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Table 2 Genes upregulated upon a temperature shift from 37°C to 25°C.

From: Genome-wide screen for temperature-regulated genes of the obligate intracellular bacterium, Rickettsia typhi

Gene ID Gene annotation Fold Change (exp1, exp2, exp3)
Energy production and conversion
RT0308 hypothetical protein RT0308 [Rickettsia typhi str. Wilmington] 1.5 (2.2, 1.4, 1.0)
RT0346 NADH dehydrogenase alpha subunit [Rickettsia typhi str. Wilmington] 1.6 (1.2, 2.0, 1.8)
RT0419* succinyl-CoA synthetase alpha subunit [Rickettsia typhi str. Wilmington] 1.9 (2.1, 1.7, 1.8)
Carbohydrate transport and metabolism
RT0478* pyruvate phosphate dikinase [Rickettsia typhi str. Wilmington] 1.6 (1.9, 1.5, 1.6)
Coenzyme transport and metabolism
RT0867 lipoyltransferase [Rickettsia typhi str. Wilmington] 1.6 (1.3, 1.9, 1.7)
RT0530* 3-octaprenyl-4-hydroxybenzoate carboxy-lyase [Rickettsia typhi str. Wilmington] 2.0 (2.0, 1.5, 2.3)
RT0675* ubiquinone/menaquinone biosynthesis methyltransferase [Rickettsia typhi str. Wilmington] 2.8 (3.7, 2.4, 2.2)
Lipid transport and metabolism
RT0676* hypothetical protein RT0676 [Rickettsia typhi str. Wilmington] 1.8 (3.0, 1.5, 1.6)
Translation
RT0337 16S rRNA-processing protein [Rickettsia typhi str. Wilmington] 1.9 (2, 1.3, 2.1)
RT0604* 30S ribosomal protein S21 [Rickettsia typhi str. Wilmington] 2.2 (2.1, 2.6, 2.2)
RT0014 NTP polymerase. [Rickettsia typhi str. Wilmington] 2.3 (5.6, 1.1, 1.5)
RT0870* 50S ribosomal protein L33 [Rickettsia typhi str. Wilmington] 2.3 (2.3, 1.9, 2.5)
RT0038 50S ribosomal protein L28 [Rickettsia typhi str. Wilmington] 2.5 (4.1, 1.7, 1.3)
RT0484 hypothetical protein RT0484 [Rickettsia typhi str. Wilmington] 1.6 (2.0, 1.6, 1.4)
Replication, recombination and repair
RT0339 exodeoxyribonuclease VII small subunit [Rickettsia typhi str. Wilmington] 1.6 (1.8,1.0,1.9)
Cell wall/membrane biogenesis
RT0815 possible outer surface protein [Rickettsia typhi str. Wilmington] 1.6 (2.3, 1.2, 1.2)
RT0083 hypothetical protein RT0083 [Rickettsia typhi str. Wilmington] 1.7 (2.8, 1.1, 1.1)
RT0694 hypothetical protein RT0694 [Rickettsia typhi str. Wilmington] 1.9 (2.6, 2.0, 1.3)
Cell motility
RT0457* rickettsial conserved hypothetical protein [Rickettsia typhi str. Wilmington] 1.9 (2.1, 1.9, 1.5)
Posttranslational modification, protein turnover, chaperones
RT0620 HSP-70 cofactor [Rickettsia typhi str. Wilmington] 1.6 (1.7, 1.5, 1.5)
RT0416 SsrA-binding protein [Rickettsia typhi str. Wilmington] 1.6 (1.5, 2.5, 1.0)
RT0195* probable ATP binding cassette transporter [Rickettsia typhi str. Wilmington] 2.8 (2.1, 2.5, 5.2)
Inorganic ion transport and metabolism
RT0168 probable periplasmic divalent cation tolerance protein CutA [Rickettsia typhi str. Wilmington] 1.5 (1.3, 1.2, 2.1)
RT0013 probable zinc/manganese ABC transporter substrate binding protein 1.8 (2.5, 1.6, 1.3)
RT0523 superoxide dismutase [Rickettsia typhi str. Wilmington] 1.8 (1.8, 1.5, 2.0)
Secondary metabolites biosynthesis, transport and catabolism
RT0043* hypothetical protein RT0043 [Rickettsia typhi str. Wilmington] 1.6 (1.8, 1.6, 1.3)
General function prediction only
RT0576 Sco2-like protein [Rickettsia typhi str. Wilmington] 1.6 (1.7, 1.5, 1.5)
RT0012 hypothetical protein RT0012 [Rickettsia typhi str. Wilmington] 1.6 (2.2, 1.3, 1.3)
RT0138 hypothetical protein RT0138 [Rickettsia typhi str. Wilmington] 1.6 (1.4, 1.0, 2.2)
RT0674 ubiquinone biosynthesis protein [Rickettsia typhi str. Wilmington] 1.6 (1.3, 1.4, 2.4)
RP031 no corresponding annotation for R. typhi 1.8 (1.1, 2.9, 1.4)
RP679 no corresponding annotation for R. typhi 2.1 (1.7, 1.9, 3.3)
RT0362* Sec7-domain containing protein transport protein [Rickettsia typhi str. Wilmington] 2.6 (3.3, 5.6, 1.7)
Function unknown
RT0741 rickettsial conserved hypothetical protein [Rickettsia typhi str. Wilmington] 1.5 (1.0, 2.0, 1.7)
RT0716* rickettsial conserved hypothetical protein [Rickettsia typhi str. Wilmington] 1.6 (1.6, 1.8, 1.5)
RT0551 rickettsial conserved hypothetical protein [Rickettsia typhi str. Wilmington] 1.7 (1.4, 1.8, 1.6)
RP167 no corresponding annotation for R. typhi 1.9 (2.9, 1.7, 1.4)
RT0160 rickettsial conserved hypothetical protein [Rickettsia typhi str. Wilmington] 2.0 (2.4, 1.3, 2.1)
RT0222 hypothetical protein RT0222 [Rickettsia typhi str. Wilmington] 2.0 (2.8, 1.2, 1.7)
RT0069 iron-binding protein IscA/HesB [Rickettsia typhi str. Wilmington] 2.1 (2.2, 1.6, 2.1)
RT0743 rickettsial conserved hypothetical protein [Rickettsia typhi str. Wilmington] 2.1 (2.6, 1.1, 2.3)
RT0541 hypothetical protein RT0541 [Rickettsia typhi str. Wilmington] 2.4 (2.3, 3.5, 2.3)
Intracellular trafficking and secretion
RT0053 protein-export membrane protein [Rickettsia typhi str. Wilmington] 1.6 (1.8, 2.2, 0.9)
RT0164 signal recognition particle protein [Rickettsia typhi str. Wilmington] 1.7 (1.8, 1.2, 1.9)
RT0280 VirB8-like protein of the Type IV secretion system [Rickettsia typhi str. Wilmington] 1.8 (2.6, 1.4, 1.6)
RT0771* VirB4 protein precursor [Rickettsia typhi str. Wilmington] 1.9 (1.9, 2.1, 1.7)
RT0278* VirB8-like protein of type IV secretion system [Rickettsia typhi str. Wilmington] 2.6 (3.6, 2.8, 1.8)
not in COG
RT0351 rickettsial conserved hypothetical protein [Rickettsia typhi str. Wilmington] 1.5 (1.8, 1.0, 1.5)
RT0767* rickettsial conserved hypothetical protein [Rickettsia typhi str. Wilmington] 1.5 (1.6, 1.3, 1.7)
RT0861 hypothetical protein RT0861 [Rickettsia typhi str. Wilmington] 1.6 (1.2, 2.1, 1.4)
RT0080 rickettsial conserved hypothetical protein [Rickettsia typhi str. Wilmington] 1.6 (2.2, 1.0, 1.3)
RT0693 bicyclomycin resistance protein [Rickettsia typhi str. Wilmington] 1.6 (1.1, 1.8, 1.9)
RT0156 rickettsial conserved hypothetical protein [Rickettsia typhi str. Wilmington] 1.6 (2.4, 1.2, 1.5)
RT0461 rickettsial conserved hypothetical protein [Rickettsia typhi str. Wilmington] 1.6 (1.5, 1.6, 1.7)
RT0097 hypothetical protein RT0097 [Rickettsia typhi str. Wilmington] 1.8 (2.5, 1.4, 1.2)
RP084 no corresponding annotation for R. typhi 1.8 (2.7, 1.6, 1.5)
RT0052 190 kDa antigen precursor [Rickettsia typhi str. Wilmington] 1.8 (1.2, 1.6, 2.5)
RT0286 rickettsial conserved hypothetical protein [Rickettsia typhi str. Wilmington] 1.9 (1.4, 1.6, 3.3)
RT0443 50S ribosomal protein L36 [Rickettsia typhi str. Wilmington] 1.9 (1.9, 1.4, 2.2)
RT0206 rickettsial conserved hypothetical protein [Rickettsia typhi str. Wilmington] 2.0 (2.4, 1.6, 1.8)
RT0246* UDP-3-O- [3-hydroxymyristoyl] N-acetylglucosamine deacetylase [Rickettsia typhi str. Wilmington] 2.1 (2.5, 1.8, 2.0)
RT0382 hypothetical protein RT0382 [Rickettsia typhi str. Wilmington] 2.2 (2.8, 2.0, 1.8)
RT0279 rickettsial conserved hypothetical protein [Rickettsia typhi str. Wilmington] 2.2 (5.2, 1.3, 1.3)
RT0710* rickettsial conserved hypothetical protein [Rickettsia typhi str. Wilmington] 2.3 (2.8, 1.7, 2.2)
RT0269 rickettsial conserved hypothetical protein [Rickettsia typhi str. Wilmington] 2.3 (1.8, 6.6, 1.3)
RT0692* rickettsial conserved hypothetical protein [Rickettsia typhi str. Wilmington] 2.7 (3.4, 1.7, 2.6)
RT0806* rickettsial conserved hypothetical protein [Rickettsia typhi str. Wilmington] 2.7 (2.3, 2.6, 3.3)
RT0709* rickettsial conserved hypothetical protein [Rickettsia typhi str. Wilmington] 2.9 (2.5, 3.1, 3.1)
RT0071 rickettsial conserved hypothetical protein [Rickettsia typhi str. Wilmington] 3.2 (2.9, 1.5, 6.0)
RT0268* rickettsial conserved hypothetical protein [Rickettsia typhi str. Wilmington] 6.2 (9.0, 6.1, 4.0)
  1. Genes are grouped by functional categories. Gene IDs with asterisks and/or bold are statistically significant (see Methods). Fold change values in bold were obtained by comparing the normalized mean signal intensities of all three independent experiments using the Spotfire analysis program. Immediately following these values are the fold change values for each individual experiment (experiment 1, experiment 2 and experiment 3, respectively).