Table 2 |
||||||||||
|
Presence, cellular localization and level of conservation of a selection of genes that are either surface exposed, or known to be involved in interaction with the host and virulence |
||||||||||
|
TIGR ID |
R6 Id |
INV104B |
Length |
Annotation |
Predicted cell localization |
Presence in Spn strains |
Conservation (average % ID) |
Present in S. mitisa |
Present in S. oralis |
Present in S. infantis |
|
|
||||||||||
|
Frameshiftedb |
spr1536 |
1,035 |
Neuraminidase A (NanA) |
LPXTG cell-wall anchored |
44 |
92.59 |
Yes |
Yes |
Yes |
|
|
SP_0057 |
spr0057 |
1,312 |
Beta-N-acetylhexosaminidase (StrH) |
LPXTG cell-wall anchored |
44 |
97.59 |
No |
Yes |
Yes |
|
|
SP_0069 |
Absent |
211 |
Choline binding protein I (CbpI) |
Choline binding, surface |
6 |
85.73 |
Yes |
No |
No |
|
|
SP_0071 |
Absent |
1,856 |
Zinc metalloprotease ZmpC |
LPXTG cell-wall anchored |
6 |
89.79 |
Yes |
No |
No |
|
|
SP_0082 |
spr0075 |
857 |
Cell wall surface anchor family protein |
LPXTG cell-wall anchored |
44 |
91.92 |
Yes |
Yes |
Yes |
|
|
SP_0117 |
spr0097 |
744 |
Pneumococcal surface protein A (PspA) |
Choline binding, surface |
44 |
81.35 |
No |
No |
No |
|
|
SP_0268 |
spr0247 |
1,280 |
Alkaline amylopullulanase, putative |
LPXTG cell-wall anchored |
44 |
97.53 |
Yes |
Yes |
No |
|
|
SP_0314 |
spr0286 |
1,066 |
Hyaluronidase (HysA) |
LPXTG cell-wall anchored |
44 |
99.38 |
No |
No |
No |
|
|
SP_0368 |
spr0328 |
1,767 |
Cell wall surface anchor family protein |
LPXTG cell-wall anchored |
44 |
96.96 |
No |
Yes |
Yes |
|
|
SP_0377 |
spr0337 |
340 |
Choline binding protein C (CbpC) |
Choline binding, surface |
31 |
93.86 |
Yes |
Yes |
No |
|
|
SP_0378 |
Absent |
332 |
Choline binding protein J (CbpJ) |
Choline binding, surface |
36 |
88.97 |
Yes |
Yes |
Yes |
|
|
SP_0390 |
spr0349 |
285 |
Choline binding protein G (CbpG) |
Choline binding, surface |
44 |
95.21 |
No |
No |
No |
|
|
SP_0391 |
spr0350 |
340 |
Choline binding protein F (CbpF) |
Choline binding, surface |
16 |
90.33 |
Yes |
Yes |
Yes |
|
|
SP_0462 |
Absent |
893 |
RrgA pilus subunit, adhesin |
LPXTG cell-wall anchored |
8 |
91.66 |
No |
No |
No |
|
|
SP_0463 |
Absent |
665 |
RrgB pilus subunit, backbone |
LPXTG cell-wall anchored |
8 |
66.5 |
No |
No |
No |
|
|
SP_0464 |
Absent |
393 |
RrgC pilus subunit |
LPXTG cell-wall anchored |
8 |
99.09 |
No |
No |
No |
|
|
SP_0498 |
spr0440 |
1,659 |
Endo-beta-N-acetylglucosaminidase, putative |
LPXTG cell-wall anchored |
44 |
97.02 |
Yes |
Yes |
Yes |
|
|
SP_0641 |
spr0561 |
2,140 |
Serine protease, subtilase family |
LPXTG cell-wall anchored |
44 |
96.54 |
Yes |
Yes |
No |
|
|
SP_0648 |
spr0565 |
2,233 |
Beta-galactosidase (BgaA) |
LPXTG cell-wall anchored |
44 |
96.54 |
Yes |
Yes |
No |
|
|
SP_0664 |
spr0581 |
1,881 |
Zinc metalloprotease, putative (ZmpB) |
LPXTG cell-wall anchored |
43 |
71.13 |
Yes |
No |
Yes |
|
|
SP_0667 |
spr0583 |
332 |
Pneumococcal surface protein, putative |
Choline binding, surface |
44 |
90 |
Yes |
No |
Yes |
|
|
SP_0930 |
spr0831 |
627 |
Choline binding protein E (CbpE) |
Choline binding, surface |
44 |
96.64 |
Yes |
No |
No |
|
|
SP_0965 |
spr0867 |
658 |
Endo-beta-N-acetylglucosaminidase (LytB) |
Choline binding, surface |
44 |
98.42 |
Yes |
No |
No |
|
|
SP_0981 |
spr0884 |
313 |
Putative protease maturation protein (PpmA) |
Lipoprotein |
44 |
96.77 |
Yes |
Yes |
Yes |
|
|
SP_1003 |
spr0907 |
839 |
Histidine triad protein |
Lipoprotein |
39 |
91.34 |
Yes |
Yes |
Yes |
|
|
SP_1004 |
spr0908 |
1,039 |
Histidine triad protein |
Lipoprotein |
44 |
99.67 |
Yes |
Yes |
Yes |
|
|
SP_1154 |
spr1042 |
2,004 |
Immunoglobulin A1 protease |
LPXTG cell-wall anchored |
44 |
79.85 |
Yes |
Yes |
No |
|
|
SP_1174 |
Absent |
819 |
Histidine triad protein |
Lipoprotein |
16 |
95.39 |
Yes |
Yes |
Yes |
|
|
SP_1175 |
spr1061 |
802 |
Histidine triad protein |
Lipoprotein |
33 |
92.95 |
Yes |
Yes |
Yes |
|
|
SP_1326 |
Absent |
740 |
Putative neuraminidase (NanC) |
Outer membrane/secreted |
16 |
94.21 |
No |
No |
No |
|
|
SP_1492 |
spr1345 |
202 |
Cell wall surface anchor family protein |
LPXTG cell-wall anchored |
44 |
91 |
Yes |
Yes |
Yes |
|
|
SP_1572 |
spr1430 |
178 |
Non-heme iron-containing ferritin (PppA) |
Surface |
44 |
94.5 |
Yes |
Yes |
Yes |
|
|
SP_1573 |
spr1431 |
490 |
Lysozyme (LytC) |
Choline binding, surface |
44 |
96.46 |
Yes |
No |
No |
|
|
SP_1650 |
spr1494 |
309 |
Manganese ABC transporter, manganese-binding adhesion liprotein (PsaA) |
Lipoprotein |
44 |
97.92 |
Yes |
Yes |
Yes |
|
|
SP_1687 |
spr1531 |
697 |
Neuraminidase B (NanB) |
Surface |
43 |
93.85 |
Yes |
No |
No |
|
|
SP_1732 |
spr1577 |
Serine threonine kinase protein (StkP) |
Membrane |
44 |
95.33 |
Yes |
Yes |
Yes |
||
|
SP_1772 |
Absent |
4,776 |
Cell wall surface anchor family protein (PsrP) |
LPXTG cell-wall anchored |
14 |
99.7 |
No |
No |
No |
|
|
SP_1833 |
spr1652 |
708 |
Cell wall surface anchor family protein |
LPXTG cell-wall anchored |
44 |
97.63 |
Yes |
No |
Yes |
|
|
SP_1923 |
spr1739 |
471 |
Pneumolysin (Ply) |
Secreted |
44 |
99.5 |
Yes |
No |
No |
|
|
SP_1937 |
spr1754 |
318 |
Autolysin (LytA) |
Choline binding, surface |
44 |
98.74 |
Yes |
No |
No |
|
|
SP_1992 |
spr1806 |
221 |
Cell wall surface anchor family protein |
LPXTG cell-wall anchored |
44 |
99.01 |
No |
No |
No |
|
|
SP_2136 |
spr1945 |
621 |
Choline binding protein PcpA (PcpA) |
Choline binding, surface |
32 |
99.05 |
Yes |
No |
No |
|
|
SP_2190c |
spr1995 |
693 |
Choline binding protein A (CbpA) (PspC) |
Choline binding, surface |
44 |
Yes |
No |
No |
||
|
SP_2201 |
Absent |
448 |
Choline binding protein D (CbpD) |
Choline binding, surface |
43 |
98.94 |
Yes |
No |
No |
|
|
SP_2216 |
spr2021 |
392 |
Secreted 45 kDa protein (PcsB) |
Secreted |
44 |
96.75 |
Yes |
Yes |
Yes |
|
|
Absent |
Absent |
SPNINV104_08710 |
410 |
PitB pilus 2 subunit, backbone |
LPXTG cell-wall anchored |
8 |
100 |
No |
Yes |
No |
|
Absent |
Absent |
SPNINV104_08690 |
589 |
PitA pilus 2 subunit, ancillary |
LPXTG cell-wall anchored |
8 |
100 |
No |
Yes |
No |
|
|
||||||||||
|
Due to the presence of unfinished genomes, we considered genes present in 43 S. pneumoniae genomes to be core. a'Yes' indicates genes that are present in at least one of the strains of S. mitis, while 'no' indicates genes that are absent in the four analyzed strains. bNanA is annotated as frameshifted in the TIGR4 strain, but it is known to be expressed by all pneumococcal strains. cPspC has been classified in 11 major variants that cannot be aligned due to different gene organization. |
||||||||||
|
Donati et al. Genome Biology 2010 11:R107 doi:10.1186/gb-2010-11-10-r107 |
||||||||||
