Fig. 1

Intestinal parasitic protozoa detected in the calves. a Parasites annotated by metagenomic sequencing. b Phylogenetic relationships of Giardia duodenalis based on β-giardin (bg) nucleotide sequences. c Phylogenetic relationships of Eimeria based on the SSU rRNA gene. d Phylogenetic relationships of Cryptosporidium based on the SSU rRNA gene. e Phylogenetic relationships of Blastocystis based on the SSU rRNA gene. f Phylogenetic relationships of Entamoeba based on the SSU rRNA gene. Phylogenetic relationships were calculated using the maximum composite likelihood model. Percent bootstrap values greater than 50% from 1000 replicates are shown next to the branches. Triangles represent isolates detected in this study, and the name of samples which detected the parasite are written in parentheses