Nap island organisation in <i>Neisseria meningitidis (Nm)</i> MC58, <i>Nm</i> FAM18, <i>Neisseria lactamica (Nl)</i> 020–06, and <i>Neisseria cinerea</i> (<i>Nc</i>) NCTC10294.

In both <i>Nm</i> and <i>Nl</i> strains, NapF sequences correspond to the long NEIS0907 allele, which is found in another loci in <i>N</i>. <i>gonorrhoeae (Ng)</i> (under the gene name NGO_0166 in <i>Ng</i> FA1090). In <i>Nm</i>, chromosomal rearrangements led to the fusion between the 2 NEIS0907-containing loci. Genes in purple correspond to those homologous to the NGO_0166-containing locus in <i>Ng</i> FA1090. In <i>Nl</i>, the presence of the long NEIS0907 allele correlates with the loss of <i>napA</i>. Regarding <i>napB</i>, due to the presence of an earlier start codon, it is present as a longer allelic form than in <i>Nm</i> or <i>Ng</i>. As for <i>napI</i>, it is slightly shorter in <i>Nl</i> than in <i>Ng</i>. Note that an extra gene is represented in black in the locus of <i>Nl</i> (NLA_13780, function unknown); a homolog sequence exists in <i>Ng</i> FA1090 but the start codon is not present. As shown in <a href="http://www.plosbiology.org/article/info:doi/10.1371/journal.pbio.3003001#pbio.3003001.g001" target="_blank">Fig 1C</a>, the locus is absent in <i>Nc</i>. Instead, 3 genes of unknown function (light grey) are present between the flanking NEIS0794 and NEIS0808. ⁑, C39 peptidase predicted cleavage site. Note that for NapB in <i>Nl</i>, ⁑ was not positioned as alternative GG-sites might be at play. Sequences were manually annotated on Snap Gene viewer. (PDF)