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Article: Natural occurrence and characterization of two internal ribosome entry site elements in a novel virus, canine picodicistrovirus, in the picornavirus-like superfamily

TitleNatural occurrence and characterization of two internal ribosome entry site elements in a novel virus, canine picodicistrovirus, in the picornavirus-like superfamily
Authors
Issue Date2011
PublisherAmerican Society for Microbiology. The Journal's web site is located at http://jvi.asm.org/
Citation
Journal of Virology, 2011, v. 86 n. 5, p. 2797-2808 How to Cite?
AbstractDicistroviridae and Picornaviridae are two phylogenetically related families of positive-sense single-stranded RNA viruses in the picornavirus-like superfamily with similar gene contents but different genome organizations and hosts. In a surveillance study involving 1,472 samples from 368 dogs over a 22-month period, we identified a novel picornavirus-like virus from 47 fecal and urine samples by the use of reverse transcription-PCR (RT-PCR). Sequencing and phylogenetic analysis of three complete genomes revealed that, although it seemed that the virus was most closely related to other picornaviruses, P1, P2, and P3 of the virus possessed very low amino acid identities of <30% to those of all other known picornaviruses and that the amino acid identities between the 3D(pol) and 2C of the virus and the RNA-dependent RNA polymerases and helicases of all other picornaviruses were <35%. Distinct from other picornaviruses, the genomes of the virus contain two putative internal ribosome entry sites (IRESs) and two open reading frames, encoding two polyprotein precursors (844 and 1,406 amino acids), separated by an intergenic region (IGR) of 588 bases. A dual-luciferase activity assay using DNA and RNA transfection revealed that both IRESs were functional. Quantitative RT-PCR showed that numbers of viral RNAs ranged from 7.55 x 10(6) to 1.26 x 10(9) copies/ml of urine and 1.82 x 10(6) to 4.97 x 10(10) copies/ml of fecal sample. This is the first report of the natural occurrence of two functional IRESs in nondicistroviruses. Based on our results, we have proposed a novel species, canine picodicistrovirus (CPDV), to describe this novel member of the picornavirus-like superfamily, which could represent a novel family of viruses.
Persistent Identifierhttp://hdl.handle.net/10722/152581
ISSN
2015 Impact Factor: 4.606
2015 SCImago Journal Rankings: 3.347
PubMed Central ID
ISI Accession Number ID
Funding AgencyGrant Number
HKSAR Department of Agriculture, Fisheries, and Conservation (AFCD)
Research Grant CouncilHKU 783611 M
University of Hong Kong
Tung Wah Group of Hospitals
HKSAR
Providence Foundation Limited
Consultancy Service for Enhancing Laboratory Surveillance of Emerging Infectious Disease for the HKSAR Department of Health
Funding Information:

We thank Alan Chi-Kong Wong, Siu-Fai Leung, Chik-Chuen Lay, Thomas Sit, K. F. Chan, Michelle L. Yeung, Byung Mo Hwang, Suet Yee Ng, Patrick I. T. Lau, and Steven D. Benton from the HKSAR Department of Agriculture, Fisheries, and Conservation (AFCD) for facilitation and support and members of the Animal Management Centres of AFCD.

References

 

DC FieldValueLanguage
dc.contributor.authorWoo, PCYen_US
dc.contributor.authorLau, SKPen_US
dc.contributor.authorChoi, GKYen_US
dc.contributor.authorHuang, Yen_US
dc.contributor.authorTeng, LLen_US
dc.contributor.authorTsoi, HWen_US
dc.contributor.authorTse, Hen_US
dc.contributor.authorYeung, MLen_US
dc.contributor.authorChan, KHen_US
dc.contributor.authorJin, DYen_US
dc.contributor.authorYuen, KYen_US
dc.date.accessioned2012-07-12T08:55:51Z-
dc.date.available2012-07-12T08:55:51Z-
dc.date.issued2011en_US
dc.identifier.citationJournal of Virology, 2011, v. 86 n. 5, p. 2797-2808en_US
dc.identifier.issn0022-538Xen_US
dc.identifier.urihttp://hdl.handle.net/10722/152581-
dc.description.abstractDicistroviridae and Picornaviridae are two phylogenetically related families of positive-sense single-stranded RNA viruses in the picornavirus-like superfamily with similar gene contents but different genome organizations and hosts. In a surveillance study involving 1,472 samples from 368 dogs over a 22-month period, we identified a novel picornavirus-like virus from 47 fecal and urine samples by the use of reverse transcription-PCR (RT-PCR). Sequencing and phylogenetic analysis of three complete genomes revealed that, although it seemed that the virus was most closely related to other picornaviruses, P1, P2, and P3 of the virus possessed very low amino acid identities of <30% to those of all other known picornaviruses and that the amino acid identities between the 3D(pol) and 2C of the virus and the RNA-dependent RNA polymerases and helicases of all other picornaviruses were <35%. Distinct from other picornaviruses, the genomes of the virus contain two putative internal ribosome entry sites (IRESs) and two open reading frames, encoding two polyprotein precursors (844 and 1,406 amino acids), separated by an intergenic region (IGR) of 588 bases. A dual-luciferase activity assay using DNA and RNA transfection revealed that both IRESs were functional. Quantitative RT-PCR showed that numbers of viral RNAs ranged from 7.55 x 10(6) to 1.26 x 10(9) copies/ml of urine and 1.82 x 10(6) to 4.97 x 10(10) copies/ml of fecal sample. This is the first report of the natural occurrence of two functional IRESs in nondicistroviruses. Based on our results, we have proposed a novel species, canine picodicistrovirus (CPDV), to describe this novel member of the picornavirus-like superfamily, which could represent a novel family of viruses.en_US
dc.languageengen_US
dc.publisherAmerican Society for Microbiology. The Journal's web site is located at http://jvi.asm.org/en_US
dc.relation.ispartofJournal of Virologyen_US
dc.rightsJournal of Virology. Copyright © American Society for Microbiology.-
dc.rightsCopyright © American Society for Microbiology, [Journal of Virology, 2011, v. 86 n. 5, p. 2797-2808]-
dc.subject.mesh5' Untranslated Regionsen_US
dc.subject.meshDisease Reservoirs - virologyen_US
dc.subject.meshDogs - virologyen_US
dc.subject.meshPicornaviridae - chemistry - classification - genetics - isolation and purificationen_US
dc.subject.meshRibosomes - genetics - metabolismen_US
dc.titleNatural occurrence and characterization of two internal ribosome entry site elements in a novel virus, canine picodicistrovirus, in the picornavirus-like superfamilyen_US
dc.typeArticleen_US
dc.identifier.emailWoo, PCY: pcywoo@hkucc.hku.hken_US
dc.identifier.emailLau, SKP: skplau@hkucc.hku.hken_US
dc.identifier.emailTeng, LL: llteng@hku.hken_US
dc.identifier.emailTsoi, HW: hwtsoi@hkucc.hku.hken_US
dc.identifier.emailTse, H: herman@graduate.hku.hken_US
dc.identifier.emailYeung, ML: pmlyeung@hku.hk-
dc.identifier.emailChan, KH: chankh2@hkucc.hku.hk-
dc.identifier.emailJin, DY: dyjin@hku.hk-
dc.identifier.emailYuen, KY: kyyuen@hkucc.hku.hk-
dc.identifier.authorityWoo, PCY=rp00430en_US
dc.identifier.authorityTsoi, HW=rp00439en_US
dc.identifier.authorityTse, H=rp00519en_US
dc.identifier.authorityYeung, ML=rp01402en_US
dc.identifier.authorityJin, DY=rp00452en_US
dc.description.naturelink_to_OA_fulltexten_US
dc.identifier.doi10.1128/JVI.05481-11en_US
dc.identifier.pmid22205729-
dc.identifier.pmcidPMC3302267-
dc.identifier.scopuseid_2-s2.0-84863229705-
dc.identifier.hkuros204309-
dc.relation.referenceshttp://www.scopus.com/mlt/select.url?eid=2-s2.0-84857854667&selection=ref&src=s&origin=recordpageen_US
dc.identifier.volume86en_US
dc.identifier.issue5en_US
dc.identifier.spage2797en_US
dc.identifier.epage2808en_US
dc.identifier.eissn1098-5514-
dc.identifier.isiWOS:000300536800037-
dc.publisher.placeUnited Statesen_US
dc.identifier.scopusauthoridYuen, KY=55058543500en_US
dc.identifier.scopusauthoridJin, DY=7201973614en_US
dc.identifier.scopusauthoridChan, KH=7406034307en_US
dc.identifier.scopusauthoridYeung, ML=55064867400en_US
dc.identifier.scopusauthoridTse, H=7006070596en_US
dc.identifier.scopusauthoridTsoi, HW=6603822102en_US
dc.identifier.scopusauthoridTeng, JLL=7202560229en_US
dc.identifier.scopusauthoridHuang, Y=55061668100en_US
dc.identifier.scopusauthoridChoi, GKY=35423450200en_US
dc.identifier.scopusauthoridLau, SKP=54944624200en_US
dc.identifier.scopusauthoridWoo, PCY=7201801340en_US

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