Identification of a novel Getah virus by Virus-Discovery-cDNA random amplified polymorphic DNA (RAPD)
<p>Abstract</p> <p>Background</p> <p>The identification of new virus strains is important for the study of infectious disease, but current (or existing) molecular biology methods are limited since the target sequence must be known to design genome-specific PCR primers....
| Main Authors: | , , , , , , , , , , , , , |
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| Format: | Article |
| Language: | English |
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BMC
2012-12-01
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| Series: | BMC Microbiology |
| Subjects: | |
| Online Access: | http://www.biomedcentral.com/1471-2180/12/305 |
| _version_ | 1818960710203342848 |
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| author | Hu Tingsong Zheng Ying Zhang Yan Li Gangshan Qiu Wei Yu Jing Cui Qinghua Wang Yiyin Zhang Chaoxiong Zhou Xiaofang Feng Ziliang Zhou Weiguo Fan Quanshui Zhang Fuqiang |
| author_facet | Hu Tingsong Zheng Ying Zhang Yan Li Gangshan Qiu Wei Yu Jing Cui Qinghua Wang Yiyin Zhang Chaoxiong Zhou Xiaofang Feng Ziliang Zhou Weiguo Fan Quanshui Zhang Fuqiang |
| author_sort | Hu Tingsong |
| collection | DOAJ |
| description | <p>Abstract</p> <p>Background</p> <p>The identification of new virus strains is important for the study of infectious disease, but current (or existing) molecular biology methods are limited since the target sequence must be known to design genome-specific PCR primers. Thus, we developed a new method for the discovery of unknown viruses based on the cDNA - random amplified polymorphic DNA (cDNA-RAPD) technique. Getah virus, belonging to the family <it>Togaviridae</it> in the genus <it>Alphavirus</it>, is a mosquito-borne enveloped RNA virus that was identified using the Virus-Discovery-cDNA RAPD (VIDISCR) method.</p> <p>Results</p> <p>A novel Getah virus was identified by VIDISCR from suckling mice exposed to mosquitoes (<it>Aedes albopictus</it>) collected in Yunnan Province, China. The non-structural protein gene, <it>nsP3</it>, the structural protein gene, the capsid protein gene, and the 3'-untranslated region (UTR) of the novel Getah virus isolate were cloned and sequenced. Nucleotide sequence identities of each gene were determined to be 97.1–99.3%, 94.9–99.4%, and 93.6–99.9%, respectively, when compared with the genomes of 10 other representative strains of Getah virus.</p> <p>Conclusions</p> <p>The VIDISCR method was able to identify known virus isolates and a novel isolate of Getah virus from infected mice. Phylogenetic analysis indicated that the YN08 isolate was more closely related to the Hebei HB0234 strain than the YN0540 strain, and more genetically distinct from the MM2021 Malaysia primitive strain.</p> |
| first_indexed | 2024-12-20T12:01:51Z |
| format | Article |
| id | doaj.art-d104f1f7cbdf49e9b978a0924a5e27fb |
| institution | Directory Open Access Journal |
| issn | 1471-2180 |
| language | English |
| last_indexed | 2024-12-20T12:01:51Z |
| publishDate | 2012-12-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Microbiology |
| spelling | doaj.art-d104f1f7cbdf49e9b978a0924a5e27fb2022-12-21T19:41:31ZengBMCBMC Microbiology1471-21802012-12-0112130510.1186/1471-2180-12-305Identification of a novel Getah virus by Virus-Discovery-cDNA random amplified polymorphic DNA (RAPD)Hu TingsongZheng YingZhang YanLi GangshanQiu WeiYu JingCui QinghuaWang YiyinZhang ChaoxiongZhou XiaofangFeng ZiliangZhou WeiguoFan QuanshuiZhang Fuqiang<p>Abstract</p> <p>Background</p> <p>The identification of new virus strains is important for the study of infectious disease, but current (or existing) molecular biology methods are limited since the target sequence must be known to design genome-specific PCR primers. Thus, we developed a new method for the discovery of unknown viruses based on the cDNA - random amplified polymorphic DNA (cDNA-RAPD) technique. Getah virus, belonging to the family <it>Togaviridae</it> in the genus <it>Alphavirus</it>, is a mosquito-borne enveloped RNA virus that was identified using the Virus-Discovery-cDNA RAPD (VIDISCR) method.</p> <p>Results</p> <p>A novel Getah virus was identified by VIDISCR from suckling mice exposed to mosquitoes (<it>Aedes albopictus</it>) collected in Yunnan Province, China. The non-structural protein gene, <it>nsP3</it>, the structural protein gene, the capsid protein gene, and the 3'-untranslated region (UTR) of the novel Getah virus isolate were cloned and sequenced. Nucleotide sequence identities of each gene were determined to be 97.1–99.3%, 94.9–99.4%, and 93.6–99.9%, respectively, when compared with the genomes of 10 other representative strains of Getah virus.</p> <p>Conclusions</p> <p>The VIDISCR method was able to identify known virus isolates and a novel isolate of Getah virus from infected mice. Phylogenetic analysis indicated that the YN08 isolate was more closely related to the Hebei HB0234 strain than the YN0540 strain, and more genetically distinct from the MM2021 Malaysia primitive strain.</p>http://www.biomedcentral.com/1471-2180/12/305Getah virusIdentificationVirus-DiscoverycDNA RAPD |
| spellingShingle | Hu Tingsong Zheng Ying Zhang Yan Li Gangshan Qiu Wei Yu Jing Cui Qinghua Wang Yiyin Zhang Chaoxiong Zhou Xiaofang Feng Ziliang Zhou Weiguo Fan Quanshui Zhang Fuqiang Identification of a novel Getah virus by Virus-Discovery-cDNA random amplified polymorphic DNA (RAPD) BMC Microbiology Getah virus Identification Virus-Discovery cDNA RAPD |
| title | Identification of a novel Getah virus by Virus-Discovery-cDNA random amplified polymorphic DNA (RAPD) |
| title_full | Identification of a novel Getah virus by Virus-Discovery-cDNA random amplified polymorphic DNA (RAPD) |
| title_fullStr | Identification of a novel Getah virus by Virus-Discovery-cDNA random amplified polymorphic DNA (RAPD) |
| title_full_unstemmed | Identification of a novel Getah virus by Virus-Discovery-cDNA random amplified polymorphic DNA (RAPD) |
| title_short | Identification of a novel Getah virus by Virus-Discovery-cDNA random amplified polymorphic DNA (RAPD) |
| title_sort | identification of a novel getah virus by virus discovery cdna random amplified polymorphic dna rapd |
| topic | Getah virus Identification Virus-Discovery cDNA RAPD |
| url | http://www.biomedcentral.com/1471-2180/12/305 |
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