Table 4.

Intergenic regions for which the expression pattern differs from that of the neighboring CDS

Intergenic regionFold changeLocation (fold change)ConservationaFree energy (kcal/mol)
IG1_7728862.2BCAL0710 (−1.2)–BCAL0711 (−1.1)B. cepacia complex−113.9c
IG1_8995432.2BCAL0827 (1.3)–BCAL0828 (1.1)B. cenocepacia, B. lata−45.6c
IG1_9016729.1BCAL0830 (1.5)–BCAL0831 (1.6)B. cenocepacia, B. lata, B. multivorans−163.6c
IG1_13453124.5BCAL1231 (1.0)–BCAL1232 (1.7)B. cenocepacia, B. lata−46.1c
IG1_19280973.5BCAL1746 (1.6)–BCAL1747a (1.6)B. cenocepacia−75.9
IG1_20993473.6BCAL1901 (1.0)–BCAL1902 (−1.1)B. cepacia complex−52.4c
IG1_25388322.1dBCAL2285 (−1.2)–BCAL2286 (−1.7)B. cepacia complex−44.0c
IG1_26174517.8BCAL2363 (2.1)–BCAL2364 (1.0)B. cepacia complex (except B. vietnamiensis)−76.9
IG1_30080038.6BCAL2737 (1.2)–BCAL2738 (4.8)Burkholderia genus−274.1c
IG1_35564242.8BCAL3236 (−250.0)–BCAL3237 (1.5)B. cenocepacia J2315 and MC0-3, B. lata−73.4c
IG1_38513582.3BCAL3513 (−1.1)–BCAL3514 (1.3)B. cepacia complex−121.8c
IG2_2087952.2BCAM0180 (1.4)–BCAM0181 (1.0)B. cenocepacia J2315, HI2424, and AU1054−163.7c
IG2_17452874.2BCAM1568 (−1.2)–BCAM1569 (1.2)B. cepacia complex (except B. lata)b−179.1c
IG2_18851423.1BCAM1690 (1.4)–BCAM1691 (1.7)B. cepacia complex−41.9c
IG2_19759194.7BCAM1760 (1.2)–BCAM1761 (2.6)B. cepacia complex−128.0
IG2_20856823.6BCAM1866 (1.1)–BCAM1867 (1.5)B. cepacia complex−141.1c
IG2_21033603.1BCAM1887 (1.3)–BCAM1888 (2.2)B. cenocepacia J2315−7.9
IG2_27189252.4BCAM2414 (−1.4)–BCAM2415 (2.2)B. cepacia complex−123.2c
IG3_935823.0BCAS0083 (8.6)–BCAS0084 (1.2)B. cenocepacia−38.6
  • a Conservation means that the sequence was retrieved from all genomes of that particular taxon, unless explicitly mentioned otherwise.

  • b A significant hit (e = 2 × 10−35, 91% query coverage) with Entamoeba dispar SAW760 hypothetical protein EDI_314460 was observed.

  • c Significantly lower free energy than the average free energy of 10 shuffled sequences of the same length and same composition (P < 0.005).

  • d This intergenic region also was investigated with qPCR and showed an overexpression of 1.2-fold.