Table 1.

RT-PCR and nested PCR primers used for the detection of the group A, B and C porcine rotaviruses (PRV A–C), porcine sapovirus, porcine enteric calicivirus (designed to detect sapovirus and norovirus), transmissible gastroenteritis coronavirus (TGEV) and porcine epidemic diarrhea coronavirus (PEDV) in the fecal samples from pigs with diarrhea

Target viruses	Target genesa	Primer names	Primer sequence, 5′–3′b	Region (nt)	Size (bp)	Source or reference
PSaV and PNoV	RdRp	P289c	F: GATTACTCCAAGTGGGACTCCAC	4568–4590	319	Jiang et al. (1999a)
		P290	R: TGA CAATGTAAT ATCACCATA	4865–4886
PSaV	Cap	CapsidF	F: GTGATCAACCCTTTTGAAAC	5698–5717	757	Kim et al. (2006)
		CapsidR	R: AAAGCATGATGTTGTTAGGC	6435–6454
		PECVCnF	nF: CTCGTCATAGTAGGTGTGGC	5890–5909	565
		PECVCnR	nR: AAAGCATGATGTTGTTAGGC	6435–6454
	RdRp	PEC45	F: GTGCTCTATTGCCTGGACTA	4312–4331	572
		PEC46	R: TCTGTGGTGCGGTTAGCCTT	4864–4883
		PECnF	nF: CTCGTATGCTGAGGACACAC	4392–4411	380
		PECnR	nR: GAGTGTCTGTTGGCTCAATG	4752–4771
PRV A	VP6		F: AAAGATGCTAGGGACAAAATTG	58–78	308	Elschner et al. (2002)
			R: TTCAGATTGTGGAGCTATTCCA	344–365
			nF: GACAAAATTGTCGAAGGCACATTATA	69–94	121
			nR: TCGGTAGATTACCAATTCCTCCAG	166–189
PRV B	NSP2		F: CTATTCAGTGTGTCGTGAGAGG	18–40	434	Gouvea et al. (1991)
			R: GCAGACAAGCTAGCCCGCTTCG	429–451
PRV C	VP6		F: CTCGATGCTACTACAGAATCAG	994–1018	366	Gouvea et al. (1991)
			R: AGCCACATAGTTCACATTTCATCC	1339–1359
			nF: CTCGATGCTACTACAGAATCAG	994–1018	328
			nR: GGGATCATCCACGTCATGCGT	1300–1321
TGEV	ORF1b		F: GGGTAAGTTGCTCATTAGAAATAATGG	7968–7994	1006	Kim et al. (2000)
	Spike		R: CTTCTTCAAAGCTAGGGACTG	920–940
PED	N		F: AGGAACGTGACCTCAAAGACATCCC	812–836	540	Kubota et al. (1999)
			R: CCAGGATAAGCCGGTCTAACATTG	1328–1351

^aRdRp: RNA dependent RNA polymerase; Cap: capsid; VP6: viral protein 6; NSP2: non-structural protein 2; ORF1b: open reading frame 1b; N: nucleocapsid.

^bF: upstream primer for RT-PCR; R: downstream primer for RT-PCR; nF: upstream primer for nested PCR; nR: downstream primer for nested PCR.

^cA primer pair p289/290 designed to detect both noroviruses and sapoviruses by RT-PCR.