Complete genome sequence and phylogenetic analysis of Senecavirus A isolated in Northeast China in 2016

Wang, Haiwei; Li, Chen; Yuan, Tiangang; Yang, Decheng; Zhou, Guohui; Yu, Li

doi:10.1007/s00705-017-3480-4

Cited by 37 publications

(29 citation statements)

References 13 publications

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“…Foreign animal disease investigations indicated that other vesicular viral pathogens, such as foot-and-mouth disease virus (FMDV), swine vesicular disease virus (SVDV), vesicular stomatitis virus (VSV), and vesicular exanthema of swine virus (VESV), were negative in these cases [10]. Subsequently, SVV detection was reported by other laboratories in the U.S. [11][12][13][14][15][16], China [17][18][19][20][21], Canada [22], Thailand [23], and Colombia [24]. Vesicular lesions were induced in pigs following experimental inoculation with the contemporary U.S. isolates of SVV [25,26], confirming that SVV is a vesicular viral pathogen.…”

Section: Introductionmentioning

confidence: 99%

Development and evaluation of a real-time RT-PCR and a field-deployable RT-insulated isothermal PCR for the detection of Seneca Valley virus

et al. 2019

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Background Seneca Valley virus (SVV) has emerged in multiple countries in recent years. SVV infection can cause vesicular lesions clinically indistinguishable from those caused by other vesicular disease viruses, such as foot-and-mouth disease virus (FMDV), swine vesicular disease virus (SVDV), vesicular stomatitis virus (VSV), and vesicular exanthema of swine virus (VESV). Sensitive and specific RT-PCR assays for the SVV detection is necessary for differential diagnosis. Real-time RT-PCR (rRT-PCR) has been used for the detection of many RNA viruses. The insulated isothermal PCR (iiPCR) on a portable POCKIT™ device is user friendly for on-site pathogen detection. In the present study, SVV rRT-PCR and RT-iiPCR were developed and validated. Results Neither the SVV rRT-PCR nor the RT-iiPCR cross-reacted with any of the vesicular disease viruses (20 FMDV, two SVDV, six VSV, and two VESV strains), classical swine fever virus (four strains), and 15 other common swine viruses. Analytical sensitivities of the SVV rRT-PCR and RT-iiPCR were determined using serial dilutions of in vitro transcribed RNA as well as viral RNA extracted from a historical SVV isolate and a contemporary SVV isolate. Diagnostic performances were further evaluated using 125 swine samples by two approaches. First, nucleic acids were extracted from the 125 samples using the MagMAX™ kit and then tested by both RT-PCR methods. One sample was negative by the rRT-PCR but positive by the RT-iiPCR, resulting in a 99.20% agreement (124/125; 95% CI: 96.59–100%, κ = 0.98). Second, the 125 samples were tested by the taco™ mini extraction/RT-iiPCR and by the MagMAX™ extraction/rRT-PCR system in parallel. Two samples were positive by the MagMAX™/rRT-PCR system but negative by the taco™ mini/RT-iiPCR system, resulting in a 98.40% agreement (123/125; 95% CI: 95.39–100%, κ = 0.97). The two samples with discrepant results had relatively high C T values. Conclusions The SVV rRT-PCR and RT-iiPCR developed in this study are very sensitive and specific and have comparable diagnostic performances for SVV RNA detection. The SVV rRT-PCR can be adopted for SVV detection in laboratories. The SVV RT-iiPCR in a simple field-deployable system could serve as a tool to help diagnose vesicular diseases in swine at points of need.

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Section: Introductionmentioning

confidence: 99%

Development and evaluation of a real-time RT-PCR and a field-deployable RT-insulated isothermal PCR for the detection of Seneca Valley virus

et al. 2019

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“…From 2015 to January 2016, the PIVD outbreak was still observed in swine herds in Guangdong province (Zhao et al., ). PIVD began to appear in Hubei and Heilongjiang provinces in 2016 (Qian, Fan, Qian, Chen, & Li, ; Wang et al., ). In January 2017, PIVD outbreaks were noted in Fujian and Henan provinces (Zhu et al., ).…”

Section: Introductionmentioning

confidence: 99%

Genetic and phylogenetic analysis of reemerged novel Seneca Valley virus strains in Guangdong province, 2017

Liu

Ren

et al. 2018

Transbound Emerg Dis

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From June to July 2017, six Seneca Valley virus (SVV) strains were isolated from swine herds exhibiting SVV-associated porcine idiopathic vesicular disease (PIVD) in Guangdong province, China. Complete genomic sequences of these six newly identified strains were genetically and phylogenetically analysed. The results revealed that these six SVV strains were genetically closely related to USA/GBI29/2015 and notably distinct from all previous Chinese strains, indicating the reemergence of new SVV strains in Guangdong province.

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“…In China, the first SVA infection was reported in 2015 in Guangdong Province (12). Since then, other cases have been sporadically reported in several regions with a significant increase in numbers and geographical distributions (15,16,18). The high density of pig farms and frequent movement of live pigs through different regions will contribute to the SVA spread in China.…”

Section: Resultsmentioning

confidence: 99%

“…Since then, increasing cases of SVA infection have been reported in other provinces, including Heilongjiang, Hubei, Henan, Fujian, Hebei, and Anhui etc. (13)(14)(15)(16)(17)(18). However, the genomic information is still very limited in these regions except Guangdong province which account for over 70% of Chinese isolates (19).…”

Section: Introductionmentioning

confidence: 99%

Isolation of Three Novel Senecavirus A Strains and Recombination Analysis Among Senecaviruses in China

Guo

Chen

Ruan³

et al. 2020

Front. Vet. Sci.

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Senecavirus A (SVA), an emerging swine picornavirus of swine, is one of the causative agents of vesicular disease which is clinically indistinguishable from foot-and-mouth disease in pigs. Here, 3 cases of vesicular disease were reported which was caused by SVA in November 2018 in Henan, China. Three new SVA strains were identified and conducted a genetically evolutionary analysis. The isolates shared 98.1-99.0% genomic pairwise identity to each other and had the highest similarity, of 98.3-98.7%, with the American strain KS15-01, respectively. Phylogenetic analysis indicated that the Chinese prevalent strains could be clearly divided into cluster 1, cluster 2, and cluster 3. Furthermore, one isolate (HeNNY-1/2018) and two previously reported strains (HB-CH-2016 and SVA/CHN/10/2017) were identified as recombinants using several algorithms. It revealed that the recombination among SVA strains has occurred in China since 2016 or earlier. The findings of studies updated the prevalent status of SVA in China. Besides, the genetic evolution and recombinant events of SVA should be attracted more attentions in the future.

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Complete genome sequence and phylogenetic analysis of Senecavirus A isolated in Northeast China in 2016

Cited by 37 publications

References 13 publications

Development and evaluation of a real-time RT-PCR and a field-deployable RT-insulated isothermal PCR for the detection of Seneca Valley virus

Development and evaluation of a real-time RT-PCR and a field-deployable RT-insulated isothermal PCR for the detection of Seneca Valley virus

Genetic and phylogenetic analysis of reemerged novel Seneca Valley virus strains in Guangdong province, 2017

Isolation of Three Novel Senecavirus A Strains and Recombination Analysis Among Senecaviruses in China

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