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Table 1 Detailed description of pathogen-specific polymerase chain reaction primers for their specific detection in stool

From: Multiple etiologies of infectious diarrhea and concurrent infections in a pediatric outpatient-based screening study in Odisha, India

Pathogen

Target gene

Primer name

Primer sequence (5′ to 3′)

Tm (°C)

Size (bp)

References

Escherichia coli

EAEC

EAEC pCVD432

EAEC_pCVD432_F_11

CTGGCGAAAGACTGTATCAT

51

630

[23]

  

EAEC_pCVD432_R_12

AAATGTATAGAAATCCGCTGTT

   

EPEC

EPEC bfpA

EPEC_bfpA_F_9

TTCTTGGTGCTTGCGTGTCTTTT

53

367

[23]

  

EPEC_bfpA_F_10

TTTTGTTTGTTGTATCTTTGTAA

   

EPEC

EPEC eae gene

EPEC_eaeA_F

GACCCGGCACAAGCATAAGC

59

384

[24]

  

EPEC_eaeA_R

CCACCTGCAGCAACAAGAGG

   

STEC

EHEC vt1

EHEC_vt2_R_7

ACCGTTTTTCAGATTTT(G/A)CACATA

52

298

[23]

  

EHEC_vt2_R_8

TACACAGGAGCAGTTTCAGACAGT

   

STEC

EHEC hlyA gene

EHEC_hlyA_F

GCATCATCAAGCGTACGTTCC

57

534

[24]

  

EHEC_hlyA_R

AATGAGCCAAGCTGGTTAAGCT

54

180

 

STEC

stx1

E. coli_stx1F

ATAAATCGCCATTCGTTGACTAC

  

[24]

  

E. coli_stx1R

GGCACTGTCTGAAACTGCTCC

   

STEC

stx2

E. coli_stx2F

GGCACTGTCTGAAACTGCTCC

56

255

[24]

  

E. coli_stx2R

TCGCCAGTTATCTGACATTCTG

   

STEC

rfbE 157:H7

O157_F

CGGACATCCATGTGATATGG

52

259

[24]

  

O157_R

TTGCCTATGTACAGCTAATCC

   

STEC

H7 FLIC

H7_FLIC-R_13

GCGCTGTCGAGTTCTATCGAGC

59

625

[23]

  

H7_FLIC-R_14

CAACGGTGACTTATCGCCATTCC

   

STEC

O111 rfb region

O111_F

TAGAGAAATTATCAAGTTAGTTCC

49

406

[24]

  

O111_R

ATAGTTATGAACATCTTGTTTAGC

   

Shigella spp.

 

ShET 1

Shigella_1A_F

CAG CGT CTT TCA GCG ACA GTG TTT

57

530

[8]

  

Shigella_1A_R

AGC ATG ATA CTC AAC AGC CAG ACC

   
  

Shigella_1B_F

ATA CTG GCT CCT GTC ATT CAC GGT

   
  

Shigella_1B_R

GGA AGT GAC AGG GCA TTT GTG GAT

   

Salmonella spp.

 

Sdf I

Salmonella_sdf1_FW

TGT GTT TTA TCT GAT GCA AGA GG

53

304

[25, 26]

  

Salmonella_sdf1_RW

TGA ACT ACG TTC GTT CTT CTG G

   

Vibrio cholera

 

Vc

Vibrio_Vc_FW

GTTCGCGCTGGTGAAGGTTCA

57

192

[27]

  

Vibrio_Vc_RW

TGGCATACCAGAGTCTTTCTGTG

   

Cryptosporidium spp.

 

18 s SSU rRNA locus

18 s Morgan F

AGTGACAAGAAATAACAATACAGG

60

298

[28]

 

18 s Morgan R

CCTGCTTTAAGCACTCTAATTTTC

   

Giardia spp.

 

gdh gene

GDHeF

TCAAGCTYAAYGCYGGYTTGCGT

57

432

[29]

  

GDHiF

CAGTACAACTCYGCTCTCGG

   
  

GDHiR

GTTRTCCTTGCACATCTCC

   
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Gut Pathogens

ISSN: 1757-4749