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Table 1 Comparison of key features of Klebsiella genomes from South and Southeast Asian sites

From: Genomic surveillance for hypervirulence and multi-drug resistance in invasive Klebsiella pneumoniae from South and Southeast Asia

 

S Asia

SE Asia

p value (adj)

OR

LCI

UCI

 

Species assignment

102

100

     

 K. pneumoniae

100 (98%)

87 (87%)

0.011

0.13

0.01

0.62

*

 K. variicola

1 (1%)

4 (4%)

0.838

4.18

0.40

209.04

 

 K. quasipneumoniae ssp. quasipneumoniae

1 (1%)

0 (0%)

na

na

na

na

 

 K. quasipneumoniae ssp. similipneumoniae

0 (0%)

9 (9%)

na

na

na

na

 

Features of K. pneumoniae sensu stricto

 Sequence type assignment

100

87

     

  ST15

11 (11%)

15 (17%)

1.158

1.68

0.67

4.32

 

  ST14

16 (16%)

2 (2%)

0.008

0.12

0.01

0.56

**

  ST23

2 (2%)

12 (14%)

0.015

7.76

1.65

73.39

*

  ST231

17 (17%)

0 (0%)

5.14 × 10−5

0.00

0.0

0.24

**

 Capsular serotype prediction

79

87

     

  KL1

2 (2.5%)

13 (15%)

0.012

6.70

1.44

63.22

*

  KL2

4 (5.1%)

11 (13%)

0.216

2.70

0.76

12.15

 

 Antimicrobial resistance prediction

100

87

     

  Multi-drug resistant (≥ 3 acquired classes)

81 (81%)

44 (51%)

1.06 × 10−4

0.24

0.12

0.48

**

  Aminoglycosides

76 (76%)

41 (47%)

0.001

0.28

0.14

0.55

**

  Fluoroquinolones

80 (80%)

39 (45%)

7.13 × 10−6

0.21

0.10

0.41

**

  Phenicols

27 (27%)

25 (29%)

7.833

1.09

0.55

2.17

 

  Sulfonamides

63 (63%)

42 (48%)

0.493

0.55

0.29

1.02

 

  Tetracyclines

24 (24%)

39 (45%)

0.029

2.56

1.32

5.05

*

  Trimethoprim

62 (62%)

38 (44%)

0.118

0.48

0.25

0.89

 

  3rd-generation cephalosporins (ESBL)

60 (60%)

41 (47%)

0.949

0.60

0.32

1.11

 

  Carbapenems

47 (47%)

1 (1%)

7.13 × 10−13

0.01

0.0

0.08

**

 Virulence prediction

100

87

     

  Yersiniabactin (ybt)

65 (65%)

46 (53%)

0.205

0.61

0.32

1.13

 

  Aerobactin (iuc)

27 (27%)

32 (37%)

0.319

1.57

0.81

3.07

 

 Iuc lineages

100

87

     

  iuc 1

13 (13%)

27 (31%)

0.012

2.99

1.36

6.86

*

  iuc 3

0 (0%)

5 (6%)

0.061

na

1.08

inf

 

  iuc 5

12 (12%)

0 (0%)

0.001

0.00

0.0

0.8

**

 AMR and virulence convergence

100

87

     

  ESBL and ybt

45 (45%)

26 (30%)

0.144

0.52

0.27

0.99

 

  ESBL and iuc

16 (16%)

1 (1%)

0.001

0.06

0.0

0.41

**

  CP and ybt

37 (37%)

1 (1%)

1.79 × 10− 10

0.02

0.0

0.13

**

  CP and iuc

13 (13%)

0 (0%)

na

na

0.0

0.34

 
  1. *South (S) Asia is represented by the two sites in India and Nepal, isolated 2016–2017; Southeast (SE) Asia is represented by the sites in Cambodia, Laos, Thailand and Vietnam, isolated 2015–2016. p values were calculated using Fisher’s exact test for differences in the prevalence of each feature (in rows) for the S vs SE Asia samples and are adjusted using Bonferroni correction for the number of tests within each group of comparisons (as labelled in italics; sample size for each are also in italics). na test not applicable (one or more values equal to zero). Inf infinity, OR odds ratio, LCI and UCI, lower and upper bounds for 95% confidence interval, respectively. *p < 0·05, **p < 0·01
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Genome Medicine

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