Fig. 6

Phylogenetic relationships of chicken Eimeria including the 33 isolates identified in this study. a Phylogenies were inferred on the basis of the complete mitogenome datasets. b Phylogenies were inferred on the basis of the concatenated nucleotide sequences of three PCGs. c Phylogenies were inferred on the basis of the concatenated nucleotide sequences of two PCGs. d Phylogenies were inferred on the basis of the nucleotide sequences of single PCG. 66 chicken Eimeria and one Isospora speecies (outgroup) were included in the aforementioned phylogenetic analyses using the BI, ML and MP methods. Ten chicken Eimeria species, E. acervulina, E. brunetti, E. lata, E. maxima, E. mitis, E. nagambie, E. necatrix, E. praecox, E. tenella and E. zaria, and their branches are shown in dark blue, blue, pink, red, green, cyan, yellow, orange, purple and flavogreen, respectively; 33 Eimeria isolates sequenced in this study are indicated in bold font (a and b) or branches (c and d). The numbers along the branches indicate bootstrap values/posterior probabilities resulting from different analyses in the order MP/ML/BI