TABLE 1.

MERS-CoV rRT-PCR assay primer/probe sequences

Assay signature	Assay use	Genome target	Genome location	Primer or probea	Sequence (5′ to 3′)	50× working concentration (μM)
upEb	Specimen screening	Noncoding region upstream of envelope gene	27458–27475c	Forward primer	GCAACGCGCGATTCAGTT	12.5
			27549–27530c	Reverse primer	GCCTCTACACGGGACCCATA	25
			27477–27502c	Probe	CTCTTCACATAATCGCCCCGAGCTCG	5
N2	Specimen screening	Nucleocapsid gene	29424–29442c	Forward primer	GGCACTGAGGACCCACGTT	12.5
			29498–29477c	Reverse primer	TTGCGACATACCCATAAAAGCA	12.5
			29445–29471c	Probe	CCCCAAATTGCTGAGCTTGCTCCTACA	5
N3	Specimen confirmation	Nucleocapsid gene	28748–28771c	Forward primer	GGGTGTACCTCTTAATGCCAATTC	25
			28814–28795c	Reverse primer	TCTGTCCTGTCTCCGCCAAT	25
			28773–28793c	Probe	ACCCCTGCGCAAAATGCTGGG	5
RP	Sample quality control	Human RNAse P gene	50–68d	Forward primer	AGATTTGGACCTGCGAGCG	40
			114–95d	Reverse primer	GAGCGGCTGTCTCCACAAGT	40
			71–93d	Probe	TTCTGACCTGAAGGCTCTGCGCG	10

^aProbes were labeled at the 5′ end with the reporter molecule 6-carboxyfluorescein (6-FAM) and at the 3′ end with Black Hole Quencher 1 (BHQ1) (Biosearch Technologies Inc., Novato, CA).

^bPrimer/probe sequences from a report by Corman et al. (4).

^cNucleotide numbering was based on human betacoronavirus 2c EMC/2012 strain (GenBank accession number JX869059.2).

^dNucleotide numbering was based on human RNase P (RP) mRNA (GenBank accession number NM_006413.4).