Metagenomic Analysis of the Bacterial Community associated with Needle Mushroom (Flammulina filiformis) and its Production Environment

This study aimed to comprehensively investigate the bacterial community structure and diversity within the Flammulina filiformis cultivation and production environment in two farms. Through the integration of high-throughput sequencing based on 16S rRNA amplification and traditional culture-dependent methods, we sought to achieve the following objectives: (1) Characterize the microbial composition and diversity to understand the dynamics of the cultivation environment; (2) Explore the impact of microbial composition and diversity on the prevalence of disease-causing species; (3) Employ a multi-faceted approach, combining morphological, physiological, biochemical characteristics, 16S rRNA identification, and phylogenetic tree construction, to identify and confirm pathogenic bacteria responsible for specific diseases; and (4) Provide a theoretical foundation for the development of core microbiota and disease management strategies to enhance the sustainable production of F. filiformis. By addressing these objectives, our findings will contribute to a better understanding of the microbial ecology of mushroom cultivation and offer valuable insights for the implementation of effective mushroom good agricultural practices (MGAP) protocols and disease management practices.