Table 1.
Features of the Helicobacter bizzozeronii CIII-1 genome
| Number or % of total | |
|---|---|
| General features | |
| Chromosome size (bp) | 1,755,458 |
| G+C content | 46% |
| CDS numbers | 1,894 |
| Assigned function | 1,280 |
| Conserved hypothetical/hypothetical protein | 614 |
| Ribosomal RNA operons | 2 |
| tRNAs | 36 |
| Prophage | 1 |
| Genetic island | 1 |
| Number of plasmids (bp) | 1 (52,076) |
| IS elements | 5 |
| mini-IS elements | 22 |
| Simple sequence repeats (SSRs) | 80 |
| mono ≥ 9 | 71 |
| di ≥ 6 | 6 |
| tetra ≥ 4 | 0 |
| penta ≥ 4 | 2 |
| hepta ≥ 4 | 1 |
| RAST Subsystem Category Distribution* | |
| Cofactors, Vitamins, Prosthetic Groups, Pigments | 7.9% |
| Cell Wall and Capsule | 8.2% |
| Virulence, Disease and Defense | 1.6% |
| Potassium metabolism | 0.8% |
| Miscellaneous | 2.8% |
| Membrane Transport | 2.5% |
| Iron acquisition and metabolism | 0.3% |
| RNA Metabolism | 6.4% |
| Nucleosides and Nucleotides | 4.4% |
| Protein Metabolism | 18.1% |
| Cell Division and Cell Cycle | 1.7% |
| Motility and Chemotaxis | 5.9% |
| Regulation and Cell signaling | 0.3% |
| DNA Metabolism | 3.0% |
| Fatty Acids, Lipids, and Isoprenoids | 5.7% |
| Respiration | 5.9% |
| Stress Response | 2.4% |
| Metabolism of Aromatic Compounds | 0.6% |
| Amino Acids and Derivatives | 11.6% |
| Sulfur Metabolism | 0.3% |
| Phosphorus Metabolism | 0.6% |
| Carbohydrates | 8.8% |
| Gene classes | |
| Chemotaxis proteins | 23 |
| HAMP domain containg protein | 8 |
| Methyl-accepting chemotaxis proteins (MCPs) | 20 |
| HD domain containg protein | 2 |
| Redox-sensing PAS domain proteins | 1 |
| Restriction/modification systems | |
| Type I | 1(on plasmid) |
| Type II/IIS | 2 |
| Type III | 1(partial) |
| Transcriptional regulators | 3(σ28 σ54 σ70) |
| Two-component systems | |
| Response regulator | 10 |
| Sensor histidine kinase | 4 |
*percentage of 1,151 CDS included in 234 subsystems by RAST server (http://rast.nmpdr.org/)