Skip to main content

Table 1 Key characteristics of the SBSEC-MLST scheme for the overall SBSEC, Sii and S. lutetiensis

From: Phylogenetic, epidemiological and functional analyses of the Streptococcus bovis/Streptococcus equinus complex through an overarching MLST scheme

 

SBSEC (n = 74)2

Sii (n = 39)

S. lutetiensis (n = 8)

Index of association1

IA

3.132

2.079

2.422

IA S

0.349

0.231

0.269

Gene

Gene product

A3 [bp]

A3 [no]

dN/dS

pms4 [No (%)]

SID (95 % CI)5

A [no]

dN/dS

pms [No (%)]

SID

A [no]

dN/dS

pms [No (%)]

SID

ddlA

D-alanine-D-alanine ligase

489

28

0.079

143 (29.2)

0.905 (0.867–0.943)

5

0.171

5 (1)

0.704 (0.648–0.761)

6

0.123

18 (3.7)

0.929 (0.840–1.017)

gki

glucokinase

438

27

0.059

119 (27.2)

0.901 (0.858–0.944)

5

0.144

5 (1.1)

0.668 (0.584–0.752)

5

0.072

21 (4.8)

0.893 (0.722–1.064)

glnA

glutamine synthetase

396

21

0.039

59 (14.9)

0.906 (0.878–0.934)

7

0.163

8 (2)

0.745 (0.688–0.802)

6

0.064

10 (2.5)

0.929 (0.806–1.052)

mutS

DNA mismatch repair ATPase

552

30

0.028

172 (31.2)

0.926 (0.894–0.959)

5

0.066

4 (0.7)

0.752 (0.688–0.815)

5

0.055

39 (7.1)

0.857 (0.704–1.010)

mutS2

mismatch repair ATPase

495

36

0.030

159 (32.1)

0.93 (0.890–0.969)

10

0.263

10 (2)

0.762 (0.656–0.869)

5

0.022

44 (8.9)

0.857 (0.704–1.010)

pheS

phenylalanyl tRNA synthetase

480

28

0.026

110 (22.9)

0.923 (0.889–0.957)

10

0.009

51 (10.6)

0.776 (0.680–0.872)

4

0.015

18 (3.8)

0.643 (0.301–0.985)

proS

prolyl tRNA synthetase

417

28

0.059

128 (30.7)

0.92 (0.887–0.953)

7

0.353

7 (1.7)

0.756 (0.678–0.833)

5

0.106

18 (4.3)

0.786 (0.521–1.051)

pyrE

orotate phosphoribosyl transferase

393

36

0.022

97 (24.7)

0.972 (0.961–0.983)

16

0.061

22 (5.6)

0.927 (0.894–0.960)

5

0.013

22 (5.6)

0.857 (0.704–1.010)

thrS

threonyl tRNA synthetase

573

31

0.074

168 (29.3)

0.957 (0.941–0.974)

11

0.105

99 (17.3)

0.883 (0.842–0.924)

5

0.061

27 (4.7)

0.857 (0.704–1.010)

tpiA

triosephosphate isomerase

408

17

0.119

36 (8.8)

0.894 (0.862–0.927)

4

0.152

3 (0.7)

0.687 (0.637–0.737)

5

0.056

12 (2.9)

0.893 (0.816–0.969)

Mean (95 % CI)

    

0.924 (0.874–0.973)

   

0.766 (0.602–0.93)

   

0.85 (0.682–1.018)

  1. 1Index of association based on one strain per ST: IA: calculated using classical Maynard Smith approach, IA S: standardized according to Haubold
  2. 2SBSEC: includes also 3 S. gallolyticus subsp. pasteurianus and 1 S. alactolyticus strains not listed separately
  3. 3 A allele
  4. 4 Pms polymorphic sites
  5. 5SID (95 % CI): Simpson’s index of diversity with 95 % confidence interval (CI) calculated from SID+/− 2*Standard deviation
  6. 6no dN/dS calculation due to limited allele numbers and differences
  7. Values were calculated for the entire SBSEC and individual (sub)species, including all 10 target genes and Simpson’s index of diversity (SID) as an indication for the differentiation power among strains
Back to article page

BMC Microbiology

ISSN: 1471-2180

Contact us