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Table 2 Repeat lengths for each of the genes.

From: Strain-specific differences in Neisseria gonorrhoeae associated with the phase variable gene repertoire

Functional Role

Gene

Annotated Function

FA1090*

FA19*

F62*

MS11*

Differences in repeat‡

Surface Associated Proteins

XNG0832

Outer membrane protein

(T)11C(G)6 p

(T)8C(G)8 p

(T)11C(G)6 p

(T)9C(G)6 p

Plate

 

XNG0905

AIDA related protein

(AAGC)3

(AAGC)2

(AAGC)3

(AAGC)3

Strains

 

XNG1341

Adhesin

(CAAG)20

(CAAG)13

(CAAG)9

(CAAG)6

Plate

 

XNG1563

Virulence associated protein

(AAGC)3

(AAGC)14

(AAGC)26

(AAGC)3

Plate

 

XNG1858

Putative adhesin

(G)5

(G)5

(G)5

(G)5

 

Surface Sugar Biosynthesis

XNG0060

LPS synthesis/pilin glycosylation

C(G)6

C(G)6

C(G)6

C(G)6

 
 

XNG0080

Pilin glycosylation protein

(C)10

(C)10

(C)10

Gene not present†

Plate

 

XNG0081

Pilin glycosylation protein

A(C)7

A(C) 9

A(C)7 -

Gene not present†

Plate

 

XNG0189

Pilin glycosylation protein

(CAAACAC)4

(CAAACAC)6(CAAATAC)3

(CAAACAC)4

(CAAACAC)15(CAAATAC)2

Plate

 

XNG1041

Putative glycosyl transferase

piv-Nm1B inserted‡‡

piv-Nm1B inserted‡‡

piv-Nm1B inserted‡‡

piv-Nm1B inserted‡‡

 
 

XNG1644

Pilin glycosylation protein

(G)11

(G)17

GGGAGCGG

GGGAGCGG

Strains

 

XNG1968

LPS glycosyl transferase

(C)11

(C)10

(C)10

(C)12

Strains

 

XNG2045

Glycosyl transferase

(G)11

(G)12A

(G)16

(G)12

Plate

 

XNG2047

LPS biosynthesis protein

(G)14

(G)13

(G)10

(G)8

Strains

 

XNG2048

LPS biosynthesis protein

(G)13

(G)13

(G)11

(G)13

Strains

Iron Acquisition

XNG0245

Lactoferrin-binding protein A

Gene dead††

(G)5CGG

Gene dead††

TGAAACGG

Strains

 

XNG1216

Hemoglobin receptor

GGCGGCCAA

GGCGGCCAA

GGCGGCCAA

GGCGGCCAA

 
 

XNG1989

Iron-regulated OMP

(C)13 p

(C)12 p

T(C)10 p

(C)15 p

Plate

 

XNG2004

Hb-haptoglobin utilization

(G)9

(G)9

(G)11

(G)9

Plate

Restriction Modification Systems

XNG0388

Type I restriction enzyme S

(G)7

(G)8

(G)8

(G)7

Strains

 

XNG0520

Type III restriction methylase

(CCCAA)3

(CCCAA)2

(CCCAA)11

(CCCAA)8

Plate

 

XNG0612

Putative methylase

(GCCA)11

No sequence**

No sequence**

(GCCA)22

Plate

 

XNG0644

Modification methylase NlaIV

(A)9

(A)9

(A)9

(A)9

 

Other

XNG0023

Prolyl oligopeptidase family

GGGGCGG

GGGGCGG

GGGGCGG

GGGGCGG

 
 

XNG0115

Putative colicin V secretion protein

(C)4

(C)4

(C)4

(C)4

 
 

XNG0188

ABC transporter component

AA(C)5

AA(C)5

AA(C)5

AA(C)5

 
 

XNG0608

Aminotransferase

CCACACCC

CCACACCC

CCACACCC

CCACACCC

 
 

XNG0610

L-lactate dehydrogenase

(G)7

(G)7

(G)7

(G)7

 
 

XNG0703

DNA polymerase III subunits

(C)7

(C)7

(C)7

(C)7

 
 

XNG0714

Biosynthesis protein

GGAAGG

GGAAGG

GGAAGG

GGAAGG

 
 

XNG0954

Exopolyphosphatase

(C)7

(C)7

(C)7

(C)7

 
 

XNG0986

Putative serotype-1-specific antigen

(C)6

(C)6

(C)6

(C)7

Strains

 

XNG1268

Cytochrome c oxidase, subunit III

(AT)5

(AT)5

(AT)5

(AT)5

 
 

XNG1356

NAD(P) transhydrogenase subunit

CCCTGCACC p

CCCTGCACC p

CCCTGCACC p

CCCTGCACC p

 
 

XNG1384

N-acetylmuramoyl-L-alanine amidase

TCCGCCC

TCCGCCC

TCCGCCC

TCCGCCC

 
 

XNG1423

Competence-associated protein

TGTGGGGG

TGTGGGGG

TGTGGGGG

TGTGGGGG

 
 

XNG1589

Probable ATP-dependent helicase

(C)4TCC

(C)4TCC

(C)4TCC

(C)4TCC

 
 

XNG1740

50S ribosomal protein L11

(C)7

(C)7

(C)7

(C)7

 
 

XNG1868

Methionine aminopeptidase

(C)6

(C)6

(C)6

(C)6

Genome

 

XNG1934

Putative lipoprotein

(A)9

(A)8 p

(A)8 p

(A)8 p

Strains

 

XNG1942/41

Putative hydrolase

(C)6

CAAACCCC

(C)6

(C)11

Strains

 

XNG2061

Fatty acid-phospholipid synthesis

(TTCC)3

(TTCC)3

(TTCC)3

(TTCC)3

 

Hypothetical Proteins

XNG0075

Hypothetical protein

(C)7

(C)7

(C)7

(C)7

 
 

XNG0112

Hypothetical protein

(A)6 p

(A)6 p

(A)6 p

(A)6 p

 
 

XNG0158

Hypothetical protein

(C)5

(C)5

(C)5

(C)5

 
 

XNG0412

Hypothetical protein

(G)7

(G)6

(G)6

not the same gene***

Strains

 

XNG0470

Hypothetical protein

(G)7T

(G)6

(G)6CC

(G)7T

Strains

 

XNG0473

Hypothetical protein

(T)9

(T)8

(T)9

 

Strains

 

XNG0503a

Hypothetical protein

(C)6A(C)9

(C)7A(C)4T(C)3

(C)6A(C)7

(C)6A(C)13

Plate

 

XNG0508

Hypothetical protein

AACCGGCAAACA

AACCGGCAAACA

AACCGGCAAACA

AACCGGCAAACA

 
 

XNG0552

Hypothetical protein

(C)5

(C)5

(C)5

(C)4

Strains

 

XNG0663

Hypothetical protein

CCCCTCC & T(7)

CCCCTCC & T(7)

CCCCTCC & T(6)

CCCCTCC & T(6)

Strains

 

XNG0887

Hypothetical protein

(AAGC)4

(AAGC)15

(AAGC)20

(AAGC)7

Strains

 

XNG0973

Hypothetical protein

(C)6

(C)6

(C)6

(C)6

 
 

XNG1000

Hypothetical protein

(G)7(T)4

(G)7(T)6

(G)8(T)4

GAGG(T)6

Strains

 

XNG1207a

Hypothetical protein

(G)8TTGTT

(G)8T

(G)6TTGTT

(G)10TT

Strains

 

XNG1281

Hypothetical protein

G(A)7

(A)8

G(A)7

G(A)7

Strains

 

XNG1460

Hypothetical protein

(C)7

(C)7

(C)7

(C)7

 
 

XNG1511

Hypothetical protein

No sequence**

No sequence**

No sequence**

No sequence**

 
 

XNG1577

Hypothetical protein

GGA(G)8TTGTT

GGA(G)7T

(G)6TTGTT

GGA(G)4TTGTT

Strains

 

XNG1733

Hypothetical protein

(G)8

(G)7

(G)10

(G)7

Plate

 

XNG1788

Hypothetical protein

(G)8TTGTT

(G)6TTGTT

(G)6TTGTT

(G)12TT

Plate

 

XNG1834

Hypothetical protein

(C)8

(C)8

(C)9

(C)8

Plate

 

XNG1856

Hypothetical protein

(TA)5

(TA)5

(TA)5

(TA)5

 
  1. * A clear box indicates that the gene is expressed. A shaded box indicates that the gene is not expressed.
  2. ‡ Indicating variation in the repeat. 'Strains' indicates differences in the repeat between strains. 'Plate' indicates variation of the repeat during in vitro culture. 'Genome' indicates that there is variation from the genome sequence but no observed differences between strains.
  3. † This gene is not present in this strain as seen by microarray comparative genome hybridisation [11].
  4. ‡‡ The site-specific recombinase piv-Nm1B has been inserted into this gene in all four strains
  5. †† A large deletion is present in the N-terminus of this gene.
  6. ** Amplification and sequencing did not work.
  7. *** Sequence analysis showed that the ORF present here had no homology to XNG0412 from strain FA1090.
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BMC Microbiology

ISSN: 1471-2180

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