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This study was carried out for four month (September, 2015 to December, 2015) to find the fungal species associated with post-harvest spoilage of pawpaw fruits sales at Na’ibawa and Wudil Markets all in Kano State. A total of five strains of fungi were isolated and identified as Aspergillus niger, Aspergillus flavuus, Rhizophus stolonifer, Yeast, and Fusarium. Pathogenicity test of each fungal isolate showed that all fungi were capable of causing rotting of the fruit and most severe rotting was caused by Aspergillus niger and Yeast with 8(29.63%) Respectively at Na’ibawa market and 10(34.48%) and 9(31.03%) at Wudil market followed by Rhizophus with 7(25.93%) and 5 (17.25%) while Aspergillus flavus and Fusarium produced the least rotting of the fruit. The difference in the fungal spoilage of Carica papaya between the two market areas Na’ibawa and Wudil markets was statistically significant (p≥0.05). From the result of this study, it is clearly indicated that the spoilage of pawpaw fruits in the two markets was due to fungal attack.