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/ webcite)

Schott et al. BMC Genomics 2011 12:534   doi:10.1186/1471-2164-12-534