Table S13. Genes involved in
DNA uptake and transformation
Gene
|
H. somnus 129Pt
|
H. ducreyi 35000HP
|
H. influenzae Rd
|
comA (comEC)
|
HS_1109
|
HD0427
|
HI0439
|
comB
|
HS_1110
|
HD0432
|
HI0438
|
comC
|
HS_1111
|
no
|
HI0437
|
comD
|
no
|
no
|
HI0436
|
comE
|
HS_1112
|
HD0434
|
HI0435
|
comF
|
HS_1490
|
HD0209
|
HI0434
|
comG
|
HS_1491
|
HD0378
|
HI0433
|
comJ
|
HS_1107
|
HD1760
|
HI0441
|
comL
|
HS_0366
|
HD0470
|
HI0177
|
tpc
N. gonorrhoeae
|
no
|
no
|
no
|
tfoX(sxy)
|
HS_1715
|
HD1985
|
HI0601
|
crp
|
HS_0139
|
HD0738
|
HI0957
|
pilF2 involved in uptake but not binding of DNA
|
HS_1197
|
HD0318
|
HI0366
|
pulJ involved in DNA binding and uptake --related to type II secretion system
|
HS_0278
|
HD0440
|
HI0937
|
pulG related to type II secretion system
|
HS_0264
|
HD0182
|
HI0938
|
pilA
|
HS_0250
|
HD1123
|
HI0299
|
pilB
|
HS_1430
|
HD1124
|
HI0298
|
pilC
|
HS_0457
|
HD1125
|
HI0297
|
pilD
|
HS_0458
|
HD1126
|
HI0296
|
pilE pilin
|
no
|
no
|
no
|
Table S14. Hemolysins and toxins
Gene
|
H. somnus 129Pt
|
H. ducreyi 35000HP
|
H. influenzae Rd
|
Hemolysins
|
|
|
|
possible hemolysin
|
HS_0237
|
HD1145
|
HI0301
|
possible hemolysin
|
HS_0737
|
HD0800
|
HI1658
|
bi-functional hemolysin (N-terminal) and outer membrane protein A homolog (C-terminal)
|
HS_0842
|
no
|
no
|
hhdB
|
no
|
HD1326
|
no
|
hhdA
|
no
|
HD1327
|
no
|
possible hemolysin
|
HS_1429
|
HD0770
|
HI0107
|
hemolysin accessory protein
|
no
|
HD1155
|
no
|
Cytotoxins
|
|
|
|
cdtA
cytolethal distending toxin A
|
no
|
HD0902
|
no
|
cdtB
cytolethal distending toxin B
|
no
|
HD0903
|
no
|
cdtC
cytolethal distending toxin C
|
no
|
HD0904
|
no
|
RTX toxins
|
|
|
|
RTX toxins and related Ca2+-binding proteins
ZP_00132930
|
no
|
no
|
no
|
RTX toxins and related Ca2+-binding proteins
ZP_00132933.2
|
no
|
no
|
no
|
AAG40310.1|AF314526_1 leukotoxin [Pasteurella trehalosi]
|
no
|
no
|
no
|
CAC80494.1| pore-forming RTX-Toxin; EHEC-hemolysin [Escherichia coli]
|
no
|
no
|
no
|
CAA60041.1| EHEC-hlyC [Escherichia coli]
|
no
|
no
|
no
|
P15377|RT2A_ACTPL RTX-II toxin determinant A (APX-IIA) (Hemolysin IIA) (HLY-IIA) (Cytolysin IIA) (CLY-IIA)
|
no
|
no
|
no
|
Table S15. Restriction-modification system genes
Gene
|
H. somnus 129Pt
|
Flanked by mobile element?
|
Near DNA uptake sequence?
|
H. ducreyi 35000HP
|
H. influenzae Rd
|
Type I
|
|
|
|
|
|
hsdS
|
HS_0556
|
yes HS_0555
|
yes
|
no
|
no
|
hsdR
|
HS_0559
|
see above
|
yes
|
no
|
HI1285
|
hsdS
|
HS_0560
|
see above
|
yes
|
no
|
no
|
hsdM
|
no
|
NA
|
NA
|
no
|
HI0215
contains a frameshift
|
hsdS
|
no
|
NA
|
NA
|
no
|
HI0216
|
hsdR
|
no
|
NA
|
NA
|
no
|
HI0218
contains frameshift
|
hsdS
|
no
|
NA
|
NA
|
no
|
HI1286
|
hsdM
|
no
|
NA
|
NA
|
|
HI1287
|
possible type I methyltransferase protein
|
no
|
NA
|
NA
|
HD0914
|
no
|
Type II
|
|
|
|
|
|
hindIIR
|
no
|
NA
|
NA
|
no
|
HI0512
|
hindIIM
|
no
|
NA
|
NA
|
no
|
HI0513
|
type II restriction enzyme, putative
|
no
|
NA
|
NA
|
no
|
HI1040
|
hindVM
|
no
|
NA
|
NA
|
no
|
HI1041
|
hindIIIM
|
no
|
NA
|
NA
|
no
|
HI1392
|
hindIIIR
|
no
|
NA
|
NA
|
no
|
HI1393
|
Type III
|
|
|
|
|
|
type III restriction-modification system enzyme
|
no
|
NA
|
NA
|
HD1690
|
no
|
type III restriction-modification system methyltransferase, subunit
|
no
|
NA
|
NA
|
HD1691
|
no
|
type III restriction/modification system modification methylase
|
no
|
NA
|
NA
|
HD1692
HD1693
|
HI1056
|
Other
|
|
|
|
|
|
possible antirestriction enzyme
|
HS_1780
|
yes HS_0001
phage integrase
|
yes
|
HD0917
|
no
|
bcgIA
|
HS_0430
|
yes HS_0424 phage integrase
|
no
|
HD0293
|
no
|
bcgIB
|
HS_0431
|
see above
|
no
|
HD0294
|
no
|
bcgIB
|
HS_0432
C-terminal
|
see above
|
no
|
no
|
no
|
possible endonuclease involved in recombination
|
HS_0010
|
yes HS_0001
|
yes
|
HD1795
|
HI0305
|
Table S16. Putative exopolysaccharide biosynthesis genes
Gene
|
H. somnus 129Pt
|
H. ducreyi 35000HP
|
H. influenzae Rd
|
mrsA/glmM phosphoglucomutase/
phosphomannomutase (PGM)
|
HS_0730
|
HD0201
|
HI1463
HI1337
|
galU
UDP-glucose pyrophosphorylase (UGP)
|
HS_1117
|
HD1431
|
HI0812
|
galE
UDP-glucose epimerase (UGE)
|
HS_0789
|
HD0829
|
HI0351
|
pgi
Glucose-6-phosphate isomerase (PGI)
|
HS_0938
|
HD0418
|
HI1576
|
manA
phosphomannose isomerase (PMI)
|
HS_0605
|
HD0765
|
HI1710 N-terminal fragment
|
manB phosphomannomutase (PMM)
|
HS_1670
|
HD1507
|
HI0740
|
manB
phosphomannomutase
(PMM)
|
HS_1118
|
no
|
no
|
manC
GDP-D-mannose-pyrophosphorylase (GMP)
|
no
|
no
|
no
|
