Table 4 Number of gene clusters identified using LS-BSR that are significantly correlated with genomes of a particular clinical outcome.

From: Genomic diversity of EPEC associated with clinical presentations of differing severity

Clinical outcomes* No. of genomes No. of gene clusters
   Lineage-specific LS-BSR ≥ 0.9 EPEC-specific LS-BSR ≥ 0.8
   <0.005 <0.05 <0.005 <0.05
All genomes
Symptomatic vs asymptomatic
 Total 70 40 428 24 246
 LI+NSI 47 25 258 12 109
 AI 23 15 170 12 137
Lethal vs non-lethal
 Total 70 38 308 7 135
 LI 24 12 170 7 122
 NSI+AI 46 26 138 0 13
Typical EPEC genomes only
Symptomatic vs asymptomatic
 Total 61 31 258 15 141
 LI+NSI 44 8 151 3 58
 AI 17 23 107 12 83
Lethal vs non-lethal
 Total 61 11 202 2 86
 LI 24 5 103 2 71
 NSI+AI 37 6 99 0 15
  1. *The symptomatic clinical outcomes are classified as lethal (LI) and non-lethal symptomatic (NSI) and non-lethal are the NSI and asymptomatic (AI);
  2. genes with ≥90% nucleotide identity were grouped together into gene clusters, and the gene clusters were identified as more prevalent in genomes of one clinical outcome over another by the percentage of genomes of each group that contained the gene cluster with significant similarity (LS-BSR ≥ 0.9);
  3. genes with ≥80% nucleotide similarity were grouped together into gene clusters, and the gene clusters were identified as more prevalent in genomes of one clinical outcome over another by the percentage of genomes of each group that contained the gene cluster with significant similarity (LS-BSR ≥ 0.8) that were not present in three previously characterized E. coli commensal genomes (K-12, SE11, HS).