The root microbiome is critical for plant development and health and is greatly influenced by cultivation methods. Roses (Rosa sp.) are the most popular cut flowers in the world. Grafting in rose production is the standard method for increasing yield, improving flower quality and reducing root-related pests and diseases. is the standard rootstock used in most commercial activities in Ecuador and Colombia. Rose shoot genotype is known to influence root biomass and root exudate profile in transplanted plants. However, little is known about the effects of rose shoot genotypes on rhizosphere microbiota. We investigated the effects of grafting and shoot genotypes on the rhizosphere microbiome of the rootstock 'Natal Brier'. 16S rRNA and ITS sequencing were used to assess the microbiomes of ungrafted rootstocks and rootstocks grafted with two red rose cultivars. Transplantation altered the structure and function of the microbial community. Furthermore, analysis of transplanted plant samples revealed that shoot genotype strongly influenced the rootstock microbiome. Our results indicate that shoot genotype influences root microbial recruitment, which may also influence the function of the complex microbiome.
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