title: Sequence and phylogenetic analysis of nucleocapsid genes of porcine epidemic diarrhea virus (PEDV) strains in China.
abstract: Porcine epidemic diarrhea virus (PEDV) causes acute diarrhea and dehydration with high mortality rates in swine. It has become increasingly problematic in China. Since the nucleocapsid (N) protein is highly conserved, it is a candidate protein for early diagnosis and vaccine development. In this study, the N genes of 15 PEDV strains were amplified by RT-PCR and cloned into the pMT-19T vector, sequenced, and compared to each other as well as to PEDV reference strains. The nucleotide sequences of the N gene of the Chinese PEDV strains consist of 1326 nucleotides and encode a 441-aa-long peptide. The nucleotide sequences of the fifteen PEDV strains in our study were 96.1-100 % identical to each other, and the deduced amino acid sequences were 94.8-100 % identical. Sequence comparison with other PEDV strains selected from GenBank revealed that their nucleotide sequences were 94.2-99.7 % identical to those of the Chinese PEDV strains, and their deduced amino acid sequences were 94.1-99.5 % identical. In addition, the fifteen strains showed a high degree of nucleotide sequence identity to the early domestic strains (98.4-99.7 %) except the LZC strain, but less sequence identity to the vaccine strain (CV777) used in China (94.7-97.7 %). Phylogenetic analysis showed that the Chinese PEDV strains are composed of a separate cluster including three early domestic strains (JS-2004-02, LJB/03 and DX) but differ genetically from the vaccine strain (CV777) and the early Korean strains (Chinju99 and SM98).
authors: College of Animal Science, South China Agricultural University, Tianhe District, Wushan Road, Guangzhou, 510642 Guangdong, People's Republic of China.
authors: Zhili
authors: Z
authors: Li
authors: Feng
authors: F
authors: Chen
authors: Yao
authors: Y
authors: Yuan
authors: Xiduo
authors: X
authors: Zeng
authors: Zhongyan
authors: Z
authors: Wei
authors: Ling
authors: L
authors: Zhu
authors: Baoli
authors: B
authors: Sun
authors: Qingmei
authors: Q
authors: Xie
authors: Yongchang
authors: Y
authors: Cao
authors: Chunyi
authors: C
authors: Xue
authors: Jingyun
authors: J
authors: Ma
authors: Yingzuo
authors: Y
authors: Bee
mesh_terms: D000595:Amino Acid Sequence; D000818:Animals; D001483:Base Sequence; D020134:Catalytic Domain / Q000235:genetics; D002681:China / Q000453:epidemiology; D003001:Cloning, Molecular; D018352:Coronavirus Infections / Q000453:epidemiology / Q000662:veterinary* / Q000821:virology; D019590:Nucleocapsid Proteins / Q000235:genetics*; D010766:Phosphorylation; D010802:Phylogeny; D017354:Point Mutation / Q000235:genetics; D053485:Porcine epidemic diarrhea virus / Q000235:genetics*; D020133:Reverse Transcriptase Polymerase Chain Reaction / Q000662:veterinary; D017422:Sequence Analysis, DNA / Q000662:veterinary; D013552:Swine / Q000821:virology; D013553:Swine Diseases / Q000453:epidemiology / Q000821:virology*
chemical_list: D019590:Nucleocapsid Proteins; C582965:nucleocapsid (N) protein, porcine epidemic diarrhea virus
references: Emerg Infect Dis. 2009 Jul;15(7):1112-5
references: 19624933
references: Virology. 2007 Aug 15;365(1):166-72
references: 17467767
references: Arch Virol. 2010 Sep;155(9):1471-6
references: 20544234
references: Virology. 1994 Feb;198(2):466-76
references: 8291230
references: J Vet Med Sci. 1999 Jul;61(7):827-30
references: 10458108
references: Virus Genes. 2012 Aug;45(1):181-5
references: 22528639
references: Arch Virol. 1978;58(3):243-7
references: 83132
references: Adv Exp Med Biol. 1993;342:49-54
references: 8209770
references: J Comp Pathol. 1995 Jul;113(1):59-67
references: 7490338
references: Vopr Virusol. 2009 Mar-Apr;54(2):4-8
references: 19459405
references: Virus Genes. 2006 Oct;33(2):215-9
references: 16972037
references: Emerg Infect Dis. 2012 Jan;18(1):161-3
references: 22261231
references: Appl Microbiol Biotechnol. 2012 Mar;93(6):2437-46
references: 22134641
references: Virus Genes. 2012 Apr;44(2):167-75
references: 22270324
references: J Gen Virol. 1994 May;75 ( Pt 5):1195-200
references: 8176382
references: J Vet Diagn Invest. 2006 May;18(3):278-81
references: 16789718
references: Virus Genes. 2012 Aug;45(1):113-7
references: 22585338
references: Adv Exp Med Biol. 1998;440:781-6
references: 9782358
references: Curr Top Microbiol Immunol. 2005;287:1-30
references: 15609507
references: Virus Genes. 1995;10(2):137-48
references: 8560773
references: Vet Microbiol. 1993 Nov;37(3-4):285-97
references: 8116187
references: Vet Rec. 1993 Feb 6;132(6):129-31
references: 8383370
references: Virus Genes. 2003;26(2):207-12
references: 12803473
references: Virus Genes. 2008 Apr;36(2):355-64
references: 18214664
references: Vet Rec. 2008 Mar 8;162(10):307-10
references: 18326842
references: Adv Exp Med Biol. 1993;342:55-60
references: 8209771
references: Vet J. 2008 Oct;178(1):138-40
references: 17728163
references: Bing Du Xue Bao. 2009 May;25(3):220-5
references: 19634766