Table 3

Regions of difference (RDs) identified in relation to P1/7.

RD#

Range in P1/7*

Size

(bp)*

Present in

n/55 strains

(parts present in n/55)

%GC$

Predicted Function*


RD01

SSU0101 - SSU0111

7.537

23 (49)

34.1

Integrase, replication initiation factor, hypothetical proteins

RD02

SSU0178 - SSU0182

5.501

47

40.8

PTS IIB, transketolase

RD03

SSU0198 - SSU0209

14.234

37 (13)

33.7

PTS IIABC transporter, glucosamine-6-phosphate isomerase, pseudogene

RD04

SSU0300 - SSU0305

5.455

36 (17)

43.0

Dehydrogenase, flavin oxidoreductase, transcription regulator lipase

RD05

SSU0346 - SSU0350

7.680

29

38.8

merR, hypothetical proteins

RD06

SSU0413 - SSU0418

8.624

29 (14)

33.6

Hypothetical proteins

RD07

SSU0423 - SSU0428

8.383

30 (11)

39.3

Signal peptidase, srtF

RD08

SSU0449 - SSU0453

2.475

52

36.0

Signal peptidase, srtE

RD09

SSU0519 - SSU0556

27.705

30 (6)

35.6

cps-genes, transposases

RD10

SSU0592 - SSU0600

8.410

52

36.7

Hypothetical proteins, D-alanine transport

RD11

SSU0640 - SSU0642

5.514

42

42.5

Type III RM

RD12

SSU0651 - SSU0655

7.674

34 (5)

38.8

Type I RM

RD13

SSU0661 - SSU0670

10.283

50

40.1

PTS IIABC, formate acetyltransferase, fructose-6-phaphate aldolase, glycerol dehydrogenase

RD14

SSU0673 - SSU0679

8.872

45

42.1

Piryidine nucleotide-disulphide oxidoreductase, DNA-binding protein, glycerol kinase, alpha-glycreophophate oxidase, glycerol uptake facilitator, dioxygenase

RD15

SSU0684 - SSU0693

7.868

35

38.6

Phosphatase, phosphomethylpyrimidine kinase, hydroxyethylthiazole kinase, thiamine-phosphate pyrophosphorylase, uridine phosphorylase, cobalt transport protein, ABC transporter

RD16

SSU0804 - SSU0815

11.036

20

30.6

Plasmid replication protein, hypothetical proteins

RD17

SSU0833 - SSU0835

2.386

31

34.1

Lantibiotic immunity

RD18

SSU0850 - SSU0852

2.345

50

40.9

Pyridine nucleotide-disulphide oxidoreductase, hypothetical proteins

RD19

SSU0902 - SSU0904

2.169

52

36.4

Hypothetical proteins

RD20

SSU0963 - SSU0968

2.769

54

43.2

Acetyltransferase, transposases

RD21

SSU0998 - SSU1008

13.688

54

42.3

Glycosyl hydrolase, UDP-N-acetylglucosamine 1-carboxyvinyltransferase, 2-deoxy-D-gluconate 3-dehydrogenase, mannonate dehydratase, urinate isomerase, 2-dehydro-3-deoxy-6-phosphogalactonate aldolase, beta-glucuronidase, carbohydrate kinase, sugar transporter

RD22

SSU1047 - SSU1066

17.452

52

40.1

Hyaluronidase, PTS IIABCD, aldolase, kinase, sugar-phosphate isomerase, gluconate 5-dehydrogenase, transposase

RD23

SSU1169 - SSU1172

4.850

53 (1)

42.6

ABC transporter

RD24

SSU1271 - SSU1274

6.695

36 (1)

35.8

Type I RM

RD25

SSU1285 - SSU1287

805

43

41.7

Hypothetical proteins

RD26

SSU1308 - SSU1310

4.130

52

36.7

PTS IIABC

RD27

SSU1330 - SSU1347

10.041

28

37.1

Phage proteins, hypothetical proteins

RD28

SSU1369 - SSU1374

7.733

53

38.8

Sucrose phosphorylase, ABC transporter

RD29

SSU1402 - SSU1407

5.018

29 (24)

41.2

Bacitracin export, transposase

RD30

SSU1470 - SSU1476

10.163

52

35.4

Two-component regulatory system, serum opacity factor

RD31

SSU1588 - SSU1592

7.771

52

40.9

Type I RM, integrase

RD32

SSU1702 - SSU1715

23.640

45

43.4

Two-component regulatory system, tranpsoase, glucosaminidase, hypothetical proteins, alpha-1,2,-mannosidase, eno-beta-N-acetylglucusaminidase

RD33

SSU1722 - SSU1727

4.924

30

38.3

Acetyltransferase, hypothetical proteins, PTS IIBC

RD34

SSU1763 - SSU1768

6.153

29

47.1

Nicotinamide mononucleotide transporter, transcriptional regulator, hypothetical proteins

RD35

SSU1855 - SSU1862

8.479

52

39.9

PTS IIABC, hypothetical proteins, beta-glucosidase, 6-phospho-beta-glucosidase

RD36

SSU1872 - SSU1875

1.918

36

35.4

RevS, CAAX amino terminal protease

RD37

SSU1881 - SSU1890

13.184

36

38.5

srtB, C, D

RD38

SSU1927 - SSU1931

8.444

44

41.6

β-glucosidase, two-compent regulatory system

RD39

SSU1942 - SSU1944

461

42

40.5

mutT/NUDIX hydrolase


# Region of difference is defined as regions of at least 3 ORFs that are absent from at least 1/55 S. suis strains tested.

* Naming, size and function prediction is based on genome sequence of P1/7 [7]

$ GC-percentage of P1/7 genome is 41%

de Greeff et al. BMC Microbiology 2011 11:161   doi:10.1186/1471-2180-11-161

Open Data