Table 5.
Accessory DNA elements from otherP. aeruginosagenomes detected in strains CHA, PT22, and 491
|
From defined genomic islands | ||
|---|---|---|
| Name | No. of ORFs | Present parts |
| PAGI-2 (RGP29) |
111 |
strain PT22: complete 105 kb island (> 99.9%); strain 491: ORFs C1-4; C36–111 (80 – 100%) |
| PAGI-5 (RGP7)a |
121 |
strain 491: complete 99.4 kb island (> 99.2%) |
| PAGI-6 (RGP87) |
47 |
phage CTX-like ORFs 6PG1–28 and 6PG32–38 (86.8 – 100%) |
| PAGI-8 (RGP62) |
12 |
ORFs 8PG1; 8PG7-8 (85.6 – 95.2%) |
| pKLC102 (RGP7)a |
105 |
strain CHA: ORFs CP1–3; CP12–14; CP27; CP30-31; CP34–44; CP50–54; CP57–83; CP87–89; CP102-103 (94.8 – 99.3%); strain PT22: ORFs CP1–3; CP9–14; CP18–21; CP26–27; CP29–30; CP33–45; CP47–56; CP58–83; CP87–93; CP102-103 (84.3 – 99.5%) |
| LESGI-2 (RGP85) |
18 |
complete 31.7 kb island (98.8 – 100%) |
| LESGI-3 (RGP27) |
115 |
strain PT22: complete 110.6 kb island (90.4 – 100%); strain 491: PLES_26051–26061; PLES_26211–26221; PLES_26421–27102 (81.7 – 100%) |
| LESGI-4 (RGP23)b |
31 |
complete 39.4 kb island (97.4 – 100%) |
| LES-prophage 1 (RGP3) |
19 |
complete 14.8 kb island (81.6 – 100%) |
| LES-prophage 3 (RGP82) |
51 |
strain 491: homologs to 18 ORFs (88.3 – 98.4%) |
| LES-prophage 6 (RGP10) |
12 |
strains CHA and 491: PLES_41181 – 41241 (90.7 – 100%); PLES_41191 only partially covered |
|
From other RGP insertions | ||
|
RGP (host strains) |
No. of ORFs |
Present parts |
| RGP6 (2192) |
41 |
PA2G_05961-05962 (> 99.7%) |
| RGP9 (2192) |
14 |
PA2G_00059-00065; PA2G_00072 (95.1 – 100%) |
| RGP26 (PA14) |
39 |
strain CHA: PA14_30960; PA14_31070– 31150 (84.8 – 95.2%); strain PT22: PA14_30850–30960; PA14_31070–31200 (81.1 – 98.6%); strain 491: PA14_30850–30970; PA14_31110–31250 (79.7 – 97.2%) |
| RGP27 (PACS2) |
74 |
strain 491: PAERPA_01003080–3085; PAERPA_01003110; PAERPA_01003119–3120; PAERPA_01003136–3154 (84.5 – 100%) |
| RGP29 (PACS2) |
10 |
complete RGP-insertion (98.5 – 100%) |
| RGP35 (2192) |
43 |
strain 491: PA2G_02937–2942; PA2G_02953; PA2G_02956–02957; PA2G_02961–02963; PA2G_02965; PA2G_02969; PA2G_02972-02973 (92.2 – 100%) |
| RGP36 (PA14) |
31 |
PA14_15620-15630; PA14_15650-15660 (96.4 – 99.7%) |
| RGP42 (2192) |
11 |
strain CHA: PA2G_05286-05290 (97.1 – 99.5%); strain 491: PA2G_05286–05292 (95.4 – 100%) |
| RGP42 (PA7) |
54 |
strain PT22: PSPA7_5339-5340 (85.1 – 89.1%) |
| RGP63 (PA7) |
72 |
strain PT22: PSPA7_0075 (86.3 – 90.5%); PSPA7_0108-0114 (> 99.9%) |
| RGP77 (PA7) | 53 | strain CHA: PSPA7_3708; PSPA7_3723; PSPA7_3726-3734 (83.4 – 93.3%); strain PT22: PSPA7_3696-3708; PSPA7_3723; PSPA7_3726–3735; PSPA7_3738-3747 (79.5 – 100%); strain 491: PSPA7_3696-3708; PSPA7_3723; PSPA7_3726–3729; PSPA7_3731-3733; PSPA7_3738-3740; PSPA7_3747 (79.3 – 100%) |
Present parts printed in bold are conserved in all three clone CHA strains. Pairwise % nucleotide identity of the corresponding sequence contigs is given in brackets.
a majority of assigned contigs mapped on both PAGI-5 and pKLC102 references which share a large set of highly homologous genes.
b contigs also mapped on island PAGI-1, a variant of LESGI-4.