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Table 3 Divergence dating analysis for outbreak-related S. Typhimurium 135@

From: Evidence of microevolution of Salmonella Typhimurium during a series of egg-associated outbreaks linked to a single chicken farm

  BEAST Patho-O-Gen Consensus values
Confidence 100 million iterations x 5 runs (ESS > 30,000) R2 = 0.71 -
Divergence date for all S . Typhimurium 135@ May 1996 [Jul 1986 - Nov 2001] Mid 1997 1996-1997
Divergence date for S . Typhimurium 135@ farm clone May 2004 [Sep 2002 - Mar 2005] Early 2003 2003-2004
Substitution rate variable site-1day-1 7.6 × 10-6 [3.2 – 12.5 × 10-6] 4.4 × 10-6 4.4-7.6 × 10-6
Substitution rate
site-1year-1
1.2 × 10-6 [4.8 – 19 × 10-7] 6.7 × 10-7 6.7-12 × 10-7
SNP year -1 5 [28] 3 3-5
  1. Divergence and mutation rate estimates [95% highest posterior density intervals] from BEAST and Path-O-Gen analyses, and consensus values across these two methods. ESS, effective sample size; R2, Pearson correlation between date of isolation and maximum likelihood tree branch length.