A deep learning‐guided automated workflow in LipidOz for detailed characterization of fungal fatty acid unsaturation by ozonolysis

作者：Dylan H. Ross, Erin Bredeweg, Josie Eder, Daniel J. Orton, Meagan Burnet, Jennifer Kyle, Ernesto Nakayasu, Xueyun Zheng · 发表于：Journal of Mass Spectrometry · 年份：2024 · DOI：10.1002/jms.5078 · 被引用次数：2 · 研究领域：Metabolomics and Mass Spectrometry Studies、Mass Spectrometry Techniques and Applications、Plant biochemistry and biosynthesis

Understanding fungal lipid biology and metabolism is critical for antifungal target discovery as lipids play central roles in cellular processes. Nuances in lipid structural differences can significantly impact their functions, making it necessary to characterize lipids in detail to understand their roles in these complex systems. In particular, lipid double bond (DB) locations are an important component of lipid structure that can only be determined using a few specialized analytical techniques. Ozone-induced dissociation mass spectrometry (OzID-MS) is one such technique that uses ozone to break lipid DBs, producing pairs of characteristic fragments that allow the determination of DB positions. In this work, we apply OzID-MS and LipidOz software to analyze the complex lipids of Saccharomyces cerevisiae yeast strains transformed with different fatty acid desaturases from Histoplasma capsulatum to determine the specific unsaturated lipids produced. The automated data analysis in LipidOz made the determination of DB positions from this large dataset more practical, but manual verification for all targets was still time-consuming. The DL model reduces manual involvement in data analysis, but since it was trained using mammalian lipid extracts, the prediction accuracy on yeast-derived data was reduced. We addressed both shortcomings by retraining the DL model to act as a pre-filter to prioritize targets for automated analysis, providing confident manually verified results but req...