FIG 3.

Diversity and host specificity analyses of the SFB fliC3 and fliC4 genes using high-throughput sequencing. A new pair of primers, fliC3/4 F and fliC3/4 R, was designed according to the conserved regions of the fliC3 and fliC4 genes. The PCR amplicons of 3 mouse and rat ileal samples were sent for high-throughput sequencing using Illumina MiSeq. A 97% similarity cutoff was used to define OTUs by using Mothur. One sequence from each OTU was selected and considered representative. These sequences were classified by using the rdp classifier method and the NCBI nucleotide database. The values at the top represent the SFB ratio identified for each sample.