**5. Conclusions**

The present investigation revealed the prevalence and assemblages/genotypes/species of *G. duodenalis*, *E. bieneusi* and *Cryptosporidium* spp. in pet dogs and cats in Yunnan province, China. The infection with *G. duodenalis*, *E. bieneusi* and *Cryptosporidium* spp. in dogs and cats suggests that we should take measures to prevent and control those pathogens from being transmitted to other animals and humans. Our data provided the valuable information for a better understanding of the epidemiology and public health threat of *Giardiasis, E. bieneusi* and *Cryptosporidium* spp. in pet dogs and cats in southwestern China.

**Author Contributions:** F.-C.Z., Y.Z. and X.-Q.Z. conceived and designed the study. Y.-G.W. performed the experiments, analyzed the data and drafted the manuscript. Y.Z., Z.-Z.Y., D.C., B.-Z.G., J.-F.Y. and G.-H.L. participated in the implementation of the study. X.-Q.Z., F.-C.Z., Y.Z. and Y.-G.W. critically revised the manuscript. All authors have read and agreed to the published version of the manuscript.

**Funding:** This work was supported by the Yunnan Expert Workstation (Grant No. 202005AF150041), the Veterinary Public Health Innovation Team of Yunnan Province (Grant No. 202105AE160014), the Fund for Shanxi "1331 Project" (Grant No. 20211331-13) and the Agricultural Science and Technology Innovation Program (ASTIP) (Grant No. CAAS-ASTIP-2016-LVRI-03). The funders had no role in the design of the study; in the collection, analyses, or interpretation of data; in the writing of the manuscript, or in the decision to publish the results.

**Institutional Review Board Statement:** The study protocol has been reviewed and approved by the institutional animal ethical committee of Lanzhou Veterinary Research Institute, Chinese Academy of Agricultural Sciences. The approval code: AECLVRI-2018-003.

**Informed Consent Statement:** Not applicable.

**Data Availability Statement:** The data that support the figures within this paper and other finding of this study are available from the corresponding authors upon reasonable request. All of the obtained representative *G. duodenalis* bg, gdh and tpi nucleotide sequences were deposited in GenBank (https://www.ncbi.nlm.nih.gov/ accessed on 26 November 2019) under the accession numbers MN734348- MN734356, MN734357-MN734367 and MN734368, respectively. The nucleotide sequences of *Cryptosporidium* spp. and *E. bieneusi* were deposited in GenBank under accession numbers MZ540366-MZ540371 and MZ542369-MZ542375, respectively.

**Conflicts of Interest:** The authors declare no conflict of interest.

#### **References**

