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Table 1 Genes downregulated 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
RT0261 Complex III (mitochondrial electron transport). [Rickettsia typhi str. Wilmington] 0.5 (0.2, 0.6, 0.9)
RT0345 NADH dehydrogenase beta subunit [Rickettsia typhi str. Wilmington] 0.6 (0.5, 0.6, 0.7)
RT0171 2-oxoglutarate dehydrogenase (lipoamide) E1 component [Rickettsia typhi str. Wilmington] 0.7 (0.5, 0.7, 0.6)
Cell cycle control, mitosis and meiosis
RT0380 putative intracellular septation protein [Rickettsia typhi str. Wilmington] 0.6 (0.4, 0.9, 0.6)
Amino acid transport and metabolism
RT0297 AtrC1-like cationic amino acid transporter protein [Rickettsia typhi str. Wilmington] 0.6 (0.3, 0.6, 1.8)
RT0473 cysteine desulfurase [Rickettsia typhi str. Wilmington] 0.6 (0.7, 0.7, 0.5)
RT0118 glutamine transport system permease protein GlnP [Rickettsia typhi str. Wilmington] 0.6 (0.3, 0.9, 0.4)
RT0474 cysteine desulfurase protein IscS/NifS [Rickettsia typhi str. Wilmington] 0.6 (0.4, 0.9, 0.6)
Nucleotide transport and metabolism
RT0498 ribonucleotide-diphosphate reductase alpha subunit [Rickettsia typhi str. Wilmington] 0.4 (0.4, 0.4, 0.5)
Carbohydrate transport and metabolism
RT0479 hypothetical protein RT0479 [Rickettsia typhi str. Wilmington] 0.6 (0.6, 0.5, 0.6)
RT0290 ribose-5-phosphate isomerase B [Rickettsia typhi str. Wilmington] 0.6 (1.1, 0.6, 0.3)
Coenzyme transport and metabolism
RT0829 5-aminolevulinate synthase [Rickettsia typhi str. Wilmington] 0.5 (0.2, 0.5, 0.8)
RT0501 methylenetetrahydrofolate dehydrogenase (NADP+) [Rickettsia typhi str. Wilmington] 0.7 (0.6, 0.7, 0.6)
Translation
RT0638 30S ribosomal protein S14 [Rickettsia typhi str. Wilmington] 0.5 (0.7, 0.6, 0.3)
RT0812 methionine aminopeptidase [Rickettsia typhi str. Wilmington] 0.5 (0.6, 0.5, 0.4)
RT0645 30S ribosomal protein S3 [Rickettsia typhi str. Wilmington] 0.5 (0.5, 0.6, 0.4)
RT0653 elongation factor Tu [Rickettsia typhi str. Wilmington] 0.5 (0.3, 0.6, 0.6)
RT0644 50S ribosomal protein L16 [Rickettsia typhi str. Wilmington] 0.5 (0.6, 0.5, 0.5)
RT0140 aspartyl/glutamyl-tRNA amidotransferase subunit B [Rickettsia typhi str. Wilmington] 0.5 (1.4, 0.4, 0.4)
RT0642 30S ribosomal protein S17 [Rickettsia typhi str. Wilmington] 0.6 (0.8, 0.6, 0.4)
RT0648 50S ribosomal protein L2 [Rickettsia typhi str. Wilmington] 0.6 (0.6, 0.7, 0.6)
RT0316 glutamyl-tRNA synthetase [Rickettsia typhi str. Wilmington] 0.6 (0.5, 0.8, 0.6)
RT0372 prolyl-tRNA synthetase [Rickettsia typhi str. Wilmington] 0.7 (0.4, 0.7, 0.9)
RT0606 isoleucyl-tRNA synthetase [Rickettsia typhi str. Wilmington] 0.7 (0.4, 0.8, 0.7)
Transcription
RT0129 DNA-directed RNA polymerase beta subunit [Rickettsia typhi str. Wilmington] 0.5 (0.3, 0.5, 0.8)
RT0130 DNA-directed RNA polymerase beta' subunit [Rickettsia typhi str. Wilmington] 0.7 (0.6, 0.6, 0.9)
RT0152 transcription antitermination protein NusB [Rickettsia typhi str. Wilmington] 0.7 (0.6, 0.7, 0.6)
RT0061 transcriptional activator protein CzcR [Rickettsia typhi str. Wilmington] 0.6 (0.5, 0.7, 0.6)
Replication, recombination and repair
RT0706 DNA ligase [Rickettsia typhi str. Wilmington] 0.4 (0.3, 0.3, 0.6)
RT0228* dinucleoside polyphosphate hydrolase [Rickettsia typhi str. Wilmington] 0.5 (0.5, 0.5, 0.4)
RT0805 tyrosine recombinase [Rickettsia typhi str. Wilmington] 0.6 (0.7, 0.6, 0.6)
Cell wall/membrane biogenesis
RT0393* hypothetical protein RT0393 [Rickettsia typhi str. Wilmington] 0.6 (0.6, 0.6, 0.6)
RT0326 probable glycosyltransferase [Rickettsia typhi str. Wilmington] 0.7 (0.6, 0.8, 0.4)
Posttranslational modification, protein turnover, chaperones
RT0319* hypothetical protein RT0319 [Rickettsia typhi str. Wilmington] 0.5 (0.3, 0.6, 0.3)
RT0617 chaperonin GroEL [Rickettsia typhi str. Wilmington] 0.5 (0.4, 0.4, 1.0)
RT0191 co-chaperone HscB [Rickettsia typhi str. Wilmington] 0.5 (0.7, 0.7, 0.2)
RT0828* heat shock protein 90 [Rickettsia typhi str. Wilmington] 0.5 (0.3, 0.6, 0.5)
RT0318 thioredoxin peroxidase I [Rickettsia typhi str. Wilmington] 0.5 (0.6, 0.8, 0.4)
RT0111 protease activity modulator protein HflK [Rickettsia typhi str. Wilmington] 0.6 (0.8, 0.4, 0.6)
RT0476 Glutathione S-alkyltransferase. [Rickettsia typhi str. Wilmington] 0.6 (0.2, 0.7, 1.1)
RT0618* co-chaperonin GroES [Rickettsia typhi str. Wilmington] 0.6 (0.5, 0.5, 0.7)
RT0176 molecular chaperone DnaK [Rickettsia typhi str. Wilmington] 0.6 (0.4, 0.6, 1.1)
Inorganic ion transport and metabolism
RT0612 zinc/manganese ABC transporter permease protein [Rickettsia typhi str. Wilmington] 0.6 (0.3, 1.1, 0.6)
RT0258 hypothetical protein RT0258 [Rickettsia typhi str. Wilmington] 0.6 (0.5, 0.9, 0.6)
General function prediction only
RT0320* hypothetical protein RT0320 [Rickettsia typhi str. Wilmington] 0.6 (0.5, 0.5, 0.6)
RT0431 hypothetical protein RT0431 [Rickettsia typhi str. Wilmington] 0.6 (0.4, 0.6, 1.2)
RT0035 GTP-binding protein [Rickettsia typhi str. Wilmington] 0.6 (0.3, 0.9, 1.2)
Function unknown
RT0471 iron-binding protein IscA/HesB [Rickettsia typhi str. Wilmington] 0.5 (0.4, 0.7, 0.6)
RT0519* rickettsial conserved hypothetical protein [Rickettsia typhi str. Wilmington] 0.6 (0.7, 0.7, 0.4)
Signal transduction mechanism
RT0550 nitrogen assimilation regulatory protein NtrX [Rickettsia typhi str. Wilmington] 0.6 (0.5, 0.7, 0.6)
not in COG database
RT0259 heme exporter protein B [Rickettsia typhi str. Wilmington] 0.5 (0.6, 0.8, 0.3)
RT0077* nucleoside diphosphate kinase [Rickettsia typhi str. Wilmington] 0.5 (0.6, 0.5, 0.5)
RT0874 coproporphyrinogen III oxidase [Rickettsia typhi str. Wilmington] 0.5 (0.7, 0.7, 0.3)
RT0325* rickettsial conserved hypothetical protein [Rickettsia typhi str. Wilmington] 0.6 (0.6, 0.8, 0.4)
RT0426 rickettsial conserved hypothetical protein [Rickettsia typhi str. Wilmington] 0.6 (0.2, 0.6, 1.5)
RT0485 cell surface antigen [Rickettsia typhi str. Wilmington] 0.6 (1.1, 0.7, 0.2)
RT0686 rickettsial conserved hypothetical protein [Rickettsia typhi str. Wilmington] 0.6 (0.7, 0.6, 0.5)
RT0126 50S ribosomal protein L1 [Rickettsia typhi str. Wilmington] 0.6 (0.6, 1.0, 0.6)
RT0102 hypothetical protein RT0102 [Rickettsia typhi str. Wilmington] 0.6 (0.6, 0.8, 0.5)
RT0701 possible beta-glucosidase [Rickettsia typhi str. Wilmington] 0.6 (0.8, 0.6, 0.5)
  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).
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BMC Microbiology

ISSN: 1471-2180

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