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Table 1 Distribution of B. cenocepacia J2315 strain σ70 factors among other Burkholderia genome sequences and P. aeruginosa.

From: Architecture of Burkholderia cepacia complex σ70 gene family: evidence of alternative primary and clade-specific factors, and genomic instability

     Bcc pseudomallei lineage   
Bcen σ 70 factor associated name cds position in J2315 genome locus tag B. cenocepacia B. vietnamiensis B. sp. 383 B. ambifaria B. dolosa B. mallei B. pseudomallei B. thailandensis B. xenovorans P. aeruginosa
Bcen-SigE RpoD chr.2 1009395*-1011812 BCAM0918 4/4 1/1 1/1 1/1 1/1 4/4 6/6 1/1 1/1 2/2
Bcen-SigI   chr.2 2666931-2668817 BCAM2371 4/4 1/1 0/1 1/1 1/1 0/4 0/6 0/1 0/1 0/2
Bcen-SigJ   chr.2 1383611-1382085 BCAM1259 3/4 1/1 1/1 1/1 1/1 4/4 6/6 1/1 0/1 0/2
Bcen-SigL RpoH-like chr.1 2088369-2089457 BCAL1892 4/4 1/1 1/1 1/1 1/1 4/4 6/6 1/1 1/1 2/2
Bcen-SigM FliA-like chr.1 860723-859788 BCAL0787 4/4 1/1 1/1 1/1 1/1 4/4 6/6 1/1 1/1 2/2
Bcen-SigK RpoS chr.1 168141-168872 BCAL0144 4/4 1/1 1/1 1/1 1/1 4/4 6/6 1/1 1/1 2/2
Bcen-EcfA1 RpoE chr.1 1085335-1085934 BCAL0998 4/4 1/1 1/1 1/1 1/1 4/4 6/6 1/1 1/1 2/2
Bcen-EcfA2 RpoE chr.1 153677-153078 BCAL2872 1/4 0/1 0/1 0/1 0/1 0/4 0/6 0/1 0/1 0/2
Bcen-EcfB PrtI-like chr.1 3817661-3818182 BCAL3478 4/4 1/1 1/1 1/1 1/1 0/4 6/6 1/1 0/1 0/2
Bcen-EcfC FecI-like chr.1 1506330-1506836 BCAL1369 4/4 0/1 1/1 0/1 0/1 4/4 6/6 1/1 0/1 2/2
Bcen-EcfD   chr.1 2615164-2615727 BCAL2360 4/4 1/1 1/1 1/1 1/1 4/4 6/6 1/1 1/1 0/2
Bcen-EcfE   chr.1 2728250-2727696 BCAL2462 4/4 0/1 1/1 0/1 1/1 0/4 0/6 0/1 1/1 0/2
Bcen-EcfF   chr.1 3441702-3441187 BCAL3151 4/4 1/1 1/1 1/1 1/1 4/4 6/6 1/1 1/1 0/2
Bcen-EcfG   chr.1 2146519*-2145818 BCAL1947 4/4 0/1 1/1 1/1 1/1 4/4 6/6 1/1 1/1 0/2
Bcen-EcfH   chr.2 1846346-1845561 BCAM1661 4/4 0/1 1/1 1/1 0/1 0/4 0/6 0/1 1/1 0/2
Bcen-EcfI OrbS chr.1 1846454-1847122 BCAL1688 4/4 1/1 1/1 1/1 1/1 4/4 6/6 1/1 1/1 2/2
Bcen-EcfJ   chr.2 230-829 BCAM0001 4/4 1/1 1/1 1/1 1/1 4/4 6/6 1/1 0/1 0/2
Bcen-EcfK   chr.2 3109088-3109981 BCAM2748 4/4 0/1 1/1 0/1 1/1 4/4 6/6 1/1 0/1 0/2
Bcen-EcfL   chr.2 934738-936006 BCAM0849 4/4 1/1 1/1 1/1 1/1 4/4 6/6 1/1 1/1 0/2
Bcen-EcfM   chr.1 3824313-3823432 BCAL3486 4/4 1/1 1/1 1/1 1/1 0/4 0/6 0/1 0/1 0/2
  1. TBLASTN searches of Bce-J2315 σ factors were performed on fully sequenced Burkholderia genomes. In accordance with phylogenetic inferences shown in Fig. 3 and 4, TBLASTN were considered to reveal homologs or orthologs of a same σ70 lineage when showing identity values above 50% and similarity higher than 63%, and when being part of a phylogenetic cluster supported by high bootstrap values. • P. aeruginosa OrbS homologs, named PvdS, showed 38% identity and 56% similarity with Bcen-J2315 homolog. Sequences were retrieved from [51-54]. Genomes of the following strains were analysed: B. cenocepacia, strains J2315, AU1054, HI2424, PC184 (negative for Bcen-SigJ); B. vietnamiensis, G4; Burkholderia sp., 383 ; B. ambifaria, AMMD, B. dolosa, AU0158; B. xenovorans, LB400; B. mallei, ATCC23344, 10229, GB8 horse 4, SAVP1; B. pseudomallei, 1710a, 1710b, S13, 1655, 668, K96243; B. thailendensis, E264; P. aeruginosa, PAO1, PA14. * indicates an ORF different from the one of the annotated genome. Distribution limited to Burkholderia genomes, see Fig. 4.