Table 1. Primers and probes targeting DNA of diarrheagenic agents.

Pathogen	Duplex/annealing t°	Forward primer	Reverse primer	Probe	Fluorophores	Target gene/Access number—GenBank	Reference
Salmonella spp.	1 / 50°C	CGGGTTGCGTTATAGGTCTGA	TGAAATACGATGCGAACAACATC	AATACTGCGCTGCCAGAT	HEX-BQ1	Outer membrane protein, ompC / AIH09487.1	[19]
Shigella spp.	2 / 56°C	ACCGGCGCTCTGCTCTC	GCAATGTCCTCCAGAATTTCG	CTGGGCAGGGAAATGTTCCGCC	HEX-BQ1	invasion plasmid antigen H, ipaH / DQ132807.1	[19]
ETEC	1 / 50°C	AAGCATGAATAGTAGCAATTACTGCT -> AAGCATGAATRGTAGCAATTACTGCT*	TTAATAGCACCCGGTACAAGCA	AACAACACAATTCAC -> TACAACACAATTCAC*	FAM-BQ1	Heat-stable enterotoxin ST, estIa / M29255.1	[19]*
ETEC	2 / 56°C	TCCGGCAGAGGATGGTTACA	CCAGGGTTCTTCTCTCCAAGC	AGCAGGTTTCCCACCGGATCACC	FAM-BQ1	Heat-labile enterotoxin LT, eltB / BAI49232.1	[19]
EPEC	3 / 50°C	CATTGATCAGGATTTTTCTGGTGATA	CTCATGCGGAAATAGCCGTTA	ATACTGGCGAGACTATTTCAA	FAM-BQ1	Intimin, eae / CAG17538.1	[20]
EPEC	3 / 50°C	TGGTGCTTGCGCTTGCT	CGTTGCGCTCATTACTTCTG	CAGTCTGCGTCTGATTCCAA	HEX-BQ1	bundle-forming pilus, bfpA / AB247927.1	[20]
EAEC	4 / 52°C	GAATCGTCAGCATCAGCTACA	CCTAAAGGATGCCCTGATGA	CGGACAACTGCAAGCATCTA	FAM-BQ1	transcriptional activator of aggregative adherence fimbriae expression, aggR / AF411067.1	[21]
EAEC	4 / 52°C	CATTTCACGCTTTTTCAGGAAT	CCTGATTTAGTTGATTCCCTACG	CACATACAAGACCTTCTGGAGAA	HEX-BQ1	part of the aai gene cluster, encoding a type VI secretion system, aaiC / FN554766.1	[21]
Campylobacter jejuni -> Campylobacter jejuni/coli	5 / 53°C	CTGCTAAACCATAGAAATAAAATTTCTCAC -> CWGCTAAACCATARAAATAAAATTTCTCAC*	CTTTGAAGGTAATTTAGATATGGATAATCG -> YTTTGAAGGTAATTTAGATATGGATAATCG*	CATTTTGACGATTTTTGGCTTGA -> CATTTTGAYGATTTTTGGCTTGA*	HEX-BQ1	Fibronectin-binding protein, cadF / AJK71638.1	[22]*
Vibrio cholerae	5 / 53°C	CCACTTAGTGGGTCAAACTATATTGTC	ATGCCCCTAATACATCATTAACGTT	AGCCACTGCACCCAA	FAM-BQ1	Cholera toxin A subunit, ctxA / X58785.1	[19]

* with modifications in the nucleotide sequence of primers and/or probe