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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