Table 2.

Reactivity to strain-specific antigens

Target variant SS14 (S) Nichols (N)	Gene coordinatesa	Significantly reactive in N.LT vs. S.LT	Significantly reactive in N.RI vs. S.RI	Annotated function	Percent identity (%)
Tp0006 (N)b Tp0006 (S)	7014.7181 7014.8261	X X ✓ ✓	X X ✓ X	Hypothetical protein/probable lipoprotein	75.4%
Tp0027 (N) Tp0027 (S)	34211.35434 34209.35432	Not represented in the arrayc X X	Not represented in the arrayc X X	HlyC/CorC family transporter	99.7%
Tp0040 (N) Tp0040 (S)	47597.49390 46945.49395	✓ X ✓ X	✓ X X X	Methyl-accepting chemotaxis protein	73.4%
Tp0126c (N) Tp0126c (S)	149381.149866 149381.149866	X X X X	X X X X	Hypothetical protein	88.8%
Tp0127 (N) Tp0127 (S)	149809.150477 149860.150240	✓ ✓ X ✓	X X X X	Hypothetical protein	51.12%
Tp0131 (N) Tp0131 (S)	154160.152370 154110.152314	✓ ✓ ✓ ✓	X X X X	Putative OMP/porin transporter; TprD/D2	79.0%
Tp0134c (N) Tp0134c (S)d	Not annotatede 156884.157591	N/A X ✓	N/A X X	hypothetical protein	N/A
Tp0136 (N) Tp0136 (S)	157747.157819 157797.157869	X ✓ X ✓	X ✓ X ✓	Putative surface lipoprotein/adhesin	91.9%
Tp0318 (N) Tp0318 (S)	Not annotatede 335991.335812	N/A X X	N/A X X	Hypothetical protein	N/A
Tp0461 (N) Tp0461 (S)	492057.492416 492090.492506	X X X X	X X X X	Helix-turn-helix transcriptional regulator	81.5%
Tp0470 (N) Tp0470 (S)	499845.498736 499709.498768	✓ ✓ ✓ ✓	✓ ✓ X X	TPR domain protein	84.8%
Tp0479 (N) Tp0479 (S)	511161.510487 510890.510351	✓ ✓ ✓ ✓	X X X X	Putative membrane protein	79.9%
Tp0548 (N) Tp0548 (S)	593270.594574 593141.594457	✓ ✓ X ✓	X X X X	Putative OMP; FadL homolog	94.5%

^aAs annotated in GenBank: NC_021490.2 and Genbank: NC_021508.1.

^bSS14 Tp0006 sequence is encompassed by Tp0006 and Tp0007 ORFs in the Nichols strain. Neither Nichols’ annotated Tp0006 nor Tp0007 is represented in the array.

^cNo amplification of the target gene.

^dAlso annotated in the T. pallidum DAL-1 strain.³³

^eNot annotated in the Nichols strain by any pipeline.