TABLE 2.
Differentially expressed ORFs organized by functional category
| ORF category by function(s) | No. (%) of ORFs with change in expression fora: |
|||||
|---|---|---|---|---|---|---|
| 2-h treatment vs no treatment |
24-h treatment vs no treatment |
24-h vs 2-h treatment |
||||
| Upregulated | Downregulated | Upregulated | Downregulated | Upregulated | Downregulated | |
| Cellular processes and signaling | ||||||
| Cell cycle control, cell division, and chromosome partitioning | 1 (0.2) | 5 (1.9) | 2 (0.9) | 1 (0.3) | ||
| Cell wall, membrane, and envelope biogenesis | 14 (3.5) | 17 (6.6) | 1 (8.3) | 18 (8.3) | 10 (3.2) | |
| Cell motility | 3 (0.7) | 1 (0.4) | 1 (8.3) | 1 (0.5) | 3 (1.0) | |
| Posttranslational modification, protein turnover, and chaperones | 20 (5.0) | 10 (3.9) | 10 (4.6) | 14 (4.5) | ||
| Signal transduction mechanisms | 18 (4.5) | 8 (3.1) | 3 (25) | 2 (0.9) | 16 (5.2) | |
| Intracellular trafficking, secretion, and vesicular transport | 4 (1.0) | 4 (1.6) | 1 (8.3) | 3 (1.4) | 3 (1.0) | |
| Defense mechanisms | 4 (1.0) | 4 (1.6) | 3 (1.0) | |||
| Information storage and processing | ||||||
| Translation, ribosomal structure, and biogenesis | 3 (0.7) | 36 (14.0) | 29 (13.4) | 3 (1.0) | ||
| Transcription | 41 (10.0) | 11 (2.7) | 2 (7.1) | 1 (8.3) | 9 (4.1) | 33 (10.7) |
| Replication, recombination, and repair | 9 (2.2) | 9 (3.5) | 5 (2.3) | 3 (1.0) | ||
| Metabolism | ||||||
| Energy production and conversion | 47 (11.7) | 28 (10.9) | 6 (21.4) | 29 (13.4) | 41 (13.3) | |
| Amino acid transport and metabolism | 65 (16.2) | 21 (8.2) | 5 (17.9) | 2 (16.7) | 25 (11.5) | 43 (14.0) |
| Nucleotide transport and metabolism | 8 (2.0) | 18 (7.0) | 17 (7.8) | 7 (2.3) | ||
| Carbohydrate transport and metabolism | 55 (13.7) | 36 (14.0) | 3 (10.7) | 34 (15.7) | 40 (13.0) | |
| Coenzyme transport and metabolism | 7 (1.7) | 13 (5.1) | 1 (3.6) | 8 (3.7) | 7 (2.3) | |
| Lipid transport and metabolism | 24 (6.0) | 6 (2.3) | 4 (14.3) | 1 (8.3) | 3 (1.4) | 17 (5.5) |
| Inorganic ion transport and metabolism | 20 (5.0) | 18 (7.0) | 3 (10.7) | 1 (8.3) | 20 (9.2) | 20 (6.5) |
| Secondary metabolite biosynthesis, transport, and catabolism | 25 (6.2) | 2 (0.8) | 5 (17.9) | 1 (8.3) | 2 (0.9) | 17 (5.5) |
| Poorly characterized | ||||||
| General function prediction only | 19 (4.7) | 3 (1.2) | 1 (3.6) | 2 (0.9) | 11 (3.6) | |
| Function unknown | 65 (16.2) | 26 (10.1) | 6 (21.4) | 3 (25) | 21 (9.7) | 57 (18.5) |
a
Percentages total more than 100% due to ORFs belonging to multiple functional categories.