Table 4 |
||||
|
Functional gene groups divided into COG classes and their associated mRNA half-lives in B. cereus ATCC 10987 (mean within each given class) |
||||
|
Group/class/factora |
P-value |
Mean half-life (minutes, tested factor) |
Mean half-life (minutes, all others) |
N (tested factor) |
|
|
||||
|
COG |
||||
|
T: signal transduction mechanisms |
3.2E-06 |
2.1 |
2.6 |
126 |
|
M: cell wall/membrane/envelope biogenesis |
6.2E-05 |
2.1 |
2.6 |
141 |
|
L: replication, recombination and repair |
5.8E-04 |
2.2 |
2.6 |
141 |
|
K: transcription |
4.0E-04 |
2.3 |
2.6 |
240 |
|
Not in COG/no group assigned |
4.3E-06 |
2.3 |
2.6 |
586 |
|
E: amino acid transport and metabolism |
1.2E-03 |
2.9 |
2.5 |
197 |
|
G: carbohydrate transport and metabolism |
3.7E-03 |
2.9 |
2.5 |
122 |
|
H: coenzyme transport and metabolism |
2.2E-03 |
3.0 |
2.5 |
91 |
|
C: energy production and conversion |
1.2E-11 |
3.7 |
2.5 |
129 |
|
J: translation, ribosomal structure and biogenesis |
< 1.0E-16 |
3.8 |
2.5 |
166 |
|
KEGG |
||||
|
02010: ABC transporters |
5.7E-03 |
2.3 |
2.6 |
81 |
|
Not in any pathway |
< 1.0E-16 |
2.4 |
3.2 |
2005 |
|
00970: aminoacyl-tRNA biosynthesis |
2.2E-06 |
4.0 |
2.6 |
30 |
|
00010: glycolysis/gluconeogenesis |
6.0E-04 |
4.2 |
2.6 |
26 |
|
00190: oxidative phosphorylation |
1.1E-05 |
4.4 |
2.6 |
30 |
|
03010: ribosome |
9.5E-12 |
5.6 |
2.6 |
47 |
|
RBS, 2nd base |
||||
|
Not G: no base pairing with 16S rRNA |
5.4E-04 |
2.2 |
2.6 |
150 |
|
T: no base pairing with 16S rRNA |
1.0E-04 |
1.9 |
2.6 |
30 |
|
RBS, last base |
||||
|
Not G: no base pairing with 16S rRNA |
3.3E-04 |
2.3 |
2.6 |
225 |
|
T: no base pairing with 16S rRNA |
1.4E-03 |
2.1 |
2.6 |
59 |
|
Two-component systems [56] |
1.5E-07 |
1.8 |
2.6 |
53 |
|
bcr3: repeat element part of transcript |
5.6E-04 |
3.6 |
2.5 |
39 |
|
|
||||
|
aA description of all the different variables is given in Supplementary Table S4 in Additional file 1. |
||||
|
Kristoffersen et al. Genome Biology 2012 13:R30 doi:10.1186/gb-2012-13-4-r30 |
||||
