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Ganesh S, Hu T, Woods E, Allam M, Cai S, Henderson W, Coskun AF. Spatially resolved 3D metabolomic profiling in tissues. SCIENCE ADVANCES 2021; 7:eabd0957. [PMID: 33571119 PMCID: PMC7840140 DOI: 10.1126/sciadv.abd0957] [Citation(s) in RCA: 24] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/04/2020] [Accepted: 12/04/2020] [Indexed: 05/02/2023]
Abstract
Spatially resolved RNA and protein molecular analyses have revealed unexpected heterogeneity of cells. Metabolic analysis of individual cells complements these single-cell studies. Here, we present a three-dimensional spatially resolved metabolomic profiling framework (3D-SMF) to map out the spatial organization of metabolic fragments and protein signatures in immune cells of human tonsils. In this method, 3D metabolic profiles were acquired by time-of-flight secondary ion mass spectrometry to profile up to 189 compounds. Ion beams were used to measure sub-5-nanometer layers of tissue across 150 sections of a tonsil. To incorporate cell specificity, tonsil tissues were labeled by an isotope-tagged antibody library. To explore relations of metabolic and cellular features, we carried out data reduction, 3D spatial correlations and classifications, unsupervised K-means clustering, and network analyses. Immune cells exhibited spatially distinct lipidomic fragment distributions in lymphatic tissue. The 3D-SMF pipeline affects studying the immune cells in health and disease.
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Affiliation(s)
- Shambavi Ganesh
- Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, Atlanta, GA 30332, USA
- Electrical and Computer Engineering Department, Georgia Institute of Technology, Atlanta, GA 30332, USA
| | - Thomas Hu
- Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, Atlanta, GA 30332, USA
- Electrical and Computer Engineering Department, Georgia Institute of Technology, Atlanta, GA 30332, USA
| | - Eric Woods
- School of Biological Sciences, Georgia Institute of Technology, Atlanta, GA, USA
- Institute for Electronics and Nanotechnology, Georgia Institute of Technology, Atlanta, GA 30332, USA
| | - Mayar Allam
- Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, Atlanta, GA 30332, USA
| | - Shuangyi Cai
- Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, Atlanta, GA 30332, USA
| | - Walter Henderson
- School of Biological Sciences, Georgia Institute of Technology, Atlanta, GA, USA
- Institute for Electronics and Nanotechnology, Georgia Institute of Technology, Atlanta, GA 30332, USA
| | - Ahmet F Coskun
- Wallace H. Coulter Department of Biomedical Engineering, Georgia Institute of Technology and Emory University, Atlanta, GA 30332, USA.
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Jesmer AH, Wylie RG. Controlling Experimental Parameters to Improve Characterization of Biomaterial Fouling. Front Chem 2020; 8:604236. [PMID: 33363113 PMCID: PMC7759637 DOI: 10.3389/fchem.2020.604236] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2020] [Accepted: 10/30/2020] [Indexed: 12/17/2022] Open
Abstract
Uncontrolled protein adsorption and cell binding to biomaterial surfaces may lead to degradation, implant failure, infection, and deleterious inflammatory and immune responses. The accurate characterization of biofouling is therefore crucial for the optimization of biomaterials and devices that interface with complex biological environments composed of macromolecules, fluids, and cells. Currently, a diverse array of experimental conditions and characterization techniques are utilized, making it difficult to compare reported fouling values between similar or different biomaterials. This review aims to help scientists and engineers appreciate current limitations and conduct fouling experiments to facilitate the comparison of reported values and expedite the development of low-fouling materials. Recent advancements in the understanding of protein-interface interactions and fouling variability due to experiment conditions will be highlighted to discuss protein adsorption and cell adhesion and activation on biomaterial surfaces.
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Affiliation(s)
| | - Ryan G. Wylie
- Department of Chemistry and Chemical Biology, Hamilton, ON, Canada
- School of Biomedical Engineering, McMaster University, Hamilton, ON, Canada
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Madiona RMT, Welch NG, Muir BW, Winkler DA, Pigram PJ. Rapid evaluation of immobilized immunoglobulins using automated mass-segmented ToF-SIMS. Biointerphases 2019; 14:061002. [DOI: 10.1063/1.5121450] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/29/2023] Open
Affiliation(s)
- Robert M. T. Madiona
- Centre for Materials and Surface Science and Department of Chemistry and Physics, School of Molecular Sciences, La Trobe University, Melbourne, Victoria 3086, Australia
- CSIRO Manufacturing, Clayton, Victoria 3168, Australia
| | - Nicholas G. Welch
- Centre for Materials and Surface Science and Department of Chemistry and Physics, School of Molecular Sciences, La Trobe University, Melbourne, Victoria 3086, Australia
- CSIRO Manufacturing, Clayton, Victoria 3168, Australia
| | | | - David A. Winkler
- CSIRO Manufacturing, Clayton, Victoria 3168, Australia
- La Trobe Institute for Molecular Sciences, School of Molecular Sciences, La Trobe University, Melbourne, Victoria 3086, Australia; Monash Institute of Pharmaceutical Sciences, Monash University, Parkville 3052, Australia; and School of Pharmacy, University of Nottingham, Nottingham NG7 2RD, United Kingdom
| | - Paul J. Pigram
- Centre for Materials and Surface Science and Department of Chemistry and Physics, School of Molecular Sciences, La Trobe University, Melbourne, Victoria 3086, Australia
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Madiona RMT, Bamford SE, Winkler DA, Muir BW, Pigram PJ. Distinguishing Chemically Similar Polyamide Materials with ToF-SIMS Using Self-Organizing Maps and a Universal Data Matrix. Anal Chem 2018; 90:12475-12484. [DOI: 10.1021/acs.analchem.8b01951] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Robert M. T. Madiona
- Centre for Materials and Surface Science and Department of Chemistry and Physics, School of Molecular Sciences, La Trobe University, Melbourne, VIC 3086, Australia
- CSIRO Manufacturing, Clayton, VIC 3168, Australia
| | - Sarah E. Bamford
- Centre for Materials and Surface Science and Department of Chemistry and Physics, School of Molecular Sciences, La Trobe University, Melbourne, VIC 3086, Australia
| | - David A. Winkler
- La Trobe Institute for Molecular Sciences, School of Molecular Sciences, La Trobe University, Melbourne, VIC 3086, Australia
- CSIRO Manufacturing, Clayton, VIC 3168, Australia
- Monash Institute of Pharmaceutical Sciences, Monash University, Parkville 3052, Australia
- School of Pharmacy, University of Nottingham, Nottingham NG7 2RD, U.K
| | | | - Paul J. Pigram
- Centre for Materials and Surface Science and Department of Chemistry and Physics, School of Molecular Sciences, La Trobe University, Melbourne, VIC 3086, Australia
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Madiona RM, Welch NG, Russell SB, Winkler DA, Scoble JA, Muir BW, Pigram PJ. Multivariate analysis of ToF-SIMS data using mass segmented peak lists. SURF INTERFACE ANAL 2018. [DOI: 10.1002/sia.6462] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
Affiliation(s)
- Robert M.T. Madiona
- Centre for Materials and Surface Science and Department of Chemistry and Physics, School of Molecular Sciences; La Trobe University; Melbourne VIC 3086 Australia
- CSIRO Manufacturing; Clayton VIC 3168 Australia
| | - Nicholas G. Welch
- Centre for Materials and Surface Science and Department of Chemistry and Physics, School of Molecular Sciences; La Trobe University; Melbourne VIC 3086 Australia
- CSIRO Manufacturing; Clayton VIC 3168 Australia
| | - Stephanie B. Russell
- Centre for Materials and Surface Science and Department of Chemistry and Physics, School of Molecular Sciences; La Trobe University; Melbourne VIC 3086 Australia
| | - David A. Winkler
- CSIRO Manufacturing; Clayton VIC 3168 Australia
- Department of Biochemistry and Genetics, School of Molecular Sciences; La Trobe University; Bundoora VIC 3086 Australia
- Monash Institute of Pharmaceutical Sciences; Monash University; Parkville 3052 Australia
- School of Pharmacy; University of Nottingham; Nottingham NG7 2RD UK
| | | | | | - Paul J. Pigram
- Centre for Materials and Surface Science and Department of Chemistry and Physics, School of Molecular Sciences; La Trobe University; Melbourne VIC 3086 Australia
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