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Table 2 Phenotypic resistance profiles with corresponding genotypic resistance markers of the Escherichia coli isolates

From: Genome profiling of uropathogenic E. coli from strictly defined community-acquired UTI in paediatric patients: a multicentric study

Isolate

Clade

ESBL

Antibiotic resistance profile

Chromosomal Point Mutations

Beta-lactamases

Aminogylcosides

Quinolones resistance

Sulfonamide resistance

Trimethoprim resistance

Macrolide resistance

ESBL

AmpC

Carbapenem

TEM, CTX-M

ACT

OXA, NDM

Qnr

Sul

dfrA

mpH

4

A

Positive

Amoxicillin/clavulanic acid, Ampicillin, Cefalotin, Cefixime, Cefoxitin, Ceftazidime, Ceftriaxone, Ciprofloxacin, Co-trimoxazole, Gentamicin, Piperacillin/tazobactam, Ticarcillin

gyrA: S83L, D87N

parC: S57T, S80I

parE: S458A

TEM (4,166)

CTX-M (42, 27, 3, 55, 142, 15, 33, 88, 66)

 

OXA-1

NDM-5

APH(6)-Id

aadA (2, 3, 2)

 

Sul (2,1)

(dfrA1, 14, 12)

mphA

5

A

Positive

Amoxicillin/clavulanic acid, Ampicillin, Cefalotin, Cefixime, Cefoxitin, Ceftazidime, Ceftriaxone, Ciprofloxacin, Co-trimoxazole, Gentamicin, Nitrofurantoin, Norfloxacin, Piperacillin/tazobactam, Ticarcillin, Ertapenem

gyrA: S83L, D87N

parC: S80I

parE: S458A

TEM- (4, 33)

ACT-5

NDM (5, 4, 2, 7, 1, 9)

aadA (2, 3, 17)

 

sul 1

dfrA12

mphA

7

A

Positive

Amoxicillin/clavulanic acid, Ampicillin, Cefalotin, Cefixime, Ciprofloxacin, Co-trimoxazole, Ticarcillin, Ertapenem

gyrA: S83L, D87N

parC: S80I

parE: S458A

TEM- (4, 159, 166,1)

ACT- (5, 14)

OXA-1

NDM (5,4,8)

aadA2

  

dfrA12

 

11

A

Negative

Ampicillin, Co-trimoxazole

gyrA: S83L, D87N

parC: S80I

parE: S458A

TEM- (4,158, 33, 148, 1, 169)

CTX-M (15, 117, 103, 3, 55, 82, 52, 101, 114, 88, 66, 42, 28, 79, 71)

  

AadA (8, 23, 24)

  

dfrA1

mphA

16

A

Positive

Amoxicillin/clavulanic acid, Ampicillin, Cefalotin, Cefixime, Ceftazidime, Ceftriaxone, Ciprofloxacin, Norfloxacin, Piperacillin/tazobactam, Ticarcillin

gyrA: S83L

TEM (4, 166)

ACT- (5, 14)

OXA-1

APH ((6)-Id, (3ʺ)-Ib)

 

Sul (1, 2)

dfrA17

mphA

22

A

Negative

Cefalotin

  

ACT-5

      

23

A

Positive

Ampicillin, Cefalotin, Cefixime, Cefoxitin, Ceftazidime, Ceftriaxone, Ciprofloxacin, Co-trimoxazole, Gentamicin, Norfloxacin, Piperacillin, Ticarcillin

gyrA: S83L, D87N

parC: S80I

parE: S458A

CTX-M (15,82,139,54,114,80,22,224,33,117,71)

ACT-5

OXA- (1, 320)

AAC(3)- (IIc, IIa)

aadA5

 

Sul1

dfrA17

 

1

B

Positive

Ciprofloxacin

gyrA: S83L

 

ACT- (14, 5)

 

APH(6)-Id, (3ʺ)-Ib)

 

sul2

  

2

B

Positive

Ampicillin, Cefalotin, Cefixime, Ceftriaxone, Ciprofloxacin, Ticarcillin

gyrA: S83L, D87N

parC: E84K

TEM- (4, 76, 95,1,71, 115) CTX-M (15, 55, 101, 114, 82, 33, 103, 22, 132, 3, 61)

ACT- (5, 14)

  

Qnr (S1, S3, S4)

Sul (2,1)

  

3

B

Positive

Amoxicillin/clavulanic acid, Ampicillin, Cefalotin, Cefixime, Cefoxitin, Ceftazidime, Ceftriaxone, Ciprofloxacin, Co-trimoxazole, Ertapenem, Gentamicin, Piperacillin/tazobactam, Ticarcillin

gyrA: S83L, D87N

parC: S80I

TEM- (4,1, 206, 33, 166, 198,143) CTX-M (55, 15, 114, 33, 52, 101, 66, 79, 71, 142)

ACT-(5, 14)

OXA-1

NDM- (5, 4, 9)

AAC(3)-IIc (3)-IIa, (6')-Ib)

 

sul1

dfr (A17, A12)

mphA

6

B

Positive

Ampicillin, Ceftriaxone, Ciprofloxacin

gyrA: S83L, D87N

parC: S80I, E84V

parE: I529L

CTX-M (27, 129, 102, 85, 9, 19, 98, 47, 113, 48)

ACT-5

 

APH(6)-Id, (3ʺ)-Ib

aadA5

 

Sul (1, 2)

dfrA17

mphA

8

B

Positive

Ampicillin, Cefalotin, Cefixime, Cefoxitin, Ceftazidime, Ceftriaxone, Co-trimoxazole, Ticarcillin

gyrA: S83L, D87N

parC: S80I

parE: L416F

TEM- (4,76, 70, 166)

CTX-M (15, 55, 117, 71, 103, 82, 139, 101, 69,3, 54, 114, 22, 79, 33, 88)

ACT-(5, 14)

 

APH(6)-Id

aadA5

 

Sul (1, 2)

dfrA17

mphA

9

B

Positive

Ampicillin, Cefalotin, Cefixime, Ceftriaxone, Ciprofloxacin, Co-trimoxazole, Ticarcillin

gyrA: D87G

CTX-M (15, 82, 55, 114, 71, 3, 117, 139, 54, 33, 88, 142, 103, 123, 79)

ACT-(5, 14)

      

10

B

Negative

Ciprofloxacin

gyrA: S83L

 

ACT-(5,14, 7)

 

APH(3ʹ)-IIa

    

14

B

Positive

Amoxicillin/clavulanic acid, Ampicillin, Cefalotin, Cefixime, Cefoxitin, Ceftazidime, Ceftriaxone, Ciprofloxacin, Ertapenem, Norfloxacin Piperacillin/tazobactam, Ticarcillin

  

ACT-(5,14, 9)

  

QnrS1

sul2

dfrA12

 

15

B

Positive

Amoxicillin/clavulanic acid, Ampicillin, Cefalotin, Cefixime, Ceftazidime, Ceftriaxone, Ciprofloxacin, Gentamicin, Norfloxacin, Piperacillin, Ticarcillin

gyrA: S83L, D87N

parC: S80I, E84V

parE: I529L

TEM- (4,176, 105, 163)

CTX-M (15,82,101,103,3,62,55,33,71,142)

ACT-(5,14)

OXA-1

NDM-5

APH(6)-Id, (3ʺ)-Ib)

AAC ((3)-IIc, (3)-Iia)

 

sul2

  

17

B

Positive

Ampicillin, Cefalotin, Cefixime, Ceftazidime, Ceftriaxone, Ciprofloxacin, Gentamicin, Norfloxacin, Ticarcillin

gyrA: S83L, D87N

parC: S80I, E84V

parE: I529L

TEM- (4,176, 76, 148, 146, 137)

CTX-M (15,117,55,82,22,132,28,53,71,88,72)

ACT-5

OXA-1

AAC(3)-IIc, (3)-IIa)

    

18

B

Positive

Amoxicillin/clavulanic acid, Ampicillin, Cefalotin, Cefixime, Ceftazidime, Ceftriaxone, Ciprofloxacin, Co-trimoxazole, Gentamicin, Norfloxacin, Piperacillin, Ticarcillin

gyrA: S83L, D87N

parC: S80I, E84V

parE: I529L

CTX-M (15,42,114,82,123,55,79,33,117)

ACT- (5, 14)

OXA-1

APH(6)-Id, (3ʺ)-Ib),

aadA5

 

Sul (1, 2)

dfrA17

mphA

19

B

Negative

Amoxicillin/clavulanic acid, Ampicillin, Cefalotin, Cefixime, Cefoxitin, Ceftazidime, Ceftriaxone, Ciprofloxacin, Co-trimoxazole, Ertapenem, Norfloxacin, Piperacillin, Ticarcillin

gyrA: S83L

TEM-4

ACT- (5,14)

OXA- (1,224,31)

aadA5

QnrB4

sul1

dfrA17

mphA