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Table 4 Primers used for screening for β-lactamase genes

From: Analysis of β-lactamase phenotypes and carriage of selected β-lactamase genes among Escherichia coli strains obtained from Kenyan patients during an 18-year period

Target Gene

Primer name

5'-3' sequence

T°C

Size (bp)

Gene accession number

blaTEM

TEM-F

ATGAGTATTCAACAT TTC CG

55

840

EF125012-related

TEM-R

CCAATGCTTAATCAG TGA GG

blaSHV

SHV-F

TTCGCCTGTGTATTATCTCCCTG

50

854

AF148850-related

SHV-R

TTAGCGTTGCCAGTGYTCG

blaCTX-M concensus

MA1

ATGTGCAGYACCAGTAARGTKATGGC

60

593

Y10278-related

MA2

TGGGTRAARTARGTSACCAGAAYCAGCGG

CTX-M group I

CTXM1-F3

GAC GAT GTC ACT GGC TGA GC

55

499

X92506-related

CTXM1-R2

AGC CG C CGA CGC TAA TAC A

CTX-M group II

TOHO1-2 F

GCG ACC TGG TTA ACT ACA ATC C

55

351

X92507-related

TOHO1-1R

CGG TAG TAT TGC CCT TAA GCC

CTX-M group III

CTXM825F

CGC TTT GCC ATG TGC AGC ACC

55

307

AF189721-related

CTXM825R

GCT CAG TAC GAT CGA GCC

CTX-M group IV

CTXM914F

GCT GGA GAA AAG CAG CGG AG

62

474

AF252622-related

CTXM914R

GTA AGC TGA CGC AAC GTC TG

blaCMY (consensus)

CF1

ATGATGAAAAAATCGTTATGC

55

1200

U77414-related

CF2

TTGCAGCTTTTCAAGAATGCGC

blaCMY-1 group

CMY-1 F

GTGGTGGATGCCAGCATCC

58

915

AJ291609-related

CMY-1R

GGTCGAGCCGGTCTTGTTGAA

blaCMY-2 group

CMY-2 F

GCACTTAGCCACCTATACGGCAG

58

758

AF305559-related

CMY-2R

GCTTTTCAAGAATGCGCCAGG

blaOXA-1

OXA-1 F

ATGAAAAACACAATACATATCAACTTCGC

62

820

JO2967-related

OXA-1R

GTGTGTTTAGAATGGTGATCGCATT

blaOXA-2

OXA-2 F

ACGATAGTTGTGGCAGACGAAC

62

602

AF300985-related

OXA-2R

ATYCTGTTTGGCGTATCRATATTC

blaPER-concensus

PER-F

ATGAATGTCATTATAAAAGC

55

925

Z21957-related

PER-R

AATTTGGGCTTAGGGCAGAA

blaACC-like

ACC-F

AGCCTCAGCAGCCGGTTAC

53

818

AJ133121-related

ACC-R

GAAGCCGTTAGTTGATCCGG

blaVEB-concensus

VEB-F

ATTTAACCAGATAGGACTACA

55

1000

Z21957-related

VEB-R

CGGTTTGGGCTATGGGCAG

blaDHA-concensus

DHA-F

TGATGGCACAGCAGGATATTC

55

997

EF406115-related

 

DHA-R

GCTTTGACTCTTTCGGTATTCG

   
  1. Primer combinations used for screening and sequencing bla genes. The consensus primers were used for screening and sequencing purposes except for bla CTX-M , and bla OXA that were sequenced using group-specific primers. CTX-M group I primers detect genes encoding CTX-M −1, -3, -10 to −12, -15, -22,- 23, -28, -29 and −30 while primers for CTX-M group II primers detect genes encoding CTX-M-2, -4, -7, and −20. Group III primers detect only CTX-M-8 while group IV primers detect genes encoding CTX-M-9, -13, -14, -16 to 19, -21, and 27.
  2. T°C: annealing temperature.
  3. Y = T or C, R = G or A, S = G or C, K = G or T.