The authors used a bottom‑up thermodynamic modelling framework to investigate how plants decode calcium signals, starting from Ca2+ binding to EF‑hand proteins and extending to higher‑order decoding modules. They identified six universal Ca2+-decoding modules that can explain variations in calcium sensitivity among kinases and provide a theoretical basis for interpreting calcium signal amplitude and frequency in plant cells.

The study reveals that the Auxin Response Factor MpARF2 in Marchantia polymorpha forms nanoscopic clusters within the plant nucleus, representing a distinct mode of DNA binding distinct from monomeric/oligomeric binding and liquid phase-separated condensates. These nanoclusters provide high‑affinity, switch‑like, sequence‑specific DNA interaction, suggesting a novel mechanism for transcriptional regulation by TF nanoclustering.

The study characterizes the distinct and overlapping roles of the rice PI paralogs OsMADS2 and OsMADS4 in lodicule specification, flowering time, and floral organ development by analyzing null and double mutants and overexpression lines. Genome-wide binding (ChIP‑seq) and transcriptome (RNA‑seq) analyses identified downstream targets involved in cell division, cell wall remodeling, and osmotic regulation that underpin the observed phenotypes. These findings reveal novel functions for PI paralogs in reproductive development and highlight mechanisms of transcription factor diversification in Oryza sativa.