Table 2.
Summary of nucleotide sequence information
| Gene | Position (min)a | Length (nucleotides)b | Ec | Substitution rated |
Location; function | Source or reference | |
|---|---|---|---|---|---|---|---|
| KA | KS | ||||||
| sapA | 996773–998523 (59) | 1,683 | 0.468 | 0.0032 | 0.0199 | Periplasm; peptide transport | 29 |
| wecA | 1551061–1551456 (91) | 398 | 0.432 | 0.0000 | 0.0207 | Cytoplasm; synthesis of common antigen | This study |
| pal | 1485485–1485823 (87) | 367 | 0.770 | 0.0033 | 0.0250 | Outer membrane; peptidoglycan-associated lipoprotein | This study |
| murC | 654024–654714 (38) | 694 | 0.561 | 0.0056 | 0.0310 | Periplasm; UDP-N-acetylmuramate-l-alanine ligase | This study |
| recA | 325798–326862 (19) | 1,073 | 0.693 | 0.0099 | 0.0433 | Cytoplasm; recombination-promotion | This study |
| fgbA | 136574–137285 (8) | 572 | 1.144 | 0.0090 | 0.0490 | Outer membrane; fibrinogen binding | 3 |
| mtrC | 1258031–1259530 (74) | 1,505 | 0.547 | 0.0109 | 0.0561 | Periplasm; efflux of antimicrobial peptides | 35 |
| hgbA | 1686700–1689521 (99) | 2,850 | 0.467 | 0.0211 | 0.0851 | Outer membrane; hemoglobin binding | 45 |
| lspA2 | 925194–925452 (54) | 459 | 0.449 | 0.1705 | 0.4215 | Outer membrane; antiphagocytic protein | This study |
| ncaA | 1614393–1614596 (95) | 203 | 0.613 | 0.0688 | 0.5863 | Outer membrane; collagen adherence | This study; 45 |
| dsrA | 603307–604195 (35) | 910 | 0.726 | 0.0408 | 1.2232 | Outer membrane; serum resistance | 45 |
| Total | 10,757 | 0.0112e | 0.0518e | ||||
a
Position of orthologous region on the H. ducreyi 35000HP chromosome; numbers in parentheses indicate minutes on a scale of 0 to 100.
b
Length of multiply aligned sequences, including insertions relative to the H. ducreyi 35000HP genome.
c
Karlin's E metric of codon usage bias (22).
d
Divergence between typical class I and class II alleles; only regions with the specified protein-coding gene were analyzed.
e
Weighted average of the eight genes with a KS of <0.1.