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Table 3 Virulence factors determined by CGH for NT clonal complexes

From: Non-typeable pneumococci circulating in Portugal are of cps type NCC2 and have genomic features typical of encapsulated isolates

Gene name and/or annotation CC344 (n = 15) CC1156 (n = 8) CC320 (n = 1) sing1540 (n = 1) sing1278 (n = 1) CC941 (n = 3) CC448 (n = 2) CC1618 (n = 2) sing1705 (n = 1)
Competence proteins          
comA; competence factor transporting ATP-binding/permease protein ComA 1 1 1 1 1 1 1 1 1
comB; competence factor transport protein ComB 1 1 1 1 1 1 1 1 1
comD; putative sensor histidine kinase ComD 1 1 1 1 1 1 1 1 1
comE; response regulator ComE 1 1 1 1 1 1 1 1 1
comX1; transcriptional regulator ComX1 1 1 1 1 1 1 1 1 1
competence damage-inducible protein A 1 1 1 1 1 1 1 1 1
coiA; competence protein CoiA 1 1 1 1 1 1 1 1 1
competence protein ComF, putative 1 1 1 1 1 1 1 1 1
celA; competence protein CelA 1 1 1 1 1 1 1 1 1
celB; competence protein CelB 1 1 1 1 1 1 1 1 1
ccs1; competence-induced protein Ccs1 1 1 1 1 1 1 1 1 1
ccs4; competence-induced protein Ccs4 1 1 1 1 1 1 1 1 1
ccs16; competence-induced protein Ccs16 1 1 1 1 1 1 1 1 1
cspC-related protein, authentic point mutation 1 1 1 1 1 1 1 1 1
pilD; type IV prepilin peptidase, putative 1 1 1 1 1 1 1 1 1
comGA/cglA; competence protein CglA 1 1 1 1 1 1 1 1 1
comGB/cglB; competence protein CglB 1 1 1 1 1 1 1 1 1
comGC/cglC; competence protein CglC 1 1 1 1 1 1 1 1 1
comGD/cglD; competence protein CglD 1 1 1 1 1 1 1 1 1
comGE 1 1 1 1 1 1 1 1 1
comGF 1 1 1 1 1 1 1 1 1
comGG 1 1 1 1 1 1 1 1 1
Choline-binding proteins          
cbpA/pspC; choline binding protein A 0 0 0 0 0 0 0 0 0
cbpD; choline binding protein D 1 1 1 1 1 1 1 1 1
cbpE/pce; choline binding protein E 1 1 1 1 1 1 1 1 1
cbpF; choline binding protein F 0.1 0.9 1 0 1 0.3 0 0 1
cbpG; choline binding protein G 0.9 1 1 1 1 1 1 1 1
lytA; autolysin 1 1 1 1 1 1 1 1 1
lytB; endo-beta-N-acetylglucosaminidase 1 1 1 1 1 1 1 1 1
lytC; beta-N-acetylhexosaminidase 1 1 1 1 1 1 1 1 1
pspA; pneumococcal surface protein A 0 0 0 0 0 0 0 0 0
pcpA; choline binding protein PcpA 0.9 0.1 0 0 0 0 0 0 0
Colonisation-associated proteins          
hyl; hyaluronidase 0.9 1 1 1 1 1 1 0.5 1
nanA; neuraminidase A/siliase A precursor 0.1 0 0 1 0 0 0 0.5 1
pavA; adherence and virulence protein A 1 1 1 1 1 1 1 1 1
rlrA; transcriptional regulator, putative 0 0 0 0 0 0 0 0 0
bgaA; beta-galactosidase 0.1 0.9 1 0 1 0.3 0 0 0
eno; phosphopyruvate hydratase 1 1 1 1 1 1 1 1 1
pyrR; bifunctional pyrimidine regulatory protein PyrR uracil phosphoribosyltransferase 1 1 1 1 1 1 1 1 1
strH; beta-N-acetylhexosaminidase 1 1 1 1 1 1 1 1 1
trpG; anthranilate synthase component II 1 1 1 1 1 1 1 1 1
phoU; phosphate transport system regulatory protein PhoU, putative 0.1 0.9 1 1 1 0.3 0 0.5 0
rr01; DNA-binding response regulator 1 1 1 1 1 1 1 1 1
transcriptional regulator SPY2053 1 1 1 1 1 1 1 1 1
Other major virulence factors          
ply; pneumolysin 1 1 1 1 1 1 1 1 1
psaA; manganese ABC transporter, manganese-binding adhesion lipoprotein 1 1 1 1 1 1 1 1 1
htrA; serine protease 1 1 1 1 1 1 1 1 1
IgA; immunoglobulin A1 protease 1 1 1 1 1 1 1 1 1
spxB; pyruvate oxidase 1 1 1 1 1 1 1 1 1
piaA; iron-compound ABC transporter, iron compound-binding protein 0.1 0.9 0 0 0 0.3 0 0.5 1
piaB; iron-compound ABC transporter, permease protein 0.1 0.9 0 0 0 0.3 0 0.5 1
piaC; iron-compound ABC transporter, permease protein 0.1 0.9 0 0 0 0.3 0 0.5 1
piaD; iron-compound ABC transporter, ATP-binding protein 0.1 0.9 0 0 0 0.3 0 0.5 1
piuA; iron-compound ABC transporter, iron-compound-binding protein 1 1 1 1 1 1 1 1 0
piuB; iron-compound ABC transporter, permease protein 1 1 1 1 1 1 1 1 0
piuC; iron-compound ABC transporter, permease protein 1 1 1 1 1 1 1 1 0
piuD; iron-compound ABC transporter, ATP-binding protein 1 1 1 1 1 1 1 1 0
zmpB; zinc metalloprotease 0 0.8 0 0 0 0.3 0 0 1
  1. CC – clonal complex; sing – singleton; numbers between 0 and 1 indicate the relative proportion of strains containing the gene.