High-throughput sequencing has fundamentally changed how molecular phylogenetic datasets are assembled, and phylogenomic datasets commonly contain 50-100-fold more loci than those generated using trad
The vcf file with variable and invariable sites and multiple sequence alignments (for whole-genome and 16S rRNA phylogeny, and extracted from the vcf file) used for analyses.
aThe numbering starts at the first nucleotide of each comparison fragment for each locus on the C. jejuni MLST database website. Numbers not underlined are in the left fragment, numbers with intermitt
Used to calculate phylogenetic diversity for each site. List of species names found at the 29 restored prairie sites in this study (taxonomy according to Voss & Reznicek 2012) and corresponding specie
Using the full-length zinc protease gene (znpA, 1,227 bp) from type strains and clinical isolates of Fusobacterium nucleatum , Fusobacterium hwasookii (FH), and Fusobacterium periodont
