Table 5 CD630 genes found to be absent from all strains (except CD630 and ECDC 012)

CD0211-2

licC

CTP:phosphocholine cytidylyltransferase; putative choline sulfatase

CD0359 - 368

conjugative transposon conserved hypothetical protein; putative transcriptional regulator; two-component system; sensor histidine kinase; two-component system; response regulator; putative lantibiotic ABC transporter; membrane protein; putative lantibiotic ABC transporter;ATP-binding protein; putative lantibiotic ABC transporter; permease protein; putative lantibiotic ABC transporter;ATP-binding protein; two-component system; sensor histidine kinase; two-component system; response regulator

CD0370

putative transcriptional regulator

CD0381-2

putative conjugative transposon replication initiation factor; putative membrane protein

CD0385

putative membrane protein_conjugative transposon protein

CD0495

putative regulatory protein (pseudogene)

CD0498-9

orf21; orf20

conjugative transposon FtsK/SpoIIIE-family protein; putative conjugative transposon replication initiation factor

CD0503-4

orf15; orf14

conjugative transposon membrane protein; putative cell wall hydrolase

CD0906-907A

putative phage DNA-binding protein; putative phage regulatory protein; putative phage regulatory protein

CD0921

hypothetical phage protein

CD0925-6

hypothetical phage protein; hypothetical phage protein

CD0930-32

phage protein; hyypothetical phage protein; hyypothetical phage protein; hyypothetical phage protein

CD0935

phage modification methylase

CD0958-9

putative oxidoreductase (pseudogene); putative oxidoreductase (pseudogene)

CD0967

hypothetical phage protein

CD0970-1

putative oxidoreductase (pseudogene); putative oxidoreductase (pseudogene)

CD0971

putative oxidoreductase (pseudogene)

CD0975-7

putative oxidoreductase (pseudogene); putative oxidoreductase (pseudogene); putative oxidoreductase (pseudogene)

CD1092A

two-component sensor histidine kinase (pseudogene)

CD1094-99

two-component sensor histidine kinase (pseudogene);

putative lantibiotic ABC transporter; permease protein;

two-component sensor histidine kinase (pseudogene);

two-component sensor histidine kinase (pseudogene);

two-component sensor histidine kinase (pseudogene)

CD1102-6

two-component sensor histidine kinase (pseudogene);

two-component sensor histidine kinase (pseudogene);

two-component sensor histidine kinase (pseudogene);

two-component sensor histidine kinase (pseudogene);

two-component sensor histidine kinase (pseudogene)

CD1110

two-component sensor histidine kinase (pseudogene)

CD1112

two-component sensor histidine kinase (pseudogene)

CD1115-8

two-component sensor histidine kinase (pseudogene);

two-component sensor histidine kinase (pseudogene);

two-component sensor histidine kinase (pseudogene);

two-component sensor histidine kinase (pseudogene)

CD2001

conserved hypothetical protein

CD2003-5

effD; effR

putative efflux pump; MarR-family transcriptional regulator; conserved hypothetical protein

CD2793

slpA

cell surface protein (S-layer precursor protein)

CD2890-3

putative oxidoreductase (pseudogene); putative oxidoreductase (pseudogene); putative oxidoreductase (pseudogene); putative oxidoreductase (pseudogene)

CD2897

putative oxidoreductase (pseudogene)

CD2905-7

putative oxidoreductase (pseudogene); putative oxidoreductase (pseudogene); putative oxidoreductase (pseudogene)

CD3136-8

bglA3

6-phospho-beta-glucosidase; PTS system; IIabc component; transcription antiterminator

CD3147-53

putative DNA-methyltransferase; hypothetical protein;

putative DNA helicase; conserved hypothetical protein;

putative phage protein; conserved hypothetical protein;

putative phage transcriptional regulator; putative phage

DNA-binding protein

CD3326

Integrase

CD3331-3

hypothetical protein; TetR-family transcriptional regulator

CD3341-2

conjugative transposon conserved hypothetical protein (pseudogene); putative phage membrane protein

CD3344

conjugative transposon-related FtsK/SpoIII-relatd protein

CD3347-8

putative membrane protein; conserved hypothetical protein