Benchmarking plant single cell RNA-sequencing sample processing strategies

ABSTRACT: The isolation of single plant cells from complex tissues is prone to selective enrichment and sampling biases which complicates accurate profiling of the large diversity in cell types. Optimizing methodologies for cell enrichment and single-cell transcriptomics is therefore critical for single-cell studies addressing plant cell heterogeneity. Here, we systematically compared protoplast enrichment technologies (including conventional and image-based flow cytometry, as well as magnetic cell sorting) and single-cell RNA sequencing (scRNA-seq) platforms (10X Genomics Chromium, BD Rhapsody) using Arabidopsis roots. Image-based flow cytometry offered increased precision due to customizable gating strategies, while magnetic sorting provided faster processing and enhanced representation of cell si

SUBMITTER: Thomas Eekhout 

PROVIDER: S-SCDT-10_1038-S44318-026-00800-5 | biostudies-other |

REPOSITORIES: biostudies-other