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 applied a novel Stomatal Patterning Phenotype (SPP) spatial analysis to high‑throughput phenotyping data from 180 maize recombinant inbred lines, dissecting stomatal density into component traits related to cell size, packing, and positional probabilities. Using these derived traits, the authors built a structural equation model that explained 74% of stomatal density variation and identified specific quantitative trait loci for lateral and longitudinal stomatal patterning.

A comparative physiological study of persimmon cultivars with flat (Hiratanenashi) and round (Koushimaru) fruit shapes revealed that differences in cell proliferation, cell shape, and size contribute to shape variation. Principal component analysis of elliptic Fourier descriptors tracked shape changes, while histology and transcriptome profiling identified candidate genes, including a WOX13 homeobox gene, potentially governing fruit shape development.

The study investigated how Arabidopsis thaliana SR protein kinases (AtSRPKs) regulate alternative RNA splicing by using chemical inhibitors of SRPK activity. Inhibition with SPHINX31 and SRPIN340 caused reduced root growth and loss of root hairs, accompanied by widespread changes in splicing and phosphorylation of genes linked to root development and other cellular processes. Multi‑omics analysis (transcriptomics and phosphoproteomics) revealed that AtSRPKs modulate diverse splicing factors and affect the splicing landscape of numerous pathways.

The study investigates the role of the Arabidopsis transcription factor AtMYB93 in sulfur (S) signaling and root development, revealing that AtMYB93 mutants exhibit altered expression of S transport and metabolism genes and increased shoot S levels, while tomato plants overexpressing SlMYB93 show reduced shoot S. Transcriptomic profiling, elemental analysis, and promoter activity assays indicate that AtMYB93 contributes to root responses to S deprivation, though functional redundancy masks clear phenotypic effects on lateral and adventitious root formation.

The study investigates the Arabidopsis ribosomal protein RPS6A and its role in auxin‑related root growth, revealing that rps6a mutants display shortened primary roots, fewer lateral roots, and defective vasculature that are not rescued by exogenous auxin. Cell biological observations and global transcriptome profiling show weakened auxin signaling and reduced levels of PIN auxin transporters in the mutant, indicating a non‑canonical function of the ribosomal subunit in auxin pathways.

The study links circadian rhythm traits in Arabidopsis seedlings to flowering time synchronization across latitudes by mapping QTLs in recombinant inbred lines derived from African and European lineages. Two QTLs containing KH-domain RNA‑binding proteins (KH17, KH29) affect splicing of key flowering regulators (MAF2, MAF3), creating chimeric transcripts that may accelerate proteome evolution and decouple mean flowering time from its synchronization, offering a predictive tool for breeding climate‑resilient crops.

The study performed transcriptome profiling of Cryptomeria japonica individuals from different geographic origins grown in three common gardens across Japan, assembling 77,212 transcripts guided by the species' genome. Using SNP-based genetic clustering and weighted gene co‑expression network analysis, they identified gene modules whose expression correlated with genetic differentiation, revealing that defense‑related genes are up‑regulated in Pacific‑side populations while terpenoid metabolism genes are higher in Sea‑of‑Japan populations, indicating local adaptation via regulatory changes.