Abstract: On July 11, 2021, lateral roots of Buddleja officinalis and B. asiatica were collected from a plot of 200 m×200 in Mile county, Yunnan province, and the ecological guilds of fungi in roots were analysed using high-throughput sequencing and bioinformatic analyses. The result demonstrated that 429 amplicon sequence variants (ASVs) were retrieved from B. officinalis and 267 ones from B. asiatica, but it had no significant difference of fungal α-diversity between B. officinalis and B. asiatica. By taxonomic annotation, Ascomycota and Basidiomycota were the main components of the annotated mycorrhizal fungi of both B. officinalis and B. asiatica, but Basidiomycota (mainly Agaricomycetes) had dominance in B. asiatica. Annotation of ecological guilds of fungi showed that 87 ASVs of fungi from B. officinalis and 94 ones from B. asiatica. Main guilds such as Symbiotroph, Saprotroph and Pathotroph were retrieved from roots of both plants. On symbiotroph, the ectomycorrhizal Sebacinaceae were detected in roots of both plants, while the arbuscular mycorrhizal Diversisporales only found in B. officinalis, and the arbuscular mycorrhizal Glomeraceae only in B. asiatica.