Abstract
Rhizosphere microbial communities differ across plant genotypes, but factors driving assemblages are not very unclear. We hypothesized microbial interactions influence genotype-specific microbiomes, especially when genotypes vary in pathogen susceptibility. Using mulberry (Morus alba L.) trees, we analyzed rhizosphere fungi and bacteria from two genotypes grown in nearly identical conditions, which were the sclerotial disease-resistant JL20 and susceptible JL40. Diagnostics confirmed JL40 susceptibility to fruit rot caused by Ciboria carunculoides. Illumina sequencing revealed Ciboria dominated the JL40 fungal community (39.1% abundance), but was rare in JL20 (0.016%). Overall fungal diversity was lower in JL40. Bacterial communities were compositionally distinct between genotypes despite some shared dominant taxa. Random forest analysis indicated Ciboria enrichment together with other microbes strongly contributed to microbial variation. Our findings demonstrate pathogen susceptibility differences between mulberry genotypes lead to selective enrichment of Ciboria, which correlates with shifts in both fungal and bacterial rhizosphere assemblages.
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