Fig. 5

The maximum likelihood (ML) unrooted tree with the highest log likelihood (−675.06) was produced using the Tamura 3-parameter substitution model (T92) [54] and was based on partial sequences of the Giardia duodenalis gdh gene. G. duodenalis assemblages of the current study were colored with three distinct colors: orange for genotype A, blue for genotype B and pink for genotype E. The dataset comprised 32 sequences: 22 sequences of gdh gene obtained in this study (A21-D51, Bold) were compared with ten reference sequences of known sub-assemblage from GenBank. Next to the branches, the proportion of trees (1000 replicates) in which the related taxa clustered together is displayed. Entire bootstrap value > 50% is displayed. The rate variation model allowed for some sites to be evolutionarily invariable (40.82% sites). The tree is drawn to scale, with branch lengths measured in the number of substitutions per site. There were 267 positions in the final dataset. POCT Patients on corticosteroid therapy, CONT Controls