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Table 3 Summary of genetic contexts of blaCTX-M in ESC-resistant E. coli and K. pneumoniae

From: Epidemiology of paediatric gastrointestinal colonisation by extended spectrum cephalosporin-resistant Escherichia coli and Klebsiella pneumoniae isolates in north-west Cambodia

 

bla CTX-M-15

bla CTX-M-55

bla CTX-M-14

bla CTX-M-27

bla CTX-M-24

EC

(n = 41)

KP

(n = 12)

EC

(n = 24)

KP

(n = 0)

EC

(n = 15)

KP

(n = 2)

EC

(n = 12)

KP

(n = 2)

EC

(n = 3)

KP

(n = 0)

Location (chromosome versus plasmid)

 Chromosomal

5 (12%)

0

4 (17%)

–

2 (13%)

0

0

0

2 (67%)

–

 Likely plasmid

2 (5%)

9 (75%)

4 (17%)

–

5 (33%)

2 (100%)

0

0

1 (33%)

–

 Not determined

34 (83%)

3 (25%)

16 (67%)

–

8 (53%)

0

12 (100%)

2 (100%)

0

–

Evaluable immediate flanking context

n = 40a

n = 12

n = 23c

–

n = 15

n = 2

n = 12

n = 2

n = 3

–

ISEcp1 upstream

40 (100%)

12 (100%)

23 (100%)

–

15 (100%)

2 (100%)

12 (100%)

2 (100%)

3 (100%)

–

 3′ GACTA target site sequence (TSS) at 48 bp upstream of blaCTX-M

36 (90%)

12 (100%)

23 (100%)

–

0

0

0

0

0

–

 3′ TTTCA TSS at 127 bp upstream of blaCTX-M

4 (10%)

0

0

–

0

0

0

0

0

–

 3′ GAATA TSS at 42 bp

0

0

0

–

15 (100%)

2 (100%)

12 (100%)

2 (100%)

3 (100%)

–

ISEcp1 incomplete

26 (65%)

0

14 (61%)

–

6 (40%)

0

12 (100%)

2 (100%)

1 (100%)

–

 due to IS26 element

13b (32%)

L IRR - 11

R IRR - 2

0

12d (52%)

L IRR - 1

R IRR - 11

–

0

0

12f (100%)

L IRR - 12

2 (100%)

L IRR - 2

0

–

 due to contig break

13 (32%)

0

2 (9%)

–

3 (20%)

0

0

0

1 (33%)

–

 due to ISVsa5-like

0

0

0

–

2 (13%)

0

0

0

0

–

 due IS1S R IRR

0

0

0

–

1 (7%)

0

0

0

0

–

ISEcp1 complete

13 (32%)

12 (100%)

9 (39%)

–

9e(60%)

2 (100%)

0

0

2 (67%)

–

 5′ TCATA TSS

9 (22%)

12 (100%)

4 (17%)

–

0

0

0

0

0

–

 5′ TAATA TSS

4 (10%)

0

3 (13%)

–

0

0

0

0

0

–

 5′ TAACA TSS

0

0

2 (14%)

–

0

0

0

0

0

–

 5′ CATTA TSS

0

0

0

–

4 (44%)

0

0

0

1 (33%)

–

 5′ AAATA TSS

0

0

0

–

2 (22%)

0

0

0

0

–

 5′ TAAAA TSS

0

0

0

–

1 (11%)

0

0

0

0

–

 5′ GCCGA TSS

0

0

0

–

1 (11%)

0

0

0

0

–

 5′ TATAT TSS

0

0

0

–

0

0

0

0

1 (33%)

–

 5′ TAGCA TSS

0

0

0

–

0

2 (100%)

0

0

0

–

  1. EC = E. coli, KP = K. pneumoniae
  2. aexcluding one isolate with short contigs harbouring truncated blaCTX-M-15
  3. bISEcp1 truncated at 24, 497, 524, 1067, 1173, 1421, or 1489 bp
  4. cexcluding one isolate with short contig harbouring truncated blaCTX-M-55
  5. dISEcp1 truncated at 267, 309 or 497 bp
  6. eFor one only 1 bp of 5′ TSS evaluable
  7. fISEcp1 truncated at 149, 192, 208 and 388 bp
  8. TSS = target site sequence
  9. L IRR = left inverted repeat region
  10. R IRR = left inverted repeat region