Computational protocol: Multilocus genotyping of Enterocytozoon bieneusi derived from nonhuman primates in southwest China

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Protocol publication

[…] The amplicons of the expected size were sent to Invitrogen (Shanghai, China) for sequencing. To ensure sequence accuracy, a two-directional sequencing method was used. To determine E. bieneusi genotypes, the sequences obtained in this study were aligned with sequences downloaded from the GenBank database via BLAST analysis (http://blast.ncbi.nlm.nih.gov) and through the use of ClustalX software. Phylogenetic analysis of ITS sequences was performed using Mega software (http://www.megasoftware.net/), and neighbor-joining phylogenetic analysis of the aligned E. bieneusi sequences was performed to support genotype classifications. A total of 1,000 replicates were used for bootstrap analysis. […]

Pipeline specifications

Software tools Clustal W, MEGA
Application Phylogenetics
Diseases Infection, Microsporidiosis