Pigsties near dwellings as a potential risk factor for the prevalence of Japanese encephalitis virus in adult in Shanxi, China

Table 1 Primers used for identification in this study^a

Primers	Sequence of primers (5′–3′)	Amplify region	Length of product ^(reference)
Flavivius
FU1	TACCACATGATGGGAAAGAGAGAGAA	NS5	310 [11]
CFD2	GTGTCCCAGCCGGCGGTGTCATCAGC	NS5	310 [11]
Alphavirus
M2W	YAGAGCDTTTTCGCAYSTRGCHW	NS1	434/310 [11]
cM3W	ACATRAANKGNGTNGTRTCRAANCCDAYCC
M2W2	TGYCCNVTGMDNWSYVCNGARGAYCC
Bunyaviruses
BUP	ATGACTGAGTTGGAGTTTGATGTCGC	S	251 [13]
BDW	TGTTCCTGTTGCCAGGAAAAT	S	251 [13]
BAV S12 gene primers
BAV-12-854-S	AAATTGATAGYGYTTGCGTAAGAC	S12	850 [11]
BAV-12-B2-R	GTTCTAAATTGGATACGGCGTGC	S12	850 [11]
LNV S12 gene primers
LNV12s1	CACTGGCTCCGGCTGTAGTAACAG	S12	435 [14]
LNV12r1	CTGTTCGGATCATCTGGAATTTGA	S12	435 [14]
GETV 5′UTR and NS1 gene primers
F1	ATGGCGGACGTGTGACATCAC	5′UTR,NS1	930 [15]
R1	GTAACCTTCGCATGACACCACC	5′UTR,NS1	930 [15]
JEV C/PrM gene primers
JE-251 F	CGTTCTTCAAGTTTACAGCATTAGC	C/PrM	674/492 [5]
JE-925R	CCYRTGTTYCTGCCAAGCATCCAMCC
JE-743R	CGYTTGGAATGYCTRGTCCG

F, Forward primer; R, Reverse primer; M, C/A; W, A/T; Y, C/T; K, G/T; R, G/A; V, G/A/C; D, T/A/G; BAV, Bannan virus; LNV, Liaoning virus; GETV, Getach virus; JEV, Japanese encephalitis virus
^a The primers used to amplify the complete open reading frame (ORF) nucleotide sequence and envelope gene of the viral genomic RNA were all from a previous study [23]

ISSN: 2049-9957