Forty three thermophilic, thermotolerant and mesophilic fungal species and nematodes from five trophic groups were found in four compost types. Aspergillus fumigatus and A. niger were the most frequent species. Plant pathogenic fungi viz. Fusarium oxysporum, F. acuminatum, F. nygamai and F. solani were found in some of the composts in low frequency. The most abundant species of nematode corresponded to bacterivores. Tylenchus, a phytophagous nematode was scarcely found.