Phosphite (Phi) and phosphate (Pi) share the same root uptake system, but Phi acts as a biostimulant that modulates plant growth and disease resistance in a species‑ and Pi‑dependent manner. In Arabidopsis, Phi induces hypersensitive‑like cell death and enhances resistance to Plectosphaerella cucumerina, while in rice it counteracts Pi‑induced susceptibility to Magnaporthe oryzae and Fusarium fujikuroi, accompanied by extensive transcriptional reprogramming.

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 examined how Turnip mosaic virus (TuMV) infection reshapes root-associated bacterial and fungal communities in two Arabidopsis thaliana genotypes. TuMV markedly reduced bacterial diversity and altered community composition in a genotype‑specific manner, while fungal communities stayed stable; bacterial co‑occurrence networks later recovered and even increased in complexity, highlighting microbial resilience. These findings underscore virus‑driven selective filtering of bacterial root microbiota and the role of host genotype in mediating microbiome responses to viral stress.

The study examined how the bioinoculant Trichoderma afroharzianum T22 influences Pisum sativum growth under iron-sufficient versus iron-deficient conditions, finding pronounced benefits—enhanced photosynthesis, Fe/N accumulation, and stress‑related gene expression—only during iron deficiency. RNA‑seq revealed distinct gene expression patterns tied to symbiosis, iron transport, and redox pathways, and microbiome profiling showed T22 reshapes the root bacterial community under deficiency, suggesting context‑dependent mutualism.

The study evaluated whether integrating genomic, transcriptomic, and drone-derived phenomic data improves prediction of 129 maize traits across nine environments, using both linear (rrBLUP) and nonlinear (SVR) models. Multi-omics models consistently outperformed single-omics models, with transcriptomic data especially enhancing cross‑environment predictions and capturing genotype‑by‑environment interactions. The results highlight the added value of combining transcriptomics and phenomics with genotypes for more accurate and generalizable trait prediction in maize.

Seed treatment with melatonin markedly improved root biomass, nodulation, nitrogen balance, and yield in three peanut genotypes, particularly Kainong 308. 16S rRNA amplicon sequencing revealed genotype‑ and compartment‑specific reshaping of bacterial communities, with enrichment of key Proteobacteria and more complex co‑occurrence networks that correlated with enhanced plant traits. These results highlight melatonin’s dual function as a plant bio‑stimulant and microbiome modulator.

Using a controlled field experiment on clonal 35‑year‑old Norway spruce trees, the study examined molecular defense responses to Ips typographus attacks. A multi‑omics approach revealed rapid local increases in jasmonic acid and other phytohormones, leading to differential expression of up to 1,900 genes and corresponding proteomic and metabolomic changes that elevated deterrent compounds such as phenolic aglycones, diterpene resin acids, terpenes, and lignin.

Using integrated metabolomics, fluxomics, and proteomics, the study shows that Bamboo mosaic virus infection in Nicotiana benthamiana redirects carbon flux toward glycolysis and the TCA cycle, enhancing mitochondrial metabolism. Silencing the mitochondrial NAD⁺-dependent malic enzyme 1 disrupts cytoplasmic NADH/NAD⁺ balance and alters defense gene expression, indicating that mitochondrial redox regulation is crucial for antiviral defense.

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 examined how plant‑derived benzoxazinoid metabolites influence interactions among root‑associated bacterial strains and between these bacteria and their plant host. Using both simple pairwise assays and more complex multi‑organism setups, the authors found that these chemicals modulate bacterial‑bacterial and bacterial‑plant interactions, altering plant defense, immunity, and sugar transport especially when bacterial inocula are present. The work highlights the role of the soil chemical legacy in shaping holobiont dynamics and demonstrates the utility of combining reductionist and holistic experimental approaches.