Plant-Compatible Xenium In Situ Sequencing: Protocol for Spatial Transcriptomics in Medicago truncatula Roots and Nodules.

Spatial Transcriptomics in Plants: From Cellular Maps to Mechanistic Insight.

This review synthesizes recent progress across diverse plant species and tissues, showing that gene expression is not only cell-type specific but also tightly organized by position within organs and developmental niches, establishing spatial gene expression as a fundamental organizing principle of plant development and...

Co-extraction of Small RNAs and Total RNA from Arbuscular Mycorrhizal Roots Using Laser Microdissection.

Multi-organ single-cell transcriptomic atlas identifies QrIAA14 as a candidate negative regulator of adventitious root development in Quercus robur

Plant organ development involves coordinated cell fate transitions across multiple tissues, yet the cellular programs underlying organ-specific differentiation in woody plants remain poorly understood, particularly the mechanisms limiting efficient root development during vegetative propagation of oak species. Here, we...

Integrated single cell transcriptomics analysis for unraveling heterogeneity and plasticity of root cells for sustainable and regenerative agriculture

This review examines what scRNA-seq, spatial transcriptomics and machine learning have so far established about root cellular heterogeneity and regulatory architecture and delimits the technical constraints that presently bound their application to crop improvement.

Optimizing cell segmentation and downstream processing for plant probe-based spatial transcriptomics.

DipTRANS: an improved method for in planta transformation and genome engineering in Nicotiana benthamiana.

Plant transformation remains constrained by labor-intensive tissue culture. Our previous work showed that direct delivery of developmental regulators (DRs) can induce de novo meristems on plants, offering a promising transformation approach. In this resource article, we introduced DipTRANS (Direct in planta Transformat...