The invention belongs to the technical field of prevention and control of plants diseases and particularly relates to a trichoderma koningiopsis T5-1 bacterial strain and an application thereof in improvement of growth of panax notoginseng and prevention and control of root rot. The bacterial strain is named trichoderma koningiopsis, and is assigned the accession number of CGMCC No. 12779 in China General Microbiological Culture Collection Center. The trichoderma koningiopsis T5-1 bacterial strain has developed mycelia and fluffy and dense aerial mycelia, and is free of generation of pigments. The trichoderma koningiopsis T5-1 bacterial strain can improve growth of panax notoginseng and also can inhibit growth of root rot fungus. The bacterial strain can be hyper-parasitized on the root rot fungus, so that spore production of the root rot fungus is inhibited by means of volatile organic compounds from the bacterial strain in a sealed condition. The bacterial strain lays a good foundation for development and utilization of bio-bacterial fertilizers.