. Unfortunately, the existing paradigm of data policy leads to a streetlight effect. When analyzing and reporting only target metabolites of interest, the community ignores the changes in the metabolomic landscape that hide many molecular secrets.
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Affiliation(s)
- Olga I. Kiseleva
- Institute of Biomedical Chemistry, Pogodinskaya Street, 10, 119121 Moscow, Russia (E.V.I.); (E.V.P.)
| | - Ilya Y. Kurbatov
- Institute of Biomedical Chemistry, Pogodinskaya Street, 10, 119121 Moscow, Russia (E.V.I.); (E.V.P.)
| | - Viktoriia A. Arzumanian
- Institute of Biomedical Chemistry, Pogodinskaya Street, 10, 119121 Moscow, Russia (E.V.I.); (E.V.P.)
| | - Ekaterina V. Ilgisonis
- Institute of Biomedical Chemistry, Pogodinskaya Street, 10, 119121 Moscow, Russia (E.V.I.); (E.V.P.)
| | - Svyatoslav V. Zakharov
- Chemistry Department, Lomonosov Moscow State University, Leninskie gory Street, 1/3, 119991 Moscow, Russia;
| | - Ekaterina V. Poverennaya
- Institute of Biomedical Chemistry, Pogodinskaya Street, 10, 119121 Moscow, Russia (E.V.I.); (E.V.P.)
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4
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van Mever M, Ramautar R. Chemical Derivatization to Enhance Capillary Electrophoresis Mass Spectrometric Analysis of Acidic Metabolites in Mammalian Cells. Methods Mol Biol 2023; 2571:105-114. [PMID: 36152154 DOI: 10.1007/978-1-0716-2699-3_10] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
The simultaneous analysis of cationic and anionic metabolites using capillary electrophoresis-mass spectrometry (CE-MS) has been considered challenging, as often two different analytical methods are required. Although CE-MS methods for cationic metabolite profiling have already shown good performance metrics, the profiling of anionic metabolites often results in relatively low sensitivity and poor repeatability caused by problems related to unstable electrospray and corona discharge when using reversed CE polarity and detection by MS in negative ionization mode. In this protocol, we describe a chemical derivatization procedure that provides a permanent positive charge to acidic metabolites, thereby allowing us to profile anionic metabolites by CE-MS using exactly the same separation conditions as employed for the analysis of basic metabolites. The utility of the overall approach is demonstrated for the analysis of energy metabolism-related metabolites in low numbers of HepG2 cells.
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Affiliation(s)
- Marlien van Mever
- Biomedical Microscale Analytics, Leiden Academic Centre for Drug Research, Leiden University, Leiden, The Netherlands.
| | - Rawi Ramautar
- Biomedical Microscale Analytics, Leiden Academic Centre for Drug Research, Leiden University, Leiden, The Netherlands
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5
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van Mever M, Ramautar R. Capillary Electrophoresis-Mass Spectrometry for the Direct Analysis of Metabolites in Highly Saline Samples Using In-Capillary Preconcentration. Methods Mol Biol 2023; 2571:95-103. [PMID: 36152153 DOI: 10.1007/978-1-0716-2699-3_9] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/16/2023]
Abstract
Capillary electrophoresis-mass spectrometry (CE-MS) is gaining interest for metabolomics studies because of its high separation efficiency, selectivity, and versatility. The ability to inject nanoliters from only a few microliters of sample in the injection vial makes this approach very suited for volume-limited applications. However, the low injection volumes could compromise the detection sensitivity of CE-MS, thereby potentially limiting its scope in metabolomics. To overcome this issue, online sample preconcentration methods have been developed to increase sample-loading volumes without hampering the intrinsic high separation efficiency of CE. In this protocol, online preconcentration with sample stacking based on pH junction was assessed for the direct profiling of endogenous metabolites in rat brain microdialysates. Sample stacking was realized by a pre-injection of ammonium hydroxide, followed by a large sample injection (i.e., about 17% of the total capillary volume). It is shown that this relatively simple and fast preconcentration procedure is fully compatible with the high-salt concentration in microdialysates and significantly improves the detection sensitivity of the CE-MS method.
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Affiliation(s)
- Marlien van Mever
- Biomedical Microscale Analytics, Leiden Academic Centre for Drug Research, Leiden University, Leiden, The Netherlands.
| | - Rawi Ramautar
- Biomedical Microscale Analytics, Leiden Academic Centre for Drug Research, Leiden University, Leiden, The Netherlands
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6
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Advances in capillary electrophoresis mass spectrometry for metabolomics. Trends Analyt Chem 2022. [DOI: 10.1016/j.trac.2022.116883] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
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7
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Kok MGM, Mora MF, Noell AC, Parker CW, Willis PA. A Novel and Sensitive Method for the Analysis of Fatty Acid Biosignatures by Capillary Electrophoresis-Mass Spectrometry. Anal Chem 2022; 94:12807-12814. [PMID: 36066097 DOI: 10.1021/acs.analchem.2c02716] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Fatty acids are a well-established class of compounds targeted as biosignatures for future missions to look for evidence of life on ocean worlds such as Europa and Enceladus. In order to establish their abiotic or biotic origin, we need to separate and quantify fatty acids to determine their relative abundances within a sample. In this study, we demonstrate the high potential of capillary electrophoresis coupled to mass spectrometry (CE-MS) for the efficient separation and sensitive detection of a wide variety of fatty acids. Three derivatization strategies were evaluated to allow the detection of fatty acids by positive ionization mode MS. Furthermore, CE-MS conditions were optimized to provide maximum separation efficiencies and detection sensitivities for the analysis of saturated and unsaturated fatty acids with even- and odd-numbered carbon chain lengths. Optimum separation and detection were obtained using a background electrolyte of 2 M acetic acid in 45% acetonitrile, after derivatization of the fatty acids with 2-picolylamine or N,N-diethylethylenediamine. The limits of detection for the derivatized fatty acids using the optimized method ranged from 25 to 250 nM. The optimized method was also used for the analysis of fatty acids in cell cultures and natural samples. Two distinctive biosignatures were obtained for the microorganisms Halobacillus halophilus and Pseudoalteromonas haloplanktis. In addition, multiple fatty acids were detected in a natural sample from Mono Lake, California.
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Affiliation(s)
- Miranda G M Kok
- Jet Propulsion Laboratory, California Institute of Technology, 4800 Oak Grove Drive, Pasadena, California 91109, United States
| | - Maria F Mora
- Jet Propulsion Laboratory, California Institute of Technology, 4800 Oak Grove Drive, Pasadena, California 91109, United States
| | - Aaron C Noell
- Jet Propulsion Laboratory, California Institute of Technology, 4800 Oak Grove Drive, Pasadena, California 91109, United States
| | - Ceth W Parker
- Jet Propulsion Laboratory, California Institute of Technology, 4800 Oak Grove Drive, Pasadena, California 91109, United States
| | - Peter A Willis
- Jet Propulsion Laboratory, California Institute of Technology, 4800 Oak Grove Drive, Pasadena, California 91109, United States
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8
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Zhang W, Chetwynd AJ, Thorn JA, Lynch I, Ramautar R. Understanding the Significance of Sample Preparation in Studies of the Nanoparticle Metabolite Corona. ACS MEASUREMENT SCIENCE AU 2022; 2:251-260. [PMID: 35726252 PMCID: PMC9204816 DOI: 10.1021/acsmeasuresciau.2c00003] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/17/2022] [Revised: 02/04/2022] [Accepted: 02/07/2022] [Indexed: 05/28/2023]
Abstract
The adsorption of metabolites to the surface of nanomaterials is a growing area of interest in the field of bionanointeractions. Like its more-established protein counterpart, it is thought that the metabolite corona has a key role in the uptake, distribution, and toxicity of nanomaterials in organisms. Previous research has demonstrated that nanomaterials obtain a unique metabolite fingerprint when exposed to biological matrices; however, there have been some concerns raised over the reproducibility of bionanointeraction research due to challenges in dispersion of nanomaterials and their stability. As such, this work investigates a much-overlooked aspect of this field, i.e., sample preparation, which is vital to the accurate, reproducible, and informative analysis of the metabolite corona. The impact of elution buffer pH, volume, and ionic strength on the metabolite corona composition acquired by uncapped and polyvinylpyrrolidone (PVP)-capped TiO2 from mixtures of cationic and anionic metabolites was studied. We demonstrate the temporal evolution of the TiO2 metabolite corona and the recovery of the metabolite corona, which resulted from a complex biological matrix, in this case human plasma. This work also demonstrates that it is vital to optimize sample preparation for each nanomaterial being investigated, as the metabolite recovery from Fe3O4 and Dispex-capped TiO2 nanomaterials is significantly reduced compared to the aforementioned uncapped and PVP-capped TiO2 nanomaterials. These are important findings for future bionanointeraction studies, which is a rapidly emerging area of research in nanoscience.
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Affiliation(s)
- Wei Zhang
- Leiden
Academic Centre for Drug Research, Leiden
University, Einsteinweg 55, 2333CC Leiden, The Netherlands
| | - Andrew J. Chetwynd
- School
of Geography, Earth and Environmental Sciences, University of Birmingham, Edgbaston, Birmingham B15 2TT, U.K.
- Department
of Women’s and Children’s Health, Institute of Life
Course and Medical Sciences, University
of Liverpool, Liverpool L12 2AP, U.K.
| | - James A. Thorn
- AB
SCIEX UK Ltd., SCIEX UK Centre of Innovation, Suite 21F18, 21 Mereside, Alderley
Park, Macclesfield, Cheshire SK10 4TG, U.K.
| | - Iseult Lynch
- School
of Geography, Earth and Environmental Sciences, University of Birmingham, Edgbaston, Birmingham B15 2TT, U.K.
| | - Rawi Ramautar
- Leiden
Academic Centre for Drug Research, Leiden
University, Einsteinweg 55, 2333CC Leiden, The Netherlands
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9
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Ramautar R. Capillary electrophoresis mass spectrometry for metabolomics: reflecting on the next steps. Bioanalysis 2022; 14:393-396. [PMID: 35311379 DOI: 10.4155/bio-2022-0031] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2022] Open
Affiliation(s)
- Rawi Ramautar
- Biomedical Microscale Analytics, Leiden Academic Centre for Drug Research, Leiden University, Einsteinweg 55, Leiden, 2333 CC, The Netherlands
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10
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Zhang W, Ramautar R. Assessing the Energy Status of Low Numbers of Mammalian Cells by Capillary Electrophoresis-Mass Spectrometry. Methods Mol Biol 2022; 2531:203-209. [PMID: 35941487 DOI: 10.1007/978-1-0716-2493-7_13] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/15/2023]
Abstract
Capillary electrophoresis-mass spectrometry (CE-MS) employing a sheathless porous tip interface has become a strong analytical tool for the efficient profiling of highly polar and charged metabolites in volume/material-restricted biological samples. As more and more metabolomics studies are (intrinsically) dealing with low numbers of mammalian cells, it would be important to use an additional performance metric to effectively evaluate the sampling and sample preparation procedure, in particular quenching. An established parameter to assess the sampling and sample preparation quality when working with cell cultures is the adenylate energy charge (AEC), which represents an index of the energy state of a cell. In this protocol, a CE-MS strategy is proposed for the reliable determination of the adenylate energy charge (AEC) in metabolomics studies dealing with low numbers of mammalian cells.
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Affiliation(s)
- Wei Zhang
- Biomedical Microscale Analytics, Leiden Academic Centre for Drug Research, Leiden University, Leiden, The Netherlands
| | - Rawi Ramautar
- Biomedical Microscale Analytics, Leiden Academic Centre for Drug Research, Leiden University, Leiden, The Netherlands.
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11
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He B, Zhang W, Guled F, Harms A, Ramautar R, Hankemeier T. Analytical techniques for biomass-restricted metabolomics: An overview of the state-of-the-art. Microchem J 2021. [DOI: 10.1016/j.microc.2021.106794] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
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12
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Ly R, Ly N, Sasaki K, Suzuki M, Kami K, Ohashi Y, Britz-McKibbin P. Nontargeted Serum Lipid Profiling of Nonalcoholic Steatohepatitis by Multisegment Injection-Nonaqueous Capillary Electrophoresis-Mass Spectrometry: A Multiplexed Separation Platform for Resolving Ionic Lipids. J Proteome Res 2021; 21:768-777. [PMID: 34676758 DOI: 10.1021/acs.jproteome.1c00682] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
New methods are needed for global lipid profiling due to the complex chemical structures and diverse physicochemical properties of lipids. Herein we introduce a robust data workflow to unambiguously select lipid features from serum ether extracts by multisegment injection-nonaqueous capillary electrophoresis-mass spectrometry (MSI-NACE-MS). An iterative three-stage screening strategy is developed for nontargeted lipid analyses when using multiplexed electrophoretic separations coupled to an Orbitrap mass analyzer under negative ion mode. This approach enables the credentialing of 270 serum lipid features annotated based on their accurate mass and relative migration time, including 128 ionic lipids reliably measured (median CV ≈ 13%) in most serum samples (>75%) from nonalcoholic steatohepatitis (NASH) patients (n = 85). A mobility map is introduced to classify charged lipid classes over a wide polarity range with selectivity complementary to chromatographic separations, including lysophosphatidic acids, phosphatidylcholines, phosphatidylinositols, phosphatidylethanolamines, and nonesterified fatty acids (NEFAs). Serum lipidome profiles were also used to differentiate high- from low-risk NASH patients using a k-means clustering algorithm, where elevated circulating NEFAs (e.g., palmitic acid) were associated with increased glucose intolerance, more severe liver fibrosis, and greater disease burden. MSI-NACE-MS greatly expands the metabolome coverage of conventional aqueous-based CE-MS protocols and is a promising platform for large-scale lipidomic studies.
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Affiliation(s)
- Ritchie Ly
- Department of Chemistry and Chemical Biology, McMaster University, Hamilton, Ontario L8S 4M1, Canada
| | - Nicholas Ly
- Department of Chemistry and Chemical Biology, McMaster University, Hamilton, Ontario L8S 4M1, Canada
| | - Kazunori Sasaki
- Human Metabolome Technologies, Inc., Tsuruoka, Yamagata 997-0052, Japan
| | - Makoto Suzuki
- Human Metabolome Technologies, Inc., Tsuruoka, Yamagata 997-0052, Japan
| | - Kenjiro Kami
- Human Metabolome Technologies, Inc., Tsuruoka, Yamagata 997-0052, Japan
| | - Yoshiaki Ohashi
- Human Metabolome Technologies, Inc., Tsuruoka, Yamagata 997-0052, Japan
| | - Philip Britz-McKibbin
- Department of Chemistry and Chemical Biology, McMaster University, Hamilton, Ontario L8S 4M1, Canada
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13
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Abstract
该文为2020年毛细管电泳(capillary electrophoresis, CE)技术年度回顾。归纳总结了以“capillary electrophoresis-mass spectrometry”或“capillary isoelectric focusing”或“micellar electrokinetic chromatography”或“capillary electrophoresis”为关键词在ISI Web of Science数据库中进行主题检索得到的2020年CE技术相关研究论文222篇,以及中文期刊《分析化学》和《色谱》中CE技术相关的研究论文37篇。对2020年影响因子(IF)≥5.0的Analytical Chemistry, Food Chemistry, Analytica Chimica Acta和Talanta等13本期刊的38篇文章报道的科研工作作了逐一介绍;对IF<5.0的期刊中CE技术报道较为集中的Journal of Chromatography A和Electrophoresis两本分析化学类期刊发表40篇文章中的代表性内容作了综合介绍;对重要的中文期刊《分析化学》出版的“核酸适配体专刊”和《色谱》出版的2期CE技术专刊所收录的37篇文章中的工作作了总体介绍。总体来说,2020年CE技术发展趋势仍以毛细管电泳-质谱(CE-MS)的新方法和新应用最为突出,主要集中在CE-MS与电化学检测、固相萃取以及多种毛细管电泳模式的联用方面,CE-MS接口相关的报道较前几年有所减少;常规CE技术则以胶束电动毛细管色谱(MEKC)在复杂样本分析、浓缩富集应用为主,尤其在食品和药品等复杂基质样本分析方面的报道较为集中;此外,我国CE相关领域专家学者的科研成果涵盖了CE在生命科学、临床医学、医药研发、环境科学、天然产物、食品分析等领域的应用,代表了国内CE科研应用水平和现状。
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Straube H, Witte CP, Herde M. Analysis of Nucleosides and Nucleotides in Plants: An Update on Sample Preparation and LC-MS Techniques. Cells 2021; 10:689. [PMID: 33804650 PMCID: PMC8003640 DOI: 10.3390/cells10030689] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2021] [Revised: 03/15/2021] [Accepted: 03/16/2021] [Indexed: 02/06/2023] Open
Abstract
Nucleotides fulfill many essential functions in plants. Compared to non-plant systems, these hydrophilic metabolites have not been adequately investigated in plants, especially the less abundant nucleotide species such as deoxyribonucleotides and modified or damaged nucleotides. Until recently, this was mainly due to a lack of adequate methods for in-depth analysis of nucleotides and nucleosides in plants. In this review, we focus on the current state-of-the-art of nucleotide analysis in plants with liquid chromatography coupled to mass spectrometry and describe recent major advances. Tissue disruption, quenching, liquid-liquid and solid-phase extraction, chromatographic strategies, and peculiarities of nucleotides and nucleosides in mass spectrometry are covered. We describe how the different steps of the analytical workflow influence each other, highlight the specific challenges of nucleotide analysis, and outline promising future developments. The metabolite matrix of plants is particularly complex. Therefore, it is likely that nucleotide analysis methods that work for plants can be applied to other organisms as well. Although this review focuses on plants, we also discuss advances in nucleotide analysis from non-plant systems to provide an overview of the analytical techniques available for this challenging class of metabolites.
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Affiliation(s)
| | - Claus-Peter Witte
- Department of Molecular Nutrition and Biochemistry of Plants, Leibniz Universität Hannover, 30419 Hannover, Germany;
| | - Marco Herde
- Department of Molecular Nutrition and Biochemistry of Plants, Leibniz Universität Hannover, 30419 Hannover, Germany;
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15
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Zhang W, Ramautar R. CE-MS for metabolomics: Developments and applications in the period 2018-2020. Electrophoresis 2021; 42:381-401. [PMID: 32906195 PMCID: PMC7891659 DOI: 10.1002/elps.202000203] [Citation(s) in RCA: 53] [Impact Index Per Article: 17.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/21/2020] [Revised: 08/30/2020] [Accepted: 09/01/2020] [Indexed: 02/06/2023]
Abstract
Capillary electrophoresis-mass spectrometry (CE-MS) is now a mature analytical technique in metabolomics, notably for the efficient profiling of polar and charged metabolites. Over the past few years, (further) progress has been made in the design of improved interfacing techniques for coupling CE to MS; also, in the development of CE-MS approaches for profiling metabolites in volume-restricted samples, and in strategies that further enhance the metabolic coverage. In this article, which is a follow-up of a previous review article covering the years 2016-2018 (Electrophoresis 2019, 40, 165-179), the main (technological) developments in CE-MS methods and strategies for metabolomics are discussed covering the literature from July 2018 to June 2020. Representative examples highlight the utility of CE-MS in the fields of biomedical, clinical, microbial, plant and food metabolomics. A complete overview of recent CE-MS-based metabolomics studies is given in a table, which provides information on sample type and pretreatment, capillary coatings, and MS detection mode. Finally, some general conclusions and perspectives are given.
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Affiliation(s)
- Wei Zhang
- Biomedical Microscale Analytics, Leiden Academic Centre for Drug ResearchLeiden UniversityLeidenThe Netherlands
| | - Rawi Ramautar
- Biomedical Microscale Analytics, Leiden Academic Centre for Drug ResearchLeiden UniversityLeidenThe Netherlands
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16
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Affiliation(s)
- Takayuki KAWAI
- RIKEN Center for Biosystems Dynamics Research
- Graduate School of Frontier Biosciences, Osaka University
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Drouin N, van Mever M, Zhang W, Tobolkina E, Ferre S, Servais AC, Gou MJ, Nyssen L, Fillet M, Lageveen-Kammeijer GS, Nouta J, Chetwynd AJ, Lynch I, Thorn JA, Meixner J, Lößner C, Taverna M, Liu S, Tran NT, Francois Y, Lechner A, Nehmé R, Al Hamoui Dit Banni G, Nasreddine R, Colas C, Lindner HH, Faserl K, Neusüß C, Nelke M, Lämmerer S, Perrin C, Bich-Muracciole C, Barbas C, Gonzálvez Á, Guttman A, Szigeti M, Britz-McKibbin P, Kroezen Z, Shanmuganathan M, Nemes P, Portero EP, Hankemeier T, Codesido S, González-Ruiz V, Rudaz S, Ramautar R. Capillary Electrophoresis-Mass Spectrometry at Trial by Metabo-Ring: Effective Electrophoretic Mobility for Reproducible and Robust Compound Annotation. Anal Chem 2020; 92:14103-14112. [PMID: 32961048 PMCID: PMC7581015 DOI: 10.1021/acs.analchem.0c03129] [Citation(s) in RCA: 29] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/22/2020] [Accepted: 09/22/2020] [Indexed: 12/15/2022]
Abstract
Capillary zone electrophoresis-mass spectrometry (CE-MS) is a mature analytical tool for the efficient profiling of (highly) polar and ionizable compounds. However, the use of CE-MS in comparison to other separation techniques remains underrepresented in metabolomics, as this analytical approach is still perceived as technically challenging and less reproducible, notably for migration time. The latter is key for a reliable comparison of metabolic profiles and for unknown biomarker identification that is complementary to high resolution MS/MS. In this work, we present the results of a Metabo-ring trial involving 16 CE-MS platforms among 13 different laboratories spanning two continents. The goal was to assess the reproducibility and identification capability of CE-MS by employing effective electrophoretic mobility (μeff) as the key parameter in comparison to the relative migration time (RMT) approach. For this purpose, a representative cationic metabolite mixture in water, pretreated human plasma, and urine samples spiked with the same metabolite mixture were used and distributed for analysis by all laboratories. The μeff was determined for all metabolites spiked into each sample. The background electrolyte (BGE) was prepared and employed by each participating lab following the same protocol. All other parameters (capillary, interface, injection volume, voltage ramp, temperature, capillary conditioning, and rinsing procedure, etc.) were left to the discretion of the contributing laboratories. The results revealed that the reproducibility of the μeff for 20 out of the 21 model compounds was below 3.1% vs 10.9% for RMT, regardless of the huge heterogeneity in experimental conditions and platforms across the 13 laboratories. Overall, this Metabo-ring trial demonstrated that CE-MS is a viable and reproducible approach for metabolomics.
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Affiliation(s)
- Nicolas Drouin
- Division
of Systems Biomedicine and Pharmacology, Leiden Academic Centre for
Drug Research, Leiden University, 2311 G Leiden, The Netherlands
| | - Marlien van Mever
- Division
of Systems Biomedicine and Pharmacology, Leiden Academic Centre for
Drug Research, Leiden University, 2311 G Leiden, The Netherlands
| | - Wei Zhang
- Division
of Systems Biomedicine and Pharmacology, Leiden Academic Centre for
Drug Research, Leiden University, 2311 G Leiden, The Netherlands
| | - Elena Tobolkina
- School
of Pharmaceutical Sciences, University of
Geneva, Rue Michel Servet 1, 1211 4 Geneva, Switzerland
- Institute
of Pharmaceutical Sciences of Western Switzerland, University of Geneva, Rue Michel Servet 1, 1211 4 Geneva, Switzerland
| | - Sabrina Ferre
- School
of Pharmaceutical Sciences, University of
Geneva, Rue Michel Servet 1, 1211 4 Geneva, Switzerland
- Institute
of Pharmaceutical Sciences of Western Switzerland, University of Geneva, Rue Michel Servet 1, 1211 4 Geneva, Switzerland
| | - Anne-Catherine Servais
- Laboratory
for the Analysis of Medicines, Center for Interdisciplinary Research
on Medicines (CIRM), University of Liège, Avenue Hippocrate 15, B-4000 Liège, Belgium
| | - Marie-Jia Gou
- Laboratory
for the Analysis of Medicines, Center for Interdisciplinary Research
on Medicines (CIRM), University of Liège, Avenue Hippocrate 15, B-4000 Liège, Belgium
| | - Laurent Nyssen
- Laboratory
for the Analysis of Medicines, Center for Interdisciplinary Research
on Medicines (CIRM), University of Liège, Avenue Hippocrate 15, B-4000 Liège, Belgium
- Department
of Clinical Chemistry, Center for Interdisciplinary Research on Medicines
(CIRM), University of Liège, Avenue Hippocrate 15, B-4000 Liège, Belgium
| | - Marianne Fillet
- Laboratory
for the Analysis of Medicines, Center for Interdisciplinary Research
on Medicines (CIRM), University of Liège, Avenue Hippocrate 15, B-4000 Liège, Belgium
| | | | - Jan Nouta
- Leiden University
Medical Center, Center for Proteomics
and Metabolomics, 2300 RC Leiden, The Netherlands
| | - Andrew J. Chetwynd
- School
of Geography Earth and Environmental Sciences, University of Birmingham, Edgbaston, Birmingham B15 2TT, U.K.
| | - Iseult Lynch
- School
of Geography Earth and Environmental Sciences, University of Birmingham, Edgbaston, Birmingham B15 2TT, U.K.
| | - James A. Thorn
- AB
Sciex UK Ltd, Phoenix House, Lakeside Drive, Warrington, Cheshire WA1 1RX, U.K.
| | - Jens Meixner
- Agilent
Technologies R&D and Marketing GmbH & Co. KG, Hewlett-Packard-Straße 8, 76337 Waldbronn, Germany
| | | | - Myriam Taverna
- Université Paris-Saclay, CNRS, Institut Galien Paris-Saclay, 92296 Châtenay-Malabry, France
- Institut Universitaire de France, 1 Rue Descartes, 75231 CEDEX 05 Paris, France
| | - Sylvie Liu
- Université Paris-Saclay, CNRS, Institut Galien Paris-Saclay, 92296 Châtenay-Malabry, France
| | - N. Thuy Tran
- Université Paris-Saclay, CNRS, Institut Galien Paris-Saclay, 92296 Châtenay-Malabry, France
| | - Yannis Francois
- Laboratoire
de Spectromètrie de Masse des Interactions et des Systémes
(LSMIS) UMR 7140 (Unistra-CNRS), Université
de Strasbourg, 4 Rue Blaise Pascal, 67081 CEDEX Strasbourg, France
| | - Antony Lechner
- Laboratoire
de Spectromètrie de Masse des Interactions et des Systémes
(LSMIS) UMR 7140 (Unistra-CNRS), Université
de Strasbourg, 4 Rue Blaise Pascal, 67081 CEDEX Strasbourg, France
| | - Reine Nehmé
- Institut
de Chimie Organique et Analytique (ICOA), CNRS FR 2708 - UMR 7311, Université d’Orléans, 45067 Orléans, France
| | - Ghassan Al Hamoui Dit Banni
- Institut
de Chimie Organique et Analytique (ICOA), CNRS FR 2708 - UMR 7311, Université d’Orléans, 45067 Orléans, France
| | - Rouba Nasreddine
- Institut
de Chimie Organique et Analytique (ICOA), CNRS FR 2708 - UMR 7311, Université d’Orléans, 45067 Orléans, France
| | - Cyril Colas
- Institut
de Chimie Organique et Analytique (ICOA), CNRS FR 2708 - UMR 7311, Université d’Orléans, 45067 Orléans, France
- Centre de Biophysique Moléculaire,
CNRS-Université
d’Orléans, UPR 4311, 45071 CEDEX 2 Orléans, France
| | - Herbert H. Lindner
- Institute
of Clinical Biochemistry, Innsbruck Medical
University, Innrain 80-82, A-6020 Innsbruck, Austria
| | - Klaus Faserl
- Institute
of Clinical Biochemistry, Innsbruck Medical
University, Innrain 80-82, A-6020 Innsbruck, Austria
| | - Christian Neusüß
- Faculty
of Chemistry, Aalen University, Beethovenstraße 1, 73430 Aalen, Germany
| | - Manuel Nelke
- Faculty
of Chemistry, Aalen University, Beethovenstraße 1, 73430 Aalen, Germany
| | - Stefan Lämmerer
- Faculty
of Chemistry, Aalen University, Beethovenstraße 1, 73430 Aalen, Germany
| | - Catherine Perrin
- Institut
des Biomolécules Max Mousseron (IBMM), UMR 5247-CNRS-UM-ENSCM, Université de Montpellier, 34093 CEDEX 5 Montpellier, France
| | - Claudia Bich-Muracciole
- Institut
des Biomolécules Max Mousseron (IBMM), UMR 5247-CNRS-UM-ENSCM, Université de Montpellier, 34093 CEDEX 5 Montpellier, France
| | - Coral Barbas
- Centre
for Metabolomics and Bioanalysis (CEMBIO), Department of Chemistry
and Biochemistry, Facultad de Farmacia, Universidad San Pablo-CEU, CEU Universities, Urbanización
Montepríncipe, Boadilladel
Monte 28660, Madrid, Spain
| | - Ángeles
López Gonzálvez
- Centre
for Metabolomics and Bioanalysis (CEMBIO), Department of Chemistry
and Biochemistry, Facultad de Farmacia, Universidad San Pablo-CEU, CEU Universities, Urbanización
Montepríncipe, Boadilladel
Monte 28660, Madrid, Spain
| | - Andras Guttman
- Horváth
Csaba Memorial Laboratory of Bioseparation Sciences, Research Center
for Molecular Medicine, Faculty of Medicine, Doctoral School of Molecular
Medicine, University of Debrecen, 98 Nagyerdei Road, H-4032 Debrecen, Hungary
- Translation
Glycomics Group, Research Institute of Biomolecular and Chemical Engineering, University of Pannonia, 10 Egyetem Street, Veszprem H-8200, Hungary
- Sciex, 250 South Kraemer Boulevard, Brea, California 92821, United States
| | - Marton Szigeti
- Horváth
Csaba Memorial Laboratory of Bioseparation Sciences, Research Center
for Molecular Medicine, Faculty of Medicine, Doctoral School of Molecular
Medicine, University of Debrecen, 98 Nagyerdei Road, H-4032 Debrecen, Hungary
- Translation
Glycomics Group, Research Institute of Biomolecular and Chemical Engineering, University of Pannonia, 10 Egyetem Street, Veszprem H-8200, Hungary
| | - Philip Britz-McKibbin
- Department
of Chemistry and Chemical Biology, McMaster
University, 1280 Main St. W., Hamilton, Ontario L8S 4M1, Canada
| | - Zachary Kroezen
- Department
of Chemistry and Chemical Biology, McMaster
University, 1280 Main St. W., Hamilton, Ontario L8S 4M1, Canada
| | - Meera Shanmuganathan
- Department
of Chemistry and Chemical Biology, McMaster
University, 1280 Main St. W., Hamilton, Ontario L8S 4M1, Canada
| | - Peter Nemes
- Department
of Chemistry & Biochemistry, University
of Maryland, College
Park, Maryland 20742, United States
| | - Erika P. Portero
- Department
of Chemistry & Biochemistry, University
of Maryland, College
Park, Maryland 20742, United States
| | - Thomas Hankemeier
- Division
of Systems Biomedicine and Pharmacology, Leiden Academic Centre for
Drug Research, Leiden University, 2311 G Leiden, The Netherlands
| | - Santiago Codesido
- School
of Pharmaceutical Sciences, University of
Geneva, Rue Michel Servet 1, 1211 4 Geneva, Switzerland
- Institute
of Pharmaceutical Sciences of Western Switzerland, University of Geneva, Rue Michel Servet 1, 1211 4 Geneva, Switzerland
| | - Víctor González-Ruiz
- School
of Pharmaceutical Sciences, University of
Geneva, Rue Michel Servet 1, 1211 4 Geneva, Switzerland
- Institute
of Pharmaceutical Sciences of Western Switzerland, University of Geneva, Rue Michel Servet 1, 1211 4 Geneva, Switzerland
- Swiss Centre for Applied Human Toxicology
(SCAHT), Missionsstrasse
64, 4055 Bâle, Switzerland
| | - Serge Rudaz
- School
of Pharmaceutical Sciences, University of
Geneva, Rue Michel Servet 1, 1211 4 Geneva, Switzerland
- Institute
of Pharmaceutical Sciences of Western Switzerland, University of Geneva, Rue Michel Servet 1, 1211 4 Geneva, Switzerland
- Swiss Centre for Applied Human Toxicology
(SCAHT), Missionsstrasse
64, 4055 Bâle, Switzerland
| | - Rawi Ramautar
- Division
of Systems Biomedicine and Pharmacology, Leiden Academic Centre for
Drug Research, Leiden University, 2311 G Leiden, The Netherlands
| |
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