TABLE 2.

Loci with ≥2 mutations (multi-mutated loci).

ST	Locus	Number of SNPs	Gene product
131	EC958_RS00830	2	ATP-dependent helicase HrpB
131	EC958_RS01890	2	Bifunctional 3-(3-hydroxy-phenyl)propioinate/3-hydroxycinnamic acid hydroxylase
131	EC958_RS04915	2	Tail fiber protein
131	EC958_RS07360–	2	Intergenic region
	EC958_RS07365
131	EC958_RS11115	4	Ail/Lom family outer membrane beta-barrel protein
131	EC958_RS11380	2	tRNA-Ser
131	EC958_RS12105	2	Tyrosine-protein kinase Wzc
131	EC958_RS16810	4	IS66 family transposase
131	EC958_RS16955–	2	Intergenic region
	EC958_RS16960
131	EC958_RS21030	2	Autotransporter adhesin Ag43
131	EC958_RS22500	2	6-phosphofructokinase
131	EC958_RS23010	2	5S ribosomal RNA
73	DR76_RS01390	2	Autotransporter outer membrane beta-barrel domain-containing protein
73	DR76_RS02050	2	Hypothetical protein
73	DR76_RS03475	2	Arylsulfatase
73	DR76_RS08000	2	Capsular biosynthesis protein
73	DR76_RS08305	5*	Ferric aerobactin receptor IutA
73	DR76_RS25915	2	IS3 family transposase
73	DR76_RS12840–	2	Intergenic region
	DR76_RS12845
73	DR76_RS12860–	2	Intergenic region
	DR76_RS12870
73	DR76_RS12910–	2	Intergenic region
	DR76_RS12915
73	DR76_RS14760	2	Yersiniabactin polyketide synthase HMWP1
73	DR76_RS17040	2	Hypothetical protein
73	DR76_RS28490	4	Hypothetical protein
73	DR76_RS17640	2	Nitrate reductase molybdenum cofactor assembly chaperone
73	DR76_RS17725	2	Type VI secretion system tip protein VgrG
73	DR76_RS19605	2	Phage minor tail protein L
73	DR76_RS19790	2	DUF968 domain-containing protein
73	DR76_RS19815	2	Hypothetical protein
73	DR76_RS20430	3	Hypothetical protein
73	DR76_RS23550	3	Mechanosensitive channel MscK
73	DR76_RS24300	2	Helix-turn-helix transcriptional regulator
73	DR76_RS24705	2	Ribokinase

Loci correspond to loci in reference genomes used to annotate SNPs for each ST (see section “Materials and Methods” and “Supplementary Materials”). Loci separated by a dash (-) represent intergenic regions. *Two of the five mutations found in this gene occur at the same position.