Table 2. Translational phase-variable genes in N. gonorrhoeae.
| Gene | FA1090 locus* | Repeat in FA1090* | NCCP11945 locus† | Repeat in NCCP11945† | Repeat in FA19‡ | Repeat in FA6140§ | Repeat in 35/02|| | Repeat in MS11¶ | N. gonorrhoeae candidacy# | Reference |
|---|---|---|---|---|---|---|---|---|---|---|
| pilC2 | NGO0055 | (G)13 | NGK_0074 | (G)9 | (G)10 | (G)13 | (G)9CAGG | (G)12 | Known | Jonsson et al., 1991 |
| opa | NGO0066a | (CTTCT)13CTTCG | NGK_0096 | (CTTCT)8CTTCC | (CTTCT)4CTTCC | CTT(CTTCT)10CTTCC | (CTTCT)6(CT TCC)2 | (CTTCT)8CTT CC | Known | Stern & Meyer, 1987 |
| opa | NGO0070 | (CTTCT)9CTTCG | NGK_0102 | (CTTCT)7CTTCC | (CTTCT)8CTTCC | (CTTCT)17CTTCC | (CTTCT)7CTT CC | (CTTCT)7CTT CC | Known | Stern & Meyer, 1987 |
| pglH | NGO0086 | (C)10 | np | np | no repeat | no repeat | no repeat | np | Known | Power et al., 2003 |
| pglG | NGO0087 | A(C)7 | np | np | A(C)9 | A(C)6 | A(C)6 | np | Known | Power et al., 2003 |
| pglE | NGO0207 | (CAAACAC)4 | NGK_0339 | (CAAACAC)8 (CAAATAC)3 | (CAAACAC)6CAAATACCAAACACCAAATAC | (CAAACAC)10CAAATACCAAACACCAAATACCAAACAC(CAAATAC)2 | (CAAACAC)24 CAAATAC | (CAAACAC)15(CAAATAC)3 | Known | Power et al., 2003 |
| hsdS | NGO_02155 | (G)7 | NGK_0571 | (G)7 | (G)8 | (G)9 | (G)7 | (G)7 | Known | Adamczyk-Poplawska et al., 2011 |
| Hypothetical | NGO0527 | (C)6A(C)9GC | NGK_1405 | (C)6A(C)8GC | (C)7A(C)4T(C )3GC | (C)7A(C)4T(C)3GC | (C)11A(C)8GC GC | (C)6A(C)14GC C | Yes | |
| modB | NGO0545 | (CCCAA)12 | NGK_1384 | (CCCAA)11 | (CCCAA)12 | (CCCAA)4 | (CCCAA)11 | (CCCAA)7 | Known | Srikhanta et al., 2009 |
| Replication initiation factor | NGO_06135 | (C)8TTATCTAACA(G)7 | NGK_1957 | (C)11TTATCTAACA(G)8 | (C)7TTATCTAACA(G)7 | (C)6TTATCT AACA(G)5 | (C)11TTATCT AACA(G)8 | (C)10TTATCT AACA(G)7 | Yes | |
| modA | NGO0641 | (GCCA)37 | NGK_1272 | (GCCA)18 | (GCCA)24GTCA | (GCCA)24 | (GCCA)19 | (GCCA)24 | Known | Srikhanta et al., 2009 |
| Replication initiation factor | NGO_06695 | (C)8TTATCTAACA(G)7 | NGK_1486 | (C)9TTATCTAACA(G)7 | (C)7TTATCTAACA(G)7 | (C)9TTATCT AACA(G)6 | (C)11TTATCT AACA(G)8 | (C)9TTATCTA ACA(G)7 | Yes | |
| opa | NGO0950a | (CTTCT)16CTTCC | NGK_0847 | (CTTCT)19CTTCC | (CTTCT)13CTTCC | (CTTCT)16CTTCC | (CTTCT)8CTT CC | (CTTCT)4CTT CC | Known | Stern & Meyer, 1987 |
| Hypothetical | NGO0964 | (AAGC)4 | NGK_0831a | (AAGC)8 | (AAGC)15 | (AAGC)7 | (AAGC)9 | (AAGC)7 | Yes | |
| virG | NGO0985 | (AAGC)3 | NGK_0804 | (AAGC)3 | (AAGC)2 | (AAGC)3 | (AAGC)3 | (AAGC)3 | Yes | |
| opa | NGO1040a | (CTTCT)20CTTCC | NGK_0749 | (CTTCT)20CTTCC | (CTTCT)10CTTCC | (CTTCT)7CTTCC | (CTTCT)12CT TCC | (CTTCT)13CT TCCCTTCT(C TTCC)2 | Known | Stern & Meyer, 1987 |
| opa | NGO1073a | (CTTCT)2CTTCC | NGK_0693 | (CTTCT)10CTTCC | (CTTCT)11CTTCC | (CTTCT)12CTTCC | (CTTCT)18CT TCC | (CTTCT)7CTT CC | Known | Stern & Meyer, 1987 |
| opa | NGO1277a | (CTTCT)11CTTCC | NGK_1495 | (CTTCT)7CTTCC | CTT(CTTCT)11CTTCC | (CTTCT)11CTTCC | (CTTCT)7CTT CC | (CTTCT)8CTT CC | Known | Stern & Meyer, 1987 |
| Adhesion | NGO1445 | (CAAG)20CAAA | NGK_1705 | (CAAG)12CAAA | (CAAG)12CAAA | (CAAG)6CAAA | (CAAG)9CAAA | (CAAG)6CAAA | Yes | |
| opa | NGO1463a | (CTTCT)10CTTCC | NGK_1729 | (CTTCT)7CTTCC | (CTTCT)11CTTCC | (CTTCT)12CTTCC | (CTTCT)12CT TCC | (CTTCT)10CT TCC | Known | Stern & Meyer, 1987 |
| opa | NGO1513 | (CTTCT)12CTTCG | NGK_1799 | (CTTCT)14CTTCC | CTT(CTTCT)10CTTCC | np | (CTTCT)6CTT CG | (CTTCT)7CTT CG | Known | Stern & Meyer, 1987 |
| opa | NGO1553a | (CTTCT)4CTTCC | NGK_1847 | (CTTCT)9CT TCC | (CTTCT)17CTTCC | (CTTCT)8CTTCC | (CTTCT)8CTT CC | (CTTCT)14CT TCC | Known | Stern & Meyer, 1987 |
| autA | NGO1689 | (AAGC)3 | NGK_2082 | (AAGC)3 | (AAGC)14 | (AAGC)3 | (AAGC)3 | (AAGC)3 | Known | Peak et al., 1999 ; Arenas et al., 2015 |
| pgtA | NGO1765 | (G)11 | NGK_2516 | GGGAGCGGG | (G)19 | (G)19 | GGGAGCGGG | GGGAGCGGG | Known | Banerjee et al., 2002 |
| Repetitive large surface lipoprotein | NGO_09875 & NGO_09870** | (G)8 | NGK_2422 & NGK_2423** | (G)7 | (G)7 | (G)7 | (G)7 | (G)7 | Yes | |
| opa | NGO1861a | (CTTCT)13CTTCC | NGK_2410 | (CTTCT)11CTTCC | (CTTCT)13CTTCC | (CTTCT)2CTTCC | (CTTCT)13CT TCC | (CTTCT)30CT TCC | Known | Stern & Meyer, 1987 |
| pilC1 | NGO1912 | (G)11 | NGK_2342 | (G)13 | (G)11 | GGGC(G)11 | (G)15 | (G)11 | Known | Jonsson et al., 1991 |
| Hypothetical | NGO1953 | (C)8 | NGK_2297 | (C)8 | (C)8 | (C)8 | (C)9 | (C)8 | Yes | |
| Pyrimidine 5′- nucleotidase | NGO2055 & NGO2054** | (C)6 | NGK_2176 | CAAACCCC | CAAACCCC | CAAACCCC | (C)9 | (C)10 | Yes | |
| opa | NGO2060a | (CTTCT)10CTTCG | np | np | np | (CTTCT)6CTT CC | (CTTCT)7CTT CC | Known | Stern & Meyer, 1987 | |
| opa | np | NGK_2170 | (CTTCT)14CTTCC | np | np | np | np | Known | Stern & Meyer, 1987 | |
| lgtG | NGO2072 | (C)11 | NGK_2534 & NGK_2533** | (C)12 | (C)10 | (C)10 | (C)10 | (C)10 | Known | Mackinnon et al., 2002 |
| hpuA | NGO2110 | (G)9 | NGK_2581 | (G)10 | (G)9 | (G)9 | (G)8 | (G)8 | Known | Chen et al., 1998 |
| lgtA | NGO11610 | (G)11 | NGK_2630 | (G)11 | (G)14A | (G)17A | (G)20A | (G)10A | Known | Erwin et al., 1996 |
| lgtC | NGO2156 | (G)14 | NGK_2632 | (G)13 | (G)13 | (G)10 | (G)16 | (G)8 | Known | Shafer et al., 2002 |
| lgtD | NGO2158 | A(G)14 | NGK_2634 | A(G)16 | (G)13 | A(G)12 | A(G)18 | A(G)13 | Known | Shafer et al., 2002 |
*From the N. gonorrhoeae strain FA1090 genome sequence (NC_002946.2).
†From the N. gonorrhoeae strain NCCP11945 genome sequence (CP00150.1).
‡From the N. gonorrhoeae strain FA19 genome sequence (NZ_CP012026.1).
§From the N. gonorrhoeae strain FA6140 genome sequence (NZ_CP012027.1).
||From the N. gonorrhoeae strain 35/02 genome sequence (NZ_CP012028.1).
¶From the N. gonorrhoeae strain MS11 genome sequence (NC_022240.1).
#Gene phase variation candidacy in N. gonorrhoeae. Known , phase variation has been reported in the literature. Yes, there is evidence of repeat tract variation between strains supporting phase variation.
**This coding sequence appears to be frame-shifted and annotated as two coding sequences.
np, The coding sequence is not present in this strain.