RT Journal Article
SR Electronic
T1 Time-resolved single-cell and spatial gene regulatory atlas of plants under pathogen attack
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2023.04.10.536170
DO 10.1101/2023.04.10.536170
A1 Tatsuya Nobori
A1 Alexander Monell
A1 Travis A. Lee
A1 Jingtian Zhou
A1 Joseph Nery
A1 Joseph R. Ecker
YR 2023
UL http://biorxiv.org/content/early/2023/04/24/2023.04.10.536170.abstract
AB Plant leaf intercellular space provides a nutrient-rich and heterogeneous niche for microbes that critically impacts plant health. However, how individual plant cells respond to heterogeneous microbial colonization remains largely elusive. Here, by time-resolved simultaneous single-cell transcriptome and epigenome profiling of plants (Arabidopsis thaliana) infected by virulent and avirulent bacterial pathogens (Pseudomonas syringae), we present cell atlases with gene regulatory logic involving transcription factors, putative cis-regulatory elements, and target genes associated with disease and immunity. We also identify previously uncharacterized cell populations with distinct immune gene expression within major developmental cell types. Furthermore, we employ time-resolved spatial transcriptomics to reveal spatial heterogeneity of plant immune responses linked to pathogen distribution. Integrating our single-cell multiomics and spatial omics data enables spatiotemporal mapping of defense gene regulatory logic with pathogen cells. Our study provides a molecularly-defined spatiotemporal map of plant-microbe interaction at the single-cell resolution.Competing Interest StatementThe authors have declared no competing interest.