title: Novel Nsp2 deletion based on molecular epidemiology and evolution of porcine reproductive and respiratory syndrome virus in Shandong Province from 2013 to 2014.
abstract: Porcine reproductive and respiratory syndrome (PRRS) is an economically important swine disease affecting swine worldwide. In this study, a total of 385 samples were collected from Shandong pig farms during 2013 and 2014, when pigs were not inoculated with any vaccine. Results indicated that, out of 385 samples, 47 (12.21%) were PRRSV-RNA-positive. The gene sequence analysis of 12 ORF5, 12 ORF7, and 8 Nsp2 of these samples was used to determine the molecular epidemiology of PRRSV in different parts of China's Shandong Province. The phylogenetic tree based on these 3 genes indicated that the Chinese PRRSV strains could be divided into five subgroups and two large groups. The 8 study strains were clustered into subgroup IV, another 4 strains into subgroup I. The first 8 strains shared considerable homology with VR-2332 in ORF5 (96-97.5%), the other 4 strains shared considerable homology with JXA1 (94-98%). Phylogenetic tree of GP5 showed that the eight isolates formed a tightly novel clustered branch, subgroup V, which resembled but differed from isolate VR-2332. When examined using Nsp2 alone, the first 8 strains showed considerable homology with a U.S. vaccine strain, Ingelvac MLV (89.6-98.4%). One novel pattern of deletion was observed in Nsp2. The genetic diversity of genotype 2 PRRSV tended to vary in the field. The emergence of novel variants will probably be the next significant branch of PRRSV study.
authors.affiliation: State Key Laboratory for Molecular Biology of Special Economic Animals, Institute of Special Economic Animals and Plants, Chinese Academy of Agricultural Sciences, Changchun, Jilin 130112, China.
authors.forename: Feng-Xue
authors.initials: FX
authors.lastname: Wang
authors.affiliation: Shandong New Hope Liuhe Co., Ltd., Qingdao, Shandong 266000, China.
authors.forename: Li-Ting
authors.initials: LT
authors.lastname: Qin
authors.affiliation: State Key Laboratory for Molecular Biology of Special Economic Animals, Institute of Special Economic Animals and Plants, Chinese Academy of Agricultural Sciences, Changchun, Jilin 130112, China.
authors.forename: Ying
authors.initials: Y
authors.lastname: Liu
authors.affiliation: State Key Laboratory for Molecular Biology of Special Economic Animals, Institute of Special Economic Animals and Plants, Chinese Academy of Agricultural Sciences, Changchun, Jilin 130112, China.
authors.forename: Xing
authors.initials: X
authors.lastname: Liu
authors.affiliation: State Key Laboratory for Molecular Biology of Special Economic Animals, Institute of Special Economic Animals and Plants, Chinese Academy of Agricultural Sciences, Changchun, Jilin 130112, China.
authors.forename: Na
authors.initials: N
authors.lastname: Sun
authors.affiliation: State Key Laboratory for Molecular Biology of Special Economic Animals, Institute of Special Economic Animals and Plants, Chinese Academy of Agricultural Sciences, Changchun, Jilin 130112, China.
authors.forename: Yong
authors.initials: Y
authors.lastname: Yang
authors.affiliation: Shandong New Hope Liuhe Co., Ltd., Qingdao, Shandong 266000, China.
authors.forename: Ting
authors.initials: T
authors.lastname: Chen
authors.affiliation: State Key Laboratory for Molecular Biology of Special Economic Animals, Institute of Special Economic Animals and Plants, Chinese Academy of Agricultural Sciences, Changchun, Jilin 130112, China.
authors.forename: Hong-Wei
authors.initials: HW
authors.lastname: Zhu
authors.affiliation: State Key Laboratory for Molecular Biology of Special Economic Animals, Institute of Special Economic Animals and Plants, Chinese Academy of Agricultural Sciences, Changchun, Jilin 130112, China.
authors.forename: Jing-Qiang
authors.initials: JQ
authors.lastname: Ren
authors.affiliation: Shandong New Hope Liuhe Co., Ltd., Qingdao, Shandong 266000, China.
authors.forename: Ying-Jun
authors.initials: YJ
authors.lastname: Sun
authors.affiliation: State Key Laboratory for Molecular Biology of Special Economic Animals, Institute of Special Economic Animals and Plants, Chinese Academy of Agricultural Sciences, Changchun, Jilin 130112, China.
authors.forename: Shi-Peng
authors.initials: SP
authors.lastname: Cheng
authors.affiliation: State Key Laboratory for Molecular Biology of Special Economic Animals, Institute of Special Economic Animals and Plants, Chinese Academy of Agricultural Sciences, Changchun, Jilin 130112, China. Electronic address: yongjunwen@126.com.
authors.forename: Yong-Jun
authors.initials: YJ
authors.lastname: Wen
mesh_terms: D020816:Amino Acid Motifs; D000595:Amino Acid Sequence; D019943:Amino Acid Substitution; D000818:Animals; D002681:China / Q000453:epidemiology; D017353:Gene Deletion; D005838:Genotype; D049674:History, 21st Century; D008969:Molecular Sequence Data; D009154:Mutation; D016366:Open Reading Frames / Q000235:genetics; D010802:Phylogeny; D019318:Porcine Reproductive and Respiratory Syndrome / Q000453:epidemiology* / Q000266:history / Q000821:virology*; D019316:Porcine respiratory and reproductive syndrome virus / Q000145:classification / Q000235:genetics* / Q000302:isolation & purification; D016415:Sequence Alignment; D017422:Sequence Analysis, DNA; D013552:Swine; D017361:Viral Nonstructural Proteins / Q000235:genetics*
chemical_list: D017361:Viral Nonstructural Proteins
keywords: Amino acid deletion; Phylogenetic analysis; Porcine reproductive and respiratory syndrome virus