Biofumigation has been proposed as an environmentally friendly method of plant protection against soil-borne pathogens, but its effects on microbial communities are still incompletely understood. Using high throughput DNA sequencing, we investigated the effects of oilseed radish residues on the root fungal microbiome of strawberry in the presence of a soil-borne fungal pathogen, Verticillium dahliae. Results of our greenhouse study show that early flowering occurred in response to residue addition, suggesting a plant stress-response and there was a significant decrease in berry yield. The fungal microbiome of roots was significantly restructured by both biofumigation and inoculation with Verticillium. In particular, the abundance of root endophyte- and arbuscular mycorrhizal functional guilds was reduced significantly as a result of biofumigant and V. dahliae addition, whereas the abundance of saprotrophs increased significantly when both treatments were applied together. Alpha diversity analyses of fungi associated with roots indicated a significant increase in species richness following Verticillium inoculation, whereas the biofumigant alone or in the presence of V. dahliae resulted in no significant effect, suggesting that apparently some rare taxa may have been enriched/stimulated in the presence of the pathogen. Further investigations should reveal whether negative effects of biofumigation on potentially beneficial root associated endophytes and arbuscular mycorrhizal fungi are host genotype- or soil-dependent.

生物熏蒸已被提议作为一种环境友好的植物保护方法，以抵御土壤传播的病原体，但其对微生物群落的影响仍不完全清楚。我们使用高通量 DNA 测序研究了油籽萝卜残留物在土传真菌病原体大丽轮枝菌存在下对草莓根部真菌微生物组的影响。我们的温室研究结果表明，随着残留物的加入，早花发生，表明植物存在应激反应，浆果产量显着下降。通过生物熏蒸和接种轮枝菌显着重组根的真菌微生物组. 特别是，由于生物熏蒸剂和大丽花弧菌的加入，根内生菌和丛枝菌根功能群的丰度显着降低，而当两种处理同时使用时，腐生菌的丰度显着增加。与根相关的真菌的 α 多样性分析表明，接种轮枝菌后物种丰富度显着增加，而单独使用生物熏蒸剂或在大丽花弧菌存在下结果没有显着影响，这表明显然某些稀有分类群可能在病原体存在下被富集/刺激。进一步的研究应该揭示生物熏蒸对潜在有益的根相关内生菌和丛枝菌根真菌的负面影响是否与宿主基因型或土壤有关。