Sequence analysis of porcine kobuvirus VP1 region detected in pigs in Japan and Thailand

Porcine kobuvirus is a new candidate species of the genus Kobuvirus in the family Picornaviridae, and information is still limited. The identification of porcine kobuvirus has been performed by the sequence analyses of the 3D region of the viruses. Therefore, the purpose of this study was to charact...

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Main Authors: Okitsu S., Khamrin P., Thongprachum A., Hidaka S., Kongkaew S., Kongkaew A., Maneekarn N., Mizuguchi M., Hayakawa S., Ushijima H.
Format: Article
Language:English
Published: 2014
Online Access:http://www.scopus.com/inward/record.url?eid=2-s2.0-81555235270&partnerID=40&md5=462a628f76ce452d1f0c887b0bfd4f7b
http://cmuir.cmu.ac.th/handle/6653943832/3707
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spelling th-cmuir.6653943832-37072014-08-30T02:35:13Z Sequence analysis of porcine kobuvirus VP1 region detected in pigs in Japan and Thailand Okitsu S. Khamrin P. Thongprachum A. Hidaka S. Kongkaew S. Kongkaew A. Maneekarn N. Mizuguchi M. Hayakawa S. Ushijima H. Porcine kobuvirus is a new candidate species of the genus Kobuvirus in the family Picornaviridae, and information is still limited. The identification of porcine kobuvirus has been performed by the sequence analyses of the 3D region of the viruses. Therefore, the purpose of this study was to characterize the molecular properties of VP1 nucleotide sequences of the porcine kobuviruses isolated from porcine stool samples in Japan during 2009 and Thailand between 2006 and 2008. In addition, previous identification of a unique porcine kobuvirus; Japanese H023/2009/JP, which is a bovine kobuvirus-like strain based on sequence analysis of the 3D region, was also included in this study. All of the strains were amplified by the VP1-specific primer pair: the amplicons were subjected to direct sequencing and compared with the VP1 nucleotide sequences of reference strains. The VP1 sequences of strains from the GenBank database revealed high nucleotide sequence identity at 84.3-100%. On the other hand, the nucleotide identities among the 15 porcine kobuvirus strains analyzed in this study ranged from 78.8 to 99.8%. The results revealed that diversity of the strains in this study were higher than those of the strains in previous studies. Furthermore, it was found that the VP1 region of the bovine kobuvirus-like strain, H023/2009/JP, clustered with nine porcine kobuvirus strains that were isolated in Thailand and Japan. Since this strain was previously found to be closely related to bovine kobuviruses in the 3D gene region, it may be a natural recombinant. © 2011 Springer Science+Business Media, LLC. 2014-08-30T02:35:13Z 2014-08-30T02:35:13Z 2011 Article in Press 9208569 10.1007/s11262-011-0692-7 VIGEE http://www.scopus.com/inward/record.url?eid=2-s2.0-81555235270&partnerID=40&md5=462a628f76ce452d1f0c887b0bfd4f7b http://cmuir.cmu.ac.th/handle/6653943832/3707 English
institution Chiang Mai University
building Chiang Mai University Library
country Thailand
collection CMU Intellectual Repository
language English
description Porcine kobuvirus is a new candidate species of the genus Kobuvirus in the family Picornaviridae, and information is still limited. The identification of porcine kobuvirus has been performed by the sequence analyses of the 3D region of the viruses. Therefore, the purpose of this study was to characterize the molecular properties of VP1 nucleotide sequences of the porcine kobuviruses isolated from porcine stool samples in Japan during 2009 and Thailand between 2006 and 2008. In addition, previous identification of a unique porcine kobuvirus; Japanese H023/2009/JP, which is a bovine kobuvirus-like strain based on sequence analysis of the 3D region, was also included in this study. All of the strains were amplified by the VP1-specific primer pair: the amplicons were subjected to direct sequencing and compared with the VP1 nucleotide sequences of reference strains. The VP1 sequences of strains from the GenBank database revealed high nucleotide sequence identity at 84.3-100%. On the other hand, the nucleotide identities among the 15 porcine kobuvirus strains analyzed in this study ranged from 78.8 to 99.8%. The results revealed that diversity of the strains in this study were higher than those of the strains in previous studies. Furthermore, it was found that the VP1 region of the bovine kobuvirus-like strain, H023/2009/JP, clustered with nine porcine kobuvirus strains that were isolated in Thailand and Japan. Since this strain was previously found to be closely related to bovine kobuviruses in the 3D gene region, it may be a natural recombinant. © 2011 Springer Science+Business Media, LLC.
format Article
author Okitsu S.
Khamrin P.
Thongprachum A.
Hidaka S.
Kongkaew S.
Kongkaew A.
Maneekarn N.
Mizuguchi M.
Hayakawa S.
Ushijima H.
spellingShingle 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
author_facet Okitsu S.
Khamrin P.
Thongprachum A.
Hidaka S.
Kongkaew S.
Kongkaew A.
Maneekarn N.
Mizuguchi M.
Hayakawa S.
Ushijima H.
author_sort Okitsu S.
title Sequence analysis of porcine kobuvirus VP1 region detected in pigs in Japan and Thailand
title_short Sequence analysis of porcine kobuvirus VP1 region detected in pigs in Japan and Thailand
title_full Sequence analysis of porcine kobuvirus VP1 region detected in pigs in Japan and Thailand
title_fullStr Sequence analysis of porcine kobuvirus VP1 region detected in pigs in Japan and Thailand
title_full_unstemmed Sequence analysis of porcine kobuvirus VP1 region detected in pigs in Japan and Thailand
title_sort sequence analysis of porcine kobuvirus vp1 region detected in pigs in japan and thailand
publishDate 2014
url http://www.scopus.com/inward/record.url?eid=2-s2.0-81555235270&partnerID=40&md5=462a628f76ce452d1f0c887b0bfd4f7b
http://cmuir.cmu.ac.th/handle/6653943832/3707
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