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Background  Clonorchiasis, a food-borne zoonosis, is caused by  Clonorchis sinensis . The intestinal tract and bile ducts are crucial places for  C. sinensis  metacercariae to develop into adult worms. The endospore of  Bacillus subtilis  is an ideal oral immunization vehicle for delivery of heterologous antigens to intestine. Cysteine protease of  C. sinensis  ( Cs CP) is an endogenous key component in the excystment of metacercariae and other physiological or pathological processes.    Methods  We constructed a fusion gene of CotC (a coat protein)- Cs CP and obtained  B. subtilis  spores with recombinant plasmid of pEB03-CotC- Cs CP ( B.s -CotC- Cs CP). CotC- Cs CP expressed on spores’ surface was detected by Western blotting and immunofluorescence. Immunological characteristics of recombinant spore coat protein were evaluated in a mouse model. The levels of  Cs CP-specific antibodies were detected by ELISA. Effects of recombinant spores on mouse intestine were evaluated by histological staining. The activities of biochemical enzymes in serum were assayed by microplate. Liver sections of infected mice were evaluated by Ishak score after Masson’s trichrome.    Results  The  B.s -CotC- Cs CP spores displayed  Cs CP on their coat. Specific IgG and isotypes were significantly induced by coat proteins of  B.s -CotC- Cs CP spores after subcutaneous immunization. IgA levels in intestinal mucus and bile of  B.s -CotC- Cs CP orally treated mice significantly increased. Additionally, more IgA-secreting cells were observed in enteraden and  lamina propria  regions of the mouse jejunum, and an increased amount of acidic mucins in intestines were also observed. There were no significant differences in enzyme levels of serum among groups. No inflammatory injury was observed in the intestinal tissues of each group. The degree of liver fibrosis was significantly reduced after oral immunization with  B.s -CotC- Cs CP spores.    Conclusions    Bacillus subtilis  spores maintained the original excellent immunogenicity of  Cs CP expressed on their surface. Both local and systemic specific immune responses were elicited by oral administration of  B.s -CotC- Cs CP spores. The spores effectively promoted intestinal health by inducing secretion of acidic mucins, with no other side effects to the liver or intestine. Oral administration of spores expressing  Cs CP could provide effective protection against  C. sinensis . This study may be a cornerstone for development of antiparasitic agents or vaccines against clonorchiasis based on  B. subtilis  spore expressing  Cs CP on the surface.    Electronic supplementary material  The online version of this article (doi:10.1186/s13071-016-1928-0) contains supplementary material, which is available to authorized users.

The immunological characteristics and probiotic function of recombinant Bacillus subtilis spore expressing Clonorchis sinensis cysteine protease