Spatial profiling and data analysis in microbial metabolome analysis
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Authors
Yu, Jian
Date
2024-06-04
Type
thesis
Language
eng
Keyword
mass spectrometry , spatial profiling , data analysis , microbial metabolome
Alternative Title
Abstract
Spatial profiling, enhanced by various mass spectrometry (MS) techniques, is rapidly evolving as an innovative method to visualize the distribution of diverse metabolites. While much of the current research focuses on achieving micrometer-level spatial resolution, our work explores the liquid micro-junction surface sampling probe (LMJ-SSP) technique at the millimeter level. Our aim is to develop a rapid and robust protocol covering both sampling and data analysis.
In this thesis, we utilize the LMJ-SSP for rapid screening and spatial profiling of microbial natural products. LMJ-SSP demonstrates superior sampling throughput as no sample preparation is required. To enhance the throughput of analyzing MS spectra, we developed various algorithms. In Chapter 2, we introduce principal component analysis (PCA)-based software for rapid analysis of ambient ionization spectra acquired from different microbial samples. In Chapter 3, a hyperspectral visualization algorithm is developed to convert molecular features of microbial colonies into different colors for easier interpretation.
Given the primary objective of spatial profiling to discover metabolites with distinct properties, establishing connections between spatial profiling and meaningful metabolites is paramount. We present a workflow in Chapter 4, covering rapid spatial profiling, unsupervised MS spectra analysis, and molecular networking. This approach leads to the discovery of potential biosynthetic pathways of novel tambjamine compounds.
Further analysis of the potential biosynthetic mechanism of tambjamine compounds is demonstrated in Chapter 5 through collaboration with the Ross lab. Leveraging rapid spatial profiling by MS, conventional chromatography-based MS proves powerful in isolating undiscovered natural products with diverse conformations. This journey from rapid spatial profiling to conventional metabolome analysis exemplifies how spatial profiling can swiftly provide guidance to potential natural products and how these insights can be effectively utilized.
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Queen's University's Thesis/Dissertation Non-Exclusive License for Deposit to QSpace and Library and Archives Canada
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Copying and Preserving Your Thesis
This publication is made available by the authority of the copyright owner solely for the purpose of private study and research and may not be copied or reproduced except as permitted by the copyright laws without written authority from the copyright owner.
Attribution-NonCommercial-NoDerivatives 4.0 International
ProQuest PhD and Master's Theses International Dissemination Agreement
Intellectual Property Guidelines at Queen's University
Copying and Preserving Your Thesis
This publication is made available by the authority of the copyright owner solely for the purpose of private study and research and may not be copied or reproduced except as permitted by the copyright laws without written authority from the copyright owner.
Attribution-NonCommercial-NoDerivatives 4.0 International