Table 2 |
||
|
Examples of functional categories of core genome components in five Streptomyces genomes. |
||
|
Function description |
Examples of GO classes |
No. families |
|
|
||
|
Genetic information processing |
GO:0006260 (DNA replication) |
27 |
|
GO:0006350 (transcription) |
174 |
|
|
GO:0006412 (translation) |
102 |
|
|
GO:0006310 (DNA recombination) |
14 |
|
|
GO:0004803 (transposase activity) |
4 |
|
|
GO:0015074 (DNA integration) |
2 |
|
|
|
||
|
Regulation |
GO:0003700 (sequence-specific DNA binding transcription factor activity) |
201 |
|
GO:0016566 (specific transcriptional repressor activity) |
43 |
|
|
GO:0000155 (two-component sensor activity) |
36 |
|
|
GO:0000156 (two-component response regulator activity) |
49 |
|
|
GO:0016987 (sigma factor activity) |
31 |
|
|
|
||
|
Metabolism |
GO:0005975 (carbohydrate metabolic process) |
67 |
|
GO:0009058 (biosynthetic process) |
66 |
|
|
GO:0009116 (nucleoside metabolic process) |
13 |
|
|
GO:0006520 (cellular amino acid metabolic process) |
12 |
|
|
GO:0006631 (fatty acid metabolic process) |
7 |
|
|
|
||
|
Morphogenesis |
GO:0007047 (cellular cell wall organization) |
14 |
|
GO:0007059 (chromosome segregation) |
9 |
|
|
GO:0000902 (cell morphogenesis) |
3 |
|
|
GO:0000917 (barrier septum formation) |
2 |
|
|
|
||
|
Response to stimulus |
GO:0006950 (response to stress) |
22 |
|
GO:0046677 (response to antibiotic) |
12 |
|
|
GO:0009432 (SOS response) |
9 |
|
|
GO:0006979 (response to oxidative stress) |
3 |
|
|
|
||
|
Transport |
GO:0006811 (ion transport) |
14 |
|
GO:0015904 (tetracycline transport) |
9 |
|
|
GO:0015031 (protein transport) |
8 |
|
|
GO:0006817 (phosphate transport) |
6 |
|
|
GO:0006865 (amino acid transport) |
6 |
|
|
GO:0008643 (carbohydrate transport) |
6 |
|
|
|
||
|
Hydrolase |
GO:0008233 (peptidase activity) |
38 |
|
GO:0016810 (hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds) |
22 |
|
|
GO:0004553 (hydrolase activity, hydrolyzing O-glycosyl compounds) |
19 |
|
|
GO:0016788 (hydrolase activity, acting on ester bonds) |
12 |
|
|
GO:0016820 (hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances) |
10 |
|
|
GO:0016799 (hydrolase activity, hydrolyzing N-glycosyl compounds) |
7 |
|
|
GO:0030245 (cellulose catabolic process) |
3 |
|
|
GO:0004568 (chitinase activity) |
2 |
|
|
|
||
|
Ion binding |
GO:0008270 (zinc ion binding) |
52 |
|
GO:0051536 (iron-sulfur cluster binding) |
45 |
|
|
GO:0000287 (magnesium ion binding) |
29 |
|
|
GO:0005506 (iron ion binding) |
26 |
|
|
|
||
|
Zhou et al. BMC Bioinformatics 2012 13(Suppl 10):S8 doi:10.1186/1471-2105-13-S10-S8 |
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