Strains |
Strain Designationsa,b
|
16S rRNA Gene Analysis Resultsc
|
Difference Between Max Scoresd
|
NCBI–BLAST Species Interpretation |
Vitek 2 NH Identificatione
|
A. ureae |
NCTC 10219T
|
893 / 879 (A. arthritidis) // 502 |
14 |
Probable |
Misidentified |
A. ureae |
SSI: P 524 |
881 / 877 (A. arthritidis) // 498 |
4 |
Probable |
Correct |
A. actinomycetemcomitans |
NCTC 9710T
|
755 / 704 (A. aphrophilus) // 425 |
51 |
Confirmed |
Low Discrimination |
A. actinomycetemcomitans |
HK 666 |
830 / 731 (H. influenzae) // 463 |
99 |
Confirmed |
Correct |
A. actinomycetemcomitans |
HK 1662 |
805 / 713 (H. segnis) // 448 |
92 |
Confirmed |
Correct |
A. aphrophilus/paraphrophilus |
NCTC 5906T
|
762 / 739 (H. parainfluenzae) // 431 |
41 |
Confirmed |
Correct |
A. aphrophilus/paraphrophilus |
SSI: P 536, AB 1635 |
706 / 673 (A. actinomycetemcomitans) // 407 |
33 |
Confirmed |
Correct |
A. aphrophilus/paraphrophilus |
CCUG 14858T
|
710 / 675 (H. parainfluenzae) // 413 |
35 |
Confirmed |
Correct |
A. aphrophilus/paraphrophilus |
CCUG 49494 |
818 / 789 (H. parainfluenzae) // 468 |
29 |
Confirmed |
Correct |
A. segnis |
ATCC 33393T
|
856 / 740 (Pasteurella aerogenes) // 477 |
116 |
Confirmed |
Unidentified |
A. segnis |
SSI: P 1292 |
847 / 782 (H. influenzae) // 497 |
65 |
Confirmed |
Low Discrimination |
A. segnis |
SSI: P 1351 |
825 / 782 (H. influenzae) // 499 |
43 |
Confirmed |
Low Discrimination |
C. canimorsus |
CCUG 19190 |
657 / 657 (C. cynodegmi) // 492 |
0 |
Probable |
Unidentified |
C. canimorsus |
CCUG 19141 |
857 (C. cynodegmi) // 854 (C. canimorsus)
// 494 |
-3 |
Possible |
Unidentified |
C. canimorsus |
CCUG 19140 |
829 / 661 (C. cynodegmi) // 485 |
168 |
Confirmed |
Correct |
C. canimorsus |
SSI: 4642/2006 |
838 / 751 (C. cynodegmi) // 488 |
87 |
Confirmed |
Misidentified |
C. canimorsus |
SSI: 140/2006 |
587 / 533 (C. cynodegmi) // 365 |
54 |
Confirmed |
Misidentified |
C. canimorsus |
SSI: 187/2006 |
856 / 780 (C. cynodegmi) // 485 |
76 |
Confirmed |
Misidentified |
C. gingivalis |
CCUG 9715T
|
893 / 852 (C. granulosa) // 503 |
41 |
Confirmed |
Unidentified |
C. ochracea |
SSI: 3435/04 |
859 / 852 (C. sputigena) // 491 |
7 |
Probable |
Correct |
C. sputigena |
CCUG 9714T
|
785 / 765 (C. ochracea) // 481 |
18 |
Confirmed |
Unidentified |
C. hominis |
CCUG 31207 |
841 / 753 (C. valvarum) // 496 |
88 |
Confirmed |
Correct |
C. hominis |
CCUG 2711T
|
893 / 761 (C. valvarum) // 502 |
132 |
Confirmed |
Correct |
C. hominis |
SSI: AB 2089 |
708 / 663 (C. valvarum) // 407 |
45 |
Confirmed |
Correct |
E. corrodens |
ATCC 23834T
|
780 / 646 (N. denitrificans) // 436 |
134 |
Confirmed |
Correct |
E. corrodens |
SSI: 13794/1992 |
623 / 541 (K. denitrificans) // 416 |
82 |
Confirmed |
Correct |
E. corrodens |
SSI: 13897/1992 |
747 / 659 (K. denitrificans) // 425 |
88 |
Confirmed |
Correct |
H. haemolyticus |
NCTC 10659T
|
856 / 856 (H. influenzae) // 500 |
0 |
Probable |
Misidentified |
H. influenzae |
NCTC 8143T
|
832 / 736 (H. haemolyticus) // 462 |
96 |
Confirmed |
Correct |
H. influenzae |
SSI: P 1227 |
756 / 680 (H. haemolyticus) // 418 |
76 |
Confirmed |
Correct |
H. influenzae |
ATCC 49247 |
906 / 837 (H. haemolyticus) // 508 |
69 |
Confirmed |
Correct |
H. parahaemolyticus |
NCTC 8479T
|
838 / 838 (A. pleuropneumoniae) // 486 |
0 |
Probable |
Correct |
H. parahaemolyticus |
CCUG 48512 |
901 / 893 (A. pleuropneumoniae) // 499 |
8 |
Probable |
Misidentified |
H. parainfluenzae |
NCTC 7857T
|
889 /841 (A. paraphrophilus) // 481 |
48 |
Confirmed |
Correct |
H. parainfluenzae |
SSI: P 1538 |
870 / 756 (A. paraphrophilus) // 471 |
114 |
Confirmed |
Correct |
H. parainfluenzae |
CCUG 49489 |
929 / 837 (A. paraphrophilus) // 445 |
92 |
Confirmed |
Correct |
H. pittmaniaef
|
CCUG 48703T
|
686 / 676 (H. parainfluenzae) // 400 |
10 |
Probable |
Low Discrimination |
K. denitrificans |
CCUG 6516T
|
838 / 838 (N. weaveri) // 469 |
0 |
Probable |
Low Discrimination |
K. denitrificans |
CCUG 14999 |
883 / 767 (N. elongata) // 512 |
116 |
Confirmed |
Low Discrimination |
K. kingae |
SSI: A 303T
|
886 / 762 (N. weaveri) // 495 |
114 |
Confirmed |
Unidentified |
K. kingae |
CCUG 13025 |
879 / 758 (N. weaveri) // 499 |
111 |
Confirmed |
Unidentified |
K. kingae |
SSI: 4541/05 |
904 / 785 (N. weaveri) // 509 |
119 |
Confirmed |
Correct |
M. catarrhalis |
CCUG 353T
|
816 / 758 (M. canis) // 462 |
58 |
Confirmed |
Correct |
M. catarrhalis |
SSI: RH 56295/84 |
805 / 747 (M. canis) // 460 |
58 |
Confirmed |
Correct |
M. catarrhalis |
CCUG 11766 |
760 / 729 (M. nonliquefaciens) // 424 |
31 |
Confirmed |
Low Discrimination |
a ATCC, American Type Culture Collection, Bethesda, Md.,
USA; CCUG, Culture Collection of the University of Göteborg,
Sweden; HK, Mogens Kilian, Institute of Microbiology, Aarhus,
Denmark; NCTC, National Collection of Type Cultures; SSI,
Statens Serum Institut, Copenhagen, Denmark.
b T denotes type strain.
c Max score best taxon match / Max score next best taxon
match (taxon of next best match) // base pairs examined. If
best taxon match 16S identification is not identical to gold
standard identification, the 16S rRNA identification is
given before the first /
d Difference between best taxon match (most commonly same
identification as gold standard identification) and next
best match; in cases when gold standard identification was
the same as next best match, the difference is negative.
e See Table
3 for details of Vitek 2 NH card examination.
f Formerly H.parahaemolyticus.