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Table 3 Detailed results for RT-PCR analysis of differentiating CDSs from Brucella species, by gene. Detailed breakdown of the transcripts detected in each differentiating sequence island of B. abortus 9-941 , B. melitensis 16 M and B. suis 1330, when the cell cultures were grown at 37°C for 36 hours in trypticase soy broth (Difco).

From: Molecular targets for rapid identification of Brucella spp

    

B. suis

B. melitensis

B. abortus

#

CDS Name

Function

Amplicon Size (bp)

Predicted

Observed

Predicted

Observed

Predicted

Observed

A.

B. suis Chromosome I (S1)

1

BR0952

putative amino acid ABC transporter, permease protein

396

+

+

-

-

-

-

2

BR0953

putative amino acid ABC transporter, permease protein

438

+

+

-

-

-

-

3

BR0954

hypothetical protein

153

+

+

-

-

-

-

4

BR1846

hypothetical protein

721 S

469 M

+

+

+

+

-

-

B.

B. suis Chromosome II (S2)

5

BRA0362

putative site-specific recombinase, phage integrase family

722

+

+

-

-

-

-

6

BRA0363

putative DNA-binding protein

148

+

+

-

-

-

-

7

BRA0364

putative RepA-related protein

655

+

+

-

-

-

-

8

BRA0365

hypothetical protein

167

+

+

-

-

-

-

9

BRA0366

putative TrbL protein

170

+

+

-

-

-

-

10

BRA0367

putative TrbL protein

119

+

+

-

-

-

-

11

BRA0368

putative TrbJ protein

354

+

+

-

-

-

-

12

BRA0369

hypothetical protein

123

+

+

-

-

-

-

13

BRA0370

hypothetical protein

121

+

+

-

-

-

-

14

BRA0371

putative TraC protein

140

+

+

-

-

-

-

15

BRA0372

putative TraJ protein

218

+

+

-

-

-

-

16

BRA0373

putative TraI protein

173

+

-

-

-

-

-

17

BRA0374

hypothetical protein

768

+

+

-

-

-

-

18

BRA0375

hypothetical protein

648

+

+

-

-

-

-

19

BRA0376

hypothetical protein

532

+

+

-

-

-

-

20

BRA0377

conserved hypothetical protein

867

+

+

-

-

-

-

21

BRA0378

hypothetical protein

191

+

+

-

-

-

-

22

BRA0379

putative DNA-damage-inducible protein J

119

+

+

-

-

-

-

C.

B. melitensis Chromosome I (M1)

23

BMEI1661

recombinase

218

-

-

+

+

-

-

D.

B. abortus

24

6 kb Partial differential, primer pair 1

 

782

-

-

-

-

+

+

25

6 kb Partial differential, primer pair 2

 

613 M

1142 S

4484 A

+

-

+

-

+

-

E.

B. suis and B. melitensis Chromosome I (SM1)

26

BR1060/BMEI0926/

putative HlyD family secretion protein/multidrug resistance protein A

207

-

-

+

+

-

-

27

BR1057/BMEI0929

Diguanylate cyclase/phosphodiesterase domain/putative GGDEF domain protein

323

+

+

+

+

-

-

F.

B. suis and B. melitensis Chromosome II (SM2)

28

BRA0227/BMEII1016

putative ThiJ/PfpI family protein/protease I

466

+

+

+

-

-

-

29

BRA0418/BMEII0849

putative fucose synthetase family protein/GDP-4-dehydro-D-rhamnose reductase

363

+

+

+

-

-

-

30

BRA0419/BMEII0848

putative GDP-mannose 4,6-dehydratase Bme9/GDP-mannose 4,6-dehydratase

239

+

-

+

+

-

-

31

BRA0420/BMEII0847

putative glycosyltransferase/glycosyl transferase

657

+

+

+

-

-

-

32

BRA0421/BMEII0846

putative glycosyltransferase, group 1 family protein/glycosyl transferase

229

+

-

+

-

-

-

33

BRA0422/BMEII0845

putative glycosyltransferase, group 1 family protein/: lipopolysaccharide N-acetylglucosaminyltransferase

470 S

398 M

+

+

+

-

-

-

34

BRA0423/BMEII0844

putative outer membrane protein, 31 kDa/31 kDa outer-membrane immunogenic protein precursor

317

+

+

+

+

-

-

35

BRA0424/BMEII0843

putative acetyltransferase, CysE/LacA/LpxA/NodL family/putative colanic acid biosynthesis acetyltransferase WCAF

366

+

-

+

-

-

-

36

BRA0425/BMEII0842

putative membrane protein Bme3/hypothetical protein

774

+

-

+

-

-

-

37

BRA0426/BMEII0841

putative Bme2 protein/hypothetical protein

286

+

-

+

+

-

-

38

BRA0427/BMEII0840

putative glycosyl transferase, group 2 family protein/glycosyltransferase involved in cell wall biogenesis

279

+

+

-

-

-

-

39

BRA0428/BMEII0839

putative undecaprenyl-phosphate alpha-N-acetylglucosaminyltransferase

672

+

+

+

-

-

-

40

BRA0429/BMEII0838

putative polysaccharide biosynthesis protein/succinoglycan biosynthesis transport protein exot

306

+

-

+

-

-

-

41

BRA0430/BMEII0837

putative glycosyltransferase, group 2 family protein/glycosyltransferase

488

+

-

+

-

-

-

42

BRA0431/BMEII0836

conserved hypothetical protein/dTDP-4-dehydrorhamnose 3,5-epimerase

281

+

-

+

-

-

-

43

BRA0432/BMEII0835

putative glycosyltransferase, group 1 family protein/glycosyltransferase

223 S

708 M

+

+

+

+

-

-

44

BRA0433/BMEII0834

putative glutamate-1-semialdehyde-2,1-aminomutase/glutamate-1-semialdehyde 2,1-aminomutase

463

+

+

+

-

-

-

45

BRA0434/BMEII0833

putative conserved hypothetical protein/hypothetical protein

239

+

+

+

-

-

-

46

BRA0435/BMEII0832

putative epimerase/dehydratase family protein/UDP-glucose 4-epimerase

642

+

+

+

-

-

-

47

BRA0436/BMEII0831

conserved hypothetical protein/hypothetical protein

188

+

+

+

+

-

-

48

BRA0437/BMEII0830

putative dTDP-4-dehydrorhamnose 3,5-epimerase/dTDP-4-dehydrorhamnose 3,5-epimerase dTDP-4-dehydrorhamnose reductase

285

+

+

+

-

-

-

49

BRA0438/BMEII0828

putative methyltransferase/possible s-adenosylmethionine-dependent methyltransferase

452

+

+

+

-

-

-

50

BRA0438/BMEII0829

putative methyltransferase/possible s-adenosylmethionine-dependent methyltransferase

155

+

-

+

-

-

-

51

BRA0439/BMEII0827

putative nucleotidyltransferase family protein/glucose-1-phosphate cytidylyltransferase

525

+

+

+

+

-

-

52

BRA0553/BMEII0717

putative cell wall surface protein/hemagglutinin

421

+

+

+

-

-

-

G.

B. suis and B. abortus Chromosome I (SA1)

53

BR0221/BruAb1_0216

putative transcriptional regulator, MerR family

91

+

+

-

-

+

+

54

BR0389/BruAb1_0414

hypothetical protein

141

+

-

-

-

+

+

55

BR0390/Not annotated

hypothetical protein

74

+

-

-

-

-

-

56

BR0588/BruAb1_0609

putative protease

665

+

-

-

-

+

+

57

BR0589/BruAb1_0610

major capsid protein, HK97 family/putative protein

303

+

-

-

-

+

+

58

BR0590/BruAb1_0611

conserved hypothetical protein

71

+

-

-

-

+

+

59

BR0591/BruAb1_0612

conserved hypothetical protein

139

+

-

-

-

+

-

60

BR0592 BruAb1_0613

hypothetical protein

91

+

-

-

-

+

-

61

BR0593/BruAb1_0613

conserved hypothetical protein

208

+

+

-

-

+

-

62

BR1852/BruAb1_1831

transcriptional regulator, Cro/CI family,

194

+

-

-

-

+

+

63

BR1853/BruAb1_1832

putative AzlC family protein

610

+

+

-

-

+

+

H.

B. suis and B. abortus Chromosome II (SA2)

64

BRA0541/BruAb2_0681

hypothetical protein

118

+

-

-

-

+

-

65

BRA0630/BruAb2_0596

putative amino acid dehydrogenase

736

+

+

-

-

+

+

66

BRA0631/BruAb2_0595

putative amino acid ABC transporter, periplasmic amino acid-binding protein

202

+

-

-

-

+

-

67

BRA0632/BruAb2_0594

putative amino acid ABC transporter, periplasmic amino acid-binding protein

321

+

+

-

-

+

-

68

BRA0633/BruAb2_0593

conserved hypothetical protein

591

+

+

-

-

+

+

69

BRA0634/BruAb2_0592

putative transcriptional regulator, AsnC family

276

+

-

-

-

+

-

70

BRA0635/BruAb2_0591

putative twin-arginine translocation signal domain protein

998

+

+

-

-

+

+

71

BRA0636/BruAb2_0590

putative beta-ketoadipyl CoA thiolase

635

+

+

-

-

+

-

72

BRA0749/BruAb2_0483

putative sugar ABC transporter, permease protein

310

+

+

-

-

+

+

73

BRA0907/BruAb2_0326

conserved hypothetical protein

825

+

-

-

-

+

+

74

BRA1096/BruAb2_1035

putative transcriptional regulator

393

+

+

-

-

+

+

I.

B. melitensis and B. abortus Chromosome I (MA1)

75

BMEI0900/BruAb1_1088

hypothetical protein

212

-

-

+

+

+

-

76

BMEI1674/BruAb1_0274

hypothetical protein

597

-

-

+

+

+

+

77

BMEI1675 BruAb1_0273

hypothetical protein

157

-

-

+

+

+

+

78

BMEI1676/BruAb1_0271

hypothetical protein

206

-

-

+

-

+

+

79

BMEI1977/BruAb1_0270

hypothetical protein

400

-

-

+

+

+

+

80

BMEI1978/BruAb1_0269

hypothetical protein

192

-

-

+

+

+

+

81

BMEI1979/BruAb1_0268

hypothetical protein

201

-

-

+

+

+

+

82

BMEI1980/BruAb1_0267

hypothetical protein

210

-

-

+

+

+

+

83

BMEI1981/BruAb1_0266

hypothetical protein

358

-

-

+

+

+

+

84

BMEI1982/BruAb1_0265

hypothetical protein

418

-

-

+

+

+

+

85

BMEI1683/BruAb1_0264

zinc-dependent metallopeptidase

482

-

-

+

+

+

+

86

BMEI1684/BruAb1_0263

hypothetical protein

149

-

-

+

-

+

-

87

BMEI1685/BruAb1_0262

hypothetical protein

163

-

-

+

-

+

-

88

BMEI1686/BruAb1_0261

hypothetical protein

265

-

-

+

+

+

+

89

BMEI1687/BruAb1_0260

hypothetical protein

167

-

-

+

+

+

+

90

BMEI1688/BruAb1_0259

hypothetical protein

431

-

-

+

-

+

-

91

BMEI1689/BruAb1_0258

hypothetical protein

271

-

-

+

+

+

+

92

BMEI1690/BruAb1_0257

hypothetical protein

160

-

-

+

-

+

+

93

BMEI1691/BruAb1_0256

hypothetical membrane spanning protein

206

-

-

+

-

+

-

94

BMEI1692/BruAb1_0255

flagellar protein FlgJ

201

-

-

+

-

+

-

95

BMEI1693/BruAb1_0254

hypothetical protein

151

-

-

+

+

+

+

96

BMEI1694/BruAb1_0253

hypothetical protein

150

-

-

+

-

+

+

97

BMEI1695/BruAb1_0252

hypothetical protein

239

-

-

+

+

+

+

98

BMEI1696/BruAb1_0251

hypothetical membrane spanning protein

526

-

-

+

+

+

+

99

BMEI1697/BruAb1_0250

virulence-associated protein E

857

-

-

+

+

+

+

100

BMEI1698/BruAb1_0249

hypothetical protein

245

-

-

+

+

+

+

101

BMEI1699/BruAb1_0248

hypothetical protein

183

-

-

+

+

+

+

102

BMEI1700/BruAb1_0247

hypothetical protein

207

-

-

+

+

+

+

103

BMEI1701/BruAb1_0246

hypothetical protein

221

-

-

+

+

+

+

104

BMEI1702/BruAb1_0245

transposase

169

-

-

+

-

+

-

  1. + Obtained RT-PCR fragment of the expected length
  2. - No band was observed in the RT-PCR experiment
  3. Ssize of PCR fragment applies to B. suis. Msize of PCR fragment applies to B. melitensis. Asize of PCR fragment applies to B. abortus