. 2018 Apr 25;56(5):e01686-17. doi: 10.1128/JCM.01686-17

TABLE 2.

Primer sets used for virus quantification, RT-PCR detection, and complete-genome sequencing

Primer^a	Sequence (5′–3′)^b	Location^c	Use
HEV-07_f	GGTGGTTTCTGGGGTGAC	5261–5278	Real-time RT-PCR assays for HEV-1 to HEV-4
HEV-TM3_f	FAM-TGATTCTCAGCCCTTCGC-MGB	5284–5301
HEV-08_r	AGGGGTTGGTTGGATGAA	5330–5313
HEV-38_f	GARGCYATGGTBGAGAARG	4084–4102	Nested RT-PCR for HEV-1 to HEV-4 of ORF1 region
HEV-39_r	GCCATRTTCCARACRGTRTTCC	4622–4601
HEV-37_f	GGTTYCGYGCYATTGARAARG	4277–4297
HEV-27_r	TCRCCRGARTGYTTCTTCC	4583–4565
HEV-30_f	CCGACAGAATTRATTTCGTCGG	6296–6317	Heminested RT-PCR for HEV-1 to HEV-4 in ORF2
HEV-32_f	GTCTCRGCCAATGGCGAGCCRRC	6350–6372
HEV-31_r	GTYTTRGARTACTGCTGR	6750–6733
HEV-15_f	TGTGGTCGAYGCCATGGAG	15–33	HEV-3 full-length genome fragment 1
HEV-23_r	CRTCCTCAGAGGCRTTCC	1129–1112	HEV-3 full-length genome fragment 1
HEV-24_f	GCTGYTCACGGCTWATGAC	1034–1052	HEV-3 full-length genome fragment 2
HEV-16_r	AAKGGATTGGCMGACTCCC	2108–2090	HEV-3 full-length genome fragment 2
HEV-137_f	TCTAATGGCCTGGACTGTACTG	1894–1915	HEV-3 full-length genome fragment 3
HEV-124_r	TGGACCGAYGAGGCYCGCTGCAT	3176–3154	HEV-3 full-length genome fragment 3
HEV-123_f	AGGGTTGAGCAGAACCCYAAGAGGC	2602–2626	HEV-3 full-length genome fragment 4
HEV-18_r	CTGYTCAAGCTCTGGGCARG	3831–3812	HEV-3 full-length genome fragment 4
HEV-157_f	TACCACCAGCTKGCTGAGGAG	3751–3771	HEV-3 full-length genome fragment 5
HEV-41_r	GCCATGTTCCAGACDGTRTTCCA	4622–4600	HEV-3 full-length genome fragment 5
HEV-28_f	ATGGAGGAGTGTGGBATGC	4465–4483	HEV-3 full-length genome fragment 6
HEV-20_r	GAAGGGGTTGGTTGGATG	5332–5315	HEV-3 full-length genome fragment 6
HEV-126_f	TGCCTATGCTGCCCGCGCCACC	5187–5208	HEV-3 full-length genome fragment 7
HEV-129_r	ACCYCCRGCCGACGAAATCAATTCTG	6325–6300	HEV-3 full-length genome fragment 7
HEV-05_f	CCGACAGAATTGATTTCGTCGG	6297–6318	HEV-3 full-length genome fragment 8
HEV-22_r	CTCCCGRGTTTTACCYACCT	7123–7104	HEV-3 full-length genome fragment 8
HEV-154_f	CAAARGYACARCGRGARAATCCATC	493–469	HEV-3 5′ RACE
HEV-155_r	CGGCCGRACCACCACAGCATTCGC	135–112	HEV-3 5′ RACE
HEV-133_f	GCCTTGGTGCTGGTCCTGTATC	6906–6927	HEV-3 3′ RACE
HEV-134_r	ACTATCCCGCTCGTGCTCATAC	6990–7011	HEV-3 3′ RACE

Forward primer designations end with _f; reverse primer designations end with _r.

Primers and probes are adapted from the work of Jothikumar et al. (30). I, inosine; FAM, 6-carboxyfluorescein; MGB, minor groove binder. R stands for G or A; Y stands for C or T; S stands for G or C; W stands for A or T; M stands for A or C; K stands for G or T; H stands for A, C, or T; and N stands for A, T, C, or G.

Numbered according to the HEV prototype strain from Burma (GenBank accession no. M73218).