TABLE 2.

Iron- and IdeR-repressed genesa

Rv no.GenemRNA ratioGene productb
WT LI/HIST22 HI/WT HIST52 HI/WT HI
0116c2.3 ± 0.32.1 ± 0.32.7 ± 0.6CHMP
02823.9 ± 0.53.2 ± 0.31.0CHP
02832.9 ± 0.62.9 ± 0.51.0CHMP
02844.1 ± 0.63.7 ± 0.51.0CHMP
02853.0 ± 0.52.7 ± 0.11.0PE subfamily
02862.6 ± 0.32.3 ± 0.21.0PPE subfamily
02874.0 ± 0.64.9 ± 0.91.0Probable transcriptional regulator; PE subfamily
02883.5 ± 0.44.2 ± 0.11.0CHP; ESAT-6 family
02893.2 ± 0.22.7 ± 0.31.0CHP
02902.0 ± 0.21.9 ± 0.21.0Unknown
02913.0 ± 0.32.3 ± 0.41.0Probable secreted protease
02922.7 ± 0.31.8 ± 0.21.0Unknown
0766c3.3 ± 0.42.9 ± 0.31.0Cytochrome P-450
0450cmmpL42.1 ± 0.32.5 ± 0.11.0Conserved large membrane protein
0451cmmpS43.1 ± 0.43.6 ± 0.61.0Conserved small membrane protein
0587yrbE2A2.2 ± 0.22.1 ± 0.22.5 ± 0.3Part of the mce2 operon
1343c2.5 ± 0.52.1 ± 0.21.0CHP
13443.9 ± 0.63.2 ± 0.41.0Probable acyl carrier protein
1345fadD333.4 ± 0.42.7 ± 0.51.0Acyl-CoA synthase
1346fadE144.9 ± 0.93.3 ± 0.51.0Acyl-CoA dehydrogenase
1347c*7.9 ± 1.76.4 ± 0.51.0IucB-like protein
1348*5.1 ± 0.75.3 ± 1.01.0YbtP-like protein
1349*4.3 ± 1.24.6 ± 0.71.0YbtQ-like protein
15193.7 ± 0.42.9 ± .031.0CHP
2122c*hisE3.1 ± 0.32.5 ± 0.41.0Phosphoribosyl-AMP cyclohydrolase
212310.1 ± 2.110.1 ± 3.91.0PPE subfamily
2377cmbtH5.4 ± 1.95.6 ± 1.51.0Mycobactin synthesis
2378cmbtG5.5 ± 1.54.7 ± 0.81.0Lysine-N-oxygenase mycobactin synthesis
2379cmbtF3.6 ± 0.72.4 ± 0.41.0Peptide synthase; mycobactin synthesis
2380cmbtE7.1 ± 0.95.4 ± 1.11.0Peptide synthase; mycobactin synthesis
2381cmbtD9.9 ± 1.87.5 ± 0.91.8 ± 0.1Polyketide synthase; mycobactin synthesis
2382cmbtC5.3 ± 0.43.6 ± 0.81.0Polyketide synthase; mycobactin synthesis
2383cmbtB5.4 ± 0.83.9 ± 0.81.0Peptide synthase; mycobactin synthesis
2384mbtA1.9 ± 0.31.8 ± 0.21.0Salicylate-AMP ligase; mycobactin synthesis
2385lipK3.6 ± 0.63.2 ± 0.61.0Probable acetyl-hydrolase
2386cmbtI (trpE2)8.6 ± 1.89.3 ± 1.81.9 ± 0.2Isochorismate synthase
Mycobactin synthesis
3402c*9.7 ± 2.55.1 ± 1.01.0EryCIV-like protein
3403c5.6 ± 1.03.0 ± 0.31.0Unknown
383919.3 ± 7.014.1 ± 3.71.0Unknown
38402.6 ± 0.56.7 ± 0.51.0Probable transcriptional regulator
  • a A DNA microarray was used to measure mRNA levels in cultures of M. tuberculosis H37Rv (WT) during exponential growth under iron-deficient (2 μM FeCl3) (LI) or -sufficient (50 μM FeCl3) (HI) conditions and in exponential cultures of strains ST22 and ST52 grown in iron-sufficient medium. Differences in gene-specific RNA levels of twofold or more are listed. Genes contiguous to included genes and with a ratio of >1.6 after the standard deviation was subtracted are also listed. Genes that required IdeR for repression were repressed under high-iron conditions in the wild-type strain (WT LI/HI > 2.0), derepressed in the ideR mutant ST22 under high-iron conditions (ST22 HI/WT HI > 2.0), and repressed in the mutant complemented strain ST52 under high-iron conditions to the same levels observed in the wild type under high iron conditions (ST52 HI/WT HI = 1.0). The genes are annotated as described by the Pasteur Institute on TUBERCULIST (http://genolist.pasteur.fr/Tuberculist), except for those indicated by an asterisk. Those genes are annotated based on individual BLAST searches. Genes that are separated by <50 bp and probably coregulated are grouped.

  • b CHP, conserved hypothetical protein. CHMP, conserved hypothetical membrane protein; CoA, coenzyme A.