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Strnad Š, Vrkoslav V, Mengr A, Fabián O, Rybáček J, Kubánek M, Melenovský V, Maletínská L, Cvačka J. Thermal evaporation as sample preparation for silver-assisted laser desorption/ionization mass spectrometry imaging of cholesterol in amyloid tissues. Analyst 2024; 149:3152-3160. [PMID: 38630503 DOI: 10.1039/d4an00181h] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/29/2024]
Abstract
Cholesterol plays an important biological role in the body, and its disruption in homeostasis and synthesis has been implicated in several diseases. Mapping the locations of cholesterol is crucial for gaining a better understanding of these conditions. Silver deposition has proven to be an effective method for analyzing cholesterol using mass spectrometry imaging (MSI). We optimized and evaluated thermal evaporation as an alternative deposition technique to sputtering for silver deposition in MSI of cholesterol. A silver layer with a thickness of 6 nm provided an optimal combination of cholesterol signal intensity and mass resolution. The deposition of an ultrathin nanofilm of silver enabled high-resolution MSI with a pixel size of 10 μm. We used this optimized method to visualize the distribution of cholesterol in the senile plaques in the brains of APP/PS1 mice, a model that resembles Alzheimer's disease pathology. We found that cholesterol was evenly distributed across the frontal cortex tissue, with no evidence of plaque-like accumulation. Additionally, we investigated the presence and distribution of cholesterol in myocardial sections of a human heart affected by wild-type ATTR amyloidosis. We identified the presence of cholesterol in areas with amyloid deposition, but complete colocalization was not observed.
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Affiliation(s)
- Štěpán Strnad
- Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, 166 10, Prague, Czech Republic.
| | - Vladimír Vrkoslav
- Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, 166 10, Prague, Czech Republic.
| | - Anna Mengr
- Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, 166 10, Prague, Czech Republic.
| | - Ondřej Fabián
- Institute for Clinical and Experimental Medicine, 140 21, Prague, Czech Republic
- Department of Pathology and Molecular Medicine, Third Faculty of Medicine, Charles University and Thomayer Hospital, 140 59, Prague, Czech Republic
| | - Jiří Rybáček
- Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, 166 10, Prague, Czech Republic.
| | - Miloš Kubánek
- Institute for Clinical and Experimental Medicine, 140 21, Prague, Czech Republic
| | - Vojtěch Melenovský
- Institute for Clinical and Experimental Medicine, 140 21, Prague, Czech Republic
| | - Lenka Maletínská
- Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, 166 10, Prague, Czech Republic.
| | - Josef Cvačka
- Institute of Organic Chemistry and Biochemistry of the Czech Academy of Sciences, 166 10, Prague, Czech Republic.
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2
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Müller WH, McCann A, Arias AA, Malherbe C, Quinton L, De Pauw E, Eppe G. Imaging Metabolites in Agar‐Based Bacterial Co‐Cultures with Minimal Sample Preparation using a DIUTHAME Membrane in Surface‐Assisted Laser Desorption/Ionization Mass Spectrometry**. ChemistrySelect 2022. [DOI: 10.1002/slct.202200734] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
Affiliation(s)
- Wendy H. Müller
- Mass Spectrometry Laboratory MolSys Research Unit Department of Chemistry University of Liège Liège Belgium
| | - Andréa McCann
- Mass Spectrometry Laboratory MolSys Research Unit Department of Chemistry University of Liège Liège Belgium
| | - Anthony Argüelles Arias
- Microbial Processes and Interactions Laboratory Terra Teaching and Research Center Gembloux Agro-Bio Tech University of Liège Gembloux Belgium
| | - Cedric Malherbe
- Mass Spectrometry Laboratory MolSys Research Unit Department of Chemistry University of Liège Liège Belgium
| | - Loïc Quinton
- Mass Spectrometry Laboratory MolSys Research Unit Department of Chemistry University of Liège Liège Belgium
| | - Edwin De Pauw
- Mass Spectrometry Laboratory MolSys Research Unit Department of Chemistry University of Liège Liège Belgium
| | - Gauthier Eppe
- Mass Spectrometry Laboratory MolSys Research Unit Department of Chemistry University of Liège Liège Belgium
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3
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Müller WH, Verdin A, De Pauw E, Malherbe C, Eppe G. Surface-assisted laser desorption/ionization mass spectrometry imaging: A review. MASS SPECTROMETRY REVIEWS 2022; 41:373-420. [PMID: 33174287 PMCID: PMC9292874 DOI: 10.1002/mas.21670] [Citation(s) in RCA: 43] [Impact Index Per Article: 21.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/27/2020] [Revised: 10/22/2020] [Accepted: 10/24/2020] [Indexed: 05/04/2023]
Abstract
In the last decades, surface-assisted laser desorption/ionization mass spectrometry (SALDI-MS) has attracted increasing interest due to its unique capabilities, achievable through the nanostructured substrates used to promote the analyte desorption/ionization. While the most widely recognized asset of SALDI-MS is the untargeted analysis of small molecules, this technique also offers the possibility of targeted approaches. In particular, the implementation of SALDI-MS imaging (SALDI-MSI), which is the focus of this review, opens up new opportunities. After a brief discussion of the nomenclature and the fundamental mechanisms associated with this technique, which are still highly controversial, the analytical strategies to perform SALDI-MSI are extensively discussed. Emphasis is placed on the sample preparation but also on the selection of the nanosubstrate (in terms of chemical composition and morphology) as well as its functionalization possibilities for the selective analysis of specific compounds in targeted approaches. Subsequently, some selected applications of SALDI-MSI in various fields (i.e., biomedical, biological, environmental, and forensic) are presented. The strengths and the remaining limitations of SALDI-MSI are finally summarized in the conclusion and some perspectives of this technique, which has a bright future, are proposed in this section.
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Affiliation(s)
- Wendy H. Müller
- Mass Spectrometry Laboratory, MolSys Research Unit, Chemistry DepartmentUniversity of LiègeLiègeBelgium
| | - Alexandre Verdin
- Mass Spectrometry Laboratory, MolSys Research Unit, Chemistry DepartmentUniversity of LiègeLiègeBelgium
| | - Edwin De Pauw
- Mass Spectrometry Laboratory, MolSys Research Unit, Chemistry DepartmentUniversity of LiègeLiègeBelgium
| | - Cedric Malherbe
- Mass Spectrometry Laboratory, MolSys Research Unit, Chemistry DepartmentUniversity of LiègeLiègeBelgium
| | - Gauthier Eppe
- Mass Spectrometry Laboratory, MolSys Research Unit, Chemistry DepartmentUniversity of LiègeLiègeBelgium
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4
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Azov VA, Mueller L, Makarov AA. LASER IONIZATION MASS SPECTROMETRY AT 55: QUO VADIS? MASS SPECTROMETRY REVIEWS 2022; 41:100-151. [PMID: 33169900 DOI: 10.1002/mas.21669] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/14/2020] [Revised: 10/09/2020] [Accepted: 10/12/2020] [Indexed: 06/11/2023]
Abstract
Laser ionization mass spectrometry (LIMS) was one of the first practical methods developed for in situ analysis of the surfaces of solid samples. This review will encompass several aspects related to this analytical method. First, we will discuss the process of laser ionization, the influence of the laser type on its performance, and imaging capabilities of this method. In the second chapter, we will follow the historic development of LIMS instrumentation. After a brief overview of the first-generation instruments developed in 1960-1990 years, we will discuss in detail more recent designs, which appeared during the last 2-3 decades. In the last part of our review, we will cover the recent applications of LIMS for surface analysis. These applications include various types of analyses of solid inorganic, organic, and heterogeneous samples, often in combination with depth profiling and imaging capability.
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Affiliation(s)
- Vladimir A Azov
- Department of Chemistry, University of the Free State, Bloemfontein, South Africa
| | | | - Alexander A Makarov
- Thermo Fisher Scientific GmbH, Bremen, Germany
- Biomolecular Mass Spectrometry and Proteomics, Bijvoet Center for Biomolecular Research, Utrecht Institute for Pharmaceutical Sciences, Utrecht University, Utrecht, The Netherlands
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5
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Müller WH, De Pauw E, Far J, Malherbe C, Eppe G. Imaging lipids in biological samples with surface-assisted laser desorption/ionization mass spectrometry: A concise review of the last decade. Prog Lipid Res 2021; 83:101114. [PMID: 34217733 DOI: 10.1016/j.plipres.2021.101114] [Citation(s) in RCA: 16] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2021] [Revised: 06/25/2021] [Accepted: 06/29/2021] [Indexed: 02/06/2023]
Abstract
Knowing the spatial location of the lipid species present in biological samples is of paramount importance for the elucidation of pathological and physiological processes. In this context, mass spectrometry imaging (MSI) has emerged as a powerful technology allowing the visualization of the spatial distributions of biomolecules, including lipids, in complex biological samples. Among the different ionization methods available, the emerging surface-assisted laser desorption/ionization (SALDI) MSI offers unique capabilities for the study of lipids. This review describes the specific advantages of SALDI-MSI for lipid analysis, including the ability to perform analyses in both ionization modes with the same nanosubstrate, the detection of lipids characterized by low ionization efficiency in MALDI-MS, and the possibilities of surface modification to improve the detection of lipids. The complementarity of SALDI and MALDI-MSI is also discussed. Finally, this review presents data processing strategies applied in SALDI-MSI of lipids, as well as examples of applications of SALDI-MSI in biomedical lipidomics.
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Affiliation(s)
- Wendy H Müller
- Mass Spectrometry Laboratory, MolSys RU, Department of Chemistry, University of Liège, Allée du Six Août, 11 - Quartier Agora, 4000 Liège, Belgium
| | - Edwin De Pauw
- Mass Spectrometry Laboratory, MolSys RU, Department of Chemistry, University of Liège, Allée du Six Août, 11 - Quartier Agora, 4000 Liège, Belgium
| | - Johann Far
- Mass Spectrometry Laboratory, MolSys RU, Department of Chemistry, University of Liège, Allée du Six Août, 11 - Quartier Agora, 4000 Liège, Belgium
| | - Cedric Malherbe
- Mass Spectrometry Laboratory, MolSys RU, Department of Chemistry, University of Liège, Allée du Six Août, 11 - Quartier Agora, 4000 Liège, Belgium
| | - Gauthier Eppe
- Mass Spectrometry Laboratory, MolSys RU, Department of Chemistry, University of Liège, Allée du Six Août, 11 - Quartier Agora, 4000 Liège, Belgium.
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Vos DRN, Ellis SR, Balluff B, Heeren RMA. Experimental and Data Analysis Considerations for Three-Dimensional Mass Spectrometry Imaging in Biomedical Research. Mol Imaging Biol 2021; 23:149-159. [PMID: 33025328 PMCID: PMC7910367 DOI: 10.1007/s11307-020-01541-5] [Citation(s) in RCA: 19] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2020] [Revised: 08/12/2020] [Accepted: 09/10/2020] [Indexed: 10/26/2022]
Abstract
Mass spectrometry imaging (MSI) enables the visualization of molecular distributions on complex surfaces. It has been extensively used in the field of biomedical research to investigate healthy and diseased tissues. Most of the MSI studies are conducted in a 2D fashion where only a single slice of the full sample volume is investigated. However, biological processes occur within a tissue volume and would ideally be investigated as a whole to gain a more comprehensive understanding of the spatial and molecular complexity of biological samples such as tissues and cells. Mass spectrometry imaging has therefore been expanded to the 3D realm whereby molecular distributions within a 3D sample can be visualized. The benefit of investigating volumetric data has led to a quick rise in the application of single-sample 3D-MSI investigations. Several experimental and data analysis aspects need to be considered to perform successful 3D-MSI studies. In this review, we discuss these aspects as well as ongoing developments that enable 3D-MSI to be routinely applied to multi-sample studies.
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Affiliation(s)
- D R N Vos
- The Maastricht MultiModal Molecular Imaging Institute (M4I), Maastricht University, Universiteitssingel 50, 6229 ER, Maastricht, The Netherlands
| | - S R Ellis
- The Maastricht MultiModal Molecular Imaging Institute (M4I), Maastricht University, Universiteitssingel 50, 6229 ER, Maastricht, The Netherlands
- Molecular Horizons and School of Chemistry and Molecular Bioscience, University of Wollongong, Wollongong, New South Wales, 2522, Australia
| | - B Balluff
- The Maastricht MultiModal Molecular Imaging Institute (M4I), Maastricht University, Universiteitssingel 50, 6229 ER, Maastricht, The Netherlands
| | - R M A Heeren
- The Maastricht MultiModal Molecular Imaging Institute (M4I), Maastricht University, Universiteitssingel 50, 6229 ER, Maastricht, The Netherlands.
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7
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Lukowski JK, Pamreddy A, Velickovic D, Zhang G, Pasa-Tolic L, Alexandrov T, Sharma K, Anderton CR. Storage Conditions of Human Kidney Tissue Sections Affect Spatial Lipidomics Analysis Reproducibility. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2020; 31:2538-2546. [PMID: 32897710 PMCID: PMC8162764 DOI: 10.1021/jasms.0c00256] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/06/2023]
Abstract
Lipids often are labile, unstable, and tend to degrade overtime, so it is of the upmost importance to study these molecules in their most native state. We sought to understand the optimal storage conditions for spatial lipidomic analysis of human kidney tissue sections. Specifically, we evaluated human kidney tissue sections on several different days throughout the span of a week using our established protocol for elucidating lipids using high mass resolution matrix-assisted laser desorption/ionization mass spectrometry imaging (MALDI-MSI). We studied kidney tissue sections stored under five different conditions: open stored at -80 °C, vacuumed sealed and stored at -80 °C, with matrix preapplied before storage at -80 °C, under a nitrogen atmosphere and stored at -80 °C, and at room temperature in a desiccator. Results were compared to data obtained from kidney tissue sections that were prepared and analyzed immediately after cryosectioning. Data was processed using METASPACE. After a week of storage, the sections stored at room temperature showed the largest amount of lipid degradation, while sections stored under nitrogen and at -80 °C retained the greatest number of overlapping annotations in relation to freshly cut tissue. Overall, we found that molecular degradation of the tissue sections was unavoidable over time, regardless of storage conditions, but storing tissue sections in an inert gas at low temperatures can curtail molecular degradation within tissue sections.
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Affiliation(s)
- Jessica K Lukowski
- Environmental Molecular Sciences Division, Pacific Northwest National Laboratory, Richland, Washington99352, United States
| | - Annapurna Pamreddy
- Center for Renal Precision Medicine, Division of Nephrology, Department of Medicine, The University of Texas Health, San Antonio, Texas 78284, United States
| | - Dusan Velickovic
- Environmental Molecular Sciences Division, Pacific Northwest National Laboratory, Richland, Washington99352, United States
| | - Guanshi Zhang
- Center for Renal Precision Medicine, Division of Nephrology, Department of Medicine, The University of Texas Health, San Antonio, Texas 78284, United States
- Audie L. Murphy Memorial VA Hospital, South Texas Veterans Health Care System, San Antonio, Texas 78284, United States
| | - Ljiljana Pasa-Tolic
- Environmental Molecular Sciences Division, Pacific Northwest National Laboratory, Richland, Washington99352, United States
| | - Theodore Alexandrov
- Structural and Computational Biology Unit, European Molecular Biology Laboratory, Heidelberg 69117, Germany
- Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, California 92093, United States
| | - Kumar Sharma
- Center for Renal Precision Medicine, Division of Nephrology, Department of Medicine, The University of Texas Health, San Antonio, Texas 78284, United States
- Audie L. Murphy Memorial VA Hospital, South Texas Veterans Health Care System, San Antonio, Texas 78284, United States
| | - Christopher R Anderton
- Environmental Molecular Sciences Division, Pacific Northwest National Laboratory, Richland, Washington99352, United States
- Center for Renal Precision Medicine, Division of Nephrology, Department of Medicine, The University of Texas Health, San Antonio, Texas 78284, United States
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8
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Akerman SC, Hossain S, Shobo A, Zhong Y, Jourdain R, Hancock MA, George K, Breton L, Multhaup G. Neurodegenerative Disease-Related Proteins within the Epidermal Layer of the Human Skin. J Alzheimers Dis 2020; 69:463-478. [PMID: 31006686 DOI: 10.3233/jad-181191] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
There is increasing evidence suggesting that amyloidogenic proteins might form deposits in non-neuronal tissues in neurodegenerative disorders such as Alzheimer's or Parkinson's diseases. However, the detection of these aggregation-prone proteins within the human skin has been controversial. Using immunohistochemistry (IHC) and mass spectrometry tissue imaging (MALDI-MSI), fresh frozen human skin samples were analyzed for the expression and localization of neurodegenerative disease-related proteins. While α-synuclein was detected throughout the epidermal layer of the auricular samples (IHC and MALDI-MSI), tau and Aβ34 were also localized to the epidermal layer (IHC). In addition to Aβ peptides of varying length (e.g., Aβ40, Aβ42, Aβ34), we also were able to detect inflammatory markers within the same sample sets (e.g., thymosin β-4, psoriasin). While previous literature has described α-synuclein in the nucleus of neurons (e.g., Parkinson's disease), our current detection of α-synuclein in the nucleus of skin cells is novel. Imaging of α-synuclein or tau revealed that their presence was similar between the young and old samples in our present study. Future work may reveal differences relevant for diagnosis between these proteins at the molecular level (e.g., age-dependent post-translational modifications). Our novel detection of Aβ34 in human skin suggests that, just like in the brain, it may represent a stable intermediate of the Aβ40 and Aβ42 degradation pathway.
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Affiliation(s)
- S Can Akerman
- Department of Pharmacology & Therapeutics, Life Sciences Complex, McGill University, Montreal, Quebec, Canada
| | - Shireen Hossain
- Department of Pharmacology & Therapeutics, Life Sciences Complex, McGill University, Montreal, Quebec, Canada
| | - Adeola Shobo
- Department of Pharmacology & Therapeutics, Life Sciences Complex, McGill University, Montreal, Quebec, Canada
| | - Yifei Zhong
- Department of Pharmacology & Therapeutics, Life Sciences Complex, McGill University, Montreal, Quebec, Canada
| | | | - Mark A Hancock
- Department of Pharmacology & Therapeutics, Life Sciences Complex, McGill University, Montreal, Quebec, Canada
| | - Kelly George
- L'Oréal Research and Innovation, Clark, New Jersey, USA
| | - Lionel Breton
- L'Oréal Research and Innovation, Aulnay-sous-Bois, France.,L'Oréal Research and Innovation, Clark, New Jersey, USA
| | - Gerhard Multhaup
- Department of Pharmacology & Therapeutics, Life Sciences Complex, McGill University, Montreal, Quebec, Canada
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Lim J, Aguilan JT, Sellers RS, Nagajyothi F, Weiss LM, Angeletti RH, Bortnick AE. Lipid mass spectrometry imaging and proteomic analysis of severe aortic stenosis. J Mol Histol 2020; 51:559-571. [PMID: 32794037 DOI: 10.1007/s10735-020-09905-5] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2020] [Accepted: 08/09/2020] [Indexed: 12/19/2022]
Abstract
Severe aortic stenosis (AS) is prevalent in adults ≥ 65 years, a significant cause of morbidity and mortality, with no medical therapy. Lipid and proteomic alterations of human AS tissue were determined using mass spectrometry imaging (MSI) and liquid chromatography electrospray ionization tandem mass spectrometry (LC-ESI-MS/MS) to understand histopathology, potential biomarkers of disease, and progression from non-calcified to calcified phenotype. A reproducible MSI method was developed using healthy murine aortic valves (n = 3) and subsequently applied to human AS (n = 2). Relative lipid levels were spatially mapped and associated with different microdomains. Proteomics for non-calcified and calcified microdomains were performed to ascertain differences in expression. Increased pro-osteogenic and inflammatory lysophosphatidylcholine (LPC) 16:0 and 18:0 were co-localized with calcified microdomains. Proteomics analysis identified differential patterns in calcified microdomains with high LPC and low cholesterol as compared to non-calcified microdomains with low LPC and high cholesterol. Calcified microdomains had higher levels of: apolipoproteins (Apo) B-100 (p < 0.001) and Apo A-IV (p < 0.001), complement C3 and C4-B (p < 0.001), C5 (p = 0.007), C8 beta chain (p = 0.013) and C9 (p = 0.010), antithrombotic proteins alpha-2-macroglobulin (p < 0.0001) and antithrombin III (p = 0.002), and higher anti-calcific fetuin-A (p = 0.02), while the osteoblast differentiating factor transgelin (p < 0.0001), extracellular matrix proteins versican, prolargin, and lumican ( p < 0.001) and regulator protein complement factor H (p < 0.001) were higher in non-calcified microdomains. A combined lipidomic and proteomic approach provided insight into factors potentially contributing to progression from non-calcified to calcific disease in severe AS. Additional studies of these candidates and protein networks could yield new targets for slowing progression of AS.
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Affiliation(s)
- Jihyeon Lim
- Janssen Research and Development, Malvern, PA, USA
| | - Jennifer T Aguilan
- Laboratory for Macromolecular Analysis & Proteomics, Bronx, NY, USA.,Department of Pathology, Montefiore Health System and Albert Einstein College of Medicine, Bronx, NY, USA
| | | | - Fnu Nagajyothi
- Department of Pathology, Rutgers New Jersey Medical School, Newark, NJ, USA
| | - Louis M Weiss
- Laboratory for Macromolecular Analysis & Proteomics, Bronx, NY, USA
| | - Ruth Hogue Angeletti
- Laboratory for Macromolecular Analysis & Proteomics, Bronx, NY, USA.,Department of Biochemistry, Montefiore Health System and Albert Einstein College of Medicine, Bronx, NY, USA.,Department of Developmental and Molecular Biology, Montefiore Health System and Albert Einstein College of Medicine, Bronx, NY, USA
| | - Anna E Bortnick
- Department of Medicine, Division of Cardiology, Montefiore Health System and Albert Einstein College of Medicine, Bronx, NY, USA. .,Department of Medicine, Division of Geriatrics, Montefiore Health System and Albert Einstein College of Medicine, Bronx, NY, USA. .,Jack D. Weiler Hospital, 1825 Eastchester Road, Suite 2S-46, Bronx, NY, 10461, USA.
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Patterson NH, Yang E, Kranjec EA, Chaurand P. Co-registration and analysis of multiple imaging mass spectrometry datasets targeting different analytes. Bioinformatics 2020; 35:1261-1262. [PMID: 30184057 DOI: 10.1093/bioinformatics/bty780] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/04/2018] [Revised: 07/04/2018] [Accepted: 08/31/2018] [Indexed: 11/14/2022] Open
Abstract
MOTIVATION MALDI imaging mass spectrometry (IMS) has been successfully used to image a variety of biomolecules. Imaging of the many classes of biomolecules is often achieved through several incompatible sample preparations. Thus, multiple datasets must be acquired from multiple tissue sections to obtain a total molecular overview of a single sample. Addressing the need for single datasets from multiple IMS analyses, we developed the R package RegCombIMS as an extension of R package Cardinal to co-register, combine and create single IMS datasets acquired from serial sections of tissue. RESULTS Dataset recombination and analysis is achieved by registration of the IMS datasets to a single coordinate space. The workflow allows for correlation of ions from IMS acquisitions that require incompatible sample preparations as well as multivariate analysis to mine the combined dataset for rapid and more thorough molecular query. AVAILABILITY AND IMPLEMENTATION The source code and example data are freely available at https://github.com/NHPatterson/RegCombIMS. All code was implemented in R. SUPPLEMENTARY INFORMATION Supplementary data are available at Bioinformatics online.
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Affiliation(s)
| | - Ethan Yang
- Department of Chemistry, Université de Montréal, Montreal, Quebec, Canada
| | | | - Pierre Chaurand
- Department of Chemistry, Université de Montréal, Montreal, Quebec, Canada
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11
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Wang WX, Whitehead SN. Imaging mass spectrometry allows for neuroanatomic-specific detection of gangliosides in the healthy and diseased brain. Analyst 2020; 145:2473-2481. [PMID: 32065183 DOI: 10.1039/c9an02270h] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Abstract
Gangliosides have a wide variety of biological functions due to their location on the outer leaflet of plasma membranes. They form a critical component of membrane rafts, or ganglioside-enriched microdomains, where they influence the physical properties of the membrane as well as its function. Gangliosides can change their structure to meet their external and internal environmental demands. This ability to change structure makes gangliosides both fascinating and technologically challenging targets to identify and understand. A full understanding on how gangliosides are regulated within the central nervous system (CNS) is critical, as ganglioside dysregulation is observed in the aging brain as well as in several neurodegenerative injuries and diseases such as stroke, Alzheimer's disease, Parkinson's disease, Huntington's disease and several lysosomal storage disorders diseases, including Tay Sach's disease. Mass spectrometry (MS) has become a useful means to better understand ganglioside composition and function. Imaging mass spectrometry (IMS) provides the added benefit of placing analytical information within an anatomical context. This review article will discuss recent advances in MS-based detection methods, with a focus on IMS-based approaches to help understand the spatial-specific role gangliosides in the healthy brain as in CNS injuries and disease.
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Affiliation(s)
- W X Wang
- Vulnerable Brain Laboratory, Department of Anatomy and Cell Biology, University of Western Ontario, London, ON, CanadaN6A 5C1.
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12
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High spatial resolution imaging of biological tissues using nanospray desorption electrospray ionization mass spectrometry. Nat Protoc 2019; 14:3445-3470. [PMID: 31723300 DOI: 10.1038/s41596-019-0237-4] [Citation(s) in RCA: 111] [Impact Index Per Article: 22.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2019] [Accepted: 08/27/2019] [Indexed: 11/08/2022]
Abstract
Mass spectrometry imaging (MSI) enables label-free spatial mapping of hundreds of biomolecules in tissue sections. This capability provides valuable information on tissue heterogeneity that is difficult to obtain using population-averaged assays. Despite substantial developments in both instrumentation and methodology, MSI of tissue samples at single-cell resolution remains challenging. Herein, we describe a protocol for robust imaging of tissue sections with a high (better than 10-μm) spatial resolution using nanospray desorption electrospray ionization (nano-DESI) mass spectrometry, an ambient ionization technique that does not require sample pretreatment before analysis. In this protocol, mouse uterine tissue is used as a model system to illustrate both the workflow and data obtained in these experiments. We provide a detailed description of the nano-DESI MSI platform, fabrication of the nano-DESI and shear force probes, shear force microscopy experiments, spectral acquisition, and data processing. A properly trained researcher (e.g., technician, graduate student, or postdoc) can complete all the steps from probe fabrication to data acquisition and processing within a single day. We also describe a new strategy for acquiring both positive- and negative-mode imaging data in the same experiment. This is achieved by alternating between positive and negative data acquisition modes during consecutive line scans. Using our imaging approach, hundreds of high-quality ion images were obtained from a single uterine section. This protocol enables sensitive and quantitative imaging of lipids and metabolites in heterogeneous tissue sections with high spatial resolution, which is critical to understanding biochemical processes occurring in biological tissues.
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13
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Luo Z, Liu D, Pang X, Yang W, He J, Zhang R, Zhu C, Chen Y, Li X, Zhang J, Shi J, Abliz Z. Whole-body spatially-resolved metabolomics method for profiling the metabolic differences of epimer drug candidates using ambient mass spectrometry imaging. Talanta 2019; 202:198-206. [PMID: 31171170 DOI: 10.1016/j.talanta.2019.04.068] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2019] [Revised: 04/04/2019] [Accepted: 04/27/2019] [Indexed: 12/29/2022]
Abstract
Investigation of the in vivo drug action and metabolic differences of epimer drugs is challenging. Whole-body MSI analysis can visually present the stereoscopic distribution of molecules related to the interaction of drugs and organisms, and can provide more comprehensive organ-specific profiling information. Herein, we developed a whole-body spatially-resolved imaging metabolomics method based on an air flow-assisted ionisation desorption electrospray ionisation (AFADESI)-MSI system coupled with a high-resolution mass spectrometer and highly discriminating imaging software. The epimeric sedative-hypnotic drug candidates YZG-331 and YZG-330 were selected as examples, and rats administered normal or high oral doses were used. By performing multivariate statistical data-mining on the combined MSI data, organ-specific differential ions were screened. By comparing the variations in the relative contents of the drugs, their metabolites, and endogenous neurotransmitters throughout whole-body tissue sections of the rats, rich information that could potentially explain the more significant sedative-hypnotic effects of YZG-330 compared to YZG-331 was obtained. Such as the increased ratio of gamma-aminobutyric acid in the brain and stomach of the rats (0.25, 0.47, 0.68, 0.30, and 0.89 for the control and YZG-331-H, YZG-330-H, YZG-331-L, and YZG-330-L, respectively) were interesting. This study provided a convenient and visual method to investigate in vivo molecular metabolic differences and provide insight towards a better understanding of the pharmacodynamic mechanisms of these sedative-hypnotic drug-candidates.
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Affiliation(s)
- Zhigang Luo
- State Key Laboratory of Bioactive Substance and Function of Natural Medicines, Institute of Materia Medica, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, 100050, PR China
| | - Dan Liu
- State Key Laboratory of Bioactive Substance and Function of Natural Medicines, Institute of Materia Medica, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, 100050, PR China
| | - Xuechao Pang
- State Key Laboratory of Bioactive Substance and Function of Natural Medicines, Institute of Materia Medica, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, 100050, PR China
| | - Wanqi Yang
- State Key Laboratory of Bioactive Substance and Function of Natural Medicines, Institute of Materia Medica, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, 100050, PR China
| | - Jiuming He
- State Key Laboratory of Bioactive Substance and Function of Natural Medicines, Institute of Materia Medica, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, 100050, PR China
| | - Ruiping Zhang
- State Key Laboratory of Bioactive Substance and Function of Natural Medicines, Institute of Materia Medica, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, 100050, PR China
| | - Chenggen Zhu
- State Key Laboratory of Bioactive Substance and Function of Natural Medicines, Institute of Materia Medica, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, 100050, PR China
| | - Yanhua Chen
- State Key Laboratory of Bioactive Substance and Function of Natural Medicines, Institute of Materia Medica, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, 100050, PR China
| | - Xin Li
- State Key Laboratory of Bioactive Substance and Function of Natural Medicines, Institute of Materia Medica, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, 100050, PR China
| | - Jianjun Zhang
- State Key Laboratory of Bioactive Substance and Function of Natural Medicines, Institute of Materia Medica, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, 100050, PR China
| | - Jiangong Shi
- State Key Laboratory of Bioactive Substance and Function of Natural Medicines, Institute of Materia Medica, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, 100050, PR China
| | - Zeper Abliz
- State Key Laboratory of Bioactive Substance and Function of Natural Medicines, Institute of Materia Medica, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing, 100050, PR China; Center for Imaging and Systems Biology, School of Pharmacy, Minzu University of China, Beijing, 100081, PR China.
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14
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Alamri H, Patterson NH, Yang E, Zoroquiain P, Lazaris A, Chaurand P, Metrakos P. Mapping the triglyceride distribution in NAFLD human liver by MALDI imaging mass spectrometry reveals molecular differences in micro and macro steatosis. Anal Bioanal Chem 2018; 411:885-894. [PMID: 30515538 DOI: 10.1007/s00216-018-1506-8] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2018] [Accepted: 11/20/2018] [Indexed: 01/09/2023]
Abstract
Hepatic lipid accumulation, mainly in the form of triglycerides (TGs), is the hallmark of non-alcoholic fatty liver disease (NAFLD). To date, the spatial distribution of individual lipids in NAFLD-affected livers is not well characterized. This study aims to map the triglyceride distribution in normal human liver samples and livers with NAFLD and cirrhosis with imaging mass spectrometry (MALDI IMS). Specifically, whether individual triglyceride species differing by fatty acid chain length and degree of saturation correlate with the histopathological features of NAFLD as identified with classical H&E. Using a recently reported sodium-doped gold-assisted laser desorption/ionization IMS sample preparation, 20 human liver samples (five normal livers, five samples with simple steatosis, five samples with steatohepatitis, and five samples with cirrhosis) were analyzed at 10-μm lateral resolution. A total of 24 individual lipid species, primarily neutral lipids, were identified (22 TGs and two phospholipids). In samples with a low level of steatosis, TGs accumulated around the pericentral zone. In all samples, TGs with different degrees of side-chain saturation and side-chain length demonstrated differential distribution. Furthermore, hepatocytes containing macro lipid droplets were highly enriched in fully saturated triglycerides. This enrichment was also observed in areas of hepatocyte ballooning in samples with steatohepatitis and cirrhosis. In conclusion, macro lipid droplets in NAFLD are enriched in fully saturated triglycerides, indicating a possible increase in de novo lipogenesis that leads to steatohepatitis and cirrhosis.
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Affiliation(s)
- Hussam Alamri
- Department of Surgery, McGill University Health Center, 1650 Cedar Avenue, Montreal, Quebec, H3G 1A4, Canada
| | - Nathan Heath Patterson
- Department of Chemistry, University of Montreal, Montreal, Quebec, H3C 3J7, Canada.,Mass Spectrometry Research Center, Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN, 37240, USA
| | - Ethan Yang
- Department of Chemistry, University of Montreal, Montreal, Quebec, H3C 3J7, Canada
| | - Pablo Zoroquiain
- Pathology Department, School of Medicine, Pontificia Universidad Católica de Chile, Avda. Libertador Bernardo O'Higgins 340, 8331150, Santiago, Chile
| | - Anthoula Lazaris
- Cancer Research Program, McGill University Health Center-Research Institute, Montreal, Quebec, H4A 3J1, Canada
| | - Pierre Chaurand
- Department of Chemistry, University of Montreal, Montreal, Quebec, H3C 3J7, Canada.
| | - Peter Metrakos
- Department of Surgery, McGill University Health Center, 1650 Cedar Avenue, Montreal, Quebec, H3G 1A4, Canada. .,Cancer Research Program, McGill University Health Center-Research Institute, Montreal, Quebec, H4A 3J1, Canada.
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15
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Fanuel M, Ropartz D, Guillon F, Saulnier L, Rogniaux H. Distribution of cell wall hemicelluloses in the wheat grain endosperm: a 3D perspective. PLANTA 2018; 248:1505-1513. [PMID: 30140977 DOI: 10.1007/s00425-018-2980-0] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/31/2018] [Accepted: 08/09/2018] [Indexed: 06/08/2023]
Abstract
Uneven distribution of AX and BG in lateral and longitudinal dimensions of a wheat grain was observed by three-dimensional MS imaging, presumably related to specific physicochemical properties of cell walls. Arabinoxylans (AX) and β-glucans (BG) are the main hemicelluloses that comprise the primary walls of starchy endosperm. These components are not evenly distributed in the endosperm, and the impact of their distribution on cell wall properties is not yet fully understood. Combined with on-tissue enzymatic degradation of the cell walls, mass spectrometry imaging (MSI) was used to monitor the molecular structure of AX and BG in thirty consecutive cross-sections of a mature wheat grain. A 3D image was built from the planar images, showing the distribution of these polymers at the full-grain level, both in lateral and longitudinal dimensions. BGs were more abundant at the vicinity of the germ and in the central cells of the endosperm, while AX, and especially highly substituted AX, were more abundant close to the brush and in the cells surrounding the crease (i.e., the transfer cells). Compared with the previously reported protocol, significant improvements were made in the tissue preparation to better preserve the shape of the fragile sections. This allowed to us achieve a good-quality 3D reconstruction from the consecutive 2D images. By providing a continuous view of the molecular distribution of the cell wall components across and along the grain, the three-dimensional images obtained by MSI may help understand the structure-function relationships of cell walls. The method should be readily extendable to other parietal polymers by selecting the appropriate enzymes.
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Affiliation(s)
- Mathieu Fanuel
- INRA, UR1268 Biopolymers Interactions Assemblies, 44316, Nantes, France
| | - David Ropartz
- INRA, UR1268 Biopolymers Interactions Assemblies, 44316, Nantes, France
| | - Fabienne Guillon
- INRA, UR1268 Biopolymers Interactions Assemblies, 44316, Nantes, France
| | - Luc Saulnier
- INRA, UR1268 Biopolymers Interactions Assemblies, 44316, Nantes, France
| | - Hélène Rogniaux
- INRA, UR1268 Biopolymers Interactions Assemblies, 44316, Nantes, France.
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16
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Bandu R, Mok HJ, Kim KP. Phospholipids as cancer biomarkers: Mass spectrometry-based analysis. MASS SPECTROMETRY REVIEWS 2018; 37:107-138. [PMID: 27276657 DOI: 10.1002/mas.21510] [Citation(s) in RCA: 114] [Impact Index Per Article: 19.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/17/2016] [Accepted: 05/19/2016] [Indexed: 05/02/2023]
Abstract
Lipids, particularly phospholipids (PLs), are key components of cellular membrane. PLs play important and diverse roles in cells such as chemical-energy storage, cellular signaling, cell membranes, and cell-cell interactions in tissues. All these cellular processes are pertinent to cells that undergo transformation, cancer progression, and metastasis. Thus, there is a strong possibility that some classes of PLs are expected to present in cancer cells and tissues in cellular physiology. The mass spectrometric soft-ionization techniques, electrospray ionization (ESI), and matrix-assisted laser desorption/ionization (MALDI) are well-established in the proteomics field, have been used for lipidomic analysis in cancer research. This review focused on the applications of mass spectrometry (MS) mainly on ESI-MS and MALDI-MS in the structural characterization, molecular composition and key roles of various PLs present in cancer cells, tissues, blood, and urine, and on their importance for cancer-related problems as well as challenges for development of novel PL-based biomarkers. The profiling of PLs helps to rationalize their functions in biological systems, and will also provide diagnostic information to elucidate mechanisms behind the control of cancer, diabetes, and neurodegenerative diseases. The investigation of cellular PLs with MS methods suggests new insights on various cancer diseases and clinical applications in the drug discovery and development of biomarkers for various PL-related different cancer diseases. PL profiling in tissues, cells and body fluids also reflect the general condition of the whole organism and can indicate the existence of cancer and other diseases. PL profiling with MS opens new prospects to assess alterations of PLs in cancer, screening specific biomarkers and provide a basis for the development of novel therapeutic strategies. © 2016 Wiley Periodicals, Inc. Mass Spec Rev 37:107-138, 2018.
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Affiliation(s)
- Raju Bandu
- Department of Applied Chemistry, College of Applied Science, Kyung Hee University, Yong-in City, 446-701, Korea
| | - Hyuck Jun Mok
- Department of Applied Chemistry, College of Applied Science, Kyung Hee University, Yong-in City, 446-701, Korea
| | - Kwang Pyo Kim
- Department of Applied Chemistry, College of Applied Science, Kyung Hee University, Yong-in City, 446-701, Korea
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17
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Host-based lipid inflammation drives pathogenesis in Francisella infection. Proc Natl Acad Sci U S A 2017; 114:12596-12601. [PMID: 29109289 DOI: 10.1073/pnas.1712887114] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022] Open
Abstract
Mass spectrometry imaging (MSI) was used to elucidate host lipids involved in the inflammatory signaling pathway generated at the host-pathogen interface during a septic bacterial infection. Using Francisella novicida as a model organism, a bacterial lipid virulence factor (endotoxin) was imaged and identified along with host phospholipids involved in the splenic response in murine tissues. Here, we demonstrate detection and distribution of endotoxin in a lethal murine F. novicida infection model, in addition to determining the temporally and spatially resolved innate lipid inflammatory response in both 2D and 3D renderings using MSI. Further, we show that the cyclooxygenase-2-dependent lipid inflammatory pathway is responsible for lethality in F. novicida infection due to overproduction of proinflammatory effectors including prostaglandin E2. The results of this study emphasize that spatial determination of the host lipid components of the immune response is crucial to identifying novel strategies to effectively address highly pathogenic and lethal infections stemming from bacterial, fungal, and viral origins.
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18
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Luo Z, He J, He J, Huang L, Song X, Li X, Abliz Z. Quantitative analysis of drug distribution by ambient mass spectrometry imaging method with signal extinction normalization strategy and inkjet-printing technology. Talanta 2017; 179:230-237. [PMID: 29310227 DOI: 10.1016/j.talanta.2017.11.005] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/18/2017] [Revised: 10/30/2017] [Accepted: 11/03/2017] [Indexed: 11/25/2022]
Abstract
Quantitative mass spectrometry imaging (MSI) is a robust approach that provides both quantitative and spatial information for drug candidates' research. However, because of complicated signal suppression and interference, acquiring accurate quantitative information from MSI data remains a challenge, especially for whole-body tissue sample. Ambient MSI techniques using spray-based ionization appear to be ideal for pharmaceutical quantitative MSI analysis. However, it is more challenging, as it involves almost no sample preparation and is more susceptible to ion suppression/enhancement. Herein, based on our developed air flow-assisted desorption electrospray ionization (AFADESI)-MSI technology, an ambient quantitative MSI method was introduced by integrating inkjet-printing technology with normalization of the signal extinction coefficient (SEC) using the target compound itself. The method utilized a single calibration curve to quantify multiple tissue types. Basic blue 7 and an antitumor drug candidate (S-(+)-deoxytylophorinidine, CAT) were chosen to initially validate the feasibility and reliability of the quantitative MSI method. Rat tissue sections (heart, kidney, and brain) administered with CAT was then analyzed. The quantitative MSI analysis results were cross-validated by LC-MS/MS analysis data of the same tissues. The consistency suggests that the approach is able to fast obtain the quantitative MSI data without introducing interference into the in-situ environment of the tissue sample, and is potential to provide a high-throughput, economical and reliable approach for drug discovery and development.
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Affiliation(s)
- Zhigang Luo
- State Key Laboratory of Bioactive Substance and Function of Natural Medicines, Institute of Materia Medica, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing 100050, PR China
| | - Jingjing He
- State Key Laboratory of Bioactive Substance and Function of Natural Medicines, Institute of Materia Medica, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing 100050, PR China; Higher Education Evaluation Center, Ministry of Education, Beijing 100081, PR China
| | - Jiuming He
- State Key Laboratory of Bioactive Substance and Function of Natural Medicines, Institute of Materia Medica, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing 100050, PR China
| | - Lan Huang
- Institute of Laboratory Animal Science, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing 100021, PR China
| | - Xiaowei Song
- State Key Laboratory of Bioactive Substance and Function of Natural Medicines, Institute of Materia Medica, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing 100050, PR China
| | - Xin Li
- State Key Laboratory of Bioactive Substance and Function of Natural Medicines, Institute of Materia Medica, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing 100050, PR China
| | - Zeper Abliz
- State Key Laboratory of Bioactive Substance and Function of Natural Medicines, Institute of Materia Medica, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing 100050, PR China; Centre for Bioimaging & Systems Biology, Minzu University of China, Beijing 100081, PR China.
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19
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Dexter A, Race AM, Steven RT, Barnes JR, Hulme H, Goodwin RJA, Styles IB, Bunch J. Two-Phase and Graph-Based Clustering Methods for Accurate and Efficient Segmentation of Large Mass Spectrometry Images. Anal Chem 2017; 89:11293-11300. [DOI: 10.1021/acs.analchem.7b01758] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/22/2022]
Affiliation(s)
- Alex Dexter
- PSIBS
Doctoral Training Centre, University of Birmingham Edgbaston, Birmingham B15 2TT, United Kingdom
- National Physical
Laboratory, Teddington, Middlesex TW11 0LW, United Kingdom
| | - Alan M. Race
- National Physical
Laboratory, Teddington, Middlesex TW11 0LW, United Kingdom
| | - Rory T. Steven
- National Physical
Laboratory, Teddington, Middlesex TW11 0LW, United Kingdom
| | - Jennifer R. Barnes
- AstraZeneca, Drug Safety and Metabolism, Cambridge CB4 0WG, United Kingdom
| | - Heather Hulme
- AstraZeneca, Drug Safety and Metabolism, Cambridge CB4 0WG, United Kingdom
- University
of Glasgow, University Avenue, Glasgow, G12 8QQ, United Kingdom
| | | | - Iain B. Styles
- School
of Computer Science, University of Birmingham, Edgbaston, Birmingham B15 2TT, United Kingdom
| | - Josephine Bunch
- National Physical
Laboratory, Teddington, Middlesex TW11 0LW, United Kingdom
- School
of
Pharmacy, University of Nottingham, Nottingham, Nottinghamshire NG7 2RD, United Kingdom
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20
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Lombard-Banek C, Portero EP, Onjiko RM, Nemes P. New-generation mass spectrometry expands the toolbox of cell and developmental biology. Genesis 2017; 55. [PMID: 28095647 DOI: 10.1002/dvg.23012] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/20/2016] [Revised: 12/01/2016] [Accepted: 12/03/2016] [Indexed: 12/12/2022]
Abstract
Systems cell biology understanding of development requires characterization of all the molecules produced in the biological system. Decades of research and new-generation sequencing provided functional information on key genes and transcripts. However, there is less information available on how differential gene expression translates into the domains of functionally important proteins, peptides, and metabolites, and how changes in these molecules impact development. Mass spectrometry (MS) is the current technology of choice for the detection and quantification of large numbers of proteins and metabolites, because it requires no use of antibodies, functional probes, or a priori knowledge of molecules produced in the system. This review focuses on recent technologies that have improved MS sensitivity for proteins and metabolites and enabled new functionalities to assess their temporal and spatial changes during vertebrate embryonic development. This review highlights case studies, in which new-generation MS tools have enabled the study of hundreds-to-thousands of proteins and metabolites in tissues, cell populations, and single cells in model systems of vertebrate development, particularly the frog (Xenopus), zebrafish, and mouse. New-generation MS expands the toolbox of cell and developmental studies, raising exciting potentials to advance basic and translational research in the life sciences.
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Affiliation(s)
| | - Erika P Portero
- Department of Chemistry, The George Washington University, Washington, DC, 20052
| | - Rosemary M Onjiko
- Department of Chemistry, The George Washington University, Washington, DC, 20052
| | - Peter Nemes
- Department of Chemistry, The George Washington University, Washington, DC, 20052
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21
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Systematic assessment of surfactants for matrix-assisted laser desorption/ionization mass spectrometry imaging. Anal Chim Acta 2017; 963:76-82. [DOI: 10.1016/j.aca.2017.01.054] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2016] [Revised: 01/02/2017] [Accepted: 01/13/2017] [Indexed: 11/18/2022]
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22
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Casadonte R, Longuespée R, Kriegsmann J, Kriegsmann M. MALDI IMS and Cancer Tissue Microarrays. Adv Cancer Res 2017; 134:173-200. [PMID: 28110650 DOI: 10.1016/bs.acr.2016.11.007] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Matrix-assisted laser desorption/ionization imaging mass spectrometry (MALDI IMS) technology creates a link between the molecular assessment of numerous molecules and the morphological information about their special distribution. The application of MALDI IMS on formalin-fixed paraffin-embedded (FFPE) tissue microarrays (TMAs) is suitable for large-scale discovery analyses. Data acquired from FFPE TMA cancer samples in current research are very promising, and applications for routine diagnostics are under development. With the current rapid advances in both technology and applications, MALDI IMS technology is expected to enter into routine diagnostics soon. This chapter is intended to be comprehensive with respect to all aspects and considerations for the application of MALDI IMS on FFPE cancer TMAs with in-depth notes on technical aspects.
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Affiliation(s)
| | | | - J Kriegsmann
- Proteopath GmbH, Trier, Germany; Institute of Molecular Pathology, Trier, Germany; Center for Histology, Cytology and Molecular Diagnostics, Trier, Germany
| | - M Kriegsmann
- Institute of Pathology, University of Heidelberg, Heidelberg, Germany.
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23
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Duncan KD, Bergman HM, Lanekoff I. A pneumatically assisted nanospray desorption electrospray ionization source for increased solvent versatility and enhanced metabolite detection from tissue. Analyst 2017; 142:3424-3431. [DOI: 10.1039/c7an00901a] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Pneumatically assisted nano-DESI offers improved sensitivity for metabolite species by 1–3 orders of magnitude through more complete desolvation and reduced ionization suppression.
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Affiliation(s)
- Kyle D. Duncan
- Department of Chemistry-BMC
- Uppsala University
- Uppsala
- Sweden
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24
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Spatial Metabolite Profiling by Matrix-Assisted Laser Desorption Ionization Mass Spectrometry Imaging. ADVANCES IN EXPERIMENTAL MEDICINE AND BIOLOGY 2017; 965:291-321. [DOI: 10.1007/978-3-319-47656-8_12] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
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25
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Wisztorski M, Quanico J, Franck J, Fatou B, Salzet M, Fournier I. Droplet-Based Liquid Extraction for Spatially-Resolved Microproteomics Analysis of Tissue Sections. Methods Mol Biol 2017; 1618:49-63. [PMID: 28523499 DOI: 10.1007/978-1-4939-7051-3_6] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Obtaining information on protein content while keeping their localization on tissue or organ is of importance in different domains to understand pathophysiological processes. There is increasing interest in studying the microenvironment and heterogeneity of tumors, which currently is difficult with existing proteomics techniques. The advent of new techniques, like MALDI Mass Spectrometry Imaging, made a significant progress in the last decade but is characterized by a number of inherent drawbacks. One of these is the limited identification of proteins. New alternative approaches such as spatially-resolved liquid microextraction have recently been proposed to overcome this limitation. In this chapter, we describe strategies using liquid microjunction to perform extraction of previously digested peptides or of intact proteins from tissue section in a localized manner.
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Affiliation(s)
- Maxence Wisztorski
- Univ. Lille, Inserm, U1192-Protéomique Réponse Inflammatoire Spectrométrie de Masse-PRISM, Bat SN3, 1er étage, 59650, Villeneuve d'Ascq, France.
| | - Jusal Quanico
- Univ. Lille, Inserm, U1192-Protéomique Réponse Inflammatoire Spectrométrie de Masse-PRISM, Bat SN3, 1er étage, 59650, Villeneuve d'Ascq, France
| | - Julien Franck
- Univ. Lille, Inserm, U1192-Protéomique Réponse Inflammatoire Spectrométrie de Masse-PRISM, Bat SN3, 1er étage, 59650, Villeneuve d'Ascq, France
| | - Benoit Fatou
- Univ. Lille, Inserm, U1192-Protéomique Réponse Inflammatoire Spectrométrie de Masse-PRISM, Bat SN3, 1er étage, 59650, Villeneuve d'Ascq, France
| | - Michel Salzet
- Univ. Lille, Inserm, U1192-Protéomique Réponse Inflammatoire Spectrométrie de Masse-PRISM, Bat SN3, 1er étage, 59650, Villeneuve d'Ascq, France
| | - Isabelle Fournier
- Univ. Lille, Inserm, U1192-Protéomique Réponse Inflammatoire Spectrométrie de Masse-PRISM, Bat SN3, 1er étage, 59650, Villeneuve d'Ascq, France
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26
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Quanico J, Franck J, Wisztorski M, Salzet M, Fournier I. Progress and Potential of Imaging Mass Spectrometry Applied to Biomarker Discovery. Methods Mol Biol 2017; 1598:21-43. [PMID: 28508356 DOI: 10.1007/978-1-4939-6952-4_2] [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: 06/07/2023]
Abstract
Mapping provides a direct means to assess the impact of protein biomarkers and puts into context their relevance in the type of cancer being examined. To this end, mass spectrometry imaging (MSI) was developed to provide the needed spatial information which is missing in traditional liquid-based mass spectrometric proteomics approaches. Aptly described as a "molecular histology" technique, MSI gives an additional dimension in characterizing tumor biopsies, allowing for mapping of hundreds of molecules in a single analysis. A decade of developments focused on improving and standardizing MSI so that the technique can be translated into the clinical setting. This review describes the progress made in addressing the technological development that allows to bridge local protein detection by MSI to its identification and to illustrate its potential in studying various aspects of cancer biomarker discovery.
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Affiliation(s)
- Jusal Quanico
- Université de Lille 1, INSERM, U1192-Laboratoire Protéomique, Réponse Inflammatoire et Spectrométrie de Masse (PRISM), 59000, Lille, France
| | - Julien Franck
- Université de Lille 1, INSERM, U1192-Laboratoire Protéomique, Réponse Inflammatoire et Spectrométrie de Masse (PRISM), 59000, Lille, France
| | - Maxence Wisztorski
- Université de Lille 1, INSERM, U1192-Laboratoire Protéomique, Réponse Inflammatoire et Spectrométrie de Masse (PRISM), 59000, Lille, France
| | - Michel Salzet
- Université de Lille 1, INSERM, U1192-Laboratoire Protéomique, Réponse Inflammatoire et Spectrométrie de Masse (PRISM), 59000, Lille, France
| | - Isabelle Fournier
- Université de Lille 1, INSERM, U1192-Laboratoire Protéomique, Réponse Inflammatoire et Spectrométrie de Masse (PRISM), 59000, Lille, France.
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27
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Rocha B, Ruiz-Romero C, Blanco FJ. Mass spectrometry imaging: a novel technology in rheumatology. Nat Rev Rheumatol 2016; 13:52-63. [DOI: 10.1038/nrrheum.2016.184] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/15/2023]
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Assessment of pathological response to therapy using lipid mass spectrometry imaging. Sci Rep 2016; 6:36814. [PMID: 27841360 PMCID: PMC5107952 DOI: 10.1038/srep36814] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2016] [Accepted: 10/19/2016] [Indexed: 02/06/2023] Open
Abstract
In many cancers, the establishment of a patient’s future treatment regime often relies on histopathological assessment of tumor tissue specimens in order to determine the extent of the ‘pathological response’ to a given therapy. However, histopathological assessment of pathological response remains subjective. Here we use MALDI mass spectrometry imaging to generate lipid signatures from colorectal cancer liver metastasis specimens resected from patients preoperatively treated with chemotherapy. Using these signatures we obtained a unique pathological response score that correlates with prognosis. In addition, we identify single lipid moieties that are overexpressed in different histopathological features of the tumor, which have potential as new biomarkers for assessing response to therapy. These data show that computational methods, focusing on the lipidome, can be used to determine prognostic markers for response to chemotherapy and may potentially improve risk assessment and patient care.
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In-Field, In Situ, and In Vivo 3-Dimensional Elemental Mapping for Plant Tissue and Soil Analysis Using Laser-Induced Breakdown Spectroscopy. SENSORS 2016; 16:s16101764. [PMID: 27782074 PMCID: PMC5087548 DOI: 10.3390/s16101764] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 07/28/2016] [Revised: 10/14/2016] [Accepted: 10/19/2016] [Indexed: 11/16/2022]
Abstract
Sensing and mapping element distributions in plant tissues and its growth environment has great significance for understanding the uptake, transport, and accumulation of nutrients and harmful elements in plants, as well as for understanding interactions between plants and the environment. In this study, we developed a 3-dimensional elemental mapping system based on laser-induced breakdown spectroscopy that can be deployed in- field to directly measure the distribution of multiple elements in living plants as well as in the soil. Mapping is performed by a fast scanning laser, which ablates a micro volume of a sample to form a plasma. The presence and concentration of specific elements are calculated using the atomic, ionic, and molecular spectral characteristics of the plasma emission spectra. Furthermore, we mapped the pesticide residues in maize leaves after spraying to demonstrate the capacity of this method for trace elemental mapping. We also used the system to quantitatively detect the element concentrations in soil, which can be used to further understand the element transport between plants and soil. We demonstrate that this method has great potential for elemental mapping in plant tissues and soil with the advantages of 3-dimensional and multi-elemental mapping, in situ and in vivo measurement, flexible use, and low cost.
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Rocha B, Cillero-Pastor B, Blanco FJ, Ruiz-Romero C. MALDI mass spectrometry imaging in rheumatic diseases. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS 2016; 1865:784-794. [PMID: 27742553 DOI: 10.1016/j.bbapap.2016.10.004] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/02/2016] [Revised: 09/29/2016] [Accepted: 10/04/2016] [Indexed: 01/15/2023]
Abstract
Mass spectrometry imaging (MSI) is a technique used to visualize the spatial distribution of biomolecules such as peptides, proteins, lipids or other organic compounds by their molecular masses. Among the different MSI strategies, MALDI-MSI provides a sensitive and label-free approach for imaging of a wide variety of protein or peptide biomarkers from the surface of tissue sections, being currently used in an increasing number of biomedical applications such as biomarker discovery and tissue classification. In the field of rheumatology, MALDI-MSI has been applied to date for the analysis of joint tissues such as synovial membrane or cartilage. This review summarizes the studies and key achievements obtained using MALDI-MSI to increase understanding on rheumatic pathologies and to describe potential diagnostic or prognostic biomarkers of these diseases. This article is part of a Special Issue entitled: MALDI Imaging, edited by Dr. Corinna Henkel and Prof. Peter Hoffmann.
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Affiliation(s)
- Beatriz Rocha
- Proteomics Unit-ProteoRed/ISCIII, Rheumatology Group, INIBIC - Hospital Universitario de A Coruña, SERGAS, A Coruña, Spain
| | | | - Francisco J Blanco
- Proteomics Unit-ProteoRed/ISCIII, Rheumatology Group, INIBIC - Hospital Universitario de A Coruña, SERGAS, A Coruña, Spain; RIER-RED de Inflamación y Enfermedades Reumáticas, INIBIC-CHUAC, A Coruña, Spain.
| | - Cristina Ruiz-Romero
- Proteomics Unit-ProteoRed/ISCIII, Rheumatology Group, INIBIC - Hospital Universitario de A Coruña, SERGAS, A Coruña, Spain; CIBER-BBN Instituto de Salud Carlos III, INIBIC-CHUAC, A Coruña, Spain.
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Scott AJ, Flinders B, Cappell J, Liang T, Pelc RS, Tran B, Kilgour DPA, Heeren RMA, Goodlett DR, Ernst RK. Norharmane Matrix Enhances Detection of Endotoxin by MALDI-MS for Simultaneous Profiling of Pathogen, Host, and Vector Systems. Pathog Dis 2016; 74:ftw097. [PMID: 27650574 PMCID: PMC8427938 DOI: 10.1093/femspd/ftw097] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023] Open
Abstract
The discovery of novel pathogenic mechanisms engaged during bacterial infections requires
the evolution of advanced techniques. Here, we evaluate the dual polarity matrix
norharmane (NRM) to improve detection of bacterial lipid A (endotoxin), from host and
vector tissues infected withFrancisella novicida (Fn).
We evaluated NRM for improved detection and characterization of a wide range of lipids in
both positive and negative polarities, including lipid A and phospholipids across a range
of matrix-assisted laser desorption-ionization-coupled applications. NRM matrix improved
the limit of detection (LOD) for monophosphoryl lipid A (MPLA) down to picogram level
representing a 10-fold improvement of LOD versus 2,5-dihydroxybenzoic acid and 100-fold
improvement of LOD versus 9-aminoacridine (9-AA). Improved LOD for lipid A subsequently
facilitated detection of theFn lipid A major ion (m/z
1665) from extracts of infected mouse spleen and the
temperature-modifiedFn lipid A atm/z 1637 from
infectedDermacentor variabilis ticks. Finally, we simultaneously mapped
bacterial phospholipid signatures within anFn-infected spleen along with
an exclusively host-derived inositol-based phospholipid (m/z 933)
demonstrating coprofiling of the host-pathogen interaction. Expanded use of NRM matrix in
other infection models and endotoxin-targeting imaging experiments will improve our
understanding of the lipid interactions at the host-pathogen interface.
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Affiliation(s)
- Alison J Scott
- Department of Microbial Pathogenesis, School of Dentistry, University of Maryland Baltimore, Baltimore, Maryland, USA
| | - Bryn Flinders
- FOM-Institute AMOLF, Amsterdam, The Netherlands Maastricht Multimodal Molecular Imaging Institute (M4I), Maastricht University, Maastricht, The Netherlands
| | - Joanna Cappell
- FOM-Institute AMOLF, Amsterdam, The Netherlands Maastricht Multimodal Molecular Imaging Institute (M4I), Maastricht University, Maastricht, The Netherlands
| | - Tao Liang
- Department of Pharmaceutical Sciences, School of Pharmacy, University of Maryland Baltimore, Baltimore, Maryland, USA
| | - Rebecca S Pelc
- Department of Microbial Pathogenesis, School of Dentistry, University of Maryland Baltimore, Baltimore, Maryland, USA
| | - Bao Tran
- Department of Pharmaceutical Sciences, School of Pharmacy, University of Maryland Baltimore, Baltimore, Maryland, USA
| | - David P A Kilgour
- Nottingham Trent University, Chemistry and Forensics, Clifton Campus, Rosalind Franklin Building, Nottingham, UK
| | - Ron M A Heeren
- FOM-Institute AMOLF, Amsterdam, The Netherlands Maastricht Multimodal Molecular Imaging Institute (M4I), Maastricht University, Maastricht, The Netherlands
| | - David R Goodlett
- Department of Pharmaceutical Sciences, School of Pharmacy, University of Maryland Baltimore, Baltimore, Maryland, USA
| | - Robert K Ernst
- Department of Microbial Pathogenesis, School of Dentistry, University of Maryland Baltimore, Baltimore, Maryland, USA
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Lauer E, Villa M, Jotterand M, Vilarino R, Bollmann M, Michaud K, Grabherr S, Augsburger M, Thomas A. Imaging mass spectrometry of elements in forensic cases by LA-ICP-MS. Int J Legal Med 2016; 131:497-500. [PMID: 27507011 DOI: 10.1007/s00414-016-1414-4] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2016] [Accepted: 07/05/2016] [Indexed: 12/13/2022]
Abstract
Laser ablation inductively coupled plasma mass spectrometry (LA-ICP-MS) was performed to map elements in thin formalin-fixed paraffin-embedded tissue sections of two forensic cases with firearm and electrocution injuries, respectively. In both cases, histological examination of the wounded tissue regions revealed the presence of exogenous aggregates that may be interpreted as metallic depositions. The use of imaging LA-ICP-MS allowed us to unambiguously determine the elemental composition of the observed aggregates assisting the pathologist in case assessments. To the best of our knowledge, we demonstrate for the first time the use of imaging LA-ICP-MS as a complementary tool for forensic pathologists and toxicologists in order to map the presence of metals and other elements in thin tissue sections of post-mortem cases.
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Affiliation(s)
- Estelle Lauer
- University Centre of Legal Medicine, Lausanne-Geneva, Switzerland
| | - Max Villa
- University Centre of Legal Medicine, Lausanne-Geneva, Switzerland
| | | | - Raquel Vilarino
- University Centre of Legal Medicine, Lausanne-Geneva, Switzerland
| | - Marc Bollmann
- University Centre of Legal Medicine, Lausanne-Geneva, Switzerland
| | | | - Silke Grabherr
- University Centre of Legal Medicine, Lausanne-Geneva, Switzerland
| | - Marc Augsburger
- University Centre of Legal Medicine, Lausanne-Geneva, Switzerland
| | - Aurélien Thomas
- University Centre of Legal Medicine, Lausanne-Geneva, Switzerland.
- Faculty of Biology and Medicine, Lausanne University Hospital, University of Lausanne, Lausanne, Switzerland.
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Schey KL, Hachey AJ, Rose KL, Grey AC. MALDI imaging mass spectrometry of Pacific White Shrimp L. vannamei and identification of abdominal muscle proteins. Proteomics 2016; 16:1767-74. [PMID: 26990122 DOI: 10.1002/pmic.201500531] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2015] [Revised: 02/26/2016] [Accepted: 03/11/2016] [Indexed: 02/06/2023]
Abstract
MALDI imaging mass spectrometry (IMS) has been applied to whole animal tissue sections of Pacific White Shrimp, Litopenaeus vannamei, in an effort to identify and spatially localize proteins in specific organ systems. Frozen shrimp were sectioned along the ventral-dorsal axis and methods were optimized for matrix application. In addition, tissue microextraction and homogenization was conducted followed by top-down LC-MS/MS analysis of intact proteins and searches of shrimp EST databases to identify imaged proteins. IMS images revealed organ system specific protein signals that highlighted the hepatopancreas, heart, nervous system, musculature, and cuticle. Top-down proteomics identification of abdominal muscle proteins revealed the sequence of the most abundant muscle protein that has no sequence homology to known proteins. Additional identifications of abdominal muscle proteins included titin, troponin-I, ubiquitin, as well as intact and multiple truncated forms of flightin; a protein known to function in high frequency contraction of insect wing muscles. The combined use of imaging mass spectrometry and top-down proteomics allowed for identification of novel proteins from the sparsely populated shrimp protein databases.
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Affiliation(s)
- Kevin L Schey
- Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN, USA.,Mass Spectrometry Research Center, Vanderbilt University School of Medicine, Nashville, TN, USA
| | - Amanda J Hachey
- Mass Spectrometry Research Center, Vanderbilt University School of Medicine, Nashville, TN, USA
| | - Kristie L Rose
- Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN, USA.,Mass Spectrometry Research Center, Vanderbilt University School of Medicine, Nashville, TN, USA
| | - Angus C Grey
- School of Medical Sciences, University of Auckland, Auckland, New Zealand
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Patterson NH, Doonan RJ, Daskalopoulou SS, Dufresne M, Lenglet S, Montecucco F, Thomas A, Chaurand P. Three-dimensional imaging MS of lipids in atherosclerotic plaques: Open-source methods for reconstruction and analysis. Proteomics 2016; 16:1642-51. [DOI: 10.1002/pmic.201500490] [Citation(s) in RCA: 42] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/22/2015] [Revised: 02/01/2016] [Accepted: 03/03/2016] [Indexed: 01/01/2023]
Affiliation(s)
| | - Robert J. Doonan
- Department of Medicine, Faculty of Medicine; McGill University; Montreal Quebec Canada
| | | | - Martin Dufresne
- Department of Chemistry; University of Montreal; Montreal Quebec Canada
| | - Sébastien Lenglet
- Unit of Toxicology; University Centre of Legal Medicine; Geneva-Lausanne Switzerland
| | - Fabrizio Montecucco
- First Clinic of Internal Medicine, Department of Internal Medicine; University of Genoa; Genoa Italy
- Division of Cardiology, Foundation for Medical Researches, Faculty of Medicine; University of Geneva; Geneva Switzerland
| | - Aurélien Thomas
- Unit of Toxicology; University Centre of Legal Medicine; Geneva-Lausanne Switzerland
- Faculty of Biology and Medicine; Lausanne University Hospital; University of Lausanne; Lausanne Switzerland
| | - Pierre Chaurand
- Department of Chemistry; University of Montreal; Montreal Quebec Canada
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Martin-Lorenzo M, Alvarez-Llamas G, McDonnell LA, Vivanco F. Molecular histology of arteries: mass spectrometry imaging as a novelex vivotool to investigate atherosclerosis. Expert Rev Proteomics 2015; 13:69-81. [DOI: 10.1586/14789450.2016.1116944] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
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36
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Palmer A, Ovchinnikova E, Thuné M, Lavigne R, Guével B, Dyatlov A, Vitek O, Pineau C, Borén M, Alexandrov T. Using collective expert judgements to evaluate quality measures of mass spectrometry images. Bioinformatics 2015; 31:i375-84. [PMID: 26072506 PMCID: PMC4765867 DOI: 10.1093/bioinformatics/btv266] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023] Open
Abstract
Motivation: Imaging mass spectrometry (IMS) is a maturating technique of molecular imaging. Confidence in the reproducible quality of IMS data is essential for its integration into routine use. However, the predominant method for assessing quality is visual examination, a time consuming, unstandardized and non-scalable approach. So far, the problem of assessing the quality has only been marginally addressed and existing measures do not account for the spatial information of IMS data. Importantly, no approach exists for unbiased evaluation of potential quality measures. Results: We propose a novel approach for evaluating potential measures by creating a gold-standard set using collective expert judgements upon which we evaluated image-based measures. To produce a gold standard, we engaged 80 IMS experts, each to rate the relative quality between 52 pairs of ion images from MALDI-TOF IMS datasets of rat brain coronal sections. Experts’ optional feedback on their expertise, the task and the survey showed that (i) they had diverse backgrounds and sufficient expertise, (ii) the task was properly understood, and (iii) the survey was comprehensible. A moderate inter-rater agreement was achieved with Krippendorff’s alpha of 0.5. A gold-standard set of 634 pairs of images with accompanying ratings was constructed and showed a high agreement of 0.85. Eight families of potential measures with a range of parameters and statistical descriptors, giving 143 in total, were evaluated. Both signal-to-noise and spatial chaos-based measures performed highly with a correlation of 0.7 to 0.9 with the gold standard ratings. Moreover, we showed that a composite measure with the linear coefficients (trained on the gold standard with regularized least squares optimization and lasso) showed a strong linear correlation of 0.94 and an accuracy of 0.98 in predicting which image in a pair was of higher quality. Availability and implementation: The anonymized data collected from the survey and the Matlab source code for data processing can be found at: https://github.com/alexandrovteam/IMS_quality. Contact:theodore.alexandrov@embl.de
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Affiliation(s)
- Andrew Palmer
- European Molecular Biology Laboratory, Heidelberg, Germany, Center for Industrial Mathematics, University of Bremen, Bremen, Germany, High Performance Humanoid Technologies Lab, Institute for Anthropomatics, Karlsruhe Institute of Technology, Karlsruhe, Germany, Denator, Uppsala, Sweden, Protim, Inserm U1085 - Irset, University of Rennes 1, Rennes, France, SCiLS GmbH, Bremen, Germany, College of Computer and Information Science, Northeastern University, Boston, MA, USA and Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA European Molecular Biology Laboratory, Heidelberg, Germany, Center for Industrial Mathematics, University of Bremen, Bremen, Germany, High Performance Humanoid Technologies Lab, Institute for Anthropomatics, Karlsruhe Institute of Technology, Karlsruhe, Germany, Denator, Uppsala, Sweden, Protim, Inserm U1085 - Irset, University of Rennes 1, Rennes, France, SCiLS GmbH, Bremen, Germany, College of Computer and Information Science, Northeastern University, Boston, MA, USA and Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA
| | - Ekaterina Ovchinnikova
- European Molecular Biology Laboratory, Heidelberg, Germany, Center for Industrial Mathematics, University of Bremen, Bremen, Germany, High Performance Humanoid Technologies Lab, Institute for Anthropomatics, Karlsruhe Institute of Technology, Karlsruhe, Germany, Denator, Uppsala, Sweden, Protim, Inserm U1085 - Irset, University of Rennes 1, Rennes, France, SCiLS GmbH, Bremen, Germany, College of Computer and Information Science, Northeastern University, Boston, MA, USA and Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA European Molecular Biology Laboratory, Heidelberg, Germany, Center for Industrial Mathematics, University of Bremen, Bremen, Germany, High Performance Humanoid Technologies Lab, Institute for Anthropomatics, Karlsruhe Institute of Technology, Karlsruhe, Germany, Denator, Uppsala, Sweden, Protim, Inserm U1085 - Irset, University of Rennes 1, Rennes, France, SCiLS GmbH, Bremen, Germany, College of Computer and Information Science, Northeastern University, Boston, MA, USA and Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA
| | - Mikael Thuné
- European Molecular Biology Laboratory, Heidelberg, Germany, Center for Industrial Mathematics, University of Bremen, Bremen, Germany, High Performance Humanoid Technologies Lab, Institute for Anthropomatics, Karlsruhe Institute of Technology, Karlsruhe, Germany, Denator, Uppsala, Sweden, Protim, Inserm U1085 - Irset, University of Rennes 1, Rennes, France, SCiLS GmbH, Bremen, Germany, College of Computer and Information Science, Northeastern University, Boston, MA, USA and Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA
| | - Régis Lavigne
- European Molecular Biology Laboratory, Heidelberg, Germany, Center for Industrial Mathematics, University of Bremen, Bremen, Germany, High Performance Humanoid Technologies Lab, Institute for Anthropomatics, Karlsruhe Institute of Technology, Karlsruhe, Germany, Denator, Uppsala, Sweden, Protim, Inserm U1085 - Irset, University of Rennes 1, Rennes, France, SCiLS GmbH, Bremen, Germany, College of Computer and Information Science, Northeastern University, Boston, MA, USA and Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA
| | - Blandine Guével
- European Molecular Biology Laboratory, Heidelberg, Germany, Center for Industrial Mathematics, University of Bremen, Bremen, Germany, High Performance Humanoid Technologies Lab, Institute for Anthropomatics, Karlsruhe Institute of Technology, Karlsruhe, Germany, Denator, Uppsala, Sweden, Protim, Inserm U1085 - Irset, University of Rennes 1, Rennes, France, SCiLS GmbH, Bremen, Germany, College of Computer and Information Science, Northeastern University, Boston, MA, USA and Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA
| | - Andrey Dyatlov
- European Molecular Biology Laboratory, Heidelberg, Germany, Center for Industrial Mathematics, University of Bremen, Bremen, Germany, High Performance Humanoid Technologies Lab, Institute for Anthropomatics, Karlsruhe Institute of Technology, Karlsruhe, Germany, Denator, Uppsala, Sweden, Protim, Inserm U1085 - Irset, University of Rennes 1, Rennes, France, SCiLS GmbH, Bremen, Germany, College of Computer and Information Science, Northeastern University, Boston, MA, USA and Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA European Molecular Biology Laboratory, Heidelberg, Germany, Center for Industrial Mathematics, University of Bremen, Bremen, Germany, High Performance Humanoid Technologies Lab, Institute for Anthropomatics, Karlsruhe Institute of Technology, Karlsruhe, Germany, Denator, Uppsala, Sweden, Protim, Inserm U1085 - Irset, University of Rennes 1, Rennes, France, SCiLS GmbH, Bremen, Germany, College of Computer and Information Science, Northeastern University, Boston, MA, USA and Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA
| | - Olga Vitek
- European Molecular Biology Laboratory, Heidelberg, Germany, Center for Industrial Mathematics, University of Bremen, Bremen, Germany, High Performance Humanoid Technologies Lab, Institute for Anthropomatics, Karlsruhe Institute of Technology, Karlsruhe, Germany, Denator, Uppsala, Sweden, Protim, Inserm U1085 - Irset, University of Rennes 1, Rennes, France, SCiLS GmbH, Bremen, Germany, College of Computer and Information Science, Northeastern University, Boston, MA, USA and Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA
| | - Charles Pineau
- European Molecular Biology Laboratory, Heidelberg, Germany, Center for Industrial Mathematics, University of Bremen, Bremen, Germany, High Performance Humanoid Technologies Lab, Institute for Anthropomatics, Karlsruhe Institute of Technology, Karlsruhe, Germany, Denator, Uppsala, Sweden, Protim, Inserm U1085 - Irset, University of Rennes 1, Rennes, France, SCiLS GmbH, Bremen, Germany, College of Computer and Information Science, Northeastern University, Boston, MA, USA and Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA
| | - Mats Borén
- European Molecular Biology Laboratory, Heidelberg, Germany, Center for Industrial Mathematics, University of Bremen, Bremen, Germany, High Performance Humanoid Technologies Lab, Institute for Anthropomatics, Karlsruhe Institute of Technology, Karlsruhe, Germany, Denator, Uppsala, Sweden, Protim, Inserm U1085 - Irset, University of Rennes 1, Rennes, France, SCiLS GmbH, Bremen, Germany, College of Computer and Information Science, Northeastern University, Boston, MA, USA and Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA
| | - Theodore Alexandrov
- European Molecular Biology Laboratory, Heidelberg, Germany, Center for Industrial Mathematics, University of Bremen, Bremen, Germany, High Performance Humanoid Technologies Lab, Institute for Anthropomatics, Karlsruhe Institute of Technology, Karlsruhe, Germany, Denator, Uppsala, Sweden, Protim, Inserm U1085 - Irset, University of Rennes 1, Rennes, France, SCiLS GmbH, Bremen, Germany, College of Computer and Information Science, Northeastern University, Boston, MA, USA and Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA European Molecular Biology Laboratory, Heidelberg, Germany, Center for Industrial Mathematics, University of Bremen, Bremen, Germany, High Performance Humanoid Technologies Lab, Institute for Anthropomatics, Karlsruhe Institute of Technology, Karlsruhe, Germany, Denator, Uppsala, Sweden, Protim, Inserm U1085 - Irset, University of Rennes 1, Rennes, France, SCiLS GmbH, Bremen, Germany, College of Computer and Information Science, Northeastern University, Boston, MA, USA and Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA European Molecular Biology Laboratory, Heidelberg, Germany, Center for Industrial Mathematics, University of Bremen, Bremen, Germany, High Performance Humanoid Technologies Lab, Institute for Anthropomatics, Karlsruhe Institute of Technology, Karlsruhe, Germany, Denator, Uppsala, Sweden, Protim, Inserm U1085 - Irset, University of Rennes 1, Rennes, France, SCiLS GmbH, Bremen, Germany, College of Computer and Information Science, Northeastern University, Boston, MA, USA and Skaggs School of Pharmacy and Pharmaceutical Sciences, University of California San Diego, La Jolla, CA, USA European Molecular Biology Laboratory, Heidelberg, Germany, Center for Industrial Mathematics, University of Bremen, Bremen, Germany, High Performance Humanoid Technologies Lab, Institute for Anthropomatics, Karlsruhe Institute of Technolo
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Yamazaki K, Masaki N, Kohmura-Kobayashi Y, Yaguchi C, Hayasaka T, Itoh H, Setou M, Kanayama N. Decrease in Sphingomyelin (d18:1/16:0) in Stem Villi and Phosphatidylcholine (16:0/20:4) in Terminal Villi of Human Term Placentas with Pathohistological Maternal Malperfusion. PLoS One 2015; 10:e0142609. [PMID: 26569622 PMCID: PMC4646668 DOI: 10.1371/journal.pone.0142609] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/13/2015] [Accepted: 10/23/2015] [Indexed: 12/20/2022] Open
Abstract
Placental villi play pivotal roles in feto-maternal transportation and phospholipids constitute a major part of the villous membrane. We have been developing and optimizing an imaging system based on a matrix-assisted laser desorption/ionization (MALDI)-based mass spectrometer, which provides clear two-dimensional molecular distribution patterns using highly sensitive mass spectrometry from mixtures of ions generated on tissue surfaces. We recently applied this technology to normal human uncomplicated term placentas and detected the specific distribution of sphingomyelin (SM) (d18:1/16:0) in stem villi and phosphatidylcholine (PC) (16:0/20:4) in terminal villi. In the present study, we applied this technology to nine placentas with maternal or fetal complications, and determined whether a relationship existed between these specific distribution patterns of phospholipid molecules and the six representative pathological findings of placentas, i.e., villitis of unknown etiology (VUE), thrombus, atherosis, chorioamnionitis (CAM), immature terminal villi, and multiple branched terminal villi. In two placentas with the first and second largest total number of positive pathological findings, i.e., five and three positive findings, the specific distribution of SM (d18:1/16:0) in stem villi and PC (16:0/20:4) in terminal villi disappeared. The common pathological findings in these two placentas were atherosis, immature terminal villi, and multiple branched terminal villi, suggesting the possible involvement of the underperfusion of maternal blood into the intervillous space. On the other hand, the number of pathological findings were two or less in the seven other placentas, in which no specific relationships were observed between the differential expression patterns of these two phospholipids in stem and terminal villi and the pathological findings of the placentas; however, the specific distribution pattern of SM (d18:1/16:0) in stem villi disappeared in four placentas, while that of PC (16:0/20:4) in terminal villi was preserved. These results suggested that the absence of the specific distribution of PC (16:0/20:4) in terminal villi, possibly in combination with the absence of SM (d18:1/16:0) in stem villi, was linked to placental morphological changes in response to maternal underperfusion of the placenta.
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Affiliation(s)
- Kaori Yamazaki
- Department of Obstetrics and Gynecology, Hamamatsu University School of Medicine, Hamamatsu, Japan
| | - Noritaka Masaki
- Department of Cell Biology and Anatomy, Hamamatsu University School of Medicine, Hamamatsu, Japan
| | - Yukiko Kohmura-Kobayashi
- Department of Obstetrics and Gynecology, Hamamatsu University School of Medicine, Hamamatsu, Japan
| | - Chizuko Yaguchi
- Department of Obstetrics and Gynecology, Hamamatsu University School of Medicine, Hamamatsu, Japan
| | - Takahiro Hayasaka
- Department of Cell Biology and Anatomy, Hamamatsu University School of Medicine, Hamamatsu, Japan
- Faculty of Health Sciences, Health Innovation & Technology Center, Hokkaido University, Sapporo, Japan
- Department of Food and Health Research by NB and LSI, Global Research Center for Food & Medical Innovation, Sapporo, Japan
| | - Hiroaki Itoh
- Department of Obstetrics and Gynecology, Hamamatsu University School of Medicine, Hamamatsu, Japan
- * E-mail:
| | - Mitsutoshi Setou
- Department of Cell Biology and Anatomy, Hamamatsu University School of Medicine, Hamamatsu, Japan
| | - Naohiro Kanayama
- Department of Obstetrics and Gynecology, Hamamatsu University School of Medicine, Hamamatsu, Japan
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Rosen EP, Bokhart MT, Nazari M, Muddiman DC. Influence of C-Trap Ion Accumulation Time on the Detectability of Analytes in IR-MALDESI MSI. Anal Chem 2015; 87:10483-90. [PMID: 26414177 PMCID: PMC5291932 DOI: 10.1021/acs.analchem.5b02641] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Abstract
Laser desorption followed by post electrospray ionization requires synchronized timing of the key events (sample desorption/ionization, mass spectrometry analysis, and sample translation) necessary to conduct mass spectrometry imaging (MSI) with adequate analyte sensitivity. In infrared matrix-assisted laser desorption electrospray ionization (IR-MALDESI) MSI analyses, two laser pulses are used for analysis at each volumetric element, or voxel, of a biological sample and ion accumulation in the C-trap exceeding 100 ms is necessary to capture all sample-associated ions using an infrared laser with a 20 Hz repetition rate. When coupled to an Orbitrap-based mass spectrometer like the Q Exactive Plus, this time window for ion accumulation exceeds dynamically controlled trapping of samples with comparable ion flux by Automatic Gain Control (AGC), which cannot be used during MSI analysis. In this work, a next-generation IR-MALDESI source has been designed and constructed that incorporates a mid-infrared OPO laser capable of operating at 100 Hz and allows requisite C-trap inject time during MSI to be reduced to 30 ms. Analyte detectability of the next-generation IR-MALDESI integrated source has been evaluated as a function of laser repetition rate (100-20 Hz) with corresponding C-trap ion accumulation times (30-110 ms) in both untargeted and targeted analysis of biological samples. Reducing the C-trap ion accumulation time resulted in increased ion abundance by up to 3 orders of magnitude for analytes ranging from xenobiotics to endogenous lipids, and facilitated the reduction of voxel-to-voxel variability by more than 3-fold.
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Affiliation(s)
- Elias P. Rosen
- W.M. Keck FTMS Laboratory for Human Health Research, Department of Chemistry, North Carolina State University, Raleigh, North Carolina 27695
| | - Mark T. Bokhart
- W.M. Keck FTMS Laboratory for Human Health Research, Department of Chemistry, North Carolina State University, Raleigh, North Carolina 27695
| | - Milad Nazari
- W.M. Keck FTMS Laboratory for Human Health Research, Department of Chemistry, North Carolina State University, Raleigh, North Carolina 27695
| | - David C. Muddiman
- W.M. Keck FTMS Laboratory for Human Health Research, Department of Chemistry, North Carolina State University, Raleigh, North Carolina 27695
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Boughton BA, Thinagaran D, Sarabia D, Bacic A, Roessner U. Mass spectrometry imaging for plant biology: a review. PHYTOCHEMISTRY REVIEWS : PROCEEDINGS OF THE PHYTOCHEMICAL SOCIETY OF EUROPE 2015; 15:445-488. [PMID: 27340381 PMCID: PMC4870303 DOI: 10.1007/s11101-015-9440-2] [Citation(s) in RCA: 155] [Impact Index Per Article: 17.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/18/2015] [Accepted: 09/25/2015] [Indexed: 05/09/2023]
Abstract
Mass spectrometry imaging (MSI) is a developing technique to measure the spatio-temporal distribution of many biomolecules in tissues. Over the preceding decade, MSI has been adopted by plant biologists and applied in a broad range of areas, including primary metabolism, natural products, plant defense, plant responses to abiotic and biotic stress, plant lipids and the developing field of spatial metabolomics. This review covers recent advances in plant-based MSI, general aspects of instrumentation, analytical approaches, sample preparation and the current trends in respective plant research.
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Affiliation(s)
- Berin A. Boughton
- />Metabolomics Australia, School of BioSciences, The University of Melbourne, Parkville, VIC 3010 Australia
| | - Dinaiz Thinagaran
- />School of BioSciences, The University of Melbourne, Parkville, VIC 3010 Australia
| | - Daniel Sarabia
- />School of BioSciences, The University of Melbourne, Parkville, VIC 3010 Australia
| | - Antony Bacic
- />School of BioSciences, The University of Melbourne, Parkville, VIC 3010 Australia
- />ARC Centre of Excellence in Plant Cell Walls, School of BioSciences, University of Melbourne, Parkville, VIC 3010 Australia
- />Bio21 Molecular Science and Biotechnology Institute, University of Melbourne, Parkville, VIC 3010 Australia
| | - Ute Roessner
- />School of BioSciences, The University of Melbourne, Parkville, VIC 3010 Australia
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Yeat NC, Lin C, Sager M, Lin J. Cancer proteomics: developments in technology, clinical use and commercialization. Expert Rev Proteomics 2015; 12:391-405. [PMID: 26145529 DOI: 10.1586/14789450.2015.1051969] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
In the last two decades, advances in genomic, transcriptomic and proteomic methods have enabled us to identify and classify cancers by their molecular profiles. Many anticipate that a molecular taxonomy of cancer will not only lead to more effective subtyping of cancers but also earlier diagnoses, more informative prognoses and more targeted treatments. This article reviews recent technological developments in the field of proteomics, recent discoveries in proteomic cancer biomarker research and trends in clinical use. Readers are also informed of examples of successful commercialization, and the future of proteomics in cancer diagnostics.
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Affiliation(s)
- Nai Chien Yeat
- Rare Genomics Institute, 4100 Forest Park, St. Louis, MO 63108, USA
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Lauzon N, Dufresne M, Chauhan V, Chaurand P. Development of laser desorption imaging mass spectrometry methods to investigate the molecular composition of latent fingermarks. JOURNAL OF THE AMERICAN SOCIETY FOR MASS SPECTROMETRY 2015; 26:878-886. [PMID: 25846823 DOI: 10.1007/s13361-015-1123-0] [Citation(s) in RCA: 47] [Impact Index Per Article: 5.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/15/2014] [Revised: 03/03/2015] [Accepted: 03/03/2015] [Indexed: 06/04/2023]
Abstract
For a century, fingermark analysis has been one of the most important and common methods in forensic investigations. Modern chemical analysis technologies have added the potential to determine the molecular composition of fingermarks and possibly identify chemicals a suspect may have come into contact with. Improvements in analytical detection of the molecular composition of fingermarks is therefore of great importance. In this regard, matrix-assisted laser desorption ionization (MALDI) and laser desorption ionization (LDI) imaging mass spectrometry (IMS) have proven to be useful technologies for fingermark analysis. In these analyses, the choice of ionizing agent and its mode of deposition are critical steps for the identification of molecular markers. Here we propose two novel and complementary IMS approaches for endogenous and exogenous substance detection in fingermarks: sublimation of 2-mercaptobenzothiazol (2-MBT) matrix and silver sputtering.
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Affiliation(s)
- Nidia Lauzon
- Department of Chemistry, Université de Montréal, C.P. 6128, Succursale Centre-ville, Montréal, Québec, H3C 3J7, Canada
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Abstract
The study of a drug's dermal penetration profile provides important pharmaceutical data for the rational development of topical and transdermal delivery systems because the skin is a broadly used delivery route for local and systemic drugs and a potential route for gene therapy and vaccines. Monitoring drug penetration across the skin and quantifying its levels in different skin layers have been constant challenges due to the detection limitations of the available techniques, as well as the inherent interference in this tissue. This review explores and discusses several bionalytical methods that are indispensable tools to study drugs across the skin. In addressing the main topic, we structure the review highlighting the skin as an important route of drug administration and its structure, skin membrane models most used and its properties, in vitro and in vivo assays most used in the study of drug delivery to the skin, the techniques for processing the skin for subsequent analysis by bioanalytical methods that have a theoretical and practical approach showing its applicability, limitations and also including examples of its use. This review has a comprehensive approach in order to help researchers design their experiments and update the applicability and advances in this area of expertise.
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Taverna D, Boraldi F, De Santis G, Caprioli RM, Quaglino D. Histology-directed and imaging mass spectrometry: An emerging technology in ectopic calcification. Bone 2015; 74:83-94. [PMID: 25595835 PMCID: PMC4355241 DOI: 10.1016/j.bone.2015.01.004] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 09/27/2014] [Revised: 12/24/2014] [Accepted: 01/07/2015] [Indexed: 01/18/2023]
Abstract
The present study was designed to demonstrate the potential of an optimized histology directed protein identification combined with imaging mass spectrometry technology to reveal and identify molecules associated to ectopic calcification in human tissue. As a proof of concept, mineralized and non-mineralized areas were compared within the same dermal tissue obtained from a patient affected by Pseudoxanthoma elasticum, a genetic disorder characterized by calcification only at specific sites of soft connective tissues. Data have been technically validated on a contralateral dermal tissue from the same subject and compared with those from control healthy skin. Results demonstrate that this approach 1) significantly reduces the effects generated by techniques that, disrupting tissue organization, blend data from affected and unaffected areas; 2) demonstrates that, abolishing differences due to inter-individual variability, mineralized and non-mineralized areas within the same sample have a specific protein profile and have a different distribution of molecules; and 3) avoiding the bias of focusing on already known molecules, reveals a number of proteins that have been never related to the disease nor to the calcification process, thus paving the way for the selection of new molecules to be validated as pathogenic or as potential pharmacological targets.
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Affiliation(s)
- Domenico Taverna
- Department of Chemistry and Chemical Technologies, University of Calabria, Arcavacata di Rende, Italy
| | - Federica Boraldi
- Department of Life Sciences, University of Modena and Reggio Emilia, Modena, Italy
| | - Giorgio De Santis
- Department of Medical and Surgical Sciences for Children and Adults, University of Modena and Reggio Emilia, Modena, Italy
| | - Richard M Caprioli
- Departments of Biochemistry, Medicine, Pharmacology and Chemistry and the Mass Spectrometry Research Center, Vanderbilt University Medical Center, Nashville, USA
| | - Daniela Quaglino
- Department of Life Sciences, University of Modena and Reggio Emilia, Modena, Italy
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Acute amnestic encephalopathy in amyloid-β oligomer-injected mice is due to their widespread diffusion in vivo. Neurobiol Aging 2015; 36:2043-52. [PMID: 25862419 DOI: 10.1016/j.neurobiolaging.2015.03.005] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2014] [Revised: 02/17/2015] [Accepted: 03/08/2015] [Indexed: 12/13/2022]
Abstract
Amyloid-β (Aβ) oligomers are the suspected culprit as initiators of Alzheimer's disease (AD). However, their diffusion in the brain remains unknown. Here, we studied Aβ oligomers' dissemination and evaluated their in vivo toxicity. Wild-type mice were injected with 50 pmol of synthetic Aβ oligomers (of different size) in the hippocampus. Oligomers diffused largely in the brain as soon as 1 hour and up to 7 days after injection. A transient encephalopathy with memory impairment was induced by this unique injection. The immunoreactivity of the postsynaptic marker PSD95 was diffusely decreased. Similar results (both on memory and PSD95 immunoreactivity) were obtained with delipidated and high molecular weight oligomers (>50 kDa) but not with smaller assemblies. Tau hyperphosphorylation was observed in the oligomer-injected brains. Finally, fos immunostaining was increased in Aβ-derived diffusible ligands-injected mice, suggesting neuronal hyperactivity. Rapid and widespread diffusion of Aβ oligomers was demonstrated in vivo and associated with decreased synaptic markers and memory deficits which gives new insight to the pathogenicity of Aβ.
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Sosnowski P, Zera T, Wilenska B, Szczepanska-Sadowska E, Misicka A. Imaging and identification of endogenous peptides from rat pituitary embedded in egg yolk. RAPID COMMUNICATIONS IN MASS SPECTROMETRY : RCM 2015; 29:327-335. [PMID: 26406344 DOI: 10.1002/rcm.7112] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/17/2014] [Revised: 11/27/2014] [Accepted: 11/30/2014] [Indexed: 06/05/2023]
Abstract
RATIONALE Mass spectrometry imaging (MSI) can provide accurate data containing the spatial distribution of endogenous peptides in tissue sections without previous treatment. One of the key issues in analyzing small samples is establishing a proper technique for mounting and manipulating collected tissue in order to avoid contamination of the sample with optimal cutting temperature (OCT) resin. METHODS We present a method for embedding rat pituitary tissue in a frozen egg yolk block, which enables its further imaging in experiments on a matrix-assisted laser desorption/ionization (MALDI) mass spectrometer with time-of-flight (TOF) analyzer. Embedding the sample in the egg yolk prevents contamination from the OCT resin, which decreases MALDI signal quality. RESULTS In the present study we detected numerous m/z peaks related to endogenous peptides. We identified fifteen peptides and their post-translational modifications by tandem mass spectrometry (MS/MS) directly on tissue sections of the hypophysis posterior and intermediate lobes; among these peptides were vasopressin, oxytocin, copeptin, melanocyte-stimulating hormones and beta-endorphin. We also showed that egg yolk itself does not affect localization of peptides in the pituitary. CONCLUSIONS Egg yolk embedding enables preparation of tissue sections from small tissue fragments to organs such as the pituitary gland, which is suitable for localization and identification of endogenous peptides by the MALDI-MSI and MALDI-MS/MS techniques.
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Affiliation(s)
- Piotr Sosnowski
- Faculty of Chemistry, Biological and Chemical Research Centre, University of Warsaw, Pasteura 1, 02-093, Warsaw, Poland
| | - Tymoteusz Zera
- Department of Experimental and Clinical Physiology, Laboratory of Centre for Preclinical Research, The Medical University of Warsaw, Banacha 1B, 02-097, Warsaw, Poland
| | - Beata Wilenska
- Faculty of Chemistry, Biological and Chemical Research Centre, University of Warsaw, Pasteura 1, 02-093, Warsaw, Poland
| | - Ewa Szczepanska-Sadowska
- Department of Experimental and Clinical Physiology, Laboratory of Centre for Preclinical Research, The Medical University of Warsaw, Banacha 1B, 02-097, Warsaw, Poland
| | - Aleksandra Misicka
- Faculty of Chemistry, Biological and Chemical Research Centre, University of Warsaw, Pasteura 1, 02-093, Warsaw, Poland
- Mossakowski Medical Research Centre, Polish Academy of Sciences, Pawinskiego 5, 02-106, Warsaw, Poland
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Van de Plas R, Yang J, Spraggins J, Caprioli RM. Image fusion of mass spectrometry and microscopy: a multimodality paradigm for molecular tissue mapping. Nat Methods 2015; 12:366-72. [PMID: 25707028 PMCID: PMC4382398 DOI: 10.1038/nmeth.3296] [Citation(s) in RCA: 180] [Impact Index Per Article: 20.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/05/2014] [Accepted: 12/08/2014] [Indexed: 01/04/2023]
Abstract
A new predictive imaging modality is created through the ‘fusion’ of two distinct technologies: imaging mass spectrometry (IMS) and microscopy. IMS-generated molecular maps, rich in chemical information but having coarse spatial resolution, are combined with optical microscopy maps, which have relatively low chemical specificity but high spatial information. The resulting images combine the advantages of both technologies, enabling prediction of a molecular distribution both at high spatial resolution and with high chemical specificity. Multivariate regression is used to model variables in one technology, using variables from the other technology. Several applications demonstrate the remarkable potential of image fusion: (i) ‘sharpening’ of IMS images, which uses microscopy measurements to predict ion distributions at a spatial resolution that exceeds that of measured ion images by ten times or more; (ii) prediction of ion distributions in tissue areas that were not measured by IMS; and (iii) enrichment of biological signals and attenuation of instrumental artifacts, revealing insights that are not easily extracted from either microscopy or IMS separately. Image fusion enables a new multi-modality paradigm for tissue exploration whereby mining relationships between different imaging sensors yields novel imaging modalities that combine and surpass what can be gleaned from the individual technologies alone.
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Affiliation(s)
- Raf Van de Plas
- 1] Mass Spectrometry Research Center, Vanderbilt University, Nashville, Tennessee, USA. [2] Department of Biochemistry, Vanderbilt University, Nashville, Tennessee, USA. [3] Delft Center for Systems and Control, Delft University of Technology, Delft, the Netherlands
| | - Junhai Yang
- 1] Mass Spectrometry Research Center, Vanderbilt University, Nashville, Tennessee, USA. [2] Department of Biochemistry, Vanderbilt University, Nashville, Tennessee, USA
| | - Jeffrey Spraggins
- 1] Mass Spectrometry Research Center, Vanderbilt University, Nashville, Tennessee, USA. [2] Department of Biochemistry, Vanderbilt University, Nashville, Tennessee, USA
| | - Richard M Caprioli
- 1] Mass Spectrometry Research Center, Vanderbilt University, Nashville, Tennessee, USA. [2] Department of Biochemistry, Vanderbilt University, Nashville, Tennessee, USA. [3] Department of Chemistry, Vanderbilt University, Nashville, Tennessee, USA. [4] Department of Pharmacology, Vanderbilt University, Nashville, Tennessee, USA. [5] Department of Medicine, Vanderbilt University, Nashville, Tennessee, USA
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Guenther S, Muirhead LJ, Speller AVM, Golf O, Strittmatter N, Ramakrishnan R, Goldin RD, Jones E, Veselkov K, Nicholson J, Darzi A, Takats Z. Spatially resolved metabolic phenotyping of breast cancer by desorption electrospray ionization mass spectrometry. Cancer Res 2015; 75:1828-37. [PMID: 25691458 DOI: 10.1158/0008-5472.can-14-2258] [Citation(s) in RCA: 119] [Impact Index Per Article: 13.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2014] [Accepted: 01/20/2015] [Indexed: 11/16/2022]
Abstract
Breast cancer is a heterogeneous disease characterized by varying responses to therapeutic agents and significant differences in long-term survival. Thus, there remains an unmet need for early diagnostic and prognostic tools and improved histologic characterization for more accurate disease stratification and personalized therapeutic intervention. This study evaluated a comprehensive metabolic phenotyping method in breast cancer tissue that uses desorption electrospray ionization mass spectrometry imaging (DESI MSI), both as a novel diagnostic tool and as a method to further characterize metabolic changes in breast cancer tissue and the tumor microenvironment. In this prospective single-center study, 126 intraoperative tissue biopsies from tumor and tumor bed from 50 patients undergoing surgical resections were subject to DESI MSI. Global DESI MSI models were able to distinguish adipose, stromal, and glandular tissue based on their metabolomic fingerprint. Tumor tissue and tumor-associated stroma showed evident changes in their fatty acid and phospholipid composition compared with normal glandular and stromal tissue. Diagnosis of breast cancer was achieved with an accuracy of 98.2% based on DESI MSI data (PPV 0.96, NVP 1, specificity 0.96, sensitivity 1). In the tumor group, correlation between metabolomic profile and tumor grade/hormone receptor status was found. Overall classification accuracy was 87.7% (PPV 0.92, NPV 0.9, specificity 0.9, sensitivity 0.92). These results demonstrate that DESI MSI may be a valuable tool in the improved diagnosis of breast cancer in the future. The identified tumor-associated metabolic changes support theories of de novo lipogenesis in tumor tissue and the role of stroma tissue in tumor growth and development and overall disease prognosis.
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Affiliation(s)
- Sabine Guenther
- Section of Computational and Systems Medicine, Department of Surgery and Cancer, Faculty of Medicine, Imperial College London, London, United Kingdom
| | - Laura J Muirhead
- Section of Biosurgery and Surgical Technology, Department of Surgery and Cancer, Faculty of Medicine, Imperial College London, London, United Kingdom
| | - Abigail V M Speller
- Section of Computational and Systems Medicine, Department of Surgery and Cancer, Faculty of Medicine, Imperial College London, London, United Kingdom
| | - Ottmar Golf
- Section of Computational and Systems Medicine, Department of Surgery and Cancer, Faculty of Medicine, Imperial College London, London, United Kingdom
| | - Nicole Strittmatter
- Section of Computational and Systems Medicine, Department of Surgery and Cancer, Faculty of Medicine, Imperial College London, London, United Kingdom
| | - Rathi Ramakrishnan
- Centre for Pathology, Department of Medicine, Imperial College London, London, United Kingdom
| | - Robert D Goldin
- Centre for Pathology, Department of Medicine, Imperial College London, London, United Kingdom
| | - Emrys Jones
- Section of Computational and Systems Medicine, Department of Surgery and Cancer, Faculty of Medicine, Imperial College London, London, United Kingdom
| | - Kirill Veselkov
- Section of Computational and Systems Medicine, Department of Surgery and Cancer, Faculty of Medicine, Imperial College London, London, United Kingdom
| | - Jeremy Nicholson
- Section of Computational and Systems Medicine, Department of Surgery and Cancer, Faculty of Medicine, Imperial College London, London, United Kingdom
| | - Ara Darzi
- Section of Biosurgery and Surgical Technology, Department of Surgery and Cancer, Faculty of Medicine, Imperial College London, London, United Kingdom
| | - Zoltan Takats
- Section of Computational and Systems Medicine, Department of Surgery and Cancer, Faculty of Medicine, Imperial College London, London, United Kingdom.
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Abstract
Infrared laser ablation sample transfer (IR-LAST) is a novel ambient sampling technique for mass spectrometry. In this technique, a pulsed mid-IR laser is used to ablate materials that are collected for mass spectrometry analysis; the material can be a solid sample or deposited on a sample target. After collection, the sample can be further separated or analyzed directly by mass spectrometry. For IR-LAST sample transfer tissue imaging using MALDI mass spectrometry, a tissue section is placed on a sample slide and material transferred to a target slide by scanning the tissue sample under a focused laser beam using transmission-mode (back side) IR laser ablation. After transfer, the target slide is analyzed using MALDI imaging. The spatial resolution is approximately 400 μm and limited by the spread of the laser desorption plume. IR-LAST for MALDI imaging provides several new capabilities including ambient sampling, area to spot concentration of ablated material, multiple ablation and analysis from a single section, and direct deposition on matrix-free nanostructured targets.
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Affiliation(s)
- Sung-Gun Park
- Department of Chemistry, Louisiana State University, Baton Rouge, LA, 70803, USA
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Abstract
Enriched by a decade of remarkable developments, matrix-assisted laser desorption ionization imaging mass spectrometry (MALDI IMS) has witnessed a phenomenal expansion. Initially introduced for the mapping of peptides and intact proteins from mammalian tissue sections, MALDI IMS applications now extend to a wide range of molecules including peptides, lipids, metabolites and xenobiotics. Technology and methodology are quickly evolving to push the limits of the technique forward. Within a short period of time, numerous protocols and concepts have been developed and introduced in tissue section preparation, nonexhaustively including in situ tissue chemistries and solvent-free matrix depositions. Considering the past progress and current capabilities, this Review aims to cover the different aspects and challenges of tissue section preparation for MALDI IMS.
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