Fungal trophic modes and substrates utilization ability was observed in composting. Fungi had the higher diversity and more trophic types in thermophilic phase. Fungi had the higher metabolic potential in fresh swine manure and mature production. Redox potential, organics and moisture are main factors impacting fungal community. Composting reduced pathogenic fungi and enrich dung saprotroph fungi in swine manure. The succession of fungal community, trophic mode and metabolic characteristics were evaluated in 60 days composting of swine manure by high-throughput sequencing, FUNGuild and Biolog method, respectively. The result showed that the fungal community diversity reached to the highest level (76 OTUs) in the thermophilic phase of composting, then sustained decline to 15 OTUs after incubation. There were 10 fungal function groups in the raw swine manure. Pathotroph-saprotroph fungi reached to 15.91% on Day-10 but disappeared on Day-60. Dung saprotroph-undefined saprotroph fungi grown from 0.19% to 52.39% during the treatment. The fungal community had more functional groups but the lower substrate degradation rates in the thermophilic phase. The fungal communities on Day-0 and Day-60 had the highest degradation rates of amino acids and polymers, respectively. Redundancy analysis showed that ORP (49.6%), VS/Ash (45.3%) and moisture (39.2%) were the main influence factors on the succession of fungal community in the swine manure composting process.