Plant pathogens infecting marijuana (Cannabis sativa L.) plants reduce growth of the crop by affecting the roots, crown, and foliage. In addition, fungi (molds) that colonize the inflorescences (buds) during development or after harvest, and which colonize internal tissues as endophytes, can reduce product quality. The pathogens and molds that affect C. sativa grown hydroponically indoors (in environmentally controlled growth rooms and greenhouses) and field-grown plants were studied over multiple years of sampling. A PCR-based assay using primers for the internal transcribed spacer region (ITS) of ribosomal DNA confirmed identity of the cultures. Root-infecting pathogens included Fusarium oxysporum, Fusarium solani, Fusarium brachygibbosum, Pythium dissotocum, Pythium myriotylum, and Pythium aphanidermatum, which caused root browning, discoloration of the crown and pith tissues, stunting and yellowing of plants, and in some instances, plant death. On the foliage, powdery mildew, caused by Golovinomyces cichoracearum, was the major pathogen observed. On inflorescences, Penicillium bud rot (caused by Penicillium olsonii and Penicillium copticola), Botrytis bud rot (Botrytis cinerea), and Fusarium bud rot (F. solani, F. oxysporum) were present to varying extents. Endophytic fungi present in crown, stem, and petiole tissues included soil-colonizing and cellulolytic fungi, such as species of Chaetomium, Trametes, Trichoderma, Penicillium, and Fusarium. Analysis of air samples in indoor growing environments revealed that species of Penicillium, Cladosporium, Aspergillus, Fusarium, Beauveria, and Trichoderma were present. The latter two species were the result of the application of biocontrol products for control of insects and diseases, respectively. Fungal communities present in unpasteurized coconut (coco) fiber growing medium are potential sources of mold contamination on cannabis plants. Swabs taken from greenhouse-grown and indoor buds pre- and post-harvest revealed the presence of Cladosporium and up to five species of Penicillium, as well as low levels of Alternaria species. Mechanical trimming of buds caused an increase in the frequency of Penicillium species, presumably by providing entry points through wounds or spreading endophytes from pith tissues. Aerial distribution of pathogen inoculum and mold spores and dissemination through vegetative propagation are important methods of spread, and entry through wound sites on roots, stems, and bud tissues facilitates pathogen establishment on cannabis plants.

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Yellowing and wilting symptoms on field-grown Cannabis sativa (cannabis) plants followed by total plant collapse under conditions of extreme hot weather were observed in northern California in 2017. The crown regions of affected plants were dark and sunken and internal tissue discolouration extended 10-15 cm above the soil surface. Isolations made from the pith, vascular and cortical tissues in the crown region yielded Fusarium oxysporum (40% frequency), F. brachygibbosum (28% frequency), Pythium aphanidermatum (22% frequency), Fusarium solani and F. equiseti (5% frequency each). Pathogenicity tests were conducted on rooted plantlets to establish the extent of root and crown decay, as well as on mature stems to determine the extent of stem tissue colonization caused by these species. Extensive reduction in root length was caused by F. solani, F. oxysporum, F. brachygibbosum and P. aphanidermatum and wounding significantly enhanced disease development. Stem tissue colonization by these pathogens at wound sites was similarly extensive. Isolates of F. equiseti were non-pathogenic. Both F. solani and P. aphanidermatum caused plant mortality within 6-10 weeks following inoculation. In phylogenetic analyses using the internal transcribed spacer (ITS) rDNA region and the elongation factor 1 (EF-1α) region, F. oxysporum isolates from cannabis plants in northern California were grouped separately from all other formae speciales and from isolates previously recovered from British Columbia. Two isolates of F. brachygibbosum were identical to an isolate previously reported to infect almond stems in cold storage and field-grown seedlings in northern California. These findings indicate that a complex of pathogens potentially can cause root and crown rot under field conditions, resulting in wilt symptoms and collapse of cannabis plants.

We investigated the diversity of fungal species present on inflorescences as epiphytes and in stem tissues as endophytes in flowering plants of cannabis grown organically in British Columbia during 2019-2021. Fresh and dried inflorescence samples were obtained at various times during production while stems were obtained at harvest. Fungal species in the air were assessed by exposing Petri dishes containing potato dextrose agar + streptomycin sulphate for 1 hr in the growing environment while soil samples were dilution-plated to assess soil fungal diversity. Colonies were identified from PCR-derived sequences of the ITS1-5.8S- ITS2 region of rDNA. Twenty-nine species in 26 genera were recovered from inflorescences and 17 species in 11 genera originated from stem tissues. Approximately 96 % of species found on inflorescences were present in air and 45 % were present in organic soil. The fungi comprised plant pathogens, saprophytes, and opportunistic human pathogens. A large proportion of the species found in air and soil in organic facilities are present on cannabis inflorescences, where they may increase total colony- forming units and negatively affect product quality. Some species could contribute to allergies or secondary infections in humans. The potential benefits of endophytes within organically grown cannabis plants remain unexplored.

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