Molecular survey of selected viruses in Pudus (Pudu puda) in Chile revealing first identification of caprine herpesvirus—2 (CpHV-2) in South American ungulates

Figures & data

Table 1. Primers used in the different PCR reactions.

Target	Sequence (5’-3’)	Sense; location^a	Annealing temperature	References
Adenovirus	CAGCCKCKGTTRTGYAGGGT	+, outer	48 °C	Li et al. (2010)
	GCHACCATYAGCTCCAACTC	-, outer
	GGGCTCRTTRGTCCAGCA	+, inner	48 °C
	TAYGACATCTGYGGCATGTA	-, inner
Herpesvirus, polymerase	GAYTTYGCNAGYYTNTAYCC	+, outer	46 °C	VanDevanter et al. (1996)
	TCCTGGACAAGCAGCARNYSGCNMTNAA	-, outer
	GTCTTGCTCACCAGNTCNACNCCYTT	-, outer
	TGTAACTCGGTGTAYGGNTTYACNGGNGT	+, inner	46 °C
	CACAGAGTCCGRTCNCCRTADAT	-, inner
Herpesvirus, glycoprotein B^b	CCTCCCAGGTTCARTWYGCMTAYGA	+, outer	46 °C	Ehlers et al. (2008)
	CCGTTGAGGTTCTGAGTGTARTARTTRTAYTC	-, outer
	AAGATCAACCCCACIAGIGTIATG	+, inner	46 °C
	GTGTAGTAGTTGTACTCCCTRAACATIGTYTC	-, inner
Pestivirus	ATGCCCWGTAGGACTAGCA	+	50 °C	Vilcek et al. (1994)
	TCAACTCCATGTGCCATGTAC	–

^a Outer PCR or inner PCR, only included for nested PCRs.

^b Only performed for molecular characterization of positive samples to herpesvirus detection.

Figure 1. Maximum-likelihood phylogenetic trees of herpesviral sequences (A: polymerase gene, nucleotide sequences -160 bp, excluding primers-; B: polymerase gene, deduced amino acid sequences; C: glycoprotein gene, nucleotide sequences -420 bp, excluding primers-; D: glycoprotein gene, deduced aminoacid sequences). The reliability of the trees was tested with a bootstrap frequency of 1000 replicates. All bootstrap values smaller than 70% have been omitted. Each sequence has been expressed by the name of the virus as it is in the Genbank followed by the Genbank Accession Number. The Genbank Accession Number of the sequences obtained in this study are for polymerase gene: I585-I587-I589-I637 (LC667447) and I595 (LC667446); and for glycoprotein B gene: I585-I587-I589-I637 (LC667449) and I595 (LC667448). The Ictalurid herpesvirus is classified as an outgroup member.

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Data availability statement

The original contributions presented in the study are included in the article/supplementary material; further inquiries can be directed to the corresponding author/s.