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. 2010 Feb 21;38(11):3570–3581. doi: 10.1093/nar/gkq106

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© The Author(s) 2010. Published by Oxford University Press.

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.5), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

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Figure 7. — Characteristics of S. pneumoniae R6 genes in relation to its transcriptional relaxation response. (A) Plot of the first two axes generated by correspondence analysis for codon usage, synonymous codon usage, and residue composition in 2236 S. pneumoniae R6 protein-coding genes. Up-regulated (red), down-regulated (blue), flanking (green) and unaltered (grey) gene values corresponding to the two most relevant axes derived from correspondence analysis for general codon, and residue composition are shown. (B) COG functional classes representation in domains. COG functional classes with a significantly increase (red), decrease (blue) or unaltered (grey) number of members. The ratio of the number of expected and observed members, together with the significance of the change through P-value assessed by chi-squared test (P ≤ 1E-1) are shown in parentheses below each functional class. AA, amino acid transport and metabolism; CH, carbohydrate transport and metabolism; CO, coenzyme transport and metabolism; CW, cell wall/membrane/envelope biogenesis; DM, defence mechanisms; E, energy production and conversion; II, inorganic ion transport and metabolism; NT, nucleotide transport and metabolism; ST, signal transduction; T, transcription; TR, translation, ribosome structure and biogenesis.