Single-cell RNA sequencing in yeast using the 10× genomics chromium device
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Lieselotte Vermeersch Abbas Jariani Jana Helsen Benjamin M Heineike Kevin J VerstrepenAbstract
Single-cell RNA sequencing (scRNA-seq) is emerging as an essential technique for studying the physiology of individual cells in populations. Although well-established and optimized for mammalian cells, research of microorganisms has been faced with major technical challenges for using scRNA-seq, because of their rigid cell wall, smaller cell size and overall lower total RNA content per cell. Here, we describe an easy-to-implement adaptation of the protocol for the yeast Saccharomyces cerevisiae using the 10× Genomics platform, originally optimized for mammalian cells. Introducing Zymolyase, a cell wall-digesting enzyme, to one of the initial steps of single-cell droplet formation allows efficient in-droplet lysis of yeast cells, without affecting the droplet emulsion and further sample processing. In addition, we also describe the downstream data analysis, which combines established scRNA-seq analysis protocols with specific adaptations for yeast, and R-scripts for further secondary analysis of the data.
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Journal Methods in Molecular Biology
Volume 2477
Pages 3-20
Available online
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Publisher website (DOI) 10.1007/978-1-0716-2257-5_1
Europe PubMed Central 35524108
Pubmed 35524108
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