Table 4

Putative phase variable genes of Helicobacter bizzozeronii CIII-1

Repeat unit

Length(bp)

Region

Localization1

CDS Locus_Tag2

Predicted function


Glycan biosynthesis

C

20

1,090,089..1,090,108

5'

HBZC1_11830

Alpfa(1,3)-Fucosyltransferase (glycosyltransferase Family GT10)

C

19

448,597..448,615

M

HBZC1_04780/HBZC1_04770/HBZC1_04760

Putative Beta-Galactosyltransferase (glycosyltransferase Family GT25)

C

19

449,444..449,462

5'

HBZC1_04800/HBZC1_04790

Putative Beta-Galactosyltransferase (glycosyltransferase Family GT25)

C

14

237,793..237,806

5'

HBZC1_02530/HBZC1_02540

UDP-N-acetylglucosamine 2-epimerase

G

13

339,856..339,872

M

HBZC1_03690/HBZC1_03680

Glycosyltransferase Family GT4

CT

13

1,310,060..1,310,085

M

HBZC1_14140

Glycosyltransferase Family GT4

CACACAA

13

706,715..706,800

M

HBZC1_07440

Glycosyltransferase Family GT4

Cell-surface-associated proteins

G

15

478,890..478,904

5'

HBZC1_05060

Hypothetical protein (putative HcpA)

G

10

732,027..732,038

M

HBZC1_07730/HBZC1_07740

CBS domains containing protein (homologue of HP1490 - TolC efflux pump)

G

15

1,677,616..1,677,630

5'

HBZC1_18160

Putative ATP/GTP binding protein

G

9

58,965..58,973

5'

HBZC1_00570

Massive surface protein (MspC)

G

9

640,616..640,624

M

HBZC1_06770

Outer membrane protein

C

9

809,713..809,721

M

HBZC1_08590/HBZC1_08580

Outer membrane protein (omp30)

A

9

1,401,250..1,401,258

5'

HBZC1_15140/HBZC1_15150

Outer membrane protein

C

9

666,243..666,252

M

HBZC1_06970

Putative paralog of HpaA

C

9

880,014..880,022

5'

HBZC1_09290

Hypothetical protein

T

9

167,433..167,441

M

HBZC1_01860

Cardiolipin synthetase (phosholipase D)

C

9

1,364,186..1,364,194

5'

HBZC1_14770

Rare lipoprotein A precursor

C

9

611,706..611,714

5'

HBZC1_06460

Methyl-accepting chemotaxis protein

G

9

831,049..831,057

5'

HBZC1_08750/HBZC1_08760

Flagellar assembly protein FliH

A

9

813,507..813,515

5'

HBZC1_08620

Flagellar hook-length control protein FliK

C

9

1,380,513..1,380,521

M

HBZC1_14960

Hypothetical protein (probable membrane protein)

G

9

1,581,243..1,581,251

5'

HBZC1_17050

Omp

AG

8

516,821..516,838

M

HBZC1_05450/HBZC1_05460

Membrane protein containing sulfatase domain

TC

6

1,716,985..1,716,996

M

HBZC1_18530

Membrane protein containing sulfatase domain

CAGCA

14

1,532,941..1,533,010

5'

HBZC1_16470

HopZ

Restriction/Modification system

AC

20

823,472..823,513

3'

HBZC1_08670/HBZC1_08280

Type I restriction-modification system, DNA-methyltransferase subunit M and S

Stress associated proteins

C

9

204,956..204,964

M

HBZC1_02170

Cold-shock DEAD-box protein A

G

10

1,343,484..1,343,493

M

HBZC1_14490

Putative periplasmic protein contains a protein prenylyltransferase domain

Other proteins

G

9

886,063..886,071

M

HBZC1_09350/HBZC1_09360

Hypothetical protein (homolog of putative heterodisulfide reductase H. suis)

G

17

981,720..981,736

M

HBZC1_10620/HBZC1_10630

Hypothetical protein (Sel1 domain-containing protein)

C

16

1,314,541..1,314,556

5'

HBZC1_14170/HBZC1_14180

Hypothetical protein

G

9

177,594..177,602

M

HBZC1_01940

Hypothetical protein

C

10

372,167..372,176

5'

HBZC1_04030

Hypothetical protein

A

9

571,554..571,562

5'

HBZC1_06030

Hypothetical protein

C

13

886,063..886,071

M

HBZC1_10080

Hypothetical protein

C

17

986,120..986,136

M

HBZC1_10650

Hypothetical protein

G

9

1,135,720..1,135,728

5'

HBZC1_12200

Cytidine monophosphate-N-acetylneuraminic acid contains Rieske domain

C

14

1,235,708..1,235,721

5'

HBZC1_13300

Hypothetical protein

C

9

1,380,536..1,380,544

M

HBZC1_14960

Hypothetical protein

G

10

1,458,356..1,458,364

M

HBZC1_15990

Hypothetical protein

G

9

1,571,406..1,571,414

M

HBZC1_16940

Hypothetical protein

G

13

1,659,328..1,659,340

5'

HBZC1_17930

Hypothetical protein (contains LexA/Signal peptidase domain)


1localization of the SSR in the 5' terminal part (5'), 3' terminal part (3') or in the middle (M) of the corresponding CDS

2when modifying the repeat length allows to merge two or more adjacent CDSs, the respective locus tags are indicated in the table separated by a slash

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

Open Data