The study shows that inoculating Arabidopsis thaliana with the plant‑growth‑promoting bacterium Enterobacter sp. SA187 markedly boosts root and shoot biomass under elevated CO₂, accompanied by altered nitrogen and carbon content and reshaped phytohormone signaling. Transcriptomic and metabolomic analyses reveal activation of salicylic acid, jasmonic acid, and ethylene pathways and enhanced primary metabolism, while the ethylene‑insensitive ein2‑1 mutant demonstrates that the growth benefits are ethylene‑dependent.

The study examined soybean (Glycine max) responses to simultaneous drought and Asian soybean rust infection using combined transcriptomic and metabolomic analyses. Weighted Gene Co-expression Network Analysis identified stress-specific gene modules linked to metabolites, while Copula Graphical Models uncovered sparse, condition‑specific networks, revealing distinct molecular signatures for each stress without overlapping genes or metabolites. The integrative approach underscores a hierarchical, modular defense architecture and suggests targets for breeding multi‑stress resilient soybeans.

The study identifies the pseudokinase CRN in Medicago truncatula as a regulator of inflorescence meristem branching and a negative modulator of root interactions with arbuscular mycorrhizal (AM) fungi, operating partially independently of the AM autoregulation CLE peptide MtCLE53. Transcriptomic profiling of crn mutant roots reveals disruptions in nutrient, symbiosis, and stress signaling pathways, highlighting the multifaceted role of MtCRN in plant development and environmental interactions.

The study examined how varying temperature regimes, including cold deprivation and early cold exposure, affect dormancy onset and maintenance in sweet cherry (Prunus avium) flower buds. Phenological monitoring combined with transcriptomic analyses revealed that temperature drives dormancy progression, identifying specific genes and pathways responsive to cold, and uncovering a distinct shallow dormancy phase induced by cold deprivation with a unique molecular signature.

The study combined cell biology, transcriptomics, and ionomics to reveal that zinc deficiency reduces root apical meristem size while preserving meristematic activity and local Zn levels, leading to enhanced cell elongation and differentiation in Arabidopsis thaliana. ZIP12 was identified as a highly induced gene in the zinc‑deficient root tip, and zip12 mutants displayed impaired root growth, altered RAM structure, disrupted Zn‑responsive gene expression, and abnormal metal partitioning, highlighting ZIP12’s role in maintaining Zn homeostasis and meristem function.

The study identifies the transcription factor MdBRC1 as a key inhibitor of bud growth during the ecodormancy phase in apple (Malus domestica), directly regulating dormancy‑associated genes and interacting with the flowering promoter MdFT2 to modulate bud break. Comparative transcriptomic analysis and gain‑of‑function experiments in poplar demonstrate that MdFT2 physically binds MdBRC1, attenuating its repressive activity and acting as a molecular switch for the transition to active growth.

The study profiled root transcriptomes of Arabidopsis wild type and etr1 gain-of-function (etr1-3) and loss-of-function (etr1-7) mutants under ethylene or ACC treatment, identifying 4,522 ethylene‑responsive transcripts, including 553 that depend on ETR1 activity. ETR1‑dependent genes encompassed ethylene biosynthesis enzymes (ACO2, ACO3) and transcription factors, whose expression was further examined in an ein3eil1 background, revealing that both ETR1 and EIN3/EIL1 pathways regulate parts of the network controlling root hair proliferation and lateral root formation.

The study investigated the molecular basis of quantitative resistance to black spot disease in a Rosa wichurana × Rosa chinensis F1 population, identifying two major QTLs (B3 on LG3 and B5 on LG5). RNA‑seq of inoculated and control leaf samples at 0, 3, and 5 days post‑inoculation revealed extensive transcriptional reprogramming, with QTL B3 triggering classic defense pathways and QTL B5 showing a limited, distinct response. These findings highlight complex, QTL‑specific regulation underlying durable black‑spot resistance in roses.

The study introduced full-length SOC1 genes from maize and soybean, and a partial SOC1 gene from blueberry, into tomato plants under constitutive promoters. While VcSOC1K and ZmSOC1 accelerated flowering, all three transgenes increased fruit number per plant mainly by promoting branching, and transcriptomic profiling revealed alterations in flowering, growth, and stress‑response pathways.

The study used transcriptomic and lipidomic profiling to investigate how chia (Salvia hispanica) leaves respond to short‑term (3 h) and prolonged (27 h) heat stress at 38 °C, revealing rapid activation of calcium‑signaling and heat‑shock pathways and reversible changes in triacylglycerol levels. Nearly all heat‑responsive genes returned to baseline expression after 24 h recovery, highlighting robust thermotolerance mechanisms that could inform improvement of other oilseed crops.