Table 3.
Classification of ArcA regulated genes according to Clusters of Orthologous Groups (COGs)
| Functional Gene Groupsa | # of Genesb | |
|---|---|---|
| ArcA-activated | ArcA-repressed | |
| Cell division and chromosome partitioning | 0 | 0 |
| Cell envelope and biogenesis, outer membrane | 4 | 4 |
| Cell motility and secretion | 1 | 12 |
| Posttranslational modification, protein turnover, chaperones | 1 | 3 |
| Inorganic ion transport and metabolism | 1 | 12 |
| Signal transduction mechanisms | 5 | 3 |
| Cellular processesc | 12 | 34 |
| Defense Mechanismsc | 1 | 1 |
| Translation, ribosomal structure, and biogenesis | 0 | 7 |
| Transcription | 8 | 18 |
| DNA replication, recombination, and repair | 2 | 4 |
| Information storage and processingc | 10 | 29 |
| Intracell traffickingc | 0 | 1 |
| Energy production and conversion | 9 | 18 |
| Amino acid transport and metabolism | 25 | 30 |
| Nucleotide transport and metabolism | 7 | 2 |
| Carbohydrate transport and metabolism | 20 | 16 |
| Coenzyme metabolism | 0 | 2 |
| Lipid metabolism | 1 | 7 |
| Secondary metabolites biosynthesis, transport, and catabolism | 12 | 4 |
| Metabolismc | 74 | 79 |
| General function prediction only | 8 | 21 |
| Function unknown | 8 | 24 |
| Poorly characterized | 23 | 67 |
| Unknownc | 39 | 112 |
| Total | 147 | 245 |
aThe differentially expressed genes were classified according to clusters of orthologous groups (COGs) as defined at http://www.ncbi.nlm.nih.gov/COG.
bNumber of genes activated or repressed (by having a ratio ≥ ± 2.5-fold) by ArcA.
cBolded functional gene catagories contain a summary of the unbolded COG functional gene groups that are located in each of the previous lines.