The study demonstrates that the chromatin remodeler DDM1 is essential for biomass heterosis in Arabidopsis thaliana hybrids, as loss of DDM1 function leads to reduced rosette growth and extensive genotype‑specific transcriptomic and DNA methylation changes. Whole‑genome bisulfite sequencing revealed widespread hypomethylation in ddm1 mutants, while salicylic acid levels were found unrelated to heterosis, indicating that epigenetic divergence, rather than SA signaling, underpins hybrid vigor.

The study identifies GyrB3 as a novel nuclear factor that interacts with histone deacetylases to regulate transposable element silencing in plants, acting as a suppressor of IBM1 deficiency–induced epigenetic defects. Loss of GyrB3 reduces DNA methylation and increases H3 acetylation at TEs, demonstrating the importance of histone deacetylation for genome stability.

The study uses a high‑throughput comparative multi‑omics strategy to profile transcript, metabolite, and protein dynamics in Arabidopsis thaliana seedlings throughout the heat‑stress memory (HSM) phase following acquired thermotolerance. Early recovery stages show rapid transcriptional activation of memory‑related genes, while protein levels stay elevated longer, and distinct metabolite patterns emerge, highlighting temporal layers of the memory process.

The study compared two plasma‑activated water (PAW) solutions with different H₂O₂ levels, produced by a radio‑frequency glow discharge, on Arabidopsis thaliana growth and stress responses. PAW lacking detectable H₂O₂ promoted seedling growth and induced nitrogen‑assimilation genes, while H₂O₂‑containing PAW did not affect growth but enhanced root performance under heat stress; mature plants fertilized with H₂O₂‑free PAW performed comparably to nitrate controls. These results indicate PAW can replace NO₃⁻ fertilizers provided H₂O₂ levels are carefully managed.

The study introduces a CRISPR/Cas9‑based restoration system (CiRBS) that reactivates a disabled luciferase reporter (LUC40Ins26bp) in transgenic Arabidopsis, enabling long‑term single‑cell bioluminescence monitoring. Restoration occurs within 24 h after particle‑bombardment‑mediated CRISPR delivery, with ~7 % of cells regaining luminescence and most restored cells carrying a single correctly edited chromosome, facilitating reliable analysis of cellular gene‑expression heterogeneity.

The study demonstrates that N6‑methyladenosine (m6A) RNA methylation acts as a negative regulator of thermotolerance in Arabidopsis thaliana, with loss of m6A increasing heat‑responsive gene expression and mRNA stability. Heat shock triggers a transient reduction of m6A levels, which is linked to enrichment of the H3K4me3 histone mark at target loci, enhancing transcription of heat shock proteins. These findings reveal a coordinated interplay between RNA methylation and chromatin modifications that fine‑tunes the plant heat stress response.

The study examined how Arabidopsis thaliana integrates physiological, genetic, hormonal, and transcriptomic responses to combined water deficit, heat stress, and elevated CO2. Results show that stomatal aperture under these complex stress combinations is governed by a specific set of regulators, including nitric oxide, OPEN STOMATA 1, and the SLAH3 anion channel, distinct from those active under simpler stress conditions. This reveals a hierarchical stomatal stress code that could inform future research on plant resilience to global change.

The study combined long‑read whole‑genome assembly, multi‑omics profiling (DNA methylation, mRNA, ribosome‑associated transcripts, tRNA abundance, and protein levels) in two Arabidopsis thaliana accessions to evaluate how genomic information propagates through the Central Dogma. Codon usage in gene sequences emerged as the strongest predictor of both mRNA and protein abundance, while methylation, tRNA levels, and ribosome‑associated transcripts contributed little additional information under stable conditions.

The study examined how heat stress alters lipid droplet (LD) number and composition in Arabidopsis thaliana roots, revealing degradation of membrane lipids and accumulation of TAGs and LDs. Proteomic and lipidomic analyses of LDs from a specific Arabidopsis mutant identified novel LD-associated proteins, including triterpene biosynthetic enzymes, whose substrates and products also accumulate in LDs, indicating LDs function as both sinks and sources during stress‑induced membrane remodeling and specialized metabolism.

The study applied a CRISPR/Cas9 multiplex guide RNA strategy to delete entire open reading frames of four reproductive genes in Arabidopsis thaliana, achieving homozygous deletions already in the T1 generation with rates of 8.3–30%. Deletion efficiencies correlated with DeepSpCas9 prediction scores, and phenotypic analyses revealed unexpected effects of residual gene fragments on fertilization and seed development.