TABLE 1.

Single-nucleotide polymorphisms resulting in premature stop codons

Cluster and EGD-e homologa	Protein	Protein length with PMSC(s) (aa)b	Full-length protein (aa)	Predicted location of full-length proteinc	Isolate(s) carrying an allele with PMSC(s)
Cluster 1
inlA (lmo0433)	Internalin A	491	800	Cell wall	FSL M6-0204, FSL R6-0665, FSL R6-0670, FSL R6-0682
inlA (lmo0433)	Internalin A	188	800	Cell wall	FSL H1-0506
lmo0130	Endonuclease	683	782	Cell wall	FSL H1-0506
lmo0514	Internalin-like protein	549	611	Cell wall	FSL M6-0204
lmo2353	Sodium, potassium, lithium, and rubidium/H+ antiporter	264	650	Membrane	FSL R6-0665, FSL R6-0670, FSL R6-0682
lmo0634	d-Tagatose-bisphosphate aldolase subunit	415	422	Cytoplasm	FSL N1-0013
lmo2356	Hypothetical protein	203	207	Unknown	FSL R6-0665, FSL R6-0670, FSL R6-0682, FSL N1-0013, FSL H1-0506
Cluster 3a
lmo0451	Unknown function	88	251	Unknown	FSL M6-1133, FSL R9-4438
Cluster 3b
lmo1131	ATP-binding ABC transporter	79	571	Cell membrane	FSL M6-0306, FSL V1-0034
lmo2185	Iron-regulated surface determinant protein A	4	569	Cell wall	FSL N1-0256, FSL N1-0400
lmo1903	Thioredoxin-like protein	78	157	Extracytoplasmic	FSL M6-0755, FSL M6-0958, FSL N1-0256, FSL N1-0400
Cluster 3
inlA (lmo0433)	Internalin A	699	800	Cell wall	All isolates
Between subclusters 3a and 3b
lmo0524	Sulfate transporter	95	553	Cell membrane	All sub-cluster 3a isolates
lmo2074	2-Succinyl-6-hydroxy-cyclohexadiene-1-carboxylate synthase	319	325	Cytoplasm	All sub-cluster 3b isolates

^aGene designation based on the EGD-e annotation described by Glaser et al. (93).

^bPMSC, premature stop codon; aa, amino acid(s).

^cLocation predicted based on presence or absence of signal peptide, transmembrane domain, and/or cell wall-attaching domain (e.g., LPXTG).