TABLE 2.
Functional categories of genes that are significantly similar to SIO and TP sequence fragments using the BlastX algorithm
| Functional category of genes | No. of genes (% of strain total) in strain:
|
|
|---|---|---|
| SIO | TP | |
| Hypothetical and unknown function | 75 (35.0) | 20 (21.1) |
| Intracellular functions | 7 (3.3) | 10 (10.5) |
| Bioluminescence | 3 | 6 |
| Cell division | 1 | 0 |
| Nonribosomal peptide synthase | 2 | 4 |
| Flagellar biosynthesis | 1 | 0 |
| Mobile DNA | 15 (7.0) | 10 (10.5) |
| Phage and plasmid encoded | 6 | 5 |
| Super-integron-related elements | 2 | 0 |
| Transposases and integrases | 7 | 3 |
| Retroelement and addiction module | 0 | 2 |
| DNA modification and structure | 9 (4.2) | 5 (5.3) |
| Restriction-modification systems | 6 | 4 |
| Helicases, Dam methylase, binding protein | 3 | 1 |
| Metabolism | 24 (11.2) | 14 (14.7) |
| Mannitol utilization | 0 | 4 |
| Starch utilization | 6 | 0 |
| DNA/RNA synthesis and processing | 2 | 0 |
| Other anabolism/catabolism | 16 | 10 |
| Transporters/uptake/secretion | 20 (9.3) | 5 (5.3) |
| ABC transporters | 4 | 0 |
| PTS permease | 1 | 1 |
| Secretion | 1 | 1 |
| Iron uptake | 2 | 1 |
| Other transporters | 12 | 2 |
| EPS/OM/O-antigen/murein biosynthesis | 16 (7.5) | 11 (11.6) |
| Extracellular polysaccharide synthesis/transport | 3 | 1 |
| O-antigen and LPS synthesis | 10 | 8 |
| Murein recycling | 3 | 0 |
| Other | 0 | 2 |
| Virulence | 12 (5.6) | 5 (5.3) |
| Toxins and hemolysins | 9 | 3 |
| Virulence-associated factors | 3 | 2 |
| Resistance to stress | 14 (6.5) | 6 (6.3) |
| Heat shock/protein folding | 1 | 1 |
| Efflux of toxics out of cell | 3 | 3 |
| Other | 10 | 2 |
| Regulation and signal transduction | 17 (7.9) | 8 (8.4) |
| Two-component regulatory systems | 4 | 0 |
| LysR-like, GGDEF domain, and other regulators | 10 | 7 |
| Chemotaxis | 3 | 1 |
| Archaea | 3 (1.4) | 1 (1.1) |
| Eukarya | 2 (0.9) | 0 (0.0) |
| Total | 214 (100) | 95 (100) |