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Dual and spatially resolved drought responses in the Arabidopsis leaf mesophyll revealed by single-cell transcriptomics

ABSTRACT: Drought stress imposes severe challenges on agriculture by impacting crop performance. Understanding drought responses in plants at a cellular level is a crucial first step towards engineering improved drought resilience. However, the molecular responses to drought are complex as they depend on multiple factors including the severity of drought, the profiled organ, its developmental stage or even the cell types therein. Thus, deciphering the transcriptional responses to drought is specially challenging. In this study, we investigated tissue-specific responses to mild drought in young Arabidopsis thaliana (Arabidopsis) leaves using single-cell RNA sequencing (scRNA-seq). To preserve transcriptional integrity during cell isolation, we inhibited RNA synthesis using the transcription inhibitor actinomycin D, demonstrating the benefits of transcriptome fixation for studying mild stress responses at single-cell level. We present a curated and validated single-cell atlas comprising 50,797 high-quality cells from almost all known cell types present in the leaf. All cell types were validated with a new library of reporter lines.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE273033 | GEO | 2025/01/15

REPOSITORIES: GEO

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Dual and spatially resolved drought responses in the Arabidopsis leaf mesophyll revealed by single-cell transcriptomics

Project description:Drought stress imposes severe challenges on agriculture by impacting crop performance. Understanding drought responses in plants at a cellular level is a crucial first step towards engineering improved drought resilience. The molecular responses to drought are however very complex as they depend on multiple factors including the severity of drought, the profiled organ, its developmental stage and even the cell types therein. As such, deciphering the transcriptional responses to drought is specifically challenging.In the study associated with this data submission, we investigated tissue-specific responses to mild drought in young Arabidopsis thaliana (Arabidopsis) leaves using single-cell RNA sequencing (scRNA-seq, deposited under another id, GSE273033). To preserve transcriptional integrity during cell isolation, we fixed the RNA prior to cell isolation using the transcription inhibitor actinomycin D, demonstrating the benefits of fixation for studying mild stress responses at single-cell level. The transcriptome data deposited here corresponds to the bulk RNA-sequencing experiments described in this study. The samples presented here are undigested leaves, leaves digested by cell wall degradation without fixation, and leaves digested by cell wall degradation with RNA fixation. All sample types were collected from plants growing under well-watered and mild drought conditions.

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