Table 1.
General Features of Sequenced Genomes.
Table 2.
Genes found in a majority of sequenced genomes but absent from NM220 and NM233.
Table 3.
Genes found in NM220 and NM233 but not in other sequenced genomes.
Table 4.
Genes with highest πS and πN in the early strain type and late strain type genome comparison. Maximum likelihood πS and πN calculated using the codeml program from PAML.
Figure 1.
Circular representation of similarity of late strain type genome to early strain type genome.
Ordered from outermost to innermost, the rims show: rim 1 (plus strand) and rim 2 (minus strand), predicted coding regions, colored by role category; rim 3, SNP density; rim 4, πN, plotted from 0 (base of rim) to 0.1; rim 5, πS, plotted 0 (base of rim) to 0.5. Role category colors are: amino acid biosynthesis, violet; biosynthesis of cofactors, prosthetic groups and carriers, light blue; cell envelope, light green; cellular processes, red; central intermediary metabolism, brown; disrupted reading frame, black; DNA metabolism, gold; energy metabolism, light gray; fatty acid and phospholipid metabolism, magenta; hypothetical proteins, black; mobile and extrachromosomal element functions, cyan; protein fate, pink; protein synthesis, pink; purines, pyrimidines, nucleosides and nucleotides, orange; regulatory functions, olive; signal transduction, olive; transcription, dark green; transport and binding proteins, blue-green; unknown function, gray; viral functions, gray. SNP density: pink, 0 SNPs per kbp; yellow, 1–25 SNPs per kbp; red, 26–50 SNPs per kbp; green, 51–75 SNPs per kbp; blue, 76–155 SNPs per kbp.
Figure 2.
NeighborNet tree of genetic relatedness of early strain type, late strain type and 20 available sequenced meningococcal genomes using aligned sequence of regions common to all genomes.
Tree produced using SplitsTree. Other genomes include: GB013, 053442, 961–5945, NZ05/33, CU385, M01-240355, M01-240149, M13399, M04-240196, H44/76, N1568, M6190, Z2491, G2136, M0579, FAM18, MC58, OX99-30304, alpha14, and ES14902.
Figure 3.
Histograms showing πN (number of non-synonymous substitutions per non-synonymous site) and πS (number of synonymous substitutions per synonymous site) in early strain type and late strain type genomes.
πN and πS calculated using codeml from the PAML package.
Table 5.
Early and late strain type population isolates, year of isolation, and results of PCR and Sanger sequencing of target genes.