Table 3.
General characteristics of the reference genomes of the 2024 WHO Neisseria gonorrhoeae reference strains (n = 15)
| Characteristics | WHO F | WHO H | WHO K | WHO L | WHO M | WHO O | WHO P | WHO Q | WHO R | WHO S2 | WHO U | WHO V | WHO X | WHO Y | WHO Z |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Accession number | CP145052 | CP145050-CP145051 | CP145048-CP145049 | CP145045-CP145047 | CP145041-CP145044 | CP145037-CP145040 | CP145035-CP145036 | CP145032-CP145034 | CP145028-CP145031 | CP145026-CP145027 | CP145024-CP145025 | CP145021-CP145023 | CP145019-CP145020 | CP145017-CP145018 | CP145015-CP145016 |
| Genome size (bp) | 2 292 467 | 2 233 100 | 2 169 846 | 2 168 633 | 2 178 344 | 2 169 062 | 2 173 861 | 2 177 981 | 2 218 559 | 2 172 077 | 2 234 269 | 2 221 284 | 2 171 112 | 2 228 980 | 2 229 351 |
| No. of CDS (without/with pseudogenes) | 2125/2370 | 2036/2289 | 1952/2204 | 1955/2216 | 1982/2225 | 1971/2215 | 1961/2222 | 1963/2223 | 2020/2264 | 1964/2214 | 2036/2286 | 2039/2285 | 1961/2210 | 2028/2287 | 2033/2286 |
| Coding density (%) | 77.4 | 77.3 | 76.9 | 76.3 | 77.4 | 77.3 | 76.8 | 76.6 | 77.2 | 77.1 | 77.2 | 77.2 | 76.8 | 77.0 | 77.1 |
| Average gene size (bp; without/with pseudogenes) | 836/822 | 848/829 | 855/836 | 846/832 | 850/832 | 850/832 | 852/832 | 850/832 | 848/835 | 853/834 | 847/832 | 841/827 | 851/833 | 847/829 | 846/828 |
| GC content (%) | 52.1 | 52.3 | 52.6 | 52.6 | 52.6 | 52.6 | 52.6 | 52.6 | 52.4 | 52.6 | 52.4 | 52.4 | 52.6 | 52.4 | 52.4 |
| 5S rRNA | 4 | ||||||||||||||
| 16S rRNA | 4 | ||||||||||||||
| 23S rRNA | 4 | ||||||||||||||
| tRNAs | 55 | 55 | 56 | 55 | 55 | 55 | 55 | 55 | 55 | 55 | 55 | 55 | 56 | 55 | 56 |
| ncRNAs | 3 | ||||||||||||||
| tmRNAs | 1 | ||||||||||||||
| No. genes in pangenome | 2471 | ||||||||||||||
| No. core genesa | 1791 | ||||||||||||||
| Accessory genes (%) | 402 (18.3) | 333 (15.7) | 258 (12.6) | 262 (12.8) | 268 (13.0) | 265 (12.9) | 271 (13.1) | 266 (12.9) | 314 (14.9) | 268 (13.0) | 328 (15.5) | 331 (15.6) | 263 (12.8) | 328 (15.5) | 325 (15.4) |
| No. 10-mer DUS (12-mer DUS)b | 1981 (1533) | 1977 (1526) |
1950 (1510) |
1956 (1518) |
1955 (1516) |
1950 (1519) |
1959 (1517) |
1958 (1521) |
1961 (1518) |
1960 (1521) |
1963 (1512) |
1968 (1518) |
1949 (1510) |
1973 (1522) |
1959 (1512) |
| Number of plasmids | 0 | 1 | 1 | 2 | 3 | 3 | 1 | 2 | 3 | 1 | 1 | 2 | 1 | 1 | 1 |
bp, base pairs; CDS, coding sequence; GC, guanine-cytosine; rRNA, ribosomal RNA; tRNA, transfer RNA; ncRNA, non-coding RNA; tmRNA, transfer-messenger RNA.
aPresent in 99%–100% of strains.
bNumber of the 10-mer DUS sequence GCCGTCTGAA (no. of the 12-mer ATGCCGTCTGAA). Note: the 10-mer sequence is included in the 12-mer.