Characterization of small ruminant lentivirus A4 subtype isolates and assessment of their pathogenic potential in naturally infected goats

Table 1 Primers and probe

Assay	Gene	Primer name	Sequence	Orientation	Position*	Product length	Annealing temperature	PCR round
Seminested	env	563	GAYATGRYRGARCAYATGAC	Forward	7272-7291	818 bp	47°C	1
PCR		564	GCYAYATGCTGIACCATGGCATA	Reverse	8067-8089	818 bp	47°C	1
		567	GGIACIAAIACWAATTGGAC	Forward	7482-7502	608 bp	49°C	2
		564	GCYAYATGCTGIACCATGGCATA	Reverse	8067-8089	608 bp	49°C	2
PERT assay		MS2-5R	TGTAAGCCTGTGAACGCGAG	Reverse	1464
		MS2-4f	CCGTATGGCCAACAACTGG	Forward	1214
		MS2-P45	AGAGCCCTCAACCGGAGTTTGAAGCA	Probe	1310
Quantitative	env	WasJam-F	ATGCCACAATCCTATATTCAAAATC	Forward	7833-7855
Real time PCR		WasJam-R	GCTGCCTCTAACACTTGCTG	Reverse	8046-8065
		WaJaRealTP	TGCTTGCTATCATGGCT	Probe	7927-7943

Table 1 present a list of the different primers and the probe used for the seminested PCR in the env region, the PERT assay and the quantitative real time PCR.
*bp positions refer to the prototype CAEV-CO molecular clone, GenBank accession number M33677.

ISSN: 1743-422X