Table 1.
Results of ITS-PCR
| Organism | Control strain | ITS-PCR type (no. of strains tested) | Size of amplified DNA fragment(s) (bp [mean ± SD])a |
|---|---|---|---|
| Achromobacter xylosoxidans | JCM 5490T | axy1 (2) | 436 ± 1, 683 ± 4 |
| JCM 9659T | axy2 (5) | 690 ± 4, 745 ± 6 | |
| Acinetobacter calcoaceticus-baumannii complexb | JCM 6841T | ||
| JCM 6842T | aba (12) | 685 ± 6 | |
| Acinetobacter junii | K6122 | aju (1) | 750 ± 4, 790 ± 6 |
| Acinetobacter lwoffii | JCM 6840T | alw (2) | 740 ± 7, 760 ± 7, 815 ± 10 |
| 850 ± 10, 910 ± 15 | |||
| Aeromonas hydrophila | JCM 1027T | ahy (9) | 562 ± 7, 618 ± 7, 626 ± 9, 642 ± 7, 663 ± 8 |
| Alcaligenes faecalis | JCM 1474T | afa (2) | 438 ± 3, 679 ± 5 |
| Bacteroides fragilis group | ATCC 25285T | bfr1 (18) | 241 ± 2, 583 ± 8, 645 ± 7 |
| K1845 | bfr2 (14) | 242 ± 3, 458 ± 3, 580 ± 4, 645 ± 8 | |
| K7144 | bfr3 (10) | 458 ± 3, 540 ± 3, 610 ± 3 | |
| Burkholderia cepacia | K9261 | bce (4) | 479 ± 8, 619 ± 5, 661 ± 5 |
| Buttiauxella agrestis | JCM 1090T | bag (1) | 486 ± 1, 653 ± 4 |
| Campylobacter jejuni | K9554 | cje (3) | 949 ± 8 |
| Cardiobacterium hominis | K5271 | cho (1) | 612 ± 4 |
| Cedecea davisae | JCM 1685T | cda (1) | 451 ± 1, 479 ± 2, 629 ± 2 |
| Chryseobacterium indologenes | NBRC 14944T | cin (2) | 743 ± 5, 1,765 ± 35 |
| Citrobacter freundii | K948 | cfr (4) | 324 ± 2, 483 ± 8, 629 ± 2 |
| Citrobacter koseri | K12195 | cko (10) | 443 ± 5, 475 ± 4, 498, 605 ± 3 |
| Cronobacter sakazakii | JCM 1233T | csa (1) | 450 ± 2, 517 ± 2 |
| Delftia acidovorans | JCM 5833T | dac (3) | 756 ± 5 |
| Edwardsiella tarda | JCM 1656T | eta (2) | 434 ± 5, 529 ± 6 |
| Elizabethkingia meningoseptica | NBRC 12535T | eme (1) | 688 ± 5 |
| Enterobacter aerogenes | K1235 | eae (8)c | 291 ± 6, 447 ± 5, 595 ± 4 |
| Enterobacter cloacae | ATCC 23355 | ecl1 (10)c | 294 ± 5, 440 ± 6, 591 ± 6 |
| K12309 | ecl2 (20) | 295 ± 4, 441 ± 6, 529 ± 6 | |
| K12880 | ecl3 (11) | 292 ± 4, 438 ± 7, 526 ± 7, 593 ± 8 | |
| Escherichia coli | ATCC 35218 | eco (22) | 422 ± 1, 444 ± 4, 455 ± 5, 478 ± 5, 529 ± 4, 540 ± 4, 553 ± 2 |
| Haemophilus influenzae | IID983 | hin (17) | 578 ± 5, 681 ± 2, 766 ± 3, 793 ± 5, 825 ± 9, 854 ± 8 |
| Klebsiella pneumoniae | ATCC 700603 | kpn1 (14) | 290 ± 4, 311 ± 3, 439 ± 5, 467 ± 5, 520 ± 5, 591 ± 7 |
| K14488 | kpn2 (2) | 315 ± 2, 477 ± 5, 623 ± 3 | |
| Klebsiella oxytoca | K7 | kox (15)c | 293 ± 3, 439 ± 4, 590 ± 5 |
| Morganella morganii | JCM 1672T | mmo1 (5) | 451 ± 2, 569 ± 6, 591 ± 7, 775 ± 10 |
| K4081 | mmo2 (4) | 562 ± 2, 586 ± 3, 744 ± 4, 778 ± 6 | |
| K5488 | mmo3 (3) | 589 ± 9, 760 ± 6, 779 ± 6 | |
| Neisseria meningitidis | K15850 | nme (3) | 732 ± 7 |
| Pantoea agglomerans | JCM 1236T | pag (2) | 470 ± 1, 487 ± 3, 674 ± 6 |
| Pasteurella multocida | K5105 | pmu (3) | 498 ± 3, 716 ± 4 |
| Proteus mirabilis | JCM 1669T | pmi1 (15) | 501 ± 6, 622 ± 5, 647 ± 7, 674 ± 8 |
| 830 ± 7 | |||
| K7446 | pmi2 (4) | 629 ± 7, 659 ± 5, 689 ± 4, 820 ± 9 | |
| Proteus vulgaris | JCM 1668T | pvu (6) | 608 ± 3, 633 ± 7, 657 ± 2, 784 ± 4 |
| 812 ± 5, 865 ± 3 | |||
| Providencia alcalifaciens | JCM 1673T | pal (1) | 514 ± 5, 672 ± 8 |
| Providencia rettgeri | JCM 1675T | pre1 (4) | 702 ± 8, 732 ± 10, 756 ± 4, 787 ± 3 |
| 819 ± 8, 890 ± 12 | |||
| K8723 | pre2 (3) | 670 ± 5, 761 ± 9 | |
| Pseudomonas aeruginosa | K10836 | pae (15) | 318 ± 3, 560 ± 4 |
| Pseudomonas alcaligenes | JCM 5967T | pal (2) | 576 ± 4 |
| Pseudomonas pseudoalcaligenes | JCM 5968T | pps (2) | 606 ± 3 |
| Pseudomonas fluorescens | JCM 5963T | pfl (6) | 421 ± 1, 608 ± 3 |
| Pseudomonas putida | JCM 6156 | ppu1 (7) | 374 ± 6, 383 ± 1, 558 ± 2, 595 ± 6 |
| JCM 6158 | ppu2 (1) | 401 ± 3, 589 ± 3 | |
| Pseudomonas stutzeri | ATCC 17588 | pst (1) | 591 ± 3 |
| Ralstonia pickettii | JCM 5969T | rpi (3) | 594 ± 7 |
| Salmonella entericad | ATCC 14028 | sen (9) | 449 ± 4, 512 ± 5, 624 ± 4 |
| Serratia marcescens | JCM 1239T | smar1 (12) | 501 ± 4, 568 ± 5 |
| ATCC 8100 | smar2 (2) | 504 ± 4, 547 ± 1, 568 ± 3 | |
| K7701 | smar3 (4) | 548 ± 3, 566 ± 3 | |
| K12077 | smar4 (3) | 546 ± 4, 564 ± 6, 615 ± 3 | |
| Sphingobacterium spiritivorum | JCM 1277T | ssp (1) | 474 ± 4 |
| Stenotrophomonas maltophilia | JCM 1976 | smal1 (16) | 606 ± 8, 627 ± 5, 647 ± 6 |
| JCM 1975T | smal2 (3) | 624 ± 5 | |
| Vibrio vulnificus | JCM 3725T | vvu (1) | 540 ± 3, 601 ± 3, 661 ± 4, 787 ± 9 |
a
Mean amplicon sizes were obtained from the results of three experiments for each control strain. The underlining indicates the sharp and intense fragments that were consistently observed.
b
Acinetobacter calcoaceticus-baumannii complex included two reference strains, Acinetobacter calcoaceticus JCM6841T and Acinetobacter baumannii JCM6842T.
c
ITS-PCR patterns of Enterobacter aerogenes strains and some Enterobacter cloacae strains were similar to those of Klebsiella oxytoca.
d
Nine strains of the genus Salmonella included six serotypes: S. enterica serotype Paratyphi A, S. enterica serotype Paratyphi B, S. enterica serotype Choleraesuis, S. enterica serotype Typhimurium, S. enterica serotype Typhi, and S. enterica serotype Enteritidis.