Genetic analysis of porcine productive and respiratory syndrome virus between 2013 and 2014 in Southern parts of China: identification of several novel strains with amino acid deletions or insertions in nsp2.

Publisher: BioMed Central Country of Publication: England NLM ID: 101249759 Publication Model: Electronic Cited Medium: Internet ISSN: 1746-6148 (Electronic) Linking ISSN: 17466148 NLM ISO Abbreviation: BMC Vet Res Subsets: MEDLINE

Original Publication: London : BioMed Central, 2005-

Genetic Variation*; Porcine Reproductive and Respiratory Syndrome/*virology ; Porcine respiratory and reproductive syndrome virus/*genetics ; Porcine respiratory and reproductive syndrome virus/*isolation & purification; Amino Acid Sequence ; Animals ; China/epidemiology ; Evolution, Molecular ; Phylogeny ; Porcine Reproductive and Respiratory Syndrome/epidemiology ; Sequence Alignment ; Sequence Deletion ; Swine

Background: Porcine respiratory and reproductive syndrome virus (PRRSV) is one of the most economically significant pathogens in the Chinese swine industry. ORF5 and nsp2 are highly variable regions of the PRRSV genome. Therefore, nsp2 and GP5 are often selected for investigation of variations and phylogenetic analyses for their genetic diversities. Knowledge of the molecular evolution of PRRSV field strains may contribute to the control of PRRS in China.
Results: The results of multiple sequence alignments of GP5 showed that there is 84.5-100% aa identity among the 56 strains in this study. These strains shared 84.5-99.0% aa identity with the prototypical type 2 PRRSV VR-2332 and 56.6-59.2% with strain LV, prototypical type 1 PRRSV. Phylogenetic analysis showed there is considerable diversity among PRRSV ORF5 and the existence of two lineages (5 and 8). Most of the strains were classified into lineage 8 with multiple sub-lineages (3, 4 and 6). Moreover, PRRSV strains with 5 novel patterns of deletions or insertions in the nsp2 region were found.
Conclusions: Phylogenetic analysis based on ORF5 sequences indicated the diversity of PRRSV in southern parts of China and the strains with 30 aa deletion in nsp2 are dominant in the porcine population. Also, new PRRSV strains with different patterns of deletions or insertions in nsp2 are emerging. The data presented here constitute a useful basis for further epidemiological studies regarding the heterogeneity of PRRSV strains in China and provide a basis for the prevention of PRRS in southern parts of China.

Arch Virol. 2000;145(5):871-83. (PMID: 10881675)
Arch Virol. 2000;145(4):659-88. (PMID: 10893147)
J Virol. 2001 Apr;75(7):3277-90. (PMID: 11238854)
Science. 2001 Mar 23;291(5512):2364-9. (PMID: 11269317)
J Gen Virol. 2001 Jun;82(Pt 6):1263-72. (PMID: 11369869)
Virology. 2001 Aug 15;287(1):183-91. (PMID: 11504553)
J Virol. 2002 May;76(9):4241-50. (PMID: 11932389)
J Am Vet Med Assoc. 2005 Aug 1;227(3):385-92. (PMID: 16121604)
J Virol. 2006 Apr;80(8):3994-4004. (PMID: 16571816)
Virus Res. 2007 Jun;126(1-2):207-15. (PMID: 17416435)
PLoS One. 2007 Jun 13;2(6):e526. (PMID: 17565379)
Science. 2007 Aug 24;317(5841):1017. (PMID: 17717158)
Emerg Infect Dis. 2007 Sep;13(9):1434-6. (PMID: 18252136)
Arch Virol. 2008;153(7):1323-34. (PMID: 18543060)
J Virol. 2009 May;83(10):5156-67. (PMID: 19244318)
Virus Res. 2009 Oct;145(1):97-105. (PMID: 19559739)
Emerg Infect Dis. 2010 Feb;16(2):365-7. (PMID: 20113592)
Vet Microbiol. 2010 Dec 15;146(3-4):226-37. (PMID: 20510553)
J Virol. 2010 Sep;84(17):8700-11. (PMID: 20554771)
Virus Res. 2010 Dec;154(1-2):141-9. (PMID: 20655962)
Virus Res. 2010 Dec;154(1-2):77-85. (PMID: 20673840)
Virus Res. 2010 Dec;154(1-2):61-76. (PMID: 20696193)
Virus Res. 2010 Dec;154(1-2):18-30. (PMID: 20801173)
Virol J. 2010 Nov 24;7:340. (PMID: 21092327)
J Gen Virol. 2011 May;92(Pt 5):1107-16. (PMID: 21307222)
Vet Microbiol. 2012 May 25;157(1-2):50-60. (PMID: 22245402)
J Vet Diagn Invest. 2012 Mar;24(2):349-54. (PMID: 22379051)
J Virol. 2012 Sep;86(18):9941-51. (PMID: 22761373)
Virus Res. 2012 Oct;169(1):212-21. (PMID: 23073232)
Vet Microbiol. 2013 Dec 27;167(3-4):334-44. (PMID: 24125764)
Vet Microbiol. 2014 Jun 4;170(3-4):232-45. (PMID: 24646599)
Biomed Res Int. 2014;2014:748068. (PMID: 24719885)
Microb Pathog. 2014 Oct;75:7-15. (PMID: 25131748)
Vet Microbiol. 2015 Feb 25;175(2-4):332-40. (PMID: 25529828)
Virus Res. 2015 Oct 2;208:13-21. (PMID: 26043979)
Vet Microbiol. 2015 Sep 30;179(3-4):242-9. (PMID: 26162970)
J Virol. 2015 Oct;89(20):10712-6. (PMID: 26246582)
Emerg Infect Dis. 2015 Dec;21(12):2256-7. (PMID: 26584305)
J Vet Sci. 2017 Sep 30;18(3):317-326. (PMID: 28057901)
Vet Microbiol. 2017 Sep;208:164-172. (PMID: 28888632)
J Gen Virol. 1998 May;79 ( Pt 5):961-79. (PMID: 9603311)
J Virol. 1999 Jan;73(1):270-80. (PMID: 9847330)

31372444 Natural Sciences Foundation of China; 31660716 Natural Sciences Foundation of China

Keywords: Deletion; GP5; Genetic analysis; PRRSV; nsp2

Date Created: 20190526 Date Completed: 20190704 Latest Revision: 20200225

20231215

PMC6534915

10.1186/s12917-019-1906-9

31126340