Genomic characteristics and pathogenicity of a new recombinant strain of porcine reproductive and respiratory syndrome virus.
Amino Acid Sequence
Animals
China
Evolution, Molecular
Farms
Genetic Variation
/ genetics
Genome, Viral
/ genetics
Genomics
Phylogeny
Porcine Reproductive and Respiratory Syndrome
/ virology
Porcine respiratory and reproductive syndrome virus
/ genetics
Recombination, Genetic
/ genetics
Sequence Analysis, DNA
/ methods
Swine
Viral Nonstructural Proteins
/ genetics
Virulence
/ genetics
Journal
Archives of virology
ISSN: 1432-8798
Titre abrégé: Arch Virol
Pays: Austria
ID NLM: 7506870
Informations de publication
Date de publication:
Feb 2021
Feb 2021
Historique:
received:
07
07
2020
accepted:
30
10
2020
pubmed:
2
1
2021
medline:
5
2
2021
entrez:
1
1
2021
Statut:
ppublish
Résumé
Recombination is an important phenomenon that accelerates evolution and enriches the genetic diversity of porcine reproductive and respiratory syndrome virus (PRRSV). Recombinant PRRSV isolates sometimes have different genetic backgrounds. In this study, we report a recombinant PRRSV (SD-YL1712) isolated from a pig farm. The genome of SD-YL1712 is 15,014 nucleotides in length, and its nucleotide and amino acid sequence conservation is higher than that of PRRSV strain JXA1 except within the NSP2 region. The NSP2 region of SDYL1712 shares the highest nucleotide (85.9%) and amino acid (84.1%) sequence identity with PRRSV strain NADC30. SD-YL1712 was found to contain a characteristic 131-amino-acid deletion in the NSP2 region. Two recombination breakpoints were detected at nt 2134 and nt 3958 within the NSP2 region, which revealed that SD-YL1712 originated from a recombination event between NADC30-like and HP-PRRSV-derived MLV-like strains. Interestingly, SD-YL1712 had an additional deletion at position 586, similar to that found in strain TJnh1501. Moreover, the pathogenicity of strain SD-YL1712 was found to be similar to that of HP-PRRSV JXA1, which was higher than that of the CH1a strain. Further analysis indicated that SD-YL1712 might be a transitional intermediate in the evolution of TJbd1401 to TJnh1501.
Identifiants
pubmed: 33385245
doi: 10.1007/s00705-020-04917-8
pii: 10.1007/s00705-020-04917-8
doi:
Substances chimiques
Viral Nonstructural Proteins
0
Types de publication
Journal Article
Langues
eng
Sous-ensembles de citation
IM
Pagination
389-402Subventions
Organisme : National Key Research and Development Program of China
ID : 2017YFD0500605
Organisme : National Natural Science Foundation of China
ID : 31772764
Références
Benfield DA, Nelson E, Collins JE, Harris L, Goyal SM, Robison D, Christianson WT, Morrison RB, Gorcyca D, Chladek D (1992) Characterization of swine infertility and respiratory syndrome (SIRS) virus (isolate ATCC VR-2332). J Vet Diagn Invest 4(2):127–133. https://doi.org/10.1177/104063879200400202
doi: 10.1177/104063879200400202
pubmed: 1616976
Collins JE, Benfield DA, Christianson WT, Harris L, Hennings JC, Shaw DP, Goyal SM, McCullough S, Morrison RB, Joo HS et al (1992) Isolation of swine infertility and respiratory syndrome virus (isolate ATCC VR-2332) in North America and experimental reproduction of the disease in gnotobiotic pigs. J Vet Diagn Invest 4(2):117–126. https://doi.org/10.1177/104063879200400201
doi: 10.1177/104063879200400201
pubmed: 1616975
Corzo CA, Mondaca E, Wayne S, Torremorell M, Dee S, Davies P, Morrison RB (2010) Control and elimination of porcine reproductive and respiratory syndrome virus. Virus Res 154(1–2):185–192. https://doi.org/10.1016/j.virusres.2010.08.016
doi: 10.1016/j.virusres.2010.08.016
pubmed: 20837071
Lunney JK, Fang Y, Ladinig A, Chen N, Li Y, Rowland B, Renukaradhya GJ (2016) Porcine reproductive and respiratory syndrome virus (PRRSV): pathogenesis and interaction with the immune system. Annu Rev Anim Biosci 4:129–154. https://doi.org/10.1146/annurev-animal-022114-111025
doi: 10.1146/annurev-animal-022114-111025
pubmed: 26646630
Zhang Z, Qu X, Zhang H, Tang X, Bian T, Sun Y, Zhou M, Ren F, Wu P (2020) Evolutionary and recombination analysis of porcine reproductive and respiratory syndrome isolates in China. Virus Genes. https://doi.org/10.1007/s11262-020-01751-7
doi: 10.1007/s11262-020-01751-7
pubmed: 33009986
pmcid: 7497858
Lunney JK, Benfield DA, Rowland RR (2010) Porcine reproductive and respiratory syndrome virus: an update on an emerging and re-emerging viral disease of swine. Virus Res 154(1–2):1–6. https://doi.org/10.1016/j.virusres.2010.10.009
doi: 10.1016/j.virusres.2010.10.009
pubmed: 20951175
pmcid: 7172856
Conzelmann KK, Visser N, Van Woensel P, Thiel HJ (1993) Molecular characterization of porcine reproductive and respiratory syndrome virus, a member of the arterivirus group. Virology 193(1):329–339. https://doi.org/10.1006/viro.1993.1129
doi: 10.1006/viro.1993.1129
pubmed: 8438574
pmcid: 7131490
Johnson CR, Griggs TF, Gnanandarajah J, Murtaugh MP (2011) Novel structural protein in porcine reproductive and respiratory syndrome virus encoded by an alternative ORF5 present in all arteriviruses. J Gen Virol 92(Pt 5):1107–1116. https://doi.org/10.1099/vir.0.030213-0
doi: 10.1099/vir.0.030213-0
pubmed: 21307222
pmcid: 3139420
Allende R, Lewis TL, Lu Z, Rock DL, Kutish GF, Ali A, Doster AR, Osorio FA (1999) North American and European porcine reproductive and respiratory syndrome viruses differ in non-structural protein coding regions. J Gen Virol 80(Pt 2):307–315. https://doi.org/10.1099/0022-1317-80-2-307
doi: 10.1099/0022-1317-80-2-307
pubmed: 10073689
Nelsen CJ, Murtaugh MP, Faaberg KS (1999) Porcine reproductive and respiratory syndrome virus comparison: divergent evolution on two continents. J Virol 73(1):270–280
doi: 10.1128/JVI.73.1.270-280.1999
Mardassi H, Mounir S, Dea S (1994) Identification of major differences in the nucleocapsid protein genes of a Quebec strain and European strains of porcine reproductive and respiratory syndrome virus. J Gen Virol 75(Pt 3):681–685. https://doi.org/10.1099/0022-1317-75-3-681
doi: 10.1099/0022-1317-75-3-681
pubmed: 8126467
Forsberg R (2005) Divergence time of porcine reproductive and respiratory syndrome virus subtypes. Mol Biol Evol 22(11):2131–2134. https://doi.org/10.1093/molbev/msi208
doi: 10.1093/molbev/msi208
pubmed: 16000650
Hanada K, Suzuki Y, Nakane T, Hirose O, Gojobori T (2005) The origin and evolution of porcine reproductive and respiratory syndrome viruses. Mol Biol Evol 22(4):1024–1031. https://doi.org/10.1093/molbev/msi089
doi: 10.1093/molbev/msi089
pubmed: 15659555
pmcid: 7107557
Han J, Wang Y, Faaberg KS (2006) Complete genome analysis of RFLP 184 isolates of porcine reproductive and respiratory syndrome virus. Virus Res 122(1–2):175–182. https://doi.org/10.1016/j.virusres.2006.06.003
doi: 10.1016/j.virusres.2006.06.003
pubmed: 16860427
Chen N, Ye M, Huang Y, Li S, Xiao Y, Li X, Li S, Li X, Yu X, Tian K, Zhu J (2019) Identification of two porcine reproductive and respiratory syndrome virus variants sharing high genomic homology but with distinct virulence. Viruses. https://doi.org/10.3390/v11090875
doi: 10.3390/v11090875
pubmed: 31906004
pmcid: 7019732
Zhou L, Kang R, Zhang Y, Yu J, Xie B, Chen C, Li X, Chen B, Liang L, Zhu J, Tian Y, Yang X, Wang H (2019) Emergence of two novel recombinant porcine reproductive and respiratory syndrome viruses 2 (lineage 3) in Southwestern China. Vet Microbiol 232:30–41. https://doi.org/10.1016/j.vetmic.2019.01.026
doi: 10.1016/j.vetmic.2019.01.026
pubmed: 31030842
Zhou YJ, Hao XF, Tian ZJ, Tong GZ, Yoo D, An TQ, Zhou T, Li GX, Qiu HJ, Wei TC, Yuan XF (2008) Highly virulent porcine reproductive and respiratory syndrome virus emerged in China. Transbound Emerg Dis 55(3–4):152–164. https://doi.org/10.1111/j.1865-1682.2008.01020.x
doi: 10.1111/j.1865-1682.2008.01020.x
pubmed: 18405338
Zhou L, Chen S, Zhang J, Zeng J, Guo X, Ge X, Zhang D, Yang H (2009) Molecular variation analysis of porcine reproductive and respiratory syndrome virus in China. Virus Res 145(1):97–105. https://doi.org/10.1016/j.virusres.2009.06.014
doi: 10.1016/j.virusres.2009.06.014
pubmed: 19559739
Bian T, Sun Y, Hao M, Zhou L, Ge X, Guo X, Han J, Yang H (2017) A recombinant type 2 porcine reproductive and respiratory syndrome virus between NADC30-like and a MLV-like: genetic characterization and pathogenicity for piglets. Infect Genet Evol 54:279–286. https://doi.org/10.1016/j.meegid.2017.07.016
doi: 10.1016/j.meegid.2017.07.016
pubmed: 28713014
Karniychuk UU, Geldhof M, Vanhee M, Van Doorsselaere J, Saveleva TA, Nauwynck HJ (2010) Pathogenesis and antigenic characterization of a new East European subtype 3 porcine reproductive and respiratory syndrome virus isolate. BMC Vet Res 6:30. https://doi.org/10.1186/1746-6148-6-30
doi: 10.1186/1746-6148-6-30
pubmed: 20525333
pmcid: 2898778
Tian K, Yu X, Zhao T, Feng Y, Cao Z, Wang C, Hu Y, Chen X, Hu D, Tian X, Liu D, Zhang S, Deng X, Ding Y, Yang L, Zhang Y, Xiao H, Qiao M, Wang B, Hou L, Wang X, Yang X, Kang L, Sun M, Jin P, Wang S, Kitamura Y, Yan J, Gao GF (2007) Emergence of fatal PRRSV variants: unparalleled outbreaks of atypical PRRS in China and molecular dissection of the unique hallmark. PLoS ONE 2(6):e526. https://doi.org/10.1371/journal.pone.0000526
doi: 10.1371/journal.pone.0000526
pubmed: 17565379
pmcid: 1885284
An TQ, Tian ZJ, Xiao Y, Li R, Peng JM, Wei TC, Zhang Y, Zhou YJ, Tong GZ (2010) Origin of highly pathogenic porcine reproductive and respiratory syndrome virus China. Emerg Infect Dis 16(2):365–367. https://doi.org/10.3201/eid1602.090005
doi: 10.3201/eid1602.090005
pubmed: 20113592
pmcid: 2957991
Zhou L, Zhang J, Zeng J, Yin S, Li Y, Zheng L, Guo X, Ge X, Yang H (2009) The 30-amino-acid deletion in the Nsp2 of highly pathogenic porcine reproductive and respiratory syndrome virus emerging in China is not related to its virulence. J Virol 83(10):5156–5167. https://doi.org/10.1128/JVI.02678-08
doi: 10.1128/JVI.02678-08
pubmed: 19244318
pmcid: 2682102
Brockmeier SL, Loving CL, Vorwald AC, Kehrli ME Jr, Baker RB, Nicholson TL, Lager KM, Miller LC, Faaberg KS (2012) Genomic sequence and virulence comparison of four Type 2 porcine reproductive and respiratory syndrome virus strains. Virus Res 169(1):212–221. https://doi.org/10.1016/j.virusres.2012.07.030
doi: 10.1016/j.virusres.2012.07.030
pubmed: 23073232
Zhou L, Wang Z, Ding Y, Ge X, Guo X, Yang H (2015) NADC30-like strain of porcine reproductive and respiratory syndrome virus China. Emerg Infect Dis 21(12):2256–2257. https://doi.org/10.3201/eid2112.150360
doi: 10.3201/eid2112.150360
pubmed: 26584305
pmcid: 4672414
Sui X, Guo X, Jia H, Wang X, Lin W, Li M, Gao X, Wu J, Jiang Y, Willems L, Zhu H, Xin T, Hou S (2018) Genomic sequence and virulence of a novel NADC30-like porcine reproductive and respiratory syndrome virus isolate from the Hebei province of China. Microb Pathog 125:349–360. https://doi.org/10.1016/j.micpath.2018.08.048
doi: 10.1016/j.micpath.2018.08.048
pubmed: 30149129
Yu L, Zhao P, Dong J, Liu Y, Zhang L, Liang P, Wang L, Song C (2017) Genetic characterization of 11 porcine reproductive and respiratory syndrome virus isolates in South China from 2014 to 2015. Virol J 14(1):139. https://doi.org/10.1186/s12985-017-0807-4
doi: 10.1186/s12985-017-0807-4
pubmed: 28738888
pmcid: 5525233
Zhou L, Kang R, Ji G, Tian Y, Ge M, Xie B, Yang X, Wang H (2018) Molecular characterization and recombination analysis of porcine reproductive and respiratory syndrome virus emerged in southwestern China during 2012–2016. Virus Genes 54(1):98–110. https://doi.org/10.1007/s11262-017-1519-y
doi: 10.1007/s11262-017-1519-y
pubmed: 29138994
Sun Z, Wang J, Bai X, Ji G, Yan H, Li Y, Wang Y, Tan F, Xiao Y, Li X, Tian K (2016) Pathogenicity comparison between highly pathogenic and NADC30-like porcine reproductive and respiratory syndrome virus. Arch Virol 161(8):2257–2261. https://doi.org/10.1007/s00705-016-2883-y
doi: 10.1007/s00705-016-2883-y
pubmed: 27151278
Ji G, Li Y, Tan F, Zhuang J, Li X, Tian K (2016) Complete genome sequence of an NADC30-Like strain of porcine reproductive and respiratory syndrome virus in China. Genome Announc 4:2. https://doi.org/10.1128/genomeA.00303-16
doi: 10.1128/genomeA.00303-16
Zhang Z, Zhou L, Ge X, Guo X, Han J, Yang H (2018) Evolutionary analysis of six isolates of porcine reproductive and respiratory syndrome virus from a single pig farm: MLV-evolved and recombinant viruses. Infect Genet Evol 66:111–119. https://doi.org/10.1016/j.meegid.2018.09.024
doi: 10.1016/j.meegid.2018.09.024
pubmed: 30261264
Guo Z, Chen XX, Li X, Qiao S, Deng R, Zhang G (2019) Prevalence and genetic characteristics of porcine reproductive and respiratory syndrome virus in central China during 2016–2017: NADC30-like PRRSVs are predominant. Microb Pathog 135:103657. https://doi.org/10.1016/j.micpath.2019.103657
doi: 10.1016/j.micpath.2019.103657
pubmed: 31398529
Liu JK, Zhou X, Zhai JQ, Li B, Wei CH, Dai AL, Yang XY, Luo ML (2017) Emergence of a novel highly pathogenic porcine reproductive and respiratory syndrome virus in China. Transbound Emerg Dis 64(6):2059–2074. https://doi.org/10.1111/tbed.12617
doi: 10.1111/tbed.12617
pubmed: 28198110
Wang LJ, Guo Z, Qiao S, Chen XX, Zhang G (2016) Complete genome sequence of a mosaic NADC30-like porcine reproductive and respiratory syndrome virus in China. Genome Announc. https://doi.org/10.1128/genomeA.01428-16
doi: 10.1128/genomeA.01428-16
pubmed: 28034856
pmcid: 5201055
Guo Z, Chen XX, Li R, Qiao S, Zhang G (2018) The prevalent status and genetic diversity of porcine reproductive and respiratory syndrome virus in China: a molecular epidemiological perspective. Virol J 15(1):2. https://doi.org/10.1186/s12985-017-0910-6
doi: 10.1186/s12985-017-0910-6
pubmed: 29301547
pmcid: 5753475
Zhou L, Kang R, Yu J, Xie B, Chen C, Li X, Xie J, Ye Y, Xiao L, Zhang J, Yang X, Wang H (2018) Genetic characterization and pathogenicity of a novel recombined porcine reproductive and respiratory syndrome virus 2 among Nadc30-Like, Jxa1-Like, and Mlv-Like strains. Viruses 10:110. https://doi.org/10.3390/v10100551
doi: 10.3390/v10100551
Zhao K, Ye C, Chang XB, Jiang CG, Wang SJ, Cai XH, Tong GZ, Tian ZJ, Shi M, An TQ (2015) Importation and recombination are responsible for the latest emergence of highly pathogenic porcine reproductive and respiratory syndrome virus in China. J Virol 89(20):10712–10716. https://doi.org/10.1128/JVI.01446-15
doi: 10.1128/JVI.01446-15
pubmed: 26246582
pmcid: 4580157
Zhang H, Leng C, Ding Y, Zhai H, Li Z, Xiang L, Zhang W, Liu C, Li M, Chen J, Bai Y, Kan Y, Yao L, Peng J, Wang Q, Tang YD, An T, Cai X, Tian Z, Tong G (2019) Characterization of newly emerged NADC30-like strains of porcine reproductive and respiratory syndrome virus in China. Arch Virol 164(2):401–411. https://doi.org/10.1007/s00705-018-4080-7
doi: 10.1007/s00705-018-4080-7
pubmed: 30353281
Xiao S, Zhang A, Zhang C, Ni H, Gao J, Wang C, Zhao Q, Wang X, Wang X, Ma C, Liu H, Li N, Mu Y, Sun Y, Zhang G, Hiscox JA, Hsu WH, Zhou EM (2014) Heme oxygenase-1 acts as an antiviral factor for porcine reproductive and respiratory syndrome virus infection and over-expression inhibits virus replication in vitro. Antiviral Res 110:60–69. https://doi.org/10.1016/j.antiviral.2014.07.011
doi: 10.1016/j.antiviral.2014.07.011
pubmed: 25086213
Dong Y, Li Y, Qi Z, Zheng X, Zhang Z (2016) Genome plasticity in filamentous plant pathogens contributes to the emergence of novel effectors and their cellular processes in the host. Curr Genet 62(1):47–51. https://doi.org/10.1007/s00294-015-0509-7
doi: 10.1007/s00294-015-0509-7
pubmed: 26228744
Zhang Q, Bai J, Hou H, Song Z, Zhao Y, Jiang P (2017) A novel recombinant porcine reproductive and respiratory syndrome virus with significant variation in cell adaption and pathogenicity. Vet Microbiol 208:150–158. https://doi.org/10.1016/j.vetmic.2017.07.028
doi: 10.1016/j.vetmic.2017.07.028
pubmed: 28888630
Chen N, Ye M, Li S, Huang Y, Zhou R, Yu X, Tian K, Zhu J (2018) Emergence of a novel highly pathogenic recombinant virus from three lineages of porcine reproductive and respiratory syndrome virus 2 in China 2017. Transbound Emerg Dis 65(6):1775–1785. https://doi.org/10.1111/tbed.12952
doi: 10.1111/tbed.12952
pubmed: 29992742
Han J, Zhou L, Ge X, Guo X, Yang H (2017) Pathogenesis and control of the Chinese highly pathogenic porcine reproductive and respiratory syndrome virus. Vet Microbiol 209:30–47. https://doi.org/10.1016/j.vetmic.2017.02.020
doi: 10.1016/j.vetmic.2017.02.020
pubmed: 28292547
Wang LJ, Wan B, Guo Z, Qiao S, Li R, Xie S, Chen XX, Zhang G (2018) Genomic analysis of a recombinant NADC30-like porcine reproductive and respiratory syndrome virus in china. Virus Genes 54(1):86–97. https://doi.org/10.1007/s11262-017-1516-1
doi: 10.1007/s11262-017-1516-1
pubmed: 29090410
Su J, Zhou L, He B, Zhang X, Ge X, Han J, Guo X, Yang H (2019) Nsp2 and GP5-M of porcine reproductive and respiratory syndrome virus contribute to targets for neutralizing antibodies. Virol Sin 34(6):631–640. https://doi.org/10.1007/s12250-019-00149-6
doi: 10.1007/s12250-019-00149-6
pubmed: 31347089
pmcid: 6889258
Sun YF, Zhou L, Bian T, Tian XX, Ren WK, Lu C, Zhang L, Li XL, Cui MS, Yang HC, Yu H (2018) Efficacy evaluation of two commercial modified-live virus vaccines against a novel recombinant type 2 porcine reproductive and respiratory syndrome virus. Vet Microbiol 216:176–182. https://doi.org/10.1016/j.vetmic.2018.02.016
doi: 10.1016/j.vetmic.2018.02.016
pubmed: 29519513
Zhou L, Yang B, Xu L, Jin H, Ge X, Guo X, Han J, Yang H (2017) Efficacy evaluation of three modified-live virus vaccines against a strain of porcine reproductive and respiratory syndrome virus NADC30-like. Vet Microbiol 207:108–116. https://doi.org/10.1016/j.vetmic.2017.05.031
doi: 10.1016/j.vetmic.2017.05.031
pubmed: 28757009
Huang Y, Li Z, Li J, Yibo K, Yang L, Mah CK, Liu G, Yu B, Wang K (2019) Efficacy evaluation of three modified-live PRRS vaccines against a local strain of highly pathogenic porcine reproductive and respiratory syndrome virus. Vet Microbiol 229:117–123. https://doi.org/10.1016/j.vetmic.2018.12.016
doi: 10.1016/j.vetmic.2018.12.016
pubmed: 30642586
Yu F, Yan Y, Shi M, Liu HZ, Zhang HL, Yang YB, Huang XY, Gauger PC, Zhang J, Zhang YH, Tong GZ, Tian ZJ, Chen JJ, Cai XH, Liu D, Li G, An TQ (2020) Phylogenetics, genomic recombination, and NSP2 polymorphic patterns of porcine reproductive and respiratory syndrome virus in China and the United States in 2014–2018. J Virol. https://doi.org/10.1128/JVI.01813-19
doi: 10.1128/JVI.01813-19
pubmed: 33028719
pmcid: 7394902