- {copyright, serif} 2019 American Society of Plant Biologists. All rights reserved.
Abstract
Single-cell RNA sequencing (scRNA-seq) has been used extensively to study cell-specific gene expression in animals, but it has not been widely applied to plants. Here, we describe the use of a commercially available droplet-based microfluidics platform for high-throughput scRNA-seq to obtain single-cell transcriptomes from protoplasts from more than 10,000 Arabidopsis root cells. We find that all major tissues and developmental stages are represented in this single-cell transcriptome population. Further, distinct sub-populations and rare cell types, including putative quiescent center (QC) cells, were identified. A focused analysis of root epidermal cell transcriptomes defined developmental trajectories for individual cells progressing from meristematic through mature stages of root-hair and non-hair cell differentiation. In addition, single-cell transcriptomes were obtained from root epidermis mutants, enabling a comparative analysis of gene expression at single-cell resolution and providing an unprecedented view of the impact of the mutated genes. Overall, this study demonstrates the feasibility and utility of scRNA-seq in plants and provides a first-generation gene expression map of the Arabidopsis root at single-cell resolution.
- Received November 28, 2018.
- Accepted January 29, 2019.