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Web Supplement for Cummings, et al. Species- and strain-specific control of a complex, flexible regulon by Bordetella BvgAS. J. Bacteriology, 188, 1775-1785.

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Supplementary methods

Supplementary Figures

Figure	Description	Download data	Explore
Figure 3	*Patterns of Bvg-regulated gene expression in B. bronchiseptica* RB50.**	Data	View
Figure 4	*Patterns of Bvg-regulated gene expression in B. pertussis* GMT-1.**	Data	View
Supplementary Figure 2	*Differential Bvg-regulated gene expression between B. bronchiseptica strains.* Each column represents the difference of log ratio (test/reference) intensity values from the strain grown in the absence of NA (Bvg+) versus the same strain grown in the presence of 20 mM NA (Bvg-). Red: Bvg-activated, green: Bvg-repressed, grey: absence of data due to absence of genes in respective genomes (as determined by CGH). Color scale is the same as Figures 3 and 4 with the brightest values representing an absolute log ratio difference of 2.5 or higher. Tree was obtained by hierarchical clustering.	Data	View
Supplementary Figure 3	*Differential Bvg-regulated gene expression between B. pertussis* strains.** Each column represents the difference of log ratio (test/reference) intensity values from the Bvg+ phase-locked strain derivative versus the Bvg- phase-locked derivative. Red: Bvg-activated, green: Bvg-repressed, grey: absence of data due to absence of genes in respective genomes (as determined by CGH). Color scale is the same as Figures 3 and 4 with the brightest values representing an absolute log ratio difference of 2.5 or higher. Tree was obtained by hierarchical clustering.	Data	View

Supplementary tables

Download all supplementary tables as a compressed Microsoft Excel workbook

Table Description View

Supplementary Table 1 B. bronchiseptica RB50 transcription unit predictions HTML

Supplementary Table 2 B. pertussis Tohama I transcription unit predictions HTML

Supplementary Table 3 Bvg-activated genes as determined by comparison of phase-locked strains HTML

Supplementary Table 4 Bvg-repressed genes as determined by comparison of phase-locked strains HTML

Supplementary Table 5 Differential Bvg-regulation of selected genes in B. bronchiseptica and B. pertussis HTML

Supplementary Table 6 Bvg-intermediate phase genes identified by comparison of phase-locked strains HTML

Supplementary Table 7 Comparison of upstream regions of loci differentially regulated by RB50 and Tohama I HTML

Supplementary Table 8 Differential Bvg-regulation of transcriptional regulatory proteins HTML

Supplementary Table 9 Putative high-affinity BvgA-binding sites HTML

Table	Description	View
Supplementary Table 1	B. bronchiseptica RB50 transcription unit predictions	HTML
Supplementary Table 2	B. pertussis Tohama I transcription unit predictions	HTML
Supplementary Table 3	Bvg-activated genes as determined by comparison of phase-locked strains	HTML
Supplementary Table 4	Bvg-repressed genes as determined by comparison of phase-locked strains	HTML
Supplementary Table 5	Differential Bvg-regulation of selected genes in B. bronchiseptica and B. pertussis	HTML
Supplementary Table 6	Bvg-intermediate phase genes identified by comparison of phase-locked strains	HTML
Supplementary Table 7	Comparison of upstream regions of loci differentially regulated by RB50 and Tohama I	HTML
Supplementary Table 8	Differential Bvg-regulation of transcriptional regulatory proteins	HTML
Supplementary Table 9	Putative high-affinity BvgA-binding sites	HTML