Table 1

Numbers of genes (with known or predicted functions) that exhibited significant up- or down-regulation after inactivation of ccpA
Function category No. of genes affected by ccpA inactivation
M (Middle exponential phase) L (Late exponential phase) T (Transition phase) S (Stationary phase)
Up-regulation Down-regulation Up-regulation Down-regulation Up-regulation Down-regulation Up-regulation Down-regulation
G. Carbohydrate transport and metabolism 96 9 96 10 84 10 103 9
E. Amino acid transport and metabolism 38 28 9 38 31 52 42 18
H. Coenzyme transport and metabolism 21 12 10 11 16 9 22 22
R. General function prediction only 20 19 20 24 24 23 24 36
K. Transcription 19 13 20 13 22 13 25 22
F. Nucleotide transport and metabolism 14 4 14 1 13 3 11 7
T. Signal transduction mechanisms 11 15 12 7 11 19 19 10
C. Energy production and conversion 10 22 5 15 9 11 16 12
I. Lipid transport and metabolism 9 3 9 3 9 2 11 14
O. Posttranslational modification, protein turnover, chaperones 9 10 2 17 5 16 7 8
N. Cell mobility 8 12 11 4 7 12 14 3
M. Cell wall/membrane biogenesis 8 16 10 10 9 20 13 35
P. Inorganic ion transport and metabolism 8 22 5 25 11 17 25 18
J. Translation 6 5 10 3 5 3 6 38
L. Replication, recombination and repair 5 2 9 1 3 0 4 12
Q. Secondary metabolites biosynthesis, transport and catabolism 4 1 3 1 3 1 3 6
V. Defense mechanisms 2 3 2 1 4 2 5 7
D. Cell cycle control, mitosis and meiosis 1 1 2 1 1 1 2 4
U. Intracellular trafficking and secretion 1 0 1 0 2 0 4 4
S. Function unknown 11 22 12 21 13 20 18 37
Not in COGs 93 57 115 46 75 50 124 149
Total 370 266 352 244 330 278 465 471

Ren et al.

Ren et al. BMC Genomics 2012 13:349   doi:10.1186/1471-2164-13-349

Open Data