The goal of the current study was to investigate the incidence of liver hydatid cyst in apparently healthy sheep, for such objective a survey from November 2019 until April 2020 was performed in AL-Shoula slaughterhouse/ Baghdad province to find out most frequent hepatic hydatid cyst lesions and the associated pathogen. Out of 2196 slaughtered sheep, 50 livers showed a detectable hydatid cyst, these lesions were sampled and transported directly to the laboratory for bacteriological examination. The content was inoculated into cultures media. The isolates were identified according to Gram’s stain, as well as biochemical characters for final bacterial identification. The prevalence of hydatid cyst were (2.28%). In total, 54 of bacteria isolate were identified, these bacteria represented 10 species. All samples were subjected for primary bacterial isolation and the following bacterial species were isolated, Staphylococcus aureus 4(7.41%), E.coli 17(31.48%), Pseudomonas auroginosa 4(7.41%), Klebsiella pneumonia 8(14.82%), Listeria grayi 5(9.26%), Proteus vulgaris 4(7.41%), Salmonella typhi 2(3.70%), Streptococcus pyogenes 2(3.70%), Enterococcus fecalis 5(9.26%), Shigella flexneri 3(5.55%). This study recorded that the percentage of E.coli (31.48%) is significantly higher (P<0.01) as compared to the lower percentage as in Salmonella typhi and Streptococcus pyogenes (3.70%).In conclusion, the prevalence of liver hydatid cyst were low in Baghdad city and the E.coli was the predominant bacteria isolated.