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Complete genomic characterization of two European-genotype porcine reproductive and respiratory syndrome virus isolates in Fujian province of China

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Abstract

Porcine reproductive and respiratory syndrome (PRRS) is considered one of the most devastating swine diseases worldwide, resulting in immense economic losses. PRRS virus (PRRSV) is divided into two major genotypes, European (type 1) and the North American (type 2). Type 1 PRRSV have recently emerged in Fujian province (South China), and this might have a significant impact on the Chinese pig industry. From 2013 to 2014, two type 1 PRRSV strains, named FJEU13 and FJQEU14, were isolated from piglets and sows with respiratory problems and reproductive disorders in Fujian province. The full genome length of the two isolates was 14,869-15,062 nucleotides (nt), excluding the poly(A) tail. These isolates shared 86.0-89.9% sequence identity with the prototypic strains Lelystad virus (LV) and 82.8-92% with Chinese type 1 PRRSV strains, but only 59.9-60.1% with the North American reference strain VR-2332. However, they were 82.9% identical to each other. Nonstructural protein 2 (Nsp2) and ORF3-ORF5 were the most variable regions when compared to other type 1 PRRSV strains. Nsp2 and ORF3 contained multiple discontinuous deletions and a 204-bp deletion in NSP2 in isolate FJQEU14, which has never been described in other Chinese type 1 PRRSV strains. All of these results might be useful for understanding the epidemic status of type 1 PRRSV in China.

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Acknowledgements

This work was supported by Major Project of Science and Technology Program of Fujian Province, China (2014NZ0002-3), Fujian Natural Science Foundation, Fujian Province, China (2016J01168) and Research Projects of Science of the Universities, Fujian Province, China (JK2015049).

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Authors and Affiliations

  1. College of Life Sciences of Longyan University, Longyan, 364012, Fujian, China

    Jian-Kui Liu, Chun-Hua Wei, AI-Ling Dai, Ke-Wei Fan, Bing-Hui Yang, Chun-Fang Huang, Xiao-Hua Li & Xiao-Yan Yang

  2. Fujian Provincial Key Laboratory for the Prevention and Control of Animal Infectious Diseases and Biotechnology, Longyan, 364012, Fujian, China

    Jian-Kui Liu, Chun-Hua Wei, AI-Ling Dai, Ke-Wei Fan, Bing-Hui Yang, Chun-Fang Huang, Xiao-Hua Li & Xiao-Yan Yang

  3. College of Veterinary Medicine, South China Agricultural University, Guangzhou, 510642, Guangdong, China

    Jian-Kui Liu & Man-Lin Luo

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705_2016_3136_MOESM1_ESM.doc

Supplementary material 1 Fig. S1 Nsp1β amino acid sequence alignment for divergent PRRSV isolates. Linear B-cell epitopes described by Oleksiewicz et al. [25] are shown as solid boxes with the label ES1. Strains BJEU06-1, NMEU09-1, NVDC-FJ, NVDC-NM1, NVDC-NM2, NVDC-NM3 and LNEU12 were isolated in 2006-2012 in China. Fig. S2 (A) Alignment of the amino acid sequences of GP3 of PRRSV strains. Solid boxes represent deletions and a dotted box shows the epitope reported by Oleksiewicz et al. [27]. Seven potential N-glycosylation sites in ORF3 are underlined. (B) Alignment of the amino acid sequences of GP4 of PRRSV strains. A solid box shows the location of the neutralization epitope reported by Meulenberg et al. [37]. Strains BJEU06-1, NMEU09-1, NVDC-FJ, NVDC-NM1, NVDC-NM2, NVDC-NM3 and LNEU12 were isolated in 2006-2012 in China. Fig. S3 Analysis of amino acid substitutions in GP5. The putative signal sequences are shown as gray squares, potential N-glycosylation sites were shown in solid boxes, and the linear B-cell epitope ES13 is shown in a dotted box. Strains BJEU06-1, NMEU09-1, NVDC-FJ, NVDC-NM1, NVDC-NM2, NVDC-NM3 and LNEU12 were isolated in 2006-2012 in China. (DOC 763 kb)

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Liu, JK., Wei, CH., Dai, AL. et al. Complete genomic characterization of two European-genotype porcine reproductive and respiratory syndrome virus isolates in Fujian province of China. Arch Virol 162, 823–833 (2017). https://doi.org/10.1007/s00705-016-3136-9

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