Medicago sativa subsp. falcata (yellow-flowered alfalfa) is an essential genetic resource for forage improvement, biofuel production, and sustainable agric

Highlight: Integration of ATAC-seq and RNA-seq identifies novel candidate genes associated with drought tolerance in Zoysia japonica Steud. The warm-season turfgrass Zoysia japonica is renowned for its drought resistance and serves as an exceptional domestic turfgrass in China. In order to unlock the potential of this native grass, identify drought-resistant genes, enhance the genetic transformation system, and maximize its utilization benefits, we conducted physiological characterization, multi-omics analysis, and RT-qPCR experimental verification in Zoysia japonica. This study suggested that 63 high-confidence genes related to drought stress and 6 motifs regulating drought responses were identified using a combined omics approach and RT-qPCR validation. The study discovered a positive correlation between ATAC-Seq peak intensity and gene expression levels. The expression of high-confidence genes was linked to Zoysia japonica resistance evaluation and phenotypic traits, implying that these genes are involved in responding to external drought stress. This study combined ATAC-seq and RNA-seq technologies for the first time to identify drought-related genes in Zoysia japonica , elucidating the grass’s adaptation to environmental stress and the regulatory mechanisms underlying stress responses, and laying the groundwork for Zoysia japonica improvement and breeding.

Improving fruit quality is a core challenge in apple production in Southwest China, where long-term clean tillage has driven red soil acidification and fertility decline. However, how different cover crop species influence fruit quality through soil fungal pathways in this region remains unclear. Here, we compared five cover crop treatments—natural grass, alfalfa, perennial ryegrass, white clover, and orchardgrass—against clean tillage in a field experiment, integrating ITS sequencing with multivariate statistical analyses to evaluate their effects on soil properties, fungal communities, and apple fruit quality. Orchardgrass (DG) showed the most favorable performance, increasing sugar–acid ratio (+28.74%) and vitamin C content (+42.16%), followed by alfalfa and natural grass, while ryegrass had the weakest effects. Soil fertility improvement followed the same ranking, and soil pH, organic matter, and nitrogen were identified as key factors associated with fungal community shifts. Fungal community composition and diversity were closely linked to soil properties and fruit quality traits, with sugar–acid ratio co-regulated by nitrogen, pH, and fungal diversity, while vitamin C content was directly associated with cover crop treatment. These findings suggest that orchardgrass may be a promising cover crop for enhancing fruit flavor and nutritional quality under the subtropical red-soil conditions tested in this study, offering practical implications for cover crop selection, though the long-term stability of these effects requires further validation through multi-year trials.