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. 2018 Feb 23;9:322. doi: 10.3389/fmicb.2018.00322

Table 1.

Overview of characteristics of all Klebsiella isolates from the neurohabilitation centre, April 2015–April 2016.

No IDa Isolation dateb Materialc MLSTd wzie Cluster WGSf PFGE typeg Multiplex PCRh Alterations in porin genesi β-lactamase genesj
ompK35 ompK36 blaTEM blaCTX−M blaSHV blaOXA blaOKP−B
1 669/15 16 April 2015 Urinary catheter ST15 93 1 n.d. + + + – 15 28 – –
2 652/15 19 April 2015 Tracheal secretion ST15 93 1 n.d. + + + 1B 15 28 534 –
3 656/15 24 April 2015 Tracheal secretion ST37 83 – n.d. – + + – 14 11 – –
4 665/15 8 May 2015 Tracheal secretion ST15 93 1 n.d. + + + 1B 15 28 534 –
5 666/15 8 May 2015 Tracheal secretion ST15 93 1 1a + + + – 15 28 534 –
6 667/15 3 June 2015 Urinary catheter ST15 93 1 1c + + + 1B 15 28 534 –
7 657/15 6 June 2015 Nasal swab ST15 93 1 n.d. + + + 1B 15 28 534 –
8 661/15 10 June 2015 Nasal swab ST15 93 1 n.d. + + + 1B 15 28 534 –
9 659/15 15 June 2015 Urinary catheter ST15 93 1 n.d. + + + 1B 15 28 534 –
10 653/15 18 June 2015 Throat swab ST101 137 – n.d. – Stop (C184-) + 1A 15 1 1; 9-like –
11 654/15 23 June 2015 Urinary catheter ST15 93 1 n.d. + + + 1B 15 28 534 –
12 380/16 29 June 2015 Tracheal secretion ST15 93 1 1a + + + 1B 15 28 534 –
13 379/16 29 June 2015 Tracheal secretion ST15 93 1 1a + + + 1B 15 28 534 –
14 672/15 2 July 2015 Tracheal secretion ST15 93 1 1a + + + 1B 15 28 534 –
15 377/16 9 July 2015 Tracheal secretion ST15 93 1 n.d. + + + 1B 15 28 534 –
16 658/15 9 July 2015 Tracheal secretion ST15 93 1 n.d. + + + 1B 15 28 534 –
17 378/16 16 July 2015 Tracheal secretion ST2382 280 – 5a – + Stop (−227C and −228C) – 1 196 – –
18 668/15 24 July 2015 Urinary catheter ST15 93 1 n.d. + + + 1B 15 28 534 –
19 655/15 29 July 2015 Urinary catheter ST15 93 1 n.d. + + + 1B 15 28 534 –
20 662/15 19 Aug. 2015 Tracheal secretion ST15 93 1 1b + + + 1B 15 28 534 –
21 670/15 28 Aug. 2015 Urinary catheter ST48 62 – 4b – + + 1B 15; 27 1 1 –
22 660/15 1 Sep. 2015 Rectal swab ST15 93 1 1a + + + 1B 15 28 534 –
23 675/15 8 Sep. 2015 Rectal swab ST15 93 1 1a + + + 1B 15 28 534 –
24 671/15 14 Sep. 2015 Urinary catheter ST15 93 1 1a + + + – 15 28 – –
25 676/15 14 Sep. 2015 Rectal swab ST414 44 3 3a – + + – 15 – – 8
26 673/15 15 Sep. 2015 Tracheal secretion ST15 93 1 1a + + + 1B 15 28 534 –
27 674/15 15 Sep. 2015 Urine ST414 44 3 3a – + + – 15 – – 8
28 677/15 23 Sep. 2015 Rectal swab ST15 93 1 1d + + + 1B 15 28 534 –
29 678/15 23 Sep. 2015 Rectal swab ST15 93 1 1a + + + – 15 28 534 –
30 679/15 29 Sep. 2015 Rectal swab ST15 93 1 1a + + + 1B 15 28 534 –
31 680/15k 29 Sep. 2015 Rectal swab ST15 93 1 1a + + + 1B 15 28 534 –
32 682/15 29 Sep. 2015 Rectal swab ST15 93 1 1a + + + 1B 15 28 534 –
33 681/15 29 Sep. 2015 Rectal swab ST414 44 3 3a – + + – 15 – – 8
34 684/15k 29 Sep. 2015 Tracheal secretion ST15 93 1 1a + * IS Stop (C194-) 1B 15 28 – –
35 683/15 6 Oct. 2015 Tracheal secretion ST15 93 1 1a + + + 1B 15 28 534 –
36 663/15 28 Oct. 2015 Rectal swab ST15 93 1 1a + + + 1B 15 28 534 –
37 54/16 27 Oct. 2015 Urine ST15 93 1 1a + + + 1B 15 28 534 –
38 55/16 7 Nov. 2015 Rectal swab ST405 143 2 2a – Stop (G947A) + 1B 15 76 – –
39 56/16 7 Nov. 2015 Rectal swab ST405 143 2 2a – + + 1B 15 76 – –
40 57/16 7 Nov. 2015 Rectal swab ST405 143 2 2a – + + 1B 15 76 – –
41 58/16 10 Nov. 2015 Unknown ST405 143 2 2a – + + 1B 15 76 – –
42 59/16 16 Dec. 2015 Urine ST405 143 2 2a – + + 1B 15 76 – –
43 382/16 17 Dec. 2015 Urine ST15 24 – 6a – + + – 15 28 1 –
44 383/16 12 Jan. 2016 Throat swab ST29 85 – 7a – + + 1B 15 83 1 –
45 381/16 30 Jan. 2016 Rectal swab ST405 143 2 2a – + + 1B 15 76 – –
46 384/16 9 Feb. 2016 Rectal swab ST15 93 1 1e/f + + + 1B 15 28 534 –
47 385/16 8 Mar. 2016 Rectal swab ST405 143 2 2a – + + 1B 15 76 – –
48 386/16 14 Mar. 2016 Rectal swab ST414 44 3 3a – + + – 15 – – 8
49 388/16 6 Apr. 2016 Tracheal secretion ST14 2 - 8a – + + 1B 15 28 1 –
50 389/16 9 Apr. 2016 Rectal swab ST414 44 3 3a – + + – 15 – – 8
51 390/16 9 Apr. 2016 Rectal swab ST414 44 3 3a – + + – 15 – – 8
52 391/16 9 Apr. 2016 Rectal swab ST414 44 3 3a – + + – 15 – – 8
53 392/16 9 Apr. 2016 Rectal swab ST414 44 3 3a – + + – 15 – – 8
a

ID, laboratory strain number.

b

Isolation date, time point of sample isolation.

c

Material, sampling site.

d

MLST, multilocus sequence type according to the Klebsiella Pasteur MLST definition (http://bigsdb.pasteur.fr/).

e

wzi, capsule type based on sequence analysis of the wzi gene.

f

cluster WGS, cluster classification based on the WGS analysis.

g

PFGE-type, classification based on PFGE analysis (Tenover et al., 1995), n.d., not determined.

h

multiplex PCR, result of the cluster 1 specific PCR (positive: all three bands present, positive;

*

, PCR product of 4160 kb primers is missing; negative, no PCR product or only amplification of the hem-F/-R product).

i

Alterations in porin genes, results of sequence analysis of the porin genes ompK35 and ompK36, +, intact gene; IS, disruption of the gene due to insertion of a transposase; stop, premature stop codon due to mutation(s) in the gene; in brackets, details on mutation.

j

β-lactamase genes, β-lactamase gene alleles identified based on WGS data (using Resfinder plus manual completion).

k

Isolates 680/15 and 684/15 originated from the same patient.