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Table 1 Nucleotide changes in the ompA gene of clinical strains of C. trachomatis compared with reference sequences

From: Chlamydia trachomatis isolated from cervicovaginal samples in Sapporo, Japan, reveals the circulation of genetically diverse strains

Genotype (no. of strains)

Nucleotide change

Amino acid change

Accession number

D (9)

D1 (7)

(129C → T,

(Synonymous,

LC498598

184G → A,

Val → Met,

186 T → G,

 

195C → T

Synonymous,

636A → T)a

Synonymous)b

D2 (1)

()a

+ 977C → Ta

()b

+Ala→Val

LC498599

D3 (1)

No mutations

 

LC498600

E (12)

 

No mutations

 

LC498601

F (25)

F1 (24)

No mutations

 

LC498602

F2 (1)

397C → A

Arg → Ser

LC498603

Gc (6)

G1 (4)

487G → A

Gly → Ser

LC498604

G2 (1)

487G → A

+  23 SNPs

Gly → Ser

LC498605

H (4)

 

272A → G

Asn → Ser

LC498606

850C → T

Synonymous

I (2)

I1 (1)

684G → A

Synonymous

LC498607

764 T → C

Ile → Thr

810C → T

Synonymous

1000 T → G

Ser → Ala

1007C → G

Ala→Gly

Insertion of codon AGC between 1008 and 1009

Insertion of Gly

1011A → T

Glu → Val

1017A → C

Glu → Ala

I2d (1)

684G → A

Synonymous

LC498608

764 T → C,

Ile → Thr

810C → T,

Synonymous

938C → T

Ala→Val

J (1)

 

369C → T

Synonymous

LC498609

K (2)

 

293A → G

Asn → Ser

LC498610

  1. Bold letters indicate nonsynonymous mutations
  2. Reference sequences used for comparison with sequences obtained in this study were: D/B-120 (X62918), E/Bour (X52557), F/IC-Cal3 (X52080), G/UW57 (AF063199), H/wash (X16007), I/UW-12 (AF063200), J/UW36 (AF063202), and K/UW31 (AF063204)
  3. ()a common mutations [129C➔T, 184G➔A, 186 T➔G, 195C➔T, 636A➔T] found in C. trachomatis genotype D strains isolated in Sapporo
  4. ()b amino acid changes caused by a cluster of common mutations, denoted by ()a in C. trachomatis genotype D strains isolated in Sapporo
  5. cOne sample of genotype G was confirmed using the forward primer, but substitution 487G➔A could not be confirmed in this sample.
  6. dNucleotide substitutions 1000 T➔G, 1007C➔G, 1011A➔T, and 1017A➔C and insertion of codon AGC between positions 1008 and 1009 were not analyzed in this strain