Comparison of rectal swabs and faeces for real-time PCR detection of enteric agents in Rwandan children with gastroenteritis

Table 1 Primers and probes targeting RNA or DNA of diarrheagenic agents

Agent	Forward primer	Reverse primer	Probe	Target gene	Ref
Norovirus GG2	TGGAYTTTTAYGTGCCCAG	CGACGCCATCTTCATTCAC	AGCCAGATTGCGATCGCCC	Polymerase-capsid junction	[16]
Rotavirus^a	AACCATCTACACATGACCCTCTATGA	GGTCACATAACGCCCCTATAGC	CAATAGTTAAAAGCTAACACTGTCAAA	Non-strutural protein 3	[17]
	AACCATCTTCACGTAACCCTCTATGA
Adenovirus	GCCACGGTGGGGTTTCTAAACTT	GCCCCAGTGGTCTTACATGCACATC	TGCACCAGACCCGGGCTCAGGTACTCCGA	Hexon	[15]
Campylobacter jejuni	ATGCAAACCATAATTGGGTTTCAAC	CGAGTATCAGCAACTTCTTCTACAGCT	TTGCCACCAAAACCAAAACT	Fibronectin-binding protein (cadF)	[18]
ETEC-estA	AAGCATGAATAGTAGCAATTACTGCT	TTAATAGCACCCGGTACAAGCA	AACAACACAATTCAC	Heat-stable enterotoxin	[19]
ETEC-eltB	TCCGGCAGAGGATGGTTACA	CCAGGGTTCTTCTCTCCAAGC	AGCAGGTTTCCCACCGGATCACC	Heat-labile enterotoxin	[20]
E. coli eae	ACATGACCGATGACAAGGCA	CGCGACTGAAGCTGGCTAC	TCGCCGCCTGTTGTGCCG	Enteroaggregative factor	[21]
E. coli bfpA	GGTCTGTCTTTGATTGAATCTGCA	GCAGACTGGTAGTAAAACATCACACC	GCGCTTGCTGCCACCGTTACCG	Bundle-forming pilus	[22]
Shigella spp	ACCGGCGCTCTGCTCTC	GCAATGTCCTCCAGAATTTCG	CTGGGCAGGGAAATGTTCCGCC	Invasion plasmid antigen H	[23]
Cryptosporidium parvum/hominis	CAAATTGATACCGTTTGTCCTTCTG	TGGTGCCATACATTGTTGTCCT	TGTCCTCCTGGATTCA	Oocyst wall protein (OWP)	[24]

ISSN: 1471-2334