RPB0527

Pathogen Description

Target Pathogen Pathogen Name NCBI Taxonomy ID Order Family Genus Species Pathogen type
Japanese Encephalitis Virus Japanese encephalitis virus,Japanese encephalitis (JE) virus,Japanese encephalitis virus JE,Japanese encephalitis virus JEV 11072 Amarillovirales Flaviviridae Orthoflavivirus Orthoflavivirus japonicum Viruses

Primer Description

Primer Name Sequence(5'-3') Length(bp) Primer Final Concentration(μM） GC Content（%） Predicted Melting Temperature(℃） Molecular Weight(g/moles) Positions in GenBank accession number
JEV-RAA-F2 CTCCGGCTTACAGTTTYAATTGTCTGGGAATG 32 10 μM 45.31 61.69 9828.93 \
JEV-RAA-R2 ATCATRCGGACRTCYAATGTTGGTTTGTCG 30 10 μM 45 61.55 9235.55 \
JEV-RAA-P AAGGAGCYAGTGGAGCYACTTGGGTGGACY\i6FAMdT\\idSp\G\iBHQdT\GTAGAAGGAGA 43 10 μM 54.65 72.26 14186.9 \

Gene Description

Target Gene GenBank ID
JEV E960-E1100 Sequence \

Assay Description

Application Assay Primer Designing Software Reaction Time(min) Assay Temperature(℃) Readout System(s) Limit of Detection(LoD) Sensitivity(%) Specificity(%)
In this study, we constructed a rapid detection RT-RAA method using JEV E protein sequnce to detection the virus. RT-RAA \ 30 min 39°C \ 5.5 copies/μL \ \

Publication Description

Year of Publication Title Author(s) Journal PMID DOI
2022 Epidemiological investigation of swine Japanese encephalitis virus based on RT-RAA detection method Mincai Nie,Yuancheng Zhou,Fengqin Li,Huidan Deng,Mengxi Zhao,Yao Huang,Chaoyuan Jiang,Xiangang Sun,Zhiwen Xu,Ling Zhu Scientific reports 35672440 10.1038/s41598-022-13604-4

Epidemiological investigation of swine Japanese encephalitis virus based on RT-RAA detection method

Author(s):

Mincai Nie,Yuancheng Zhou,Fengqin Li,Huidan Deng,Mengxi Zhao,Yao Huang,Chaoyuan Jiang,Xiangang Sun,Zhiwen Xu,Ling Zhu

Journal:

Scientific reports

Year:

2022

Abstract:

JEV is one of the zoonotic pathogens that cause serious diseases in humans. JEV infection can cause abortion, mummified foetus and stillbirth in sows, orchitis and semen quality decline in boars, causing huge economic losses to pig industry. In order to investigate the epidemiology of JEV in pigs in Sichuan province, a rapid and efficient fluorescent Reverse transcription recombinase-aided amplification (RT-RAA) detection method was established. Aborted fetuses and testicular swollen boar samples were detected by RT-RAA in pigs in the mountain areas around Sichuan Basin, and the detection rate of JEV was 6.49%. The positive samples were identified as JEV GI strain and GIIIstrain by sequencing analysis. We analyzed the whole gene sequence of a positive sample for the GI virus. The Envelope Protein (E protein) phylogenetic tree analysis was far related to the Chinese vaccine strain SA14-14-2, and was most closely related to the JEV GI strains SH17M-07 and SD0810 isolated from China. The results showed that we established an efficient, accurate and sensitive method for clinical detection of JEV, and JEV GI strains were prevalent in Sichuan area. It provides reference for the prevention and control of JEV in Sichuan.