Transcriptomic changes in single yeast cells under various stress conditions

BMC Genomics

Research

Chen Xu¹  Yangqi Su¹  Jonathan Shea¹  Zhengchang Su¹  Darla DeStephanis¹ 

[1]Department of Bioinformatics and Genomics, The University of North Carolina at Charlotte, 28223, Charlotte, NC, USA

关键词: Single cell;    RNA-seq;    Yeast;    Stress response;    Gene regulatory networks;   

DOI  :  10.1186/s12864-023-09184-w

 received in 2022-10-21, accepted in 2023-02-13,  发布年份 2023

来源: Springer

【 摘 要 】

BackgroundThe stress response of Saccharomyces cerevisiae has been extensively studied in the past decade. However, with the advent of recent technology in single-cell transcriptome profiling, there is a new opportunity to expand and further understanding of the yeast stress response with greater resolution on a system level. To understand transcriptomic changes in baker’s yeast S. cerevisiae cells under stress conditions, we sequenced 117 yeast cells under three stress treatments (hypotonic condition, glucose starvation and amino acid starvation) using a full-length single-cell RNA-Seq method.ResultsWe found that though single cells from the same treatment showed varying degrees of uniformity, technical noise and batch effects can confound results significantly. However, upon careful selection of samples to reduce technical artifacts and account for batch-effects, we were able to capture distinct transcriptomic signatures for different stress conditions as well as putative regulatory relationships between transcription factors and target genes.ConclusionOur results show that a full-length single-cell based transcriptomic analysis of the yeast may help paint a clearer picture of how the model organism responds to stress than do bulk cell population-based methods.

【 授权许可】

CC BY   
© The Author(s) 2023

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