Coconut is an important tropical and subtropical fruit and oil crop severely affected by cold temperature, limiting its distribution and application. Thus, studying its low-temperature reaction mechanism is required to expand its cultivation range. We used growth morphology and physiological analyses to characterize the response of coconuts to 10, 20, and 30 d of low temperatures, combined with transcriptome and metabolome analysis. Low-temperature treatment significantly reduced the plant height and dry weight of coconut seedlings. The contents of soil and plant analyzer development (SPAD), soluble sugar (SS), soluble protein (SP), proline (Pro), and malondialdehyde (MDA) in leaves were significantly increased, along with the activities of superoxide dismutase (SOD), peroxidase (POD), and catalase (CAT), and the endogenous hormones abscisic acid (ABA), auxin (IAA), zeatin (ZR), and gibberellin (GA) contents. A large number of differentially expressed genes (DEGs) (9968) were detected under low-temperature conditions. Most DEGs were involved in mitogen-activated protein kinase (MAPK) signaling pathway-plant, plant hormone signal transduction, plant–pathogen interaction, biosynthesis of amino acids, amino sugar and nucleotide sugar metabolism, carbon metabolism, starch and sucrose metabolism, purine metabolism, and phenylpropanoid biosynthesis pathways. Transcription factors (TFs), including WRKY, AP2/ERF, HSF, bZIP, MYB, and bHLH families, were induced to significantly differentially express under cold stress. In addition, most genes associated with major cold-tolerance pathways, such as the ICE-CBF-COR, MAPK signaling, and endogenous hormones and their signaling pathways, were significantly up-regulated. Under low temperatures, a total of 205 differentially accumulated metabolites (DAMs) were enriched; 206 DAMs were in positive-ion mode and 97 in negative-ion mode, mainly including phenylpropanoids and polyketides, lipids and lipid-like molecules, benzenoids, organoheterocyclic compounds, organic oxygen compounds, organic acids and derivatives, nucleosides, nucleotides, and analogues. Comprehensive metabolome and transcriptome analysis revealed that the related genes and metabolites were mainly enriched in amino acid, flavonoid, carbohydrate, lipid, and nucleotide metabolism pathways under cold stress. Together, the results of this study provide important insights into the response of coconuts to cold stress, which will reveal the underlying molecular mechanisms and help in coconut screening and breeding.

Intercropping is a commonly employed agricultural technique that offers numerous advantages, such as increasing land productivity, enhancing soil health, and controlling soil-borne pathogens. In this study, Artemisia argyi, Dioscorea esculenta, and Arachis pintoi were intercropped with coconuts and compared with naturally growing weeds (Bidens pilosa), respectively. The regulatory mechanism of intercropping was examined by analyzing the variability in soil properties and microbial community structure across different intercropping modes and soil depths (0–20 cm, 20–40 cm, and 40–60 cm). The results indicate that intercropping can increase the diversity of soil bacteria and fungi. Moreover, as soil depth increases, the changes in microbial communities weaken. Intercropping reduced soil SOM and increased pH, which is directly related to the changes in the abundance of Acidobacteria in the soil. In various intercropping systems, the disparities resulting from intercropping with A. pintoi are particularly pronounced. Specifically, intercropping with A. pintoi leads to an increase in soil potassium and phosphorus levels, as well as an enhancement in the abundance of Bacillus sp., which plays a crucial role in the suppression of plant pathogenic fungi within the soil ecosystem. The results of the correlation analysis and structural equation modeling (SEM) suggest that the impacts of three intercropping systems on microbial composition and soil indicators exhibit considerable variation. However, a common critical factor influencing these effects is the soil phosphorus content. Furthermore, our findings indicate that intercropping resulted in lower soil nitrogen levels, exacerbating nitrogen deficiency and masking its impact on the microbial community composition.