TABLE 3.

Transcriptional profiling of B. subtilis JH642 after cold shock from 37°C to 15°Ca

Gene (15°C/37°C ratio)bGene product (function)
ydjO (6.2)Unknown
ylaG (3.3)Putative GTP binding elongation factor
yplP (8.1)Putative σL-dependent transcriptional regulator
des (10.7)Fatty acid desaturase
desK (11.9)Two-component sensor kinase (activation of des)
desR (18.5)Two-component regulator (activation of des)
cspB (2.3)Major CSP
cspC (9.1)CSP
cspD (1.9)CSP
ydbR (2.6), yqfR (2.3)Putative DEAD box helicases
rbfA (2.6)Ribosomal binding factor
rplE (2.3), rplF (2.7), rplN (2.1), rplR (3.2), rplX (2.3), rpmD (2.2), rpmJ (2.0),Ribosomal proteins
    rpsE (2.5), rpsH (3.0), rpsM (2.7), rpsN (2.1)
infA (2.3), infB (2.1)Initiation factors IF1 and IF2
ytrA (4.8), ytrB (2.2), ytrC (5.2), ytrD (4.5), ytrE (5.8), ytrF (7.5)ABC transporter (acetoin utilization)
gyrA (2.1), gyrB (2.2)DNA gyrase (negative supercoil)
topA (0.5)DNA topoisomerase I (relaxes negative supercoil)
hrcA (0.3)Transcriptional regulator (CIRCE regulator)
grpE (0.2), dnaK (0.2), dnaJ (0.3), yqeT (0.4), yqeU (0.5)Chaperones (class I heat shock genes)
groEL (0.2), groES (0.1)Chaperones (class I heat shock genes)
clpP (0.4)Clp protease subunit (class III heat shock gene)
ahpC (0.4), ahpF (0.4)Alkyl hyperoxide reductase (class IV heat shock genes)
argB (0.3), argC (0.8), argD (0.4), argG (0.5), argH (0.4), argJ (0.2), aroA (0.1),Amino acid biosynthesis
aroB (0.5), aroF (0.3), aroH (0.4), asd (0.3), aspB (0.3), carA (0.4), dapB (0.5), dapG (0.4), glnA (0.3), gltA (0.3), gltB (0.3), glyA (0.4), hom (0.5), ilvD (0.5), metE (0.3), proB (0.4), proH (0.4), serA (0.1), serC (0.2), thrC (0.5)
aspS (0.4), hisS (0.2), metS (0.4), thrS (0.5)tRNA synthetases
purF (0.5), purN (0.5), purQ (0.3), purL (0.3), purM (0.6), purK (0.2), purEPurine biosynthesis
(0.2), purC (0.3), purB (0.2), guaB (0.2), ndK (0.4)
pyrA (0.5), pyrB (0.7), pyrC (0.4)Pyrimidine biosynthesis
nifS (0.4), nadA (0.3), nadB (0.5), nadC (0.4)NAD biosynthesis
upp (0.4)Uracil phosphoribosyltransferase (pyrimidine salvage)
prs (0.3)Phosphoribosyl pyrophosphate synthetase
pgi (0.4), pgk (0.5), tpi (0.4)Glycolysis
pdhA (0.2), pdhB (0.3), pdhC (0.5), pdhD (0.5)Pyruvate dehydrogenase
sucC (0.4), sdhC (0.4), citG (0.5)Citric acid cycle
atpA (0.3), alpB (0.1), atpE (0.2), atpF (0.2), atpH (0.3), atpI (0.4)ATP synthase
  • a The genes listed in the table are described in the text. A complete list containing the transcriptional patterns of all genes is available on the internet at http://www.chemie.uni-marburg.de/∼csdbase (42).

  • b Hybridization signals from three filter hybridizations of independently grown cultures were detected by PhosphorImager and quantified with ArrayVision software (version 6.0; Imaging Research, Inc.). Further analysis was carried out with GeneSpring (version 4.2; Silicon Genetics). The average correlation factor of the three respective parallel experiments was 0.99146.