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标题：Applying transcriptomics to study glycosylation at the cell type level
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作者：Leo Alexander Dworkin ; Henrik Clausen ; Hiren Jitendra Joshi 等
期刊名称：iScience
印刷版ISSN：2589-0042
出版年度：2022
卷号：25
期号：6
页码：1-26
DOI：10.1016/j.isci.2022.104419
语种：English
出版社：Elsevier
摘要：SummaryThe complex multi-step process of glycosylation occurs in a single cell, yet current analytics generally cannot measure the output (the glycome) of a single cell. Here, we addressed this discordance by investigating how single cell RNA-seq data can be used to characterize the state of the glycosylation machinery and metabolic network in a single cell. The metabolic network involves 214 glycosylation and modification enzymes outlined in our previously built atlas of cellular glycosylation pathways. We studied differential mRNA regulation of enzymes at the organ and single cell level, finding that most of the general protein and lipid oligosaccharide scaffolds are produced by enzymes exhibiting limited transcriptional regulation among cells. We predict key enzymes within different glycosylation pathways to be highly transcriptionally regulated as regulatable hotspots of the cellular glycome. We designed the Glycopacity software that enables investigators to extract and interpret glycosylation information from transcriptome data and define hotspots of regulation.Graphical abstractDisplay OmittedHighlights•RNA-seq can provide information on the glycosylation metabolic network state•It is possible to readout glycosylation capacity from single cell RNA-seq data•Genes regulating the biosynthesis of common glycan scaffolds show little regulation•Key enzymes in the glycosylation network are predicted to be regulatable hotspotsMolecular biology; Omics; Transcriptomics