Single-cell RNA-sequencing analysis of Arabidopsis roots

ABSTRACT: We report the use of high-throughput single-cell RNA sequencing (scRNA-seq) to analyze gene expression in wild-type and mutant Arabidopsis root cells.  We demonstrate that using a commercially available platform for droplet-based scRNA-seq (10X Genomics Chromium) enables transcriptional profiling of individual protoplasts representing all of the major cell/tissue types of the root.  Furthermore, rare cell types and subtypes have been identified.  These single-cell transcriptomes were also used to generate a pseudotime series for the root hair and non-hair cell differentiation pathways.  In addition, scRNA-seq was used to define and compare transcriptomes from root epidermis mutants, which enabled a detailed molecular analysis of the mutant phenotype.  This study demonstrates the feasibility and usefulness of scRNA-seq in plants and provides a gene expression map at single-cell resolution for the Arabidopsis root.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE123013 | GEO | 2019/02/05

REPOSITORIES: GEO