Supplemental Material Carbohydrate utilization



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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








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