1
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Griffiths WJ, Yutuc E, Wang Y. Mass Spectrometry Imaging of Cholesterol and Oxysterols. ADVANCES IN EXPERIMENTAL MEDICINE AND BIOLOGY 2024; 1440:73-87. [PMID: 38036876 DOI: 10.1007/978-3-031-43883-7_5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/02/2023]
Abstract
Mass spectrometry imaging (MSI) is a new technique in the toolbox of the analytical biochemist. It allows the generation of a compound-specific image from a tissue slice where a measure of compound abundance is given pixel by pixel, usually displayed on a color scale. As mass spectra are recorded at each pixel, the data can be interrogated to generate images of multiple different compounds all in the same experiment. Mass spectrometry (MS) requires the ionization of analytes, but cholesterol and other neutral sterols tend to be poorly ionized by the techniques employed in most MSI experiments, so despite their high abundance in mammalian tissues, cholesterol is poorly represented in the MSI literature. In this chapter, we discuss some of the MSI studies where cholesterol has been imaged and introduce newer methods for its analysis by MSI. Disturbed cholesterol metabolism is linked to many disorders, and the potential of MSI to study cholesterol, its precursors, and its metabolites in animal models and from human biopsies will be discussed.
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Affiliation(s)
| | - Eylan Yutuc
- Swansea University Medical School, Swansea, Wales, UK
| | - Yuqin Wang
- Swansea University Medical School, Swansea, Wales, UK
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2
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Foged MM, Maeda K, Bilgin M. Profiling the Mammalian Lipidome by Quantitative Shotgun Lipidomics. Methods Mol Biol 2023; 2625:89-102. [PMID: 36653635 DOI: 10.1007/978-1-0716-2966-6_8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
Abstract
The emerging field of lipidomics presents the systems biology approach to identify and quantify the full lipid repertoire of cells, tissues, and organisms. The importance of the lipidome is demonstrated by a number of biological studies on dysregulation of lipid metabolism in human diseases such as cancer, diabetes, and neurodegenerative diseases. Exploring changes and regulations in the huge networks of lipids and their metabolic pathways requires a lipidomics methodology: advanced mass spectrometry that resolves the complexity of the lipidome. Here, we report a comprehensive protocol of quantitative shotgun lipidomics that enables identification and quantification of hundreds of molecular lipid species, covering a wide range of lipid classes, extracted from cultured mammalian cells.
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Affiliation(s)
- Mads Møller Foged
- Cell Death and Metabolism Unit, Center for Autophagy, Recycling and Disease, Danish Cancer Society Research Center, Copenhagen, Denmark
| | - Kenji Maeda
- Cell Death and Metabolism Unit, Center for Autophagy, Recycling and Disease, Danish Cancer Society Research Center, Copenhagen, Denmark
| | - Mesut Bilgin
- Cell Death and Metabolism Unit, Center for Autophagy, Recycling and Disease, Danish Cancer Society Research Center, Copenhagen, Denmark. .,Lipidomics Core Facility, Center for Autophagy, Recycling and Disease, Danish Cancer Society Research Center , Copenhagen, Denmark.
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3
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Khalil SM, Sprenger RR, Hermansson M, Ejsing CS. DDA-imaging with structural identification of lipid molecules on an Orbitrap Velos Pro mass spectrometer. JOURNAL OF MASS SPECTROMETRY : JMS 2022; 57:e4882. [PMID: 36055222 PMCID: PMC9541402 DOI: 10.1002/jms.4882] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 06/08/2022] [Revised: 08/05/2022] [Accepted: 08/11/2022] [Indexed: 06/15/2023]
Abstract
Matrix-assisted laser desorption/ionization-mass spectrometry imaging (MALDI-MSI) is a useful technique for visualizing the spatial distribution of lipid molecules in tissues. Nevertheless, the use of MSI to investigate local lipid metabolic hallmarks has until recently been hampered by a lack of adequate technology that supports confident lipid identification. This limitation was recently mitigated by the development of DDA-imaging technology where high-resolution MSI is combined with parallel acquisition of lipid tandem MS2 spectra on a hybrid ion trap-Orbitrap Elite mass spectrometer featuring a resolving power of 240,000 and a scan time of 1 s. Here, we report the key tenets related to successful transfer of the DDA-imaging technology onto an Orbitrap Velos Pro instrument featuring a resolving power of 120,000 and a scan time of 2 s. Through meticulous performance assessments and method optimization, we tuned the DDA-imaging method to be able to confidently identify 73 molecular lipid species in mouse brain sections and demonstrate that the performance of the technology is comparable with DDA-imaging on the Orbitrap Elite. Altogether, our work shows that DDA-imaging on the Orbitrap Velos Pro instrument can serve as a robust workhorse for lipid imaging in routine applications.
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Affiliation(s)
- Saleh M. Khalil
- Department of Biochemistry and Molecular Biology, VILLUM Center for Bioanalytical SciencesUniversity of Southern DenmarkOdenseDenmark
| | - Richard R. Sprenger
- Department of Biochemistry and Molecular Biology, VILLUM Center for Bioanalytical SciencesUniversity of Southern DenmarkOdenseDenmark
| | - Martin Hermansson
- Department of Biochemistry and Molecular Biology, VILLUM Center for Bioanalytical SciencesUniversity of Southern DenmarkOdenseDenmark
| | - Christer S. Ejsing
- Department of Biochemistry and Molecular Biology, VILLUM Center for Bioanalytical SciencesUniversity of Southern DenmarkOdenseDenmark
- Cell Biology and Biophysics UnitEuropean Molecular Biology LaboratoryHeidelbergGermany
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4
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Köfeler HC, Ahrends R, Baker ES, Ekroos K, Han X, Hoffmann N, Holčapek M, Wenk MR, Liebisch G. Recommendations for good practice in MS-based lipidomics. J Lipid Res 2021; 62:100138. [PMID: 34662536 PMCID: PMC8585648 DOI: 10.1016/j.jlr.2021.100138] [Citation(s) in RCA: 68] [Impact Index Per Article: 22.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2021] [Revised: 09/29/2021] [Accepted: 10/01/2021] [Indexed: 12/17/2022] Open
Abstract
In the last 2 decades, lipidomics has become one of the fastest expanding scientific disciplines in biomedical research. With an increasing number of new research groups to the field, it is even more important to design guidelines for assuring high standards of data quality. The Lipidomics Standards Initiative is a community-based endeavor for the coordination of development of these best practice guidelines in lipidomics and is embedded within the International Lipidomics Society. It is the intention of this review to highlight the most quality-relevant aspects of the lipidomics workflow, including preanalytics, sample preparation, MS, and lipid species identification and quantitation. Furthermore, this review just does not only highlights examples of best practice but also sheds light on strengths, drawbacks, and pitfalls in the lipidomic analysis workflow. While this review is neither designed to be a step-by-step protocol by itself nor dedicated to a specific application of lipidomics, it should nevertheless provide the interested reader with links and original publications to obtain a comprehensive overview concerning the state-of-the-art practices in the field.
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Affiliation(s)
- Harald C Köfeler
- Core Facility Mass Spectrometry, Medical University of Graz, Graz, Austria.
| | - Robert Ahrends
- Department for Analytical Chemistry, University of Vienna, Vienna, Austria
| | - Erin S Baker
- Department of Chemistry, North Carolina State University, Raleigh, NC, USA
| | - Kim Ekroos
- Lipidomics Consulting Ltd., Esbo, Finland
| | - Xianlin Han
- Barshop Inst Longev & Aging Studies, Univ Texas Hlth Sci Ctr San Antonio, San Antonio, TX, USA
| | - Nils Hoffmann
- Center for Biotechnology, Universität Bielefeld, Bielefeld, Germany
| | - Michal Holčapek
- Department of Analytical Chemistry, Faculty of Chemical Technology, University of Pardubice, Pardubice, Czech Republic
| | - Markus R Wenk
- Singapore Lipidomics Incubator (SLING), Department of Biochemistry, YLL School of Medicine, National University of Singapore, Singapore, Singapore
| | - Gerhard Liebisch
- Institute of Clinical Chemistry and Laboratory Medicine, Regensburg University Hospital, Regensburg, Germany.
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5
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Borgmeyer M, Coman C, Has C, Schött HF, Li T, Westhoff P, Cheung YFH, Hoffmann N, Yuanxiang P, Behnisch T, Gomes GM, Dumenieu M, Schweizer M, Chocholoušková M, Holčapek M, Mikhaylova M, Kreutz MR, Ahrends R. Multiomics of synaptic junctions reveals altered lipid metabolism and signaling following environmental enrichment. Cell Rep 2021; 37:109797. [PMID: 34610315 DOI: 10.1016/j.celrep.2021.109797] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2020] [Revised: 04/12/2021] [Accepted: 09/15/2021] [Indexed: 12/30/2022] Open
Abstract
Membrane lipids and their metabolism have key functions in neurotransmission. Here we provide a quantitative lipid inventory of mouse and rat synaptic junctions. To this end, we developed a multiomics extraction and analysis workflow to probe the interplay of proteins and lipids in synaptic signal transduction from the same sample. Based on this workflow, we generate hypotheses about novel mechanisms underlying complex changes in synaptic connectivity elicited by environmental stimuli. As a proof of principle, this approach reveals that in mice exposed to an enriched environment, reduced endocannabinoid synthesis and signaling is linked to increased surface expression of α-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid receptor (AMPAR) in a subset of Cannabinoid-receptor 1 positive synapses. This mechanism regulates synaptic strength in an input-specific manner. Thus, we establish a compartment-specific multiomics workflow that is suitable to extract information from complex lipid and protein networks involved in synaptic function and plasticity.
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Affiliation(s)
- Maximilian Borgmeyer
- Leibniz Group 'Dendritic Organelles and Synaptic Function,' University Medical Center Hamburg-Eppendorf, Center for Molecular Neurobiology, ZMNH, 20251 Hamburg, Germany; RG Neuroplasticity, Leibniz Institute for Neurobiology, 39118 Magdeburg, Germany
| | - Cristina Coman
- Leibniz-Institut für Analytische Wissenschaften-ISAS-e.V., 44227 Dortmund, Germany; Department of Analytical Chemistry, Faculty of Chemistry, University of Vienna, 1090 Wien, Austria
| | - Canan Has
- Leibniz-Institut für Analytische Wissenschaften-ISAS-e.V., 44227 Dortmund, Germany
| | - Hans-Frieder Schött
- Leibniz-Institut für Analytische Wissenschaften-ISAS-e.V., 44227 Dortmund, Germany
| | - Tingting Li
- Leibniz-Institut für Analytische Wissenschaften-ISAS-e.V., 44227 Dortmund, Germany
| | - Philipp Westhoff
- Leibniz-Institut für Analytische Wissenschaften-ISAS-e.V., 44227 Dortmund, Germany
| | - Yam F H Cheung
- Leibniz-Institut für Analytische Wissenschaften-ISAS-e.V., 44227 Dortmund, Germany
| | - Nils Hoffmann
- Leibniz-Institut für Analytische Wissenschaften-ISAS-e.V., 44227 Dortmund, Germany
| | - PingAn Yuanxiang
- RG Neuroplasticity, Leibniz Institute for Neurobiology, 39118 Magdeburg, Germany
| | - Thomas Behnisch
- Institutes of Brain Science, State Key Laboratory of Medical Neurobiology and MOE Frontiers Center for Brain Science, Fudan University, Shanghai 200032, China
| | - Guilherme M Gomes
- RG Neuroplasticity, Leibniz Institute for Neurobiology, 39118 Magdeburg, Germany
| | - Mael Dumenieu
- RG Neuroplasticity, Leibniz Institute for Neurobiology, 39118 Magdeburg, Germany
| | - Michaela Schweizer
- Morphology and Electron Microscopy, University Medical Center Hamburg-Eppendorf, Center for Molecular Neurobiology, ZMNH, 20251 Hamburg, Germany
| | - Michaela Chocholoušková
- University of Pardubice, Department of Analytical Chemistry, CZ-532 10 Pardubice, Czech Republic
| | - Michal Holčapek
- University of Pardubice, Department of Analytical Chemistry, CZ-532 10 Pardubice, Czech Republic
| | - Marina Mikhaylova
- Emmy Noether Group 'Neuronal Protein Transport,' University Medical Center Hamburg-Eppendorf, Center for Molecular Neurobiology, ZMNH, 20251 Hamburg, Germany; AG Optobiology, Institute for Biology, Humboldt Universität zu Berlin, 10115 Berlin, Germany
| | - Michael R Kreutz
- Leibniz Group 'Dendritic Organelles and Synaptic Function,' University Medical Center Hamburg-Eppendorf, Center for Molecular Neurobiology, ZMNH, 20251 Hamburg, Germany; RG Neuroplasticity, Leibniz Institute for Neurobiology, 39118 Magdeburg, Germany; German Center for Neurodegenerative Diseases (DZNE), 39120 Magdeburg, Germany; Center for Behavioral Brain Sciences, 30120 Magdeburg, Germany.
| | - Robert Ahrends
- Leibniz-Institut für Analytische Wissenschaften-ISAS-e.V., 44227 Dortmund, Germany; Department of Analytical Chemistry, Faculty of Chemistry, University of Vienna, 1090 Wien, Austria.
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6
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Kertesz V, Cahill JF. Spatially resolved absolute quantitation in thin tissue by mass spectrometry. Anal Bioanal Chem 2021; 413:2619-2636. [PMID: 33140126 DOI: 10.1007/s00216-020-02964-3] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
Mass spectrometry (MS) has become the de facto tool for routine quantitative analysis of biomolecules. MS is increasingly being used to reveal the spatial distribution of proteins, metabolites, and pharmaceuticals in tissue and interest in this area has led to a number of novel spatially resolved MS technologies. Most spatially resolved MS measurements are qualitative in nature due to a myriad of potential biases, such as sample heterogeneity, sampling artifacts, and ionization effects. As applications of spatially resolved MS in the pharmacological and clinical fields increase, demand has become high for quantitative MS imaging and profiling data. As a result, several varied technologies now exist that provide differing levels of spatial and quantitative information. This review provides an overview of MS profiling and imaging technologies that have demonstrated quantitative analysis from tissue. Focus is given on the fundamental processes affecting quantitative analysis in an array of MS imaging and profiling technologies and methods to address these biases.Graphical abstract.
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Affiliation(s)
- Vilmos Kertesz
- Oak Ridge National Laboratory, Oak Ridge, TN, 37831-6131, USA.
| | - John F Cahill
- Oak Ridge National Laboratory, Oak Ridge, TN, 37831-6131, USA.
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7
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Angelini R, Yutuc E, Wyatt MF, Newton J, Yusuf FA, Griffiths L, Cooze BJ, El Assad D, Frache G, Rao W, Allen LB, Korade Z, Nguyen TTA, Rathnayake RAC, Cologna SM, Howell OW, Clench MR, Wang Y, Griffiths WJ. Visualizing Cholesterol in the Brain by On-Tissue Derivatization and Quantitative Mass Spectrometry Imaging. Anal Chem 2021; 93:4932-4943. [PMID: 33687199 PMCID: PMC7992047 DOI: 10.1021/acs.analchem.0c05399] [Citation(s) in RCA: 33] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
![]()
Despite being a critical
molecule in the brain, mass spectrometry
imaging (MSI) of cholesterol has been under-reported compared to
other lipids due to the difficulty in ionizing the sterol molecule.
In the present work, we have employed an on-tissue enzyme-assisted
derivatization strategy to improve detection of cholesterol in brain
tissue sections. We report distribution and levels of cholesterol
across specific structures of the mouse brain, in a model of Niemann-Pick
type C1 disease, and during brain development. MSI revealed that in
the adult mouse, cholesterol is the highest in the pons and medulla
and how its distribution changes during development. Cholesterol was
significantly reduced in the corpus callosum and other brain regions
in the Npc1 null mouse, confirming hypomyelination
at the molecular level. Our study demonstrates the potential of MSI
to the study of sterols in neuroscience.
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Affiliation(s)
- Roberto Angelini
- Medical School, Swansea University, Singleton Park, Swansea SA2 8PP, Wales, U.K
| | - Eylan Yutuc
- Medical School, Swansea University, Singleton Park, Swansea SA2 8PP, Wales, U.K
| | - Mark F Wyatt
- Medical School, Swansea University, Singleton Park, Swansea SA2 8PP, Wales, U.K
| | - Jillian Newton
- Centre for Mass Spectrometry Imaging, Biomolecular Research Centre, Sheffield Hallam University, Howard Street, Sheffield S1 1WB, U.K
| | - Fowzi A Yusuf
- Medical School, Swansea University, Singleton Park, Swansea SA2 8PP, Wales, U.K
| | - Lauren Griffiths
- Medical School, Swansea University, Singleton Park, Swansea SA2 8PP, Wales, U.K
| | - Benjamin J Cooze
- Medical School, Swansea University, Singleton Park, Swansea SA2 8PP, Wales, U.K
| | - Dana El Assad
- Materials Research and Technology, Luxembourg Institute of Science and Technology, Belvaux L-4422, Luxembourg
| | - Gilles Frache
- Materials Research and Technology, Luxembourg Institute of Science and Technology, Belvaux L-4422, Luxembourg
| | - Wei Rao
- European Application Laboratory, Waters Corporation, Stamford Avenue, Altrincham Road, Wilmslow SK9 4AX, U.K
| | - Luke B Allen
- Departments of Pediatrics and Biochemistry and Molecular Biology, University of Nebraska Medical Center, Omaha, Nebraska 68198, United States
| | - Zeljka Korade
- Departments of Pediatrics and Biochemistry and Molecular Biology, University of Nebraska Medical Center, Omaha, Nebraska 68198, United States
| | - Thu T A Nguyen
- Department of Chemistry and Laboratory of Integrated Neuroscience, University of Illinois at Chicago, Chicago, Illinois 60607, United States
| | - Rathnayake A C Rathnayake
- Department of Chemistry and Laboratory of Integrated Neuroscience, University of Illinois at Chicago, Chicago, Illinois 60607, United States
| | - Stephanie M Cologna
- Department of Chemistry and Laboratory of Integrated Neuroscience, University of Illinois at Chicago, Chicago, Illinois 60607, United States
| | - Owain W Howell
- Medical School, Swansea University, Singleton Park, Swansea SA2 8PP, Wales, U.K
| | - Malcolm R Clench
- Centre for Mass Spectrometry Imaging, Biomolecular Research Centre, Sheffield Hallam University, Howard Street, Sheffield S1 1WB, U.K
| | - Yuqin Wang
- Medical School, Swansea University, Singleton Park, Swansea SA2 8PP, Wales, U.K
| | - William J Griffiths
- Medical School, Swansea University, Singleton Park, Swansea SA2 8PP, Wales, U.K
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8
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Uptake of exogenous serine is important to maintain sphingolipid homeostasis in Saccharomyces cerevisiae. PLoS Genet 2020; 16:e1008745. [PMID: 32845888 PMCID: PMC7478846 DOI: 10.1371/journal.pgen.1008745] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2020] [Revised: 09/08/2020] [Accepted: 07/22/2020] [Indexed: 12/22/2022] Open
Abstract
Sphingolipids are abundant and essential molecules in eukaryotes that have crucial functions as signaling molecules and as membrane components. Sphingolipid biosynthesis starts in the endoplasmic reticulum with the condensation of serine and palmitoyl-CoA. Sphingolipid biosynthesis is highly regulated to maintain sphingolipid homeostasis. Even though, serine is an essential component of the sphingolipid biosynthesis pathway, its role in maintaining sphingolipid homeostasis has not been precisely studied. Here we show that serine uptake is an important factor for the regulation of sphingolipid biosynthesis in Saccharomyces cerevisiae. Using genetic experiments, we find the broad-specificity amino acid permease Gnp1 to be important for serine uptake. We confirm these results with serine uptake assays in gnp1Δ cells. We further show that uptake of exogenous serine by Gnp1 is important to maintain cellular serine levels and observe a specific connection between serine uptake and the first step of sphingolipid biosynthesis. Using mass spectrometry-based flux analysis, we further observed imported serine as the main source for de novo sphingolipid biosynthesis. Our results demonstrate that yeast cells preferentially use the uptake of exogenous serine to regulate sphingolipid biosynthesis. Our study can also be a starting point to analyze the role of serine uptake in mammalian sphingolipid metabolism. Sphingolipids (SPs) are membrane lipids globally required for eukaryotic life. In contrast to other lipid classes, SPs cannot be stored in the cell and therefore their levels have to be tightly regulated. Failure to maintain sphingolipid homeostasis can result in pathologies including neurodegeneration, childhood asthma and cancer. However, we are only starting to understand how SP biosynthesis is adjusted according to need. In this study, we use genetic and biochemical methods to show that the uptake of exogenous serine is necessary to maintain SP homeostasis in Saccharomyces cerevisiae. Serine is one of the precursors of long chain bases in cells, the first intermediate of SP metabolism. Our results suggest that the uptake of serine is directly coupled to SP biosynthesis at ER-plasma membrane contact sites. Overall, our study identifies serine uptake as a novel regulatory factor of SP homeostasis. While we use yeast as a discovery tool, these results also provide valuable insights into mammalian SP biology especially under pathological conditions.
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9
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Huang Z, Wu Q, Lu H, Wang Y, Zhang Z. Separation of Glycolipids/Sphingolipids from Glycerophospholipids on TiO 2 Coating in Aprotic Solvent for Rapid Comprehensive Lipidomic Analysis with Liquid Microjunction Surface Sampling-Mass Spectrometry. Anal Chem 2020; 92:11250-11259. [PMID: 32667194 DOI: 10.1021/acs.analchem.0c01870] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/30/2023]
Abstract
In lipidomic analysis by direct mass spectrometry (MS), high abundance lipids with high ionizability (such as glycerophospholipids) would cause ion suppression to lipids with poor ionizability and low abundance (such as glycolipids, sphingolipids, or glycerides), which largely limits the detection coverage for lipidomics. In this work, TiO2-based liquid microjunction surface sampling (LMJSS) coupled with MS was used for separation of glycerides, phospholipids and glycolipids/sphingolipids in biological samples and rapid analysis of lipids in different classes with high lipidome coverage. We found that, in nonaqueous aprotic solvents, lipids with a glycosyl or sphingosine group could be selectively separated from lipids with a phosphate group (selectivity >10) after being coenriched on TiO2 by tuning the solvent composition. Accordingly, a selective multistep extraction method was developed by loading the biosamples on TiO2 slides in neutral aprotic solvent, and sequentially eluting glycerides in pure acetonitrile, glycerophospholipids in 6% ammonia-94% acetonitrile (v/v) and glycolipids/sphingolipids in 5% formic acid-95% methanol (v/v) by LMJSS probe from TiO2 slide. Each eluate from TiO2 slide was directly delivered by LMJSS to MS for analysis. The total detection time with three desorption steps would be controlled in 3 min. The method performance for each lipid class was evaluated using lipid standards, including matrix effects (107-128%), RSDs (0.4-16%), linearity (0.98-0.99), detection limits (5-3000 ng/mL), the adsorption equilibrium constants (102-104) and adsorption capacity (1-38 μg/mm2) of TiO2 coated slides to lipids. Finally, the TiO2-based-LMJSS-MS method was applied to lipidomic analysis for blood plasma and brain tissue, and compared with direct infusion MS. Results showed that (2-5)-fold more sphingolipids/glycolipids and 40-50 more glycerophospholipids/glycerides were identified in both plasma and brain extract by the new method comparing with direct infusion MS method. Detected lipids were quantified with standard addition calibration method, and the absolute quantitation results measured by TiO2-based-LMJSS-MS were verified with that by the traditional LC-MS method (correlation coefficient >0.98, slope of correlation line = 0.87-1.05).
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Affiliation(s)
- Zehui Huang
- College of Chemistry and Chemical Engineering, Central South University, Hunan, Changsha 410083, P. R. China
| | - Qian Wu
- College of Chemistry and Chemical Engineering, Central South University, Hunan, Changsha 410083, P. R. China
| | - Hongmei Lu
- College of Chemistry and Chemical Engineering, Central South University, Hunan, Changsha 410083, P. R. China
| | - Yang Wang
- Laboratory of Ethnopharmacology, Institute of Integrated Traditional Chinese and Western Medicine, Xiangya Hospital, Central South University, Hunan, Changsha 410008, P. R. China
| | - Zhimin Zhang
- College of Chemistry and Chemical Engineering, Central South University, Hunan, Changsha 410083, P. R. China
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10
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Validation of MALDI-MS imaging data of selected membrane lipids in murine brain with and without laser postionization by quantitative nano-HPLC-MS using laser microdissection. Anal Bioanal Chem 2020; 412:6875-6886. [PMID: 32712813 PMCID: PMC7496020 DOI: 10.1007/s00216-020-02818-y] [Citation(s) in RCA: 22] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/17/2020] [Revised: 06/08/2020] [Accepted: 07/14/2020] [Indexed: 12/23/2022]
Abstract
MALDI mass spectrometry imaging (MALDI-MSI) is a widely used technique to map the spatial distribution of molecules in sectioned tissue. The technique is based on the systematic generation and analysis of ions from small sample volumes, each representing a single pixel of the investigated sample surface. Subsequently, mass spectrometric images for any recorded ion species can be generated by displaying the signal intensity at the coordinate of origin for each of these pixels. Although easily equalized, these recorded signal intensities, however, are not necessarily a good measure for the underlying amount of analyte and care has to be taken in the interpretation of MALDI-MSI data. Physical and chemical properties that define the analyte molecules’ adjacencies in the tissue largely influence the local extraction and ionization efficiencies, possibly leading to strong variations in signal intensity response. Here, we inspect the validity of signal intensity distributions recorded from murine cerebellum as a measure for the underlying molar distributions. Based on segmentation derived from MALDI-MSI measurements, laser microdissection (LMD) was used to cut out regions of interest with a homogenous signal intensity. The molar concentration of six exemplary selected membrane lipids from different lipid classes in these tissue regions was determined using quantitative nano-HPLC-ESI-MS. Comparison of molar concentrations and signal intensity revealed strong deviations between underlying concentration and the distribution suggested by MSI data. Determined signal intensity response factors strongly depend on tissue type and lipid species. Graphical abstract ![]()
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11
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Deng J, Yang Y, Luo L, Xiao Y, Luan T. Lipid analysis and lipidomics investigation by ambient mass spectrometry. Trends Analyt Chem 2020. [DOI: 10.1016/j.trac.2020.115924] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
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12
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Peng B, Kopczynski D, Pratt BS, Ejsing CS, Burla B, Hermansson M, Benke PI, Tan SH, Chan MY, Torta F, Schwudke D, Meckelmann SW, Coman C, Schmitz OJ, MacLean B, Manke MC, Borst O, Wenk MR, Hoffmann N, Ahrends R. LipidCreator workbench to probe the lipidomic landscape. Nat Commun 2020; 11:2057. [PMID: 32345972 PMCID: PMC7188904 DOI: 10.1038/s41467-020-15960-z] [Citation(s) in RCA: 43] [Impact Index Per Article: 10.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/04/2020] [Accepted: 04/06/2020] [Indexed: 12/16/2022] Open
Abstract
Mass spectrometry (MS)-based targeted lipidomics enables the robust quantification of selected lipids under various biological conditions but comprehensive software tools to support such analyses are lacking. Here we present LipidCreator, a software that fully supports targeted lipidomics assay development. LipidCreator offers a comprehensive framework to compute MS/MS fragment masses for over 60 lipid classes. LipidCreator provides all functionalities needed to define fragments, manage stable isotope labeling, optimize collision energy and generate in silico spectral libraries. We validate LipidCreator assays computationally and analytically and prove that it is capable to generate large targeted experiments to analyze blood and to dissect lipid-signaling pathways such as in human platelets.
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Affiliation(s)
- Bing Peng
- Leibniz-Institut für Analytische Wissenschaften - ISAS - e.V., 44139, Dortmund, Germany
- Division of Rheumatology, Department of Medicine Solna, Karolinska Institutet, Karolinska University Hospital, SE-171 76, Stockholm, Sweden
| | - Dominik Kopczynski
- Leibniz-Institut für Analytische Wissenschaften - ISAS - e.V., 44139, Dortmund, Germany
| | - Brian S Pratt
- University of Washington, Department of Genome Sciences, WA, 98195, Seattle, USA
| | - Christer S Ejsing
- Department of Biochemistry and Molecular Biology, University of Southern Denmark, DK-, 5230, Odense, Denmark
- Cell Biology and Biophysics Unit, European Molecular Biology Laboratory, 69117, Heidelberg, Germany
| | - Bo Burla
- Singapore Lipidomics Incubator (SLING), Life Sciences Institute, National University of Singapore, 117456, Singapore, Singapore
| | - Martin Hermansson
- Department of Biochemistry and Molecular Biology, University of Southern Denmark, DK-, 5230, Odense, Denmark
- Wihuri Research Institute, 00290, Helsinki, Finland
| | - Peter Imre Benke
- Singapore Lipidomics Incubator (SLING), Department of Biochemistry, Yong Loo Lin School of Medicine, National University of Singapore, 117596, Singapore, Singapore
| | - Sock Hwee Tan
- Department of Medicine, Yong Loo Lin School of Medicine, National University Hospital, 119228, Singapore, Singapore
- Cardiovascular Research Institute, National University of Singapore, 117599, Singapore, Singapore
| | - Mark Y Chan
- Department of Medicine, Yong Loo Lin School of Medicine, National University Hospital, 119228, Singapore, Singapore
- Cardiovascular Research Institute, National University of Singapore, 117599, Singapore, Singapore
- National University Heart Centre, National University Health System, 117599, Singapore, Singapore
| | - Federico Torta
- Singapore Lipidomics Incubator (SLING), Department of Biochemistry, Yong Loo Lin School of Medicine, National University of Singapore, 117596, Singapore, Singapore
| | - Dominik Schwudke
- Research Center Borstel, Leibniz Lung Center, Borstel, Germany
- German Center for Infection Research (DZIF), 38124, Braunschweig, Germany
- Airway Research Center North Member of the German Center for Lung Research (DZL), 22927, Großhansdorf, Germany
| | - Sven W Meckelmann
- Applied Analytical Chemistry, University of Duisburg-Essen, 45141, Essen, Germany
| | - Cristina Coman
- Leibniz-Institut für Analytische Wissenschaften - ISAS - e.V., 44139, Dortmund, Germany
- Department of Analytical Chemistry, University of Vienna, Währinger Strasse 38, 1090, Vienna, Austria
| | - Oliver J Schmitz
- Applied Analytical Chemistry, University of Duisburg-Essen, 45141, Essen, Germany
| | - Brendan MacLean
- University of Washington, Department of Genome Sciences, WA, 98195, Seattle, USA
| | - Mailin-Christin Manke
- Department of Cardiology and Cardiovascular Medicine, University of Tübingen, 72076, Tübingen, Germany
| | - Oliver Borst
- Department of Cardiology and Cardiovascular Medicine, University of Tübingen, 72076, Tübingen, Germany
| | - Markus R Wenk
- Singapore Lipidomics Incubator (SLING), Life Sciences Institute, National University of Singapore, 117456, Singapore, Singapore
- Singapore Lipidomics Incubator (SLING), Department of Biochemistry, Yong Loo Lin School of Medicine, National University of Singapore, 117596, Singapore, Singapore
| | - Nils Hoffmann
- Leibniz-Institut für Analytische Wissenschaften - ISAS - e.V., 44139, Dortmund, Germany
| | - Robert Ahrends
- Leibniz-Institut für Analytische Wissenschaften - ISAS - e.V., 44139, Dortmund, Germany.
- Department of Analytical Chemistry, University of Vienna, Währinger Strasse 38, 1090, Vienna, Austria.
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13
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Nielsen IØ, Vidas Olsen A, Dicroce-Giacobini J, Papaleo E, Andersen KK, Jäättelä M, Maeda K, Bilgin M. Comprehensive Evaluation of a Quantitative Shotgun Lipidomics Platform for Mammalian Sample Analysis on a High-Resolution Mass Spectrometer. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2020; 31:894-907. [PMID: 32129994 DOI: 10.1021/jasms.9b00136] [Citation(s) in RCA: 19] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Shotgun lipidomics is a powerful tool that enables simultaneous and fast quantification of diverse lipid classes through mass spectrometry based analyses of directly infused crude lipid extracts. We present here a shotgun lipidomics platform established to quantify 38 lipid classes belonging to four lipid categories present in mammalian samples and show the fine-tuning and comprehensive evaluation of its experimental parameters and performance. We first determined for all the targeted lipid classes the collision energy levels optimal for the recording of their lipid class- and species-specific fragment ions and fine-tuned the energy levels applied in the platform. We then performed a series of titrations to define the boundaries of linear signal response for the targeted lipid classes, and demonstrated that the dynamic quantification range spanned more than 3 orders of magnitude and reached sub picomole levels for 35 lipid classes. The platform identified 273, 261, and 287 lipid species in brain, plasma, and cultured fibroblast samples, respectively, at the respective optimal working sample amounts. The platform properly quantified the majority of these identified lipid species, while lipid species measured to be below the limit of quantification were efficiently removed from the data sets by the use of statistical analyses of data reproducibility or a cutoff threshold. Finally, we demonstrated that a series of parameters of cell culture conditions influence lipidomics outcomes, including confluency, medium supplements, and use of transfection reagents. The present study provides a guideline for setting up and using a simple and efficient platform for quantitatively exploring the mammalian lipidome.
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Affiliation(s)
- Inger Ødum Nielsen
- Unit for Cell Death and Metabolism, Center for Autophagy, Recycling and Disease, Danish Cancer Society Research Center, Copenhagen DK-2100, Denmark
| | - André Vidas Olsen
- Computational Biology Laboratory, Center for Autophagy, Recycling and Disease, Danish Cancer Society Research Center, Copenhagen DK-2100, Denmark
| | - Jano Dicroce-Giacobini
- Unit for Cell Death and Metabolism, Center for Autophagy, Recycling and Disease, Danish Cancer Society Research Center, Copenhagen DK-2100, Denmark
| | - Elena Papaleo
- Computational Biology Laboratory, Center for Autophagy, Recycling and Disease, Danish Cancer Society Research Center, Copenhagen DK-2100, Denmark
- Translational Disease Systems Biology, Novo Nordisk Foundation Center for Protein Research, University of Copenhagen, Copenhagen DK-2200, Denmark
| | - Klaus Kaae Andersen
- Unit for Statistics and Epidemiology, Danish Cancer Society Research Center, Copenhagen DK-2100, Denmark
| | - Marja Jäättelä
- Unit for Cell Death and Metabolism, Center for Autophagy, Recycling and Disease, Danish Cancer Society Research Center, Copenhagen DK-2100, Denmark
- Department of Cellular and Molecular Medicine, University of Copenhagen, Copenhagen DK-2200, Denmark
| | - Kenji Maeda
- Unit for Cell Death and Metabolism, Center for Autophagy, Recycling and Disease, Danish Cancer Society Research Center, Copenhagen DK-2100, Denmark
| | - Mesut Bilgin
- Unit for Cell Death and Metabolism, Center for Autophagy, Recycling and Disease, Danish Cancer Society Research Center, Copenhagen DK-2100, Denmark
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14
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Sans M, Krieger A, Wygant BR, Garza KY, Mullins CB, Eberlin LS. Spatially Controlled Molecular Analysis of Biological Samples Using Nanodroplet Arrays and Direct Droplet Aspiration. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2020; 31:418-428. [PMID: 32031393 DOI: 10.1021/jasms.9b00077] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Mass spectrometry (MS) has emerged as a valuable technology for molecular and spatial evaluation of biological samples. Ambient ionization MS techniques, in particular, allow direct analysis of tissue samples with minimal pretreatment. Here, we describe the design and optimization of an alternative ambient liquid extraction MS approach for metabolite and lipid profiling and imaging from biological samples. The system combines a piezoelectric picoliter dispenser to form solvent nanodroplets onto the sample surface with controlled and tunable spatial resolution and a conductive capillary to directly aspirate/ionize the nanodroplets for efficient analyte transmission and detection. Using this approach, we performed spatial profiling of mouse brain tissue sections with different droplet sizes (390, 420, and 500 μm). MS analysis of normal and cancerous human brain and ovarian tissues yielded rich metabolic profiles that were characteristic of disease state and enabled visualization of tissue regions with different histologic composition. This method was also used to analyze the lipid profiles of human ovarian cell lines. Overall, our results demonstrate the capabilities of this system for spatially controlled MS analysis of biological samples.
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Affiliation(s)
- Marta Sans
- Department of Chemistry , University of Texas at Austin , Austin , Texas 78712 , United States
| | - Anna Krieger
- Department of Chemistry , University of Texas at Austin , Austin , Texas 78712 , United States
| | - Bryan R Wygant
- Department of Chemistry , University of Texas at Austin , Austin , Texas 78712 , United States
| | - Kyana Y Garza
- Department of Chemistry , University of Texas at Austin , Austin , Texas 78712 , United States
| | - C Buddie Mullins
- Department of Chemistry , University of Texas at Austin , Austin , Texas 78712 , United States
- McKetta Department of Chemical Engineering , University of Texas at Austin , Austin , Texas 78712 United States
| | - Livia S Eberlin
- Department of Chemistry , University of Texas at Austin , Austin , Texas 78712 , United States
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15
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Havlikova J, Randall EC, Griffiths RL, Swales JG, Goodwin RJA, Bunch J, Styles IB, Cooper HJ. Quantitative Imaging of Proteins in Tissue by Stable Isotope Labeled Mimetic Liquid Extraction Surface Analysis Mass Spectrometry. Anal Chem 2019; 91:14198-14202. [PMID: 31660728 PMCID: PMC7007001 DOI: 10.1021/acs.analchem.9b04148] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
![]()
Absolute
quantification of proteins in tissue is important for
numerous fields of study. Liquid chromatography–mass spectrometry
(LC–MS) methods are the norm but typically involve lengthy
sample preparation including tissue homogenization, which results
in the loss of information relating to spatial distribution. Here,
we propose liquid extraction surface analysis (LESA) mass spectrometry
(MS) of stable isotope labeled mimetic tissue models for the spatially
resolved quantification of intact ubiquitin in rat and mouse brain
tissue. Measured ubiquitin concentrations are in agreement with values
found in the literature. Images of rat and mouse brain tissue demonstrate
spatial variation in the concentration of ubiquitin and demonstrate
the utility of spatially resolved quantitative measurement of proteins
in tissue. Although we have focused on ubiquitin, the method has the
potential for broader application to the absolute quantitation of
any endogenous protein or protein-based drug in tissue.
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Affiliation(s)
- Jana Havlikova
- EPSRC Centre for Doctoral Training in Physical Sciences for Health , University of Birmingham , Birmingham B15 2TT , U.K.,School of Biosciences , University of Birmingham , Birmingham B15 2TT , U.K
| | - Elizabeth C Randall
- School of Biosciences , University of Birmingham , Birmingham B15 2TT , U.K.,EPSRC Centre for Doctoral Training in Physical Sciences of Imaging in Biomedical Sciences , University of Birmingham , Birmingham B15 2TT , U.K
| | - Rian L Griffiths
- School of Pharmacy , University of Nottingham , Nottingham NG7 2RD , U.K
| | - John G Swales
- Pathology, Clinical Pharmacology & Safety Sciences, BioPharmaceuticals R&D , AstraZeneca , Cambridge CB4 0WG , U.K
| | - Richard J A Goodwin
- Pathology, Clinical Pharmacology & Safety Sciences, BioPharmaceuticals R&D , AstraZeneca , Cambridge CB4 0WG , U.K
| | | | - Iain B Styles
- EPSRC Centre for Doctoral Training in Physical Sciences for Health , University of Birmingham , Birmingham B15 2TT , U.K.,School of Computer Science , University of Birmingham , Birmingham B15 2TT , U.K
| | - Helen J Cooper
- School of Biosciences , University of Birmingham , Birmingham B15 2TT , U.K
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16
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Conner AN, Jarvis JR, Alderwick LJ, Griffiths RL. Direct liquid extraction surface analysis mass spectrometry of cell wall lipids from mycobacteria: Salt additives for decreased spectral complexity. RAPID COMMUNICATIONS IN MASS SPECTROMETRY : RCM 2019; 35. [PMID: 31287916 DOI: 10.1002/rcm.8523] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/20/2019] [Revised: 07/02/2019] [Accepted: 07/02/2019] [Indexed: 06/09/2023]
Abstract
RATIONALE Lipids are important mycobacterium cell wall constituents; changes are linked with drug resistance. Liquid extraction surface analysis (LESA) enables direct sampling in a highly sensitive manner. Here we describe protocols for the analysis of lipids from bacterial colonies. Lipids form various adducts, complicating spectra. Salt additives were investigated to circumvent this problem. METHODS Chloroform:methanol mixtures were studied for lipid extraction and analysis by LESA-MS. The inclusion of (ESI-compatible) acetate salts of sodium, potassium or lithium in the extraction solvent was investigated. RESULTS We report the detection of bacterial cell wall lipids from mycobacterial species using LESA for the first time. Sampling protocols were optimised for the use of volatile extraction solvents. The inclusion of acetate salt additives in the sampling solvent significantly reduces spectral complexity in comparison with no additives being used. CONCLUSIONS LESA offers a sensitive technique for bacterial lipid phenotyping. The inclusion of an acetate salt in the sampling solvent drives adduct formation towards a specific adduct type and thus significantly reduces spectral complexity.
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Affiliation(s)
| | - Jessie R Jarvis
- School of Biosciences, University of Birmingham, Edgbaston, B15 2TT, UK
| | - Luke J Alderwick
- School of Biosciences, University of Birmingham, Edgbaston, B15 2TT, UK
| | - Rian L Griffiths
- School of Biosciences, University of Birmingham, Edgbaston, B15 2TT, UK
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17
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Giorio C, Moyroud E, Glover BJ, Kalberer M. Direct Depolymerization Coupled to Liquid Extraction Surface Analysis-High-Resolution Mass Spectrometry for the Characterization of the Surface of Plant Tissues. Anal Chem 2019; 91:8326-8333. [PMID: 31125203 PMCID: PMC6620716 DOI: 10.1021/acs.analchem.9b01094] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
![]()
The
cuticle, the outermost layer covering the epidermis of most
aerial organs of land plants, can have a heterogeneous composition
even on the surface of the same organ. The main cuticle component
is the polymer cutin which, depending on its chemical composition
and structure, can have different biophysical properties. In this
study, we introduce a new on-surface depolymerization method coupled
to liquid extraction surface analysis (LESA) high-resolution mass
spectrometry (HRMS) for a fast and spatially resolved chemical characterization
of the cuticle of plant tissues. The method is composed of an on-surface
saponification, followed by extraction with LESA using a chloroform–acetonitrile–water
(49:49:2) mixture and direct HRMS detection. The method is also compared
with LESA-HRMS without prior depolymerization for the analysis of
the surface of the petals of Hibiscus richardsonii flowers, which have a ridged cuticle in the proximal region and
a smooth cuticle in the distal region. We found that on-surface saponification
is effective enough to depolymerize the cutin into its monomeric constituents
thus allowing detection of compounds that were not otherwise accessible
without a depolymerization step. The effect of the depolymerization
procedure was more pronounced for the ridged/proximal cuticle, which
is thicker and richer in epicuticular waxes compared with the cuticle
in the smooth/distal region of the petal.
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Affiliation(s)
- Chiara Giorio
- Department of Chemistry , University of Cambridge , Lensfield Road , Cambridge CB2 1EW , United Kingdom.,Department of Chemical Sciences , University of Padua , via Marzolo 1 , 35131 Padova , Italy
| | - Edwige Moyroud
- The Sainsbury Laboratory , Cambridge University , Bateman Street , Cambridge CB2 1LR , United Kingdom
| | - Beverley J Glover
- Department of Plant Sciences , University of Cambridge , Downing Street , Cambridge CB2 3EA , United Kingdom
| | - Markus Kalberer
- Department of Chemistry , University of Cambridge , Lensfield Road , Cambridge CB2 1EW , United Kingdom.,Department of Environmental Sciences , University of Basel , Klingelbergstrasse 27 , 4056 Basel , Switzerland
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18
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Heterogeneous drug tissue binding in brain regions of rats, Alzheimer's patients and controls: impact on translational drug development. Sci Rep 2019; 9:5308. [PMID: 30926941 PMCID: PMC6440985 DOI: 10.1038/s41598-019-41828-4] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2018] [Accepted: 03/18/2019] [Indexed: 01/08/2023] Open
Abstract
For preclinical and clinical assessment of therapeutically relevant unbound, free, brain concentrations, the pharmacokinetic parameter fraction of unbound drug in brain (fu,brain) is commonly used to compensate total drug concentrations for nonspecific brain tissue binding (BTB). As, homogenous BTB is assumed between species and in health and disease, rat BTB is routinely used. The impact of Alzheimer’s disease (AD) on drug BTB in brain regions of interest (ROI), i.e., fu,brain,ROI, is yet unclear. This study for the first time provides insight into regional drug BTB and the validity of employing rat fu,brain,ROI as a surrogate of human BTB, by investigating five marketed drugs in post-mortem tissue from AD patients (n = 6) and age-matched controls (n = 6). Heterogeneous drug BTB was observed in all within group comparisons independent of disease and species. The findings oppose the assumption of uniform BTB, highlighting the need of case-by-case evaluation of fu,brain,ROI in translational CNS research.
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19
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Knittelfelder O, Traikov S, Vvedenskaya O, Schuhmann A, Segeletz S, Shevchenko A, Shevchenko A. Shotgun Lipidomics Combined with Laser Capture Microdissection: A Tool To Analyze Histological Zones in Cryosections of Tissues. Anal Chem 2018; 90:9868-9878. [PMID: 30004672 DOI: 10.1021/acs.analchem.8b02004] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/15/2022]
Abstract
Shotgun analysis provides a quantitative snapshot of the lipidome composition of cells, tissues, or model organisms; however, it does not elucidate the spatial distribution of lipids. Here we demonstrate that shotgun analysis could quantify low-picomole amounts of lipids isolated by laser capture microdissection (LCM) of hundred micrometer-sized histological zones visualized at the cryosections of tissues. We identified metabolically distinct periportal (pp) and pericentral (pc) zones by immunostaining of 20 μm thick cryosections of a healthy mouse liver. LCM was used to ablate, catapult, and collect the tissue material from 10 to 20 individual zones covering a total area of 0.3-0.5 mm2 and containing ca. 500 cells. Top-down shotgun profiling relying upon computational stitching of 61 targeted selective ion monitoring ( t-SIM) spectra quantified more than 200 lipid species from 17 lipid classes including glycero- and glycerophospholipids, sphingolipids, cholesterol esters, and cholesterol. Shotgun LCM revealed the overall commonality of the full lipidome composition of pp and pc zones along with significant ( p < 0.001) difference in the relative abundance of 13 lipid species. Follow-up proteomics analyses of pellets recovered from an aqueous phase saved after the lipid extraction identified 13 known and 7 new protein markers exclusively present in pp or in pc zones and independently validated the specificity of their visualization, isolation, and histological assignment.
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Affiliation(s)
- Oskar Knittelfelder
- Max Planck Institute of Molecular Cell Biology and Genetics , Pfotenhauerstrasse 108 , 01307 Dresden , Germany
| | - Sofia Traikov
- Max Planck Institute of Molecular Cell Biology and Genetics , Pfotenhauerstrasse 108 , 01307 Dresden , Germany
| | - Olga Vvedenskaya
- Max Planck Institute of Molecular Cell Biology and Genetics , Pfotenhauerstrasse 108 , 01307 Dresden , Germany
| | - Andrea Schuhmann
- Max Planck Institute of Molecular Cell Biology and Genetics , Pfotenhauerstrasse 108 , 01307 Dresden , Germany
| | - Sandra Segeletz
- Max Planck Institute of Molecular Cell Biology and Genetics , Pfotenhauerstrasse 108 , 01307 Dresden , Germany
| | - Anna Shevchenko
- Max Planck Institute of Molecular Cell Biology and Genetics , Pfotenhauerstrasse 108 , 01307 Dresden , Germany
| | - Andrej Shevchenko
- Max Planck Institute of Molecular Cell Biology and Genetics , Pfotenhauerstrasse 108 , 01307 Dresden , Germany
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20
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Meurs J, Alexander MR, Levkin PA, Widmaier S, Bunch J, Barrett DA, Kim DH. Improved Extraction Repeatability and Spectral Reproducibility for Liquid Extraction Surface Analysis–Mass Spectrometry Using Superhydrophobic–Superhydrophilic Patterning. Anal Chem 2018; 90:6001-6005. [DOI: 10.1021/acs.analchem.8b00973] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/13/2023]
Affiliation(s)
- Joris Meurs
- Advanced Materials and Healthcare Technology Division, School of Pharmacy, University of Nottingham, University Park, Nottingham, NG7 2RD, United Kingdom
| | - Morgan R. Alexander
- Advanced Materials and Healthcare Technology Division, School of Pharmacy, University of Nottingham, University Park, Nottingham, NG7 2RD, United Kingdom
| | - Pavel A. Levkin
- Institute of Toxicology and Genetics, Karlsruhe Institute of Technology (KIT), Hermann-von-Helmholtz Platz 1, Eggenstein-Leopoldshafen, 76344, Germany
- Institute of Organic Chemistry, Karlsruhe Institute of Technology (KIT), Karlsruhe, 76131, Germany
| | - Simon Widmaier
- Institute of Toxicology and Genetics, Karlsruhe Institute of Technology (KIT), Hermann-von-Helmholtz Platz 1, Eggenstein-Leopoldshafen, 76344, Germany
| | - Josephine Bunch
- National Centre of Excellence in Mass Spectrometry Imaging, National Physical Laboratory, Hampton Road, Teddington, Middlesex TW11 0LW, United Kingdom
| | - David A. Barrett
- Advanced Materials and Healthcare Technology Division, School of Pharmacy, University of Nottingham, University Park, Nottingham, NG7 2RD, United Kingdom
| | - Dong-Hyun Kim
- Advanced Materials and Healthcare Technology Division, School of Pharmacy, University of Nottingham, University Park, Nottingham, NG7 2RD, United Kingdom
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21
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Tang F, Guo C, Ma X, Zhang J, Su Y, Tian R, Shi R, Xia Y, Wang X, Ouyang Z. Rapid In Situ Profiling of Lipid C═C Location Isomers in Tissue Using Ambient Mass Spectrometry with Photochemical Reactions. Anal Chem 2018; 90:5612-5619. [PMID: 29624380 DOI: 10.1021/acs.analchem.7b04675] [Citation(s) in RCA: 45] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
Rapid and in situ profiling of lipids using ambient mass spectrometry (AMS) techniques has great potential for clinical diagnosis, biological studies, and biomarker discovery. In this study, the online photochemical reaction involving carbon-carbon double bonds was coupled with a surface sampling technique to develop a direct tissue-analysis method with specificity to lipid C═C isomers. This method enabled the in situ analysis of lipids from the surface of various tissues or tissue sections, which allowed the structural characterization of lipid isomers within 2 min. Under optimized reaction conditions, we have established a method for the relative quantitation of lipid C═C location isomers by comparing the abundances of the diagnostic ions arising from each isomer, which has been proven effective through the established linear relationship ( R2 = 0.999) between molar ratio and diagnostic ion ratio of the FA 18:1 C═C location isomers. This method was then used for the rapid profiling of unsaturated lipid C═C isomers in the sections of rat brain, lung, liver, spleen, and kidney, as well as in normal and diseased rat tissues. Quantitative information on FA 18:1 and PC 16:0-18:1 C═C isomers was obtained, and significant differences were observed between different samples. To the best of our knowledge, this is the first study to report the direct analysis of lipid C═C isomers in tissues using AMS. Our results demonstrated that this method can serve as a rapid analytical approach for the profiling of unsaturated lipid C═C isomers in biological tissues and should contribute to functional lipidomics and clinical diagnosis.
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Affiliation(s)
- Fei Tang
- State Key Laboratory of Precision Measurement Technology and Instruments, Department of Precision Instrument , Tsinghua University , Beijing 100084 , China
| | - Chengan Guo
- State Key Laboratory of Precision Measurement Technology and Instruments, Department of Precision Instrument , Tsinghua University , Beijing 100084 , China
| | - Xiaoxiao Ma
- State Key Laboratory of Precision Measurement Technology and Instruments, Department of Precision Instrument , Tsinghua University , Beijing 100084 , China
| | - Jian Zhang
- State Key Laboratory of Precision Measurement Technology and Instruments, Department of Precision Instrument , Tsinghua University , Beijing 100084 , China
| | - Yuan Su
- Weldon School of Biomedical Engineering , Purdue University , West Lafayette , Indiana 47907 , United States
| | - Ran Tian
- Weldon School of Biomedical Engineering , Purdue University , West Lafayette , Indiana 47907 , United States.,Department of Basic Medical Sciences, College of Veterinary Medicine , Purdue University , West Lafayette , Indiana 47907 , United States
| | - Riyi Shi
- Weldon School of Biomedical Engineering , Purdue University , West Lafayette , Indiana 47907 , United States.,Department of Basic Medical Sciences, College of Veterinary Medicine , Purdue University , West Lafayette , Indiana 47907 , United States
| | - Yu Xia
- Department of Chemistry , Tsinghua University , Beijing 100084 , China.,Department of Chemistry , Purdue University , West Lafayette , Indiana 47907 , United States
| | - Xiaohao Wang
- State Key Laboratory of Precision Measurement Technology and Instruments, Department of Precision Instrument , Tsinghua University , Beijing 100084 , China
| | - Zheng Ouyang
- State Key Laboratory of Precision Measurement Technology and Instruments, Department of Precision Instrument , Tsinghua University , Beijing 100084 , China.,Weldon School of Biomedical Engineering , Purdue University , West Lafayette , Indiana 47907 , United States
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22
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Cahill JF, Kertesz V, Porta T, LeBlanc JCY, Heeren RMA, Van Berkel GJ. Solvent effects on differentiation of mouse brain tissue using laser microdissection 'cut and drop' sampling with direct mass spectral analysis. RAPID COMMUNICATIONS IN MASS SPECTROMETRY : RCM 2018; 32:414-422. [PMID: 29297944 DOI: 10.1002/rcm.8053] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/21/2017] [Revised: 12/07/2017] [Accepted: 12/14/2017] [Indexed: 05/12/2023]
Abstract
RATIONALE Laser microdissection-liquid vortex capture/electrospray ionization mass spectrometry (LMD-LVC/ESI-MS) has potential for on-line classification of tissue but an investigation into what analytical conditions provide best spectral differentiation has not been conducted. The effects of solvent, ionization polarity, and spectral acquisition parameters on differentiation of mouse brain tissue regions are described. METHODS Individual 40 × 40 μm microdissections from cortex, white, grey, granular, and nucleus regions of mouse brain tissue were analyzed using different capture/ESI solvents, in positive and negative ion mode ESI, using time-of-flight (TOF)-MS and sequential window acquisitions of all theoretical spectra (SWATH)-MS (a permutation of tandem-MS), and combinations thereof. Principal component analysis-linear discriminant analysis (PCA-LDA), applied to each mass spectral dataset, was used to determine the accuracy of differentiation of mouse brain tissue regions. RESULTS Mass spectral differences associated with capture/ESI solvent composition manifested as altered relative distributions of ions rather than the presence or absence of unique ions. In negative ion mode ESI, 80/20 (v/v) methanol/water yielded spectra with low signal/noise ratios relative to other solvents. PCA-LDA models acquired using 90/10 (v/v) methanol/chloroform differentiated tissue regions with 100% accuracy while data collected using methanol misclassified some samples. The combination of SWATH-MS and TOF-MS data improved differentiation accuracy. CONCLUSIONS Combined TOF-MS and SWATH-MS data differentiated white, grey, granular, and nucleus mouse tissue regions with greater accuracy than when solely using TOF-MS data. Using 90/10 (v/v) methanol/chloroform, tissue regions were perfectly differentiated. These results will guide future studies looking to utilize the potential of LMD-LVC/ESI-MS for tissue and disease differentiation.
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Affiliation(s)
- John F Cahill
- Mass Spectrometry and Laser Spectroscopy Group, Chemical Sciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831-6131, USA
| | - Vilmos Kertesz
- Mass Spectrometry and Laser Spectroscopy Group, Chemical Sciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831-6131, USA
| | - Tiffany Porta
- Maastricht MultiModal Molecular Imaging (M4I) Institute, Division of Imaging Mass Spectrometry, Maastricht University, Universiteitssingel 50, 6229, ER, Maastricht, The Netherlands
| | | | - Ron M A Heeren
- Maastricht MultiModal Molecular Imaging (M4I) Institute, Division of Imaging Mass Spectrometry, Maastricht University, Universiteitssingel 50, 6229, ER, Maastricht, The Netherlands
| | - Gary J Van Berkel
- Mass Spectrometry and Laser Spectroscopy Group, Chemical Sciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831-6131, USA
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23
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Ambient surface mass spectrometry–ion mobility spectrometry of intact proteins. Curr Opin Chem Biol 2018; 42:67-75. [DOI: 10.1016/j.cbpa.2017.11.002] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2017] [Revised: 10/31/2017] [Accepted: 11/02/2017] [Indexed: 11/18/2022]
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24
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Rustam YH, Reid GE. Analytical Challenges and Recent Advances in Mass Spectrometry Based Lipidomics. Anal Chem 2017; 90:374-397. [PMID: 29166560 DOI: 10.1021/acs.analchem.7b04836] [Citation(s) in RCA: 204] [Impact Index Per Article: 29.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Affiliation(s)
- Yepy H Rustam
- Department of Biochemistry and Molecular Biology, University of Melbourne , Parkville, Victoria 3010, Australia
| | - Gavin E Reid
- Department of Biochemistry and Molecular Biology, University of Melbourne , Parkville, Victoria 3010, Australia.,School of Chemistry, University of Melbourne , Parkville, Victoria 3010, Australia.,Bio21 Molecular Science and Biotechnology Institute, University of Melbourne , Parkville, Victoria 3010, Australia
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25
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Comprehensive analysis of phospholipids in the brain, heart, kidney, and liver: brain phospholipids are least enriched with polyunsaturated fatty acids. Mol Cell Biochem 2017; 442:187-201. [PMID: 28993959 DOI: 10.1007/s11010-017-3203-x] [Citation(s) in RCA: 78] [Impact Index Per Article: 11.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/24/2017] [Accepted: 10/06/2017] [Indexed: 10/18/2022]
Abstract
It is commonly accepted that brain phospholipids are highly enriched with long-chain polyunsaturated fatty acids (PUFAs). However, the evidence for this remains unclear. We used HPLC-MS to analyze the content and composition of phospholipids in rat brain and compared it to the heart, kidney, and liver. Phospholipids typically contain one PUFA, such as 18:2, 20:4, or 22:6, and one saturated fatty acid, such as 16:0 or 18:0. However, we found that brain phospholipids containing monounsaturated fatty acids in the place of PUFAs are highly elevated compared to phospholipids in the heart, kidney, and liver. The relative content of phospholipid containing PUFAs is ~ 60% in the brain, whereas it is over 90% in other tissues. The most abundant species of phosphatidylcholine (PC) is PC(16:0/18:1) in the brain, whereas PC(18:0/20:4) and PC(16:0/20:4) are predominated in other tissues. Moreover, several major species of plasmanyl and plasmenyl phosphatidylethanolamine are found to contain monounsaturated fatty acid in the brain only. Overall, our data clearly show that brain phospholipids are the least enriched with PUFAs of the four major organs, challenging the common belief that the brain is highly enriched with PUFAs.
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26
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Lamont L, Baumert M, Ogrinc Potočnik N, Allen M, Vreeken R, Heeren RMA, Porta T. Integration of Ion Mobility MS E after Fully Automated, Online, High-Resolution Liquid Extraction Surface Analysis Micro-Liquid Chromatography. Anal Chem 2017; 89:11143-11150. [PMID: 28945354 PMCID: PMC5677252 DOI: 10.1021/acs.analchem.7b03512] [Citation(s) in RCA: 29] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
![]()
Direct
analysis by mass spectrometry (imaging) has become increasingly
deployed in preclinical and clinical research due to its rapid and
accurate readouts. However, when it comes to biomarker discovery or
histopathological diagnostics, more sensitive and in-depth profiling
from localized areas is required. We developed a comprehensive, fully
automated online platform for high-resolution liquid extraction surface
analysis (HR-LESA) followed by micro–liquid chromatography
(LC) separation and a data-independent acquisition strategy for untargeted
and low abundant analyte identification directly from tissue sections.
Applied to tissue sections of rat pituitary, the platform demonstrated
improved spatial resolution, allowing sample areas as small as 400
μm to be studied, a major advantage over conventional LESA.
The platform integrates an online buffer exchange and washing step
for removal of salts and other endogenous contamination that originates
from local tissue extraction. Our carry over–free platform
showed high reproducibility, with an interextraction variability below
30%. Another strength of the platform is the additional selectivity
provided by a postsampling gas-phase ion mobility separation. This
allowed distinguishing coeluted isobaric compounds without requiring
additional separation time. Furthermore, we identified untargeted
and low-abundance analytes, including neuropeptides deriving from
the pro-opiomelanocortin precursor protein and localized a specific
area of the pituitary gland (i.e., adenohypophysis) known to secrete
neuropeptides and other small metabolites related to development,
growth, and metabolism. This platform can thus be applied for the
in-depth study of small samples of complex tissues with histologic
features of ∼400 μm or more, including potential neuropeptide
markers involved in many diseases such as neurodegenerative diseases,
obesity, bulimia, and anorexia nervosa.
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Affiliation(s)
- Lieke Lamont
- Maastricht Multimodal Molecular Imaging (M4I) Institute, Division of Imaging Mass Spectrometry, Maastricht University , Maastricht, The Netherlands
| | | | - Nina Ogrinc Potočnik
- Maastricht Multimodal Molecular Imaging (M4I) Institute, Division of Imaging Mass Spectrometry, Maastricht University , Maastricht, The Netherlands
| | - Mark Allen
- Advion , Harlow CM20 2NQ, United Kingdom
| | - Rob Vreeken
- Maastricht Multimodal Molecular Imaging (M4I) Institute, Division of Imaging Mass Spectrometry, Maastricht University , Maastricht, The Netherlands.,Janssen Pharmaceutica , Beerse, Belgium
| | - Ron M A Heeren
- Maastricht Multimodal Molecular Imaging (M4I) Institute, Division of Imaging Mass Spectrometry, Maastricht University , Maastricht, The Netherlands
| | - Tiffany Porta
- Maastricht Multimodal Molecular Imaging (M4I) Institute, Division of Imaging Mass Spectrometry, Maastricht University , Maastricht, The Netherlands
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27
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Astrocytes and oligodendrocytes in grey and white matter regions of the brain metabolize fatty acids. Sci Rep 2017; 7:10779. [PMID: 28883484 PMCID: PMC5589817 DOI: 10.1038/s41598-017-11103-5] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2017] [Accepted: 08/15/2017] [Indexed: 11/16/2022] Open
Abstract
The grey and white matter regions of the mammalian brain consist of both neurons and neuroglial cells. Among the neuroglia, the two macroglia oligodendrocytes and astrocytes are the most abundant cell types. While the major function of oligodendrocytes is the formation of the lipid-rich myelin structure, the heterogeneous group of astrocytes fulfils a multitude of important roles in cerebral development and homeostasis. Brain lipid homeostasis involves the synthesis of a specific cerebral lipidome by local lipid metabolism. In this study we have investigated the fatty acid uptake and lipid biosynthesis in grey and white matter regions of the murine brain. Key findings were: (i) white matter oligodendrocytes and astrocytes take up saturated and unsaturated fatty acids, (ii) different grey matter regions show varying lipid labelling intensities, (iii) the medial habenula, an epithalamic grey matter structure, and the oligodendrocytes and astrocytes therein are targeted by fatty acids, and (iv) in the medial habenula, the neutral lipid containing lipid droplets are found in cells facing the ventricle but undetectable in the habenular parenchyma. Our data indicate a role for oligodendrocytes and astrocytes in local lipid metabolism of white and grey matter regions in the brain.
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28
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Hall Z, Chu Y, Griffin JL. Liquid Extraction Surface Analysis Mass Spectrometry Method for Identifying the Presence and Severity of Nonalcoholic Fatty Liver Disease. Anal Chem 2017; 89:5161-5170. [DOI: 10.1021/acs.analchem.7b01097] [Citation(s) in RCA: 40] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Affiliation(s)
- Zoe Hall
- Department of Biochemistry
and Cambridge Systems Biology Centre, University of Cambridge, 80 Tennis Court Road, Cambridge CB2 1GA, U.K
| | - Yajing Chu
- Department of Biochemistry
and Cambridge Systems Biology Centre, University of Cambridge, 80 Tennis Court Road, Cambridge CB2 1GA, U.K
| | - Julian L. Griffin
- Department of Biochemistry
and Cambridge Systems Biology Centre, University of Cambridge, 80 Tennis Court Road, Cambridge CB2 1GA, U.K
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29
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Saha-Shah A, Green CM, Abraham DH, Baker LA. Segmented flow sampling with push-pull theta pipettes. Analyst 2017; 141:1958-65. [PMID: 26907673 DOI: 10.1039/c6an00028b] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
Abstract
We report development of a mobile and easy-to-fabricate theta pipette microfluidic device for segmented flow sampling. The theta pipettes were also used as electrospray emitters for analysis of sub-nanoliter segments, which resulted in delivery of analyte to the vacuum inlet of the mass spectrometer without multiple transfer steps. Theta pipette probes enable sample collection with high spatial resolution due to micron or smaller sized probe inlets and can be used to manipulate aqueous segments in the range of 200 pL to tens of nanoliters. Optimized conditions can enable sampling with high spatial and temporal resolution, suitable for chemical monitoring in biological samples and studies of sample heterogeneity. Intercellular heterogeneity among Allium cepa cells was studied by collecting cytoplasm from multiple cells using a single probe. Extracted cytoplasm was analyzed in a fast and high throughput manner by direct electrospray mass spectrometry of segmented sample from the probe tip.
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Affiliation(s)
- Anumita Saha-Shah
- Department of Chemistry, Indiana University, 800 E. Kirkwood Avenue, Bloomington, IN 47405, USA.
| | - Curtis M Green
- Department of Chemistry, Indiana University, 800 E. Kirkwood Avenue, Bloomington, IN 47405, USA.
| | - David H Abraham
- Department of Chemistry, Indiana University, 800 E. Kirkwood Avenue, Bloomington, IN 47405, USA.
| | - Lane A Baker
- Department of Chemistry, Indiana University, 800 E. Kirkwood Avenue, Bloomington, IN 47405, USA.
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30
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Park KT, Shon JC, Kim JE, Park GH, Choi HJ, Liu KH. Sulfatides Primarily Exist in the Substantia Nigra Region of Mouse Brain Tissue. Lipids 2017; 52:179-187. [PMID: 28078602 DOI: 10.1007/s11745-016-4224-z] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2016] [Accepted: 12/13/2016] [Indexed: 11/25/2022]
Abstract
Lipid distribution in the brain is important for many biological functions and has been associated with some brain diseases. The aim of this study was to investigate lipid distribution in different regions of brain tissue in mice. To this end, substantia nigra (SN), caudate putamen (CPu), hippocampus (Hip), hypothalamus (Hyp), and cortex (Cx) tissues of mice were analyzed using direct infusion nanoelectrospray-ion trap mass spectrometry and multivariate analyses. The SN, CPu, Hip, Hyp, and Cx groups showed clear differences in lipid distribution using principal component analysis and a partial least-squares discriminant analysis score plot, and lipid levels were significantly different in different brain regions. In particular, sulfatides were mainly distributed in the SN region. Our results could be used to help understand the functions and mechanisms of lipids in various brain diseases.
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Affiliation(s)
- Kab-Tae Park
- BK21 Plus KNU Multi-Omics Based Creative Drug Research Team, College of Pharmacy and Research Institute of Pharmaceutical Sciences, Kyungpook National University, Daegu, 41566, Korea
| | - Jong Cheol Shon
- BK21 Plus KNU Multi-Omics Based Creative Drug Research Team, College of Pharmacy and Research Institute of Pharmaceutical Sciences, Kyungpook National University, Daegu, 41566, Korea
| | - Ji-Eun Kim
- BK21 Plus KNU Multi-Omics Based Creative Drug Research Team, College of Pharmacy and Research Institute of Pharmaceutical Sciences, Kyungpook National University, Daegu, 41566, Korea
| | - Gyu Hwan Park
- College of Pharmacy and Research Institute of Pharmaceutical Sciences, Kyungpook National University, Daegu, 41566, Korea
| | - Hyun Jin Choi
- College of Pharmacy and Institute of Pharmaceutical Sciences, CHA University, Seongnam, 13488, Korea.
| | - Kwang-Hyeon Liu
- BK21 Plus KNU Multi-Omics Based Creative Drug Research Team, College of Pharmacy and Research Institute of Pharmaceutical Sciences, Kyungpook National University, Daegu, 41566, Korea.
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31
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Nielsen IØ, Maeda K, Bilgin M. Global Monitoring of the Mammalian Lipidome by Quantitative Shotgun Lipidomics. Methods Mol Biol 2017; 1609:123-139. [PMID: 28660579 DOI: 10.1007/978-1-4939-6996-8_12] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
The emerging field of lipidomics presents the systems biology approach to identify and quantify the full lipid repertoire of cells, tissues, and organisms. The importance of the lipidome is demonstrated by a number of biological studies on dysregulation of lipid metabolism in human diseases such as cancer, diabetes, and neurodegenerative diseases. Exploring changes and regulations in the huge networks of lipids and their metabolic pathways requires a lipidomics methodology: Advanced mass spectrometry that resolves the complexity of the lipidome. Here, we report a comprehensive protocol of quantitative shotgun lipidomics that enables identification and quantification of hundreds of molecular lipid species, covering a wide range of lipid classes, extracted from cultured mammalian cells.
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Affiliation(s)
- Inger Ødum Nielsen
- Cell Death and Metabolism Unit, Center for Autophagy, Recycling and Disease, Danish Cancer Society Research Center, Copenhagen, 2100, Denmark
| | - Kenji Maeda
- Cell Death and Metabolism Unit, Center for Autophagy, Recycling and Disease, Danish Cancer Society Research Center, Copenhagen, 2100, Denmark
| | - Mesut Bilgin
- Cell Death and Metabolism Unit, Center for Autophagy, Recycling and Disease, Danish Cancer Society Research Center, Copenhagen, 2100, Denmark.
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32
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Blondelle J, Pais de Barros JP, Pilot-Storck F, Tiret L. Targeted Lipidomic Analysis of Myoblasts by GC-MS and LC-MS/MS. Methods Mol Biol 2017; 1668:39-60. [PMID: 28842901 DOI: 10.1007/978-1-4939-7283-8_4] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
Abstract
Lipids represent ∼10% of the cell dry mass and play essential roles in membrane composition and physical properties, energy storage, and signaling pathways. In the developing or the regenerating skeletal muscle, modifications in the content or the flipping between leaflets of membrane lipid components can modulate the fusion capacity of myoblasts, thus constituting one of the regulatory mechanisms underlying myofiber growth. Recently, few genes controlling these qualitative and quantitative modifications have started to be unraveled. The precise functional characterization of these genes requires both qualitative and quantitative evaluations of a global lipid profile. Here, we describe a lipidomic protocol using mass spectrometry, allowing assessing the content of fatty acids, glycerophospholipids, and cholesterol in the routinely used C2C12 mouse myoblast cell line, or in primary cultures of mouse myoblasts.
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Affiliation(s)
- Jordan Blondelle
- Institut Mondor de Recherche Biomédicale (IMRB), U955-E10 Biologie du Système Neuromusculaire, Université Paris-Est, Ecole Nationale Vétérinaire d'Alfort (EnvA), Maisons-Alfort, France
- Department of Cardiology, University of California, San Diego, La Jolla, CA, USA
| | - Jean-Paul Pais de Barros
- Plateforme de Lipidomique-uBourgogne, INSERM UMR1231/LabEx LipSTIC, UFR des Sciences de Santé - Bâtiment B3, Dijon, France
| | - Fanny Pilot-Storck
- Institut Mondor de Recherche Biomédicale (IMRB), U955-E10 Biologie du Système Neuromusculaire, Université Paris-Est, Ecole Nationale Vétérinaire d'Alfort (EnvA), Maisons-Alfort, France
| | - Laurent Tiret
- Institut Mondor de Recherche Biomédicale (IMRB), U955-E10 Biologie du Système Neuromusculaire, Université Paris-Est, Ecole Nationale Vétérinaire d'Alfort (EnvA), Maisons-Alfort, France.
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33
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Randall EC, Race AM, Cooper HJ, Bunch J. MALDI Imaging of Liquid Extraction Surface Analysis Sampled Tissue. Anal Chem 2016; 88:8433-40. [PMID: 27447021 DOI: 10.1021/acs.analchem.5b04281] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/25/2022]
Abstract
Combined mass spectrometry imaging methods in which two different techniques are executed on the same sample have recently been reported for a number of sample types. Such an approach can be used to examine the sampling effects of the first technique with a second, higher resolution method and also combines the advantages of each technique for a more complete analysis. In this work matrix-assisted laser desorption ionization mass spectrometry imaging (MALDI MSI) was used to study the effects of liquid extraction surface analysis (LESA) sampling on mouse brain tissue. Complementary multivariate analysis techniques including principal component analysis, non-negative matrix factorization, and t-distributed stochastic neighbor embedding were applied to MALDI MS images acquired from tissue which had been sampled by LESA to gain a better understanding of localized tissue washing in LESA sampling. It was found that MALDI MS images could be used to visualize regions sampled by LESA. The variability in sampling area, spatial precision, and delocalization of analytes in tissue induced by LESA were assessed using both single-ion images and images provided by multivariate analysis.
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Affiliation(s)
- Elizabeth C Randall
- National Physical Laboratory , Hampton Road, Teddington, Middlesex, TW11 0LW, United Kingdom
| | - Alan M Race
- National Physical Laboratory , Hampton Road, Teddington, Middlesex, TW11 0LW, United Kingdom
| | | | - Josephine Bunch
- National Physical Laboratory , Hampton Road, Teddington, Middlesex, TW11 0LW, United Kingdom.,School of Pharmacy, University of Nottingham , University Park, Nottingham, NG7 2RD, United Kingdom
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34
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Ghaste M, Mistrik R, Shulaev V. Applications of Fourier Transform Ion Cyclotron Resonance (FT-ICR) and Orbitrap Based High Resolution Mass Spectrometry in Metabolomics and Lipidomics. Int J Mol Sci 2016; 17:ijms17060816. [PMID: 27231903 PMCID: PMC4926350 DOI: 10.3390/ijms17060816] [Citation(s) in RCA: 107] [Impact Index Per Article: 13.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2016] [Revised: 05/14/2016] [Accepted: 05/17/2016] [Indexed: 02/02/2023] Open
Abstract
Metabolomics, along with other "omics" approaches, is rapidly becoming one of the major approaches aimed at understanding the organization and dynamics of metabolic networks. Mass spectrometry is often a technique of choice for metabolomics studies due to its high sensitivity, reproducibility and wide dynamic range. High resolution mass spectrometry (HRMS) is a widely practiced technique in analytical and bioanalytical sciences. It offers exceptionally high resolution and the highest degree of structural confirmation. Many metabolomics studies have been conducted using HRMS over the past decade. In this review, we will explore the latest developments in Fourier transform mass spectrometry (FTMS) and Orbitrap based metabolomics technology, its advantages and drawbacks for using in metabolomics and lipidomics studies, and development of novel approaches for processing HRMS data.
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Affiliation(s)
- Manoj Ghaste
- Department of Biological Sciences, College of Arts and Sciences, University of North Texas, Denton, TX 76203, USA.
| | | | - Vladimir Shulaev
- Department of Biological Sciences, College of Arts and Sciences, University of North Texas, Denton, TX 76203, USA.
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35
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Cahill JF, Kertesz V, Weiskittel TM, Vavrek M, Freddo C, Van Berkel GJ. Online, Absolute Quantitation of Propranolol from Spatially Distinct 20- and 40-μm Dissections of Brain, Liver, and Kidney Thin Tissue Sections by Laser Microdissection-Liquid Vortex Capture-Mass Spectrometry. Anal Chem 2016; 88:6026-34. [PMID: 27214103 DOI: 10.1021/acs.analchem.6b01155] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Abstract
Spatial resolved quantitation of chemical species in thin tissue sections by mass spectrometric methods has been constrained by the need for matrix-matched standards or other arduous calibration protocols and procedures to mitigate matrix effects (e.g., spatially varying ionization suppression). Reported here is the use of laser "cut and drop" sampling with a laser microdissection-liquid vortex capture electrospray ionization tandem mass spectrometry (LMD-LVC/ESI-MS/MS) system for online and absolute quantitation of propranolol in mouse brain, kidney, and liver thin tissue sections of mice administered with the drug at a 7.5 mg/kg dose, intravenously. In this procedure either 20 μm × 20 μm or 40 μm × 40 μm tissue microdissections were cut and dropped into the flowing solvent of the capture probe. During transport to the ESI source drug related material was completely extracted from the tissue into the solvent, which contained a known concentration of propranolol-d7 as an internal standard. This allowed absolute quantitation to be achieved with an external calibration curve generated from standards containing the same fixed concentration of propranolol-d7 and varied concentrations of propranolol. Average propranolol concentrations determined with the laser "cut and drop" sampling method closely agreed with concentration values obtained from 2.3 mm diameter tissue punches from serial sections that were extracted and quantified by HPLC/ESI-MS/MS measurements. In addition, the relative abundance of hydroxypropranolol glucuronide metabolites were recorded and found to be consistent with previous findings.
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Affiliation(s)
- John F Cahill
- Mass Spectrometry and Laser Spectroscopy Group, Chemical Sciences Division, Oak Ridge National Laboratory , Oak Ridge, Tennessee 37831-6131, United States
| | - Vilmos Kertesz
- Mass Spectrometry and Laser Spectroscopy Group, Chemical Sciences Division, Oak Ridge National Laboratory , Oak Ridge, Tennessee 37831-6131, United States
| | - Taylor M Weiskittel
- ORISE HERE Intern, University of Tennessee , Knoxville, Tennessee 37996, United States
| | - Marissa Vavrek
- Department of Pharmacokinetics, Pharmacodynamics, and Drug Metabolism, Merck Research Laboratories , West Point, Pennsylvania 19486, United States
| | - Carol Freddo
- Department of Pharmacokinetics, Pharmacodynamics, and Drug Metabolism, Merck Research Laboratories , West Point, Pennsylvania 19486, United States
| | - Gary J Van Berkel
- Mass Spectrometry and Laser Spectroscopy Group, Chemical Sciences Division, Oak Ridge National Laboratory , Oak Ridge, Tennessee 37831-6131, United States
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36
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Cahill JF, Kertesz V, Van Berkel GJ. Laser dissection sampling modes for direct mass spectral analysis. RAPID COMMUNICATIONS IN MASS SPECTROMETRY : RCM 2016; 30:611-9. [PMID: 26842582 DOI: 10.1002/rcm.7477] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/30/2015] [Revised: 12/07/2015] [Accepted: 12/08/2015] [Indexed: 05/12/2023]
Abstract
RATIONALE Laser microdissection coupled directly with mass spectrometry provides the capability of on-line analysis of substrates with high spatial resolution, high collection efficiency, and freedom on shape and size of the sampling area. Establishing the merits and capabilities of the different sampling modes that the system provides is necessary in order to select the best sampling mode for characterizing analytically challenging samples. METHODS The capabilities of laser ablation spot sampling, laser ablation raster sampling, and laser 'cut and drop' sampling modes of a hybrid optical microscopy/laser ablation liquid vortex capture electrospray ionization mass spectrometry system were compared for the analysis of single cells and tissue. RESULTS Single Chlamydomonas reinhardtii cells were monitored for their monogalactosyldiacylglycerol (MGDG) and diacylglyceryltrimethylhomo-Ser (DGTS) lipid content using the laser spot sampling mode, which was capable of ablating individual cells (~4-15 μm) even when agglomerated together. Turbid Allium Cepa cells (~150 μm) having unique shapes difficult to precisely measure using the other sampling modes could be ablated in their entirety using laser raster sampling. Intact microdissections of specific regions of a cocaine-dosed mouse brain tissue were compared using laser 'cut and drop' sampling. Since in laser 'cut and drop' sampling whole and otherwise unmodified sections are captured into the probe, 100% collection efficiencies were achieved. Laser ablation spot sampling has the highest spatial resolution of any sampling mode, while laser ablation raster sampling has the highest sampling area adaptability of the sampling modes. CONCLUSIONS Laser ablation spot sampling has the highest spatial resolution of any sampling mode, useful in this case for the analysis of single cells. Laser ablation raster sampling was best for sampling regions with unique shapes that are difficult to measure using other sampling modes. Laser 'cut and drop' sampling can be used for cases where the highest sensitivity is needed, for example, monitoring drugs present in trace amounts in tissue.
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Affiliation(s)
- John F Cahill
- Mass Spectrometry and Laser Spectroscopy Group, Chemical Sciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831-6131, USA
| | - Vilmos Kertesz
- Mass Spectrometry and Laser Spectroscopy Group, Chemical Sciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831-6131, USA
| | - Gary J Van Berkel
- Mass Spectrometry and Laser Spectroscopy Group, Chemical Sciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831-6131, USA
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37
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Škrášková K, Claude E, Jones EA, Towers M, Ellis SR, Heeren RMA. Enhanced capabilities for imaging gangliosides in murine brain with matrix-assisted laser desorption/ionization and desorption electrospray ionization mass spectrometry coupled to ion mobility separation. Methods 2016; 104:69-78. [PMID: 26922843 DOI: 10.1016/j.ymeth.2016.02.014] [Citation(s) in RCA: 56] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2015] [Revised: 02/03/2016] [Accepted: 02/22/2016] [Indexed: 12/17/2022] Open
Abstract
The increased interest in lipidomics calls for improved yet simplified methods of lipid analysis. Over the past two decades, mass spectrometry imaging (MSI) has been established as a powerful technique for the analysis of molecular distribution of a variety of compounds across tissue surfaces. Matrix-assisted laser desorption/ionization (MALDI) MSI is widely used to study the spatial distribution of common lipids. However, a thorough sample preparation and necessity of vacuum for efficient ionization might hamper its use for high-throughput lipid analysis. Desorption electrospray ionization (DESI) is a relatively young MS technique. In DESI, ionization of molecules occurs under ambient conditions, which alleviates sample preparation. Moreover, DESI does not require the application of an external matrix, making the detection of low mass species more feasible due to the lack of chemical matrix background. However, irrespective of the ionization method, the final information obtained during an MSI experiment is very complex and its analysis becomes challenging. It was shown that coupling MSI to ion mobility separation (IMS) simplifies imaging data interpretation. Here we employed DESI and MALDI MSI for a lipidomic analysis of the murine brain using the same IMS-enabled instrument. We report for the first time on the DESI IMS-MSI of multiply sialylated ganglioside species, as well as their acetylated versions, which we detected directly from the murine brain tissue. We show that poly-sialylated gangliosides can be imaged as multiply charged ions using DESI, while they are clearly separated from the rest of the lipid classes based on their charge state using ion mobility. This represents a major improvement in MSI of intact fragile lipid species. We additionally show that complementary lipid information is reached under particular conditions when DESI is compared to MALDI MSI.
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Affiliation(s)
- Karolina Škrášková
- M4I, The Maastricht MultiModal Molecular Imaging Institute, University of Maastricht, Maastricht, The Netherlands; FOM-Institute AMOLF, Amsterdam, The Netherlands; TI-COAST, Amsterdam, The Netherlands
| | | | - Emrys A Jones
- Waters Corporation, Wilmslow, UK; Imperial College London, London, UK
| | | | - Shane R Ellis
- M4I, The Maastricht MultiModal Molecular Imaging Institute, University of Maastricht, Maastricht, The Netherlands; FOM-Institute AMOLF, Amsterdam, The Netherlands
| | - Ron M A Heeren
- M4I, The Maastricht MultiModal Molecular Imaging Institute, University of Maastricht, Maastricht, The Netherlands; FOM-Institute AMOLF, Amsterdam, The Netherlands; TI-COAST, Amsterdam, The Netherlands.
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38
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Affiliation(s)
- Julia Laskin
- Physical Sciences Division, Pacific Northwest National Laboratory, P.O. Box 999, MSIN K8-88, Richland, WA 99352
| | - Ingela Lanekoff
- Department of Chemistry-BMC, Uppsala University, Box 599, 751 24 Uppsala, Sweden
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39
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Affiliation(s)
- Sheng Tang
- Department
of Chemistry, National University of Singapore, 3 Science Drive 3, Singapore 117543, Singapore
| | - Hong Zhang
- Department
of Chemistry, National University of Singapore, 3 Science Drive 3, Singapore 117543, Singapore
| | - Hian Kee Lee
- Department
of Chemistry, National University of Singapore, 3 Science Drive 3, Singapore 117543, Singapore
- National University of Singapore Environmental Research Institute, T-Lab Building #02-01, 5A Engineering
Drive 1, Singapore 117411, Singapore
- Tropical
Marine Science Institute, National University of Singapore, S2S, 18
Kent Ridge Road, Singapore 119227, Singapore
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40
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Saha-Shah A, Weber AE, Karty JA, Ray SJ, Hieftje GM, Baker LA. Nanopipettes: probes for local sample analysis. Chem Sci 2015; 6:3334-3341. [PMID: 28706697 PMCID: PMC5490420 DOI: 10.1039/c5sc00668f] [Citation(s) in RCA: 39] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/23/2015] [Accepted: 04/02/2015] [Indexed: 01/02/2023] Open
Abstract
Nanopipettes are demonstrated as probes for local mass spectrometric analysis with potential for small-scale extraction of analytes from single cells, tissue and organisms.
Nanopipettes (pipettes with diameters <1 μm) were explored as pressure-driven fluid manipulation tools for sampling nanoliter volumes of fluids. The fundamental behavior of fluids confined in the narrow channels of the nanopipette shank was studied to optimize sampling volume and probe geometry. This method was utilized to collect nanoliter volumes (<10 nL) of sample from single Allium cepa cells and live Drosophila melanogaster first instar larvae. Matrix assisted laser desorption/ionization-mass spectrometry (MALDI-MS) was utilized to characterize the collected sample. The use of nanopipettes for surface sampling of mouse brain tissue sections was also explored. Lipid analyses were performed on mouse brain tissues with spatial resolution of sampling as small as 50 μm. Nanopipettes were shown to be a versatile tool that will find further application in studies of sample heterogeneity and population analysis for a wide range of samples.
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Affiliation(s)
- Anumita Saha-Shah
- Department of Chemistry , Indiana University , 800 E. Kirkwood Avenue , Bloomington , IN 47405 , USA .
| | - Anna E Weber
- Department of Chemistry , Indiana University , 800 E. Kirkwood Avenue , Bloomington , IN 47405 , USA .
| | - Jonathan A Karty
- Department of Chemistry , Indiana University , 800 E. Kirkwood Avenue , Bloomington , IN 47405 , USA .
| | - Steven J Ray
- Department of Chemistry , Indiana University , 800 E. Kirkwood Avenue , Bloomington , IN 47405 , USA .
| | - Gary M Hieftje
- Department of Chemistry , Indiana University , 800 E. Kirkwood Avenue , Bloomington , IN 47405 , USA .
| | - Lane A Baker
- Department of Chemistry , Indiana University , 800 E. Kirkwood Avenue , Bloomington , IN 47405 , USA .
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