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Monilinia fructicola, a quarantine pathogen affecting Prunus persica, is hypothesized to drive fungal dysbiosis by altering microbial diversity, ecological interactions, and functional roles. In this study, the impact on fungal community composition, trophic dynamics, and network structure was investigated using internal transcribed spacer metabarcoding based on high-throughput sequencing of flowers and branches from infected and noninfected P. persica trees. The results showed a pathogen-induced shift, most pronounced in flowers, in which M. fructicola increased richness (Chao1), diversity (Shannon), and dominance (Simpson). In wood samples, increased dominance suggested pathogen-associated ecological filtering. Network analysis demonstrated that M. fructicola disrupts fungal connectivity, leading to fragmentation of microbial interactions, reduced network complexity, and increased modularity, indicative of weakened ecological cohesion. Shifts in fungal primary lifestyles further suggested that M. fructicola accelerates tissue decomposition and induces an imbalance in functional guilds, potentially facilitating secondary infections. Taxonomic restructuring was marked by the decline of dominant genera and the emergence of stress-adapted or pathogen-associated taxa. The isolation of Epicoccum nigrum, a known biocontrol agent, highlights its potential as a nature-based solution for disease management. Overall, these findings identify M. fructicola as a driver of fungal dysbiosis in P. persica, with cascading effects on microbial function, network resilience, and plant health. Understanding these pathogen-induced shifts is essential to inform sustainable microbiome-based approaches to disease management.<\/jats:p>","DOI":"10.1094\/phyto-02-25-0062-r","type":"journal-article","created":{"date-parts":[[2025,7,23]],"date-time":"2025-07-23T14:46:33Z","timestamp":1753281993000},"page":"1659-1671","source":"Crossref","is-referenced-by-count":0,"title":["<i>Monilinia fructicola<\/i>\n                    as a Driver of Fungal Dysbiosis and Microbial Network Disruption in\n                    <i>Prunus persica<\/i>"],"prefix":"10.1094","volume":"115","author":[{"given":"Elsa","family":"Baltazar","sequence":"first","affiliation":[{"name":"TERRA Associated Laboratory, Department of Life Sciences, University of Coimbra\u2013Center for Functional Ecology\u2013Science for People & the Planet, Cal\u00e7ada Martim de Freitas, 3000-456 Coimbra, Portugal"}]},{"given":"Ricardo","family":"Leit\u00e3o","sequence":"additional","affiliation":[{"name":"TERRA Associated Laboratory, Department of Life Sciences, University of Coimbra\u2013Center for Functional Ecology\u2013Science for People & the Planet, Cal\u00e7ada Martim de Freitas, 3000-456 Coimbra, Portugal"}]},{"given":"Sara","family":"Rodrigues","sequence":"additional","affiliation":[{"name":"TERRA Associated Laboratory, Department of Life Sciences, University of Coimbra\u2013Center for Functional Ecology\u2013Science for People & the Planet, Cal\u00e7ada Martim de Freitas, 3000-456 Coimbra, Portugal"},{"name":"Laboratory for Phytopathology, Instituto Pedro Nunes, R. 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