Table 1.

Primers and probes used for the detection of SARS-CoV-2, Porcine Epidemic Diarrhoea Coronavirus (PEDV) and human coronavirus E229.

Virus	Primers and probe	Sequence	RT-qPCR conditions	Reference
SARS-CoV-2	2019-nCoV_N1–F	GACCCCAAAATCAGCGAAAT		(CDC, 2019-Novel Coronavirus (2019-nCoV) Real-Time RT-PCR Diagnostic Panel For Emergency Use Only Instructions for Use, n.d.)
			PCR (45 cycles)
			95 °C for 03 s
	2019-nCoV_N1-R	TCTGGTTACTGCCAGTTGAATCTG	55 °C for 30 s
	2019-nCoV_N1–P	[FAM]-TCCTGAGGTCAATGCA- ZEN™/3′ Iowa Black™
PEDV	PEDV_forward	CAGGACACATTCTTGGTGGTCTT	RT: 45 °C for 15 min, Preheating: 95 °C for 2 min	(Zhou et al., 2017)
			PCR (45 cycles)
			95 °C for 15 s
	PEDV_reverse	CAAGCAATGTACCACTAAGGAGTGTT	60 °C for 60 s
	PEDV_probe	[FAM]-ACGCGCTTCTCACTAC-NFQ-[MGB]
E229	229 E-FP	TTCCGACGTGCTCGAACTTT	RT: 45 °C for 15 min, Preheating: 95 °C for 2 min	Vijgen et al. (2005)
			PCR (45 cycles)
			95 °C for 15 s
	229 E-RP	CCAACACGGTTGTGACAGTGA	60 °C for 60 s
	229 E-TP	[FAM]-TCCTGAGGTCAATGCA-NFQ-[MGB]