Identification and characterization of porcine kobuvirus variant isolated from suckling piglet in Gansu province, china

Viruses

Volumn 5, Issue 10, 2013, Pages 2548-2560

  Fan, Shengtao ^a,b   Sun, Heting ^b   Ying, Ying ^c   Gao, Xiaolong ^b   Wang, Zheng ^c   Yu, Yicong ^c   Li, Yuanguo ^b   Wang, Tiecheng ^b   Yu, Zhijun ^a   Yang, Songtao ^b   Zhao, Yongkun ^b   Qin, Chuan ^a   Gao, Yuwei ^b   Xia, Xianzhu ^a,b  

^a INSTITUTE OF LABORATORY ANIMAL SCIENCE   (China)

^b BEIJING INSTITUTE OF MICROBIOLOGY AND EPIDEMIOLOGY   (China)

^c JILIN AGRICULTURAL UNIVERSITY   (China)

Author keywords

[No Author keywords available]

Indexed keywords

PROTEIN VP1;

3' UNTRANSLATED REGION; AMINO ACID SEQUENCE; ARTICLE; CHINA; KOBUVIRUS; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PIGLET; PORCINE KOBUVIRUS; SUCKLING; VIRUS GENOME; VIRUS IDENTIFICATION; VIRUS ISOLATION; VIRUS MUTATION; VIRUS RECOMBINATION; VIRUS STRAIN;

AMINO ACID SEQUENCE; ANIMALS; ANIMALS, NEWBORN; BLOOD; CHINA; CLUSTER ANALYSIS; DIARRHEA; FECES; GENETIC VARIATION; GENOME, VIRAL; KOBUVIRUS; MOLECULAR SEQUENCE DATA; PHYLOGENY; PICORNAVIRIDAE INFECTIONS; RNA, VIRAL; SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY, AMINO ACID; SWINE; SWINE DISEASES;

EID: 84885971171     PISSN: 19994915     EISSN: None     Source Type: Journal    
DOI: 10.3390/v5102548     Document Type: Article

References (29)

1. International Committee on Taxonomy of Viruses. ICTV official taxonomy: Updates since the 9th report. Available online: http://talk.ictvonline.org/files/ictv_documents/m/msl/4440.aspx (accessed on 14 January 2012).
2. Yamashita, T.; Kobayashi, S.; Sakae, K.; Nakata, S.; Chiba, S.; Ishihara, Y.; Isomura, S. Isolation of cytopathic small round viruses with BS-C-1 cells from patients with gastroenteritis. J. Infect. Dis. 1991, 164, 954-957.
3. Yamashita, T.; Ito, M.; Kabashima, Y.; Tsuzuki, H.; Fujiura, A.; Sakae, K. Isolation and characterization of a new species of kobuvirus associated with cattle. J. Gen. Virol. 2003, 84, 3069-3077.
4. Reuter, G.; Boldizsar, A.; Kiss, I.; Pankovics, P. Candidate new species of Kobuvirus in porcine hosts. Emerging Infect. Dis. 2008, 14, 1968-1970.
5. Reuter, G.; Kecskemeti, S.; Pankovics, P. Evolution of porcine kobuvirus infection, Hungary. Emerging Infect. Dis. 2010, 16, 696-698.
6. Li, L.; Victoria, J.G.; Wang, C.; Jones, M.; Fellers, G.M.; Kunz, T.H.; Delwart, E. Bat guano virome: Predominance of dietary viruses from insects and plants plus novel mammalian viruses. J. Virol. 2010, 84, 6955-6965.
7. Li, L.; Pesavento, P.A.; Shan, T.; Leutenegger, C.M.; Wang, C.; Delwart, E. Viruses in diarrhoeic dogs include novel kobuviruses and sapoviruses. J. Gen. Virol. 2011, 92, 2534-2541.
8. Chung, J.Y.; Kim, S.H.; Kim, Y.H.; Lee, M.H.; Lee, K.K.; Oem, J.K. Detection and genetic characterization of feline kobuviruses. Virus Genes 2013, doi: 10.1007/s11262-013-0953-8.
9. Smits, S.L.; Raj, V.S.; Oduber, M.D.; Schapendonk, C.M.; Bodewes, R.; Provacia, L.; Stittelaar, K.J.; Osterhaus, A.D.; Haagmans, B.L. Metagenomic analysis of the ferret fecal viral flora. PLoS One 2013, 8, e71595.
10. Lee, M.H.; Jeoung, H.Y.; Lim, J.A.; Song, J.Y.; Song, D.S.; An, D.J. Kobuvirus in South Korean black goats. Virus Genes 2012, 45, 186-189.
11. Yu, J.M.; Jin, M.; Zhang, Q.; Li, H.Y.; Li, D.D.; Xu, Z.Q.; Li, J.S.; Cui, S.X.; Yang, S.H.; Liu, N.; et al. Candidate porcine Kobuvirus, China. Emerging Infect. Dis. 2009, 15, 823-825.
12. Khamrin, P.; Maneekarn, N.; Hidaka, S.; Kishikawa, S.; Ushijima, K.; Okitsu, S.; Ushijima, H. Molecular detection of kobuvirus sequences in stool samples collected from healthy pigs in Japan. Infect. Genet. Evol. 2010, 10, 950-954.
13. Khamrin, P.; Maneekarn, N.; Kongkaew, A.; Kongkaew, S.; Okitsu, S.; Ushijima, H. Porcine kobuvirus in piglets, Thailand. Emerging Infect. Dis. 2009, 15, 2075-2076.
14. Barry, A.F.; Ribeiro, J.; Alfieri, A.F.; van der Poel, W.H.; Alfieri, A.A. First detection of kobuvirus in farm animals in Brazil and The Netherlands. Infect. Genet. Evol. 2011, 11, 1811-1814.
15. Park, S.J.; Kim, H.K.; Moon, H.J.; Song, D.S.; Rho, S.M.; Han, J.Y.; Nguyen, V.G.; Park, B.K. Molecular detection of porcine kobuviruses in pigs in Korea and their association with diarrhea. Arch. Virol. 2010, 155, 1803-1811.
16. Reuter, G.; Boros, A.; Pankovics, P. Kobuviruses-A comprehensive review. Rev. Med. Virol. 2011, 21, 32-41.
17. Oberste, M.S.; Maher, K.; Pallansch, M.A. Genomic evidence that simian virus 2 and six other simian picornaviruses represent a new genus in Picornaviridae. Virology 2003, 314, 283-293.
18. Larkin, E.K.; Morris, N.J.; Li, Y.; Nock, N.L.; Stein, C.M. Comparison of affected sibling-pair linkage methods to identify gene x gene interaction in GAW15 simulated data. BMC Proc. 2007, 1, S66.
19. Tamura, K.; Peterson, D.; Peterson, N.; Stecher, G.; Nei, M.; Kumar, S. MEGA5: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol. Biol. Evol. 2011, 28, 2731-2739.
20. Lole, K.S.; Bollinger, R.C.; Paranjape, R.S.; Gadkari, D.; Kulkarni, S.S.; Novak, N.G.; Ingersoll, R.; Sheppard, H.W.; Ray, S.C. Full-length human immunodeficiency virus type 1 genomes from subtype C-infected seroconverters in India, with evidence of intersubtype recombination. J. Virol. 1999, 73, 152-160.
21. De Jong, A.S.; de Mattia, F.; van Dommelen, M.M.; Lanke, K.; Melchers, W.J.; Willems, P.H.; van Kuppeveld, F.J. Functional analysis of picornavirus 2B proteins: Effects on calcium homeostasis and intracellular protein trafficking. J. Virol. 2008, 82, 3782-3790.
22. Okitsu, S.; Khamrin, P.; Thongprachum, A.; Hidaka, S.; Kongkaew, S.; Kongkaew, A.; Maneekarn, N.; Mizuguchi, M.; Hayakawa, S.; Ushijima, H. Sequence analysis of porcine kobuvirus VP1 region detected in pigs in Japan and Thailand. Virus Genes 2012, 44, 253-257.
23. Wang, C.; Lan, D.; Cui, L.; Yang, Z.; Yuan, C.; Hua, X. Molecular characterization of a porcine kobuvirus strain in China. Arch. Virol. 2012, 157, 573-578.
24. Lukashev, A.N. Recombination among picornaviruses. Rev. Med. Virol. 2010, 20, 327-337.
25. Kuiken, T.; Holmes, E.C.; McCauley, J.; Rimmelzwaan, G.F.; Williams, C.S.; Grenfell, B.T. Host species barriers to influenza virus infections. Science 2006, 312, 394-397.
26. Hellen, C.U.; de Breyne, S. A distinct group of hepacivirus/pestivirus-like internal ribosomal entry sites in members of diverse picornavirus genera: Evidence for modular exchange of functional noncoding RNA elements by recombination. J. Virol. 2007, 81, 5850-5863.
27. Reuter, G.; Boldizsar, A.; Pankovics, P. Complete nucleotide and amino acid sequences and genetic organization of porcine kobuvirus, a member of a new species in the genus Kobuvirus, family Picornaviridae. Arch. Virol. 2009, 154, 101-108.
28. Yu, Y.; Sweeney, T.R.; Kafasla, P.; Jackson, R.J.; Pestova, T.V.; Hellen, C.U. The mechanism of translation initiation on Aichivirus RNA mediated by a novel type of picornavirus IRES. EMBO J. 2011, 30, 4423-4436.
29. Sweeney, T.R.; Dhote, V.; Yu, Y.; Hellen, C.U. A distinct class of internal ribosomal entry site in members of the Kobuvirus and proposed Salivirus and Paraturdivirus genera of the Picornaviridae. J. Virol. 2012, 86, 1468-1486.