Multiplex detection, distribution, and genetic diversity of Hop stunt viroid and Citrus exocortis viroid infecting citrus in Taiwan

Table 2 Details of the primers used for the molecular detections and quantifications of CEVd and HSVd

Primer pairs for multiplex RT-PCR
Primer name	Sequence 5′-3′	Product size (nt)	Position	Description	References
CEVd-dF28	GCTCVCCYGACCCYGCR^a	371	28-44	Full-length cDNA for sequencing and qPCR	This work
CEVd-dR27	HCCACAGGRACCTCAAG^a	371	11-27	Full-length cDNA for sequencing and qPCR
CEVd-F194	TTTCGCTGCTGGCTCCACA	196	194-212	RT-PCR
CEVd-R18	ACCTCAAGAAAGATCCCGA	196	371-18	RT-PCR
HSVd-F1	GGGGCAACTCTTCTCAGAATCC	302	81-102	RT-PCR	[8]
HSVd-R1	GGGGCTCCTTTCTCAGGTAAGTC	302	58-80	RT-PCR	[8]
Primers/Probes for multiplex real-time RT-PCR
Primer name	Sequence 5′-3′	Product size (nt)	Position	Description	References
CEVd-RTR_F	GTCGCCGCGGATCACT	64	142-159	Real-time PCR	This work
CEVd-RTR_R	CCAGCAGCGAAAGGAAGGA	64	187-205
HSVd-RTR_F	GGAATTCTCGAGTTGCCGCA	127	5-24
HSVd-RTR_R	CCGCGGCCCTCTCT	127	118-131
Probe name	Sequence 5′-3′		Position	5′-Labeled
CEVd-RTR_P	CCAGCGGAGAAACAG		163-177	FAM
HSVd-RTR_P	CAACTCTTCTCAGAATCC		85-102	IC

ISSN: 1743-422X