Table 1.

Primers and probes used in real-time PCR tests targeting RNA or DNA of diarrhoeagenic agents

Target pathogen	Target region	Primer/Probe	Primer/probe sequence (5′–3′)	Reference
GI	RdRp/capsid	Cog 1F	CGYTGGATGCGITTYCATGA	[15]
		Cog 1R	CTTAGACGCCATCATCATTYAC
		Ring 1A	FAM-AGATYGCGATCYCCTGTCCA-BHQ1
		Ring 1B	FAM-AGATCGCGGTCTCCTGTCCA-BHQ1
GII	RdRp/capsid	Cog 2F	CARGARBCNATGTTYAGRTGGATGAG	[15]
		Cog 2R	TCGACGCCATCTTCATTCACA
		Ring 2	JOE-TGGGAGGGCGATCGCAATCT-BHQ1
Sapovirus	RdRp/capsid	CU-SV-F1	GACCAGGCTCTCGCYACCTAC	[16]
		CU-SV-F2	TTGGCCCTCGCCACCTAC
		CU-SV-R	CCCTCCATYTCAAACACTAWTTTG
		CU-SV-Probe	FAM-TGGTTYATAGGYGGTAC-BHQ1
Rotavirus	NSP3	ROTA-F	ACCATCTACACATGACCCTC	[22]
		ROTA-R	GGTCACATAACGCCCC
		ROTA-P	FAM- ATGAGCACAATAGTTAAAAGCTAACACTGTCAA-TAMRA
Astrovirus	ORF1a	AS-F	TCTYATAGACCGYATTATTGG	[18]
		AS-R	TCAAAATTCTACATCATCACCAA
		AS-P	FAM-CCCCADCCATCATCATCTTCATCA-BQ1
Adenovirus	hexon	AdV-F	GCCCCAGTGGTCTTACATGCACATC	[18]
		AdV-R	GCCACGGTGGGGTTTCTAAACTT
		AdV-Probe	FAM-TGCACCAGACCCGGGCTCAGGTACTCCGA-TAMTRA
Campylobacter jejuni	ORF-C	82F	TTGGTATGGCTATAGGAACTCTTATAGCT	[19]
		197R	CACACCTGAAGTATGAAGTGGTCTAAGT
ETEC	elt A	ETEC_LT_F1	GGCGACAAATTATACCGTGC	This study
		ETEC_LT_R1	TGTGTTCCTCTCGCGTGATC
Shigella	ipa H	Shig_ipaH_F	CGGAATCCGGAGGTATTGC GGTATTGC	[20]
		Shig_ipaH_R	CCTTTTCCGCGTTCCTTGA
Salmonella	ttrC/ttrA	ttr-6	CTCACCAGGAGATTACAACATGG	[21]
		ttr-4	AGCTCAGACCAAAAGTGACCATC
		ttr-5 (probe)	FAM-CACCGACGGCGAGACCGACTTT-BHQ1

BHQ1, black hole quencher 1; ETEC, enterotoxigenic Escherichia coli; FAM, 6-carboxyfluorescein; JOE, 6-carboxy-4,5-dichloro-2,7-dimethyoxyfluorescein.; TAMRA, 6-carboxytetramethylrhodamine.