Figure 5.

Intrafacility transmission is driving prevalence at high-prevalence vSNFs. A, Number of isolates in the largest subclade of the maximum likelihood phylogeny containing ≥90% of isolates from the given facility (see Methods section for more details). Note that the y-axis is log₁₀-scaled. B, Pairwise SNV distances of isolates from the same and different facilities across surveys. The gray diamond at a pairwise SNV distance of 12 indicates the threshold for closely related isolates (see Methods section for details). Abbreviations: LTACH, long-term acute care hospital; SNV, single-nucleotide variant; vSNF, ventilator-capable skilled nursing facility.