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Table 2 Key characteristics of the SBSEC-MLST scheme for S. equinus, Sgg and Sgm

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

  S. equinus (n = 10) Sgg (n = 6) Sgm (n = 7)
Index of association1 IA 2.092 2.093 0.329
IA S 0.232 0.233 0.037
Gene Gene product A3 [bp] A [no] dN/dS pms [No (%)] SID A [no] dN/dS pms [No (%)] SID A [no] dN/dS pms [No (%)] SID
ddlA D-alanine-D-alanine ligase 489 8 0.093 52 (10.6) 0.956 (0.894–1.018) 6 0.098 8 (1.6) 1.000 (NaN7-NaN) 2 2.070 4 (0.8) 0.286 (-0.092–0.664)
gki glucokinase 438 8 0.061 32 (7.3) 0.956 (0.894–1.018) 3 0.000 6 (1.4) 0.600 (0.215–0.985) 3 6 6 (1.4) 0.714 (0.563–0.865)
glnA glutamine synthetase 396 2 0.000 1 (0.3) 0.200 (-0.104–0.504) 2 0.000 3 (0.8) 0.600 (0.600–0.600) 1 6 0 (0) 0 (0.000–0.000)
mutS DNA mismatch repair ATPase 552 10 0.015 43 (7.8) 1.000 (NaN7-NaN) 3 0.037 17 (3.1) 0.600 (0.215–0.985) 4 0.123 6 (1.1) 0.810 (0.630–0.989)
mutS2 mismatch repair ATPase 495 10 0.010 28 (5.7) 1.000 (NaN7-NaN) 5 0.017 13 (2.6) 0.933 (0.805–1.062) 2 0.000 2 (0.4) 0.571 (0.465–0.678)
pheS phenylalanyl tRNA synthetase 480 8 0.075 14 (2.9) 0.956 (0.894–1.018) 3 0.000 11 (2.3) 0.600 (0.215–0.985) 2 6 1 (0.2) 0.286 (-0.092–0.664)
proS prolyl tRNA synthetase 417 9 0.046 59 (14.1) 0.978 (0.927–1.028) 4 0.000 5 (1.2) 0.800 (0.528–1.072) 1 6 0 (0) 0 .000 (0.000–0.000)
pyrE orotate phosphoribosyl transferase 393 7 0.040 21 (5.3) 0.933 (0.871–0.995) 5 0.000 4 (1) 0.933 (0.805–1.062) 3 0.042 16 (4.1) 0.762 (0.655–0.869)
thrS threonyl tRNA synthetase 573 7 0.000 17 (3) 0.933 (0.871–0.995) 4 0.032 18 (3.1) 0.800 (0.528–1.072) 2 0.096 87 (15.2) 0.286 (-0.092–0.664)
tpiA triosephosphate isomerase 408 3 0.049 7 (1.7) 0.511 (0.200–0.822) 2 0.000 1 (0.2) 0.533 (0.277–0.790) 2 0.000 1 (0.2) 0.476 (0.183–0.769)
Mean (95 % CI)      0.842 (0.307–1.378)     0.74 (0.393–1.087)     0.419 (−0.173–1.011)
  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. 7NaN: maximum diversity, no CI calculcated. 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