PMID- 28738888 OWN - NLM STAT- MEDLINE DCOM- 20180405 LR - 20181113 IS - 1743-422X (Electronic) IS - 1743-422X (Linking) VI - 14 IP - 1 DP - 2017 Jul 24 TI - Genetic characterization of 11 porcine reproductive and respiratory syndrome virus isolates in South China from 2014 to 2015. PG - 139 LID - 10.1186/s12985-017-0807-4 [doi] LID - 139 AB - BACKGROUND: Porcine reproductive and respiratory syndrome (PRRS) has leaded to an enormous loss per year to the swine industry, its etiology porcine reproductive and respiratory syndrome virus (PRRSV) is a highly mutated virus in pigs. To fully understand the genetic characteristics of PRRSV genome in South China, this study collected the lung samples infected with PRRSV in Guangdong and Hainan province from 2014 to 2015 and tried to isolate the PRRSV. Finally, the complete genomes of isolated strains were sequenced and analyzed. METHODS: Virus isolation was performed in MARC-145 cells. The 13 fragments of PRRSV genome were amplified by RT-PCR and the complete PRRSV genome sequence was obtained by SeqMan program of DNASTAR7.0 software. Nucleotide and deduced amino acid (AA) sequences of NSP2 and ORF5 were aligned using the MegAlign program of DNASTAR7.0 software to determine sequence homology. A phylogenetic tree was constructed using MEGA5.2 software with the neighbor-joining method to analyze the evolutionary relationship. RESULTS: 11 PRRSV strains were isolated in South China from 2014 to 2015. All the isolated strains clustered into subgenotype V along with the HP-PRRSV representative strains JXA1, HuN4 and JXwn06. The subgenotype V was furtherly divided into two groups. AA sequence alignment analysis indicated that all the isolated strains had 1 AA deletion and 29 AA continuous deletion at position 481 and 533-561. Notably, GDHY strain had another 120 AA continuous deletion at position 629-748. All the isolated strains had an A137S mutation in the residue A137 of GP5 which was considered to differentiate vaccine strains. All the isolated strains had a L39I mutation in the primary neutralizing epitope (PNE) of GP5. Except GDHZ had a N34T mutation, all the other isolated strains had conserved N30, N44 and N51 glycosylation sites in the four potential N-glycosylation sites (N30, N34, N44 and N51) of GP5. CONCLUSIONS: Our study showed that the prevalent strains in this region were highly pathogenic PRRS virus-like. Moreover, one new strain having another 120 amino acids continuous deletion except the discontinuous 30 (29+1) amino acids deletion in NSP2 region had emerged. Besides, the isolated strains had extensive amino acids substitutions in the putative signal, extravirion and intravirion regions of GP5. These results showed that PRRSV has undergone extensive variation in South China, providing some theoretical basis for researching effective vaccince to better controling the PRRSV in this area. FAU - Yu, Linyang AU - Yu L AD - College of Animal Science & National Engineering Center for Swine Breeding Industry, South China Agriculture University, Guangzhou, 510642, China. FAU - Zhao, Pandeng AU - Zhao P AD - College of Animal Science & National Engineering Center for Swine Breeding Industry, South China Agriculture University, Guangzhou, 510642, China. AD - Henan University of Animal Husbandry and Economy, Zhengzhou, 450046, China. FAU - Dong, Jianguo AU - Dong J AD - College of Animal Science & National Engineering Center for Swine Breeding Industry, South China Agriculture University, Guangzhou, 510642, China. AD - College of Animal Husbandry and Veterinary, Xinyang Agriculture and Forestry University, Xinyang, 464000, China. FAU - Liu, Yanling AU - Liu Y AD - College of Animal Science & National Engineering Center for Swine Breeding Industry, South China Agriculture University, Guangzhou, 510642, China. FAU - Zhang, Leyi AU - Zhang L AD - College of Animal Science & National Engineering Center for Swine Breeding Industry, South China Agriculture University, Guangzhou, 510642, China. FAU - Liang, Pengshuai AU - Liang P AD - College of Animal Science & National Engineering Center for Swine Breeding Industry, South China Agriculture University, Guangzhou, 510642, China. FAU - Wang, Lei AU - Wang L AD - College of Animal Science & National Engineering Center for Swine Breeding Industry, South China Agriculture University, Guangzhou, 510642, China. FAU - Song, Changxu AU - Song C AD - College of Animal Science & National Engineering Center for Swine Breeding Industry, South China Agriculture University, Guangzhou, 510642, China. cxsong2004@163.com. LA - eng PT - Journal Article PT - Research Support, Non-U.S. Gov't DEP - 20170724 PL - England TA - Virol J JT - Virology journal JID - 101231645 RN - 0 (RNA, Viral) SB - IM MH - Animals MH - Cell Line MH - China MH - Cluster Analysis MH - *Genetic Variation MH - Lung/virology MH - Phylogeny MH - Porcine Reproductive and Respiratory Syndrome/*virology MH - Porcine respiratory and reproductive syndrome virus/*classification/genetics/*isolation & purification MH - RNA, Viral/genetics MH - Reverse Transcriptase Polymerase Chain Reaction MH - Sequence Analysis, DNA MH - Sequence Homology MH - Swine MH - Whole Genome Sequencing PMC - PMC5525233 OTO - NOTNLM OT - GP5 OT - Mutation OT - NSP2 OT - PRRSV OT - Phylogenetic analysis COIS- ETHICS APPROVAL AND CONSENT TO PARTICIPATE: All the samples were collected according to the animal ethical regulation of National Engineering Center for Swine Breeding Industry (NECSBI 2015-16). CONSENT FOR PUBLICATION: Not applicable COMPETING INTERESTS: The authors declare that they have no competing interest. PUBLISHER'S NOTE: Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations. EDAT- 2017/07/26 06:00 MHDA- 2018/04/06 06:00 PMCR- 2017/07/24 CRDT- 2017/07/26 06:00 PHST- 2017/03/10 00:00 [received] PHST- 2017/07/14 00:00 [accepted] PHST- 2017/07/26 06:00 [entrez] PHST- 2017/07/26 06:00 [pubmed] PHST- 2018/04/06 06:00 [medline] PHST- 2017/07/24 00:00 [pmc-release] AID - 10.1186/s12985-017-0807-4 [pii] AID - 807 [pii] AID - 10.1186/s12985-017-0807-4 [doi] PST - epublish SO - Virol J. 2017 Jul 24;14(1):139. doi: 10.1186/s12985-017-0807-4.