Complete nucleotide sequence of hackberry virus A, a tentative member of the genus Waikavirus
The complete genomic sequence of a waikavirus from Chinese hackberry in Zhejiang province, China, named “hackberry virus A” (HVA), was determined using high-throughput sequencing (HTS) combined with reverse transcription polymerase chain reaction (RT-PCR) and rapid amplification of cDNA ends (RACE)...
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| Veröffentlicht in: | Archives of virology 2023-05, Vol.168 (5), p.137-137, Article 137 |
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| creator | Weng, Jiajia Wu, Mengting Ye, Zhuangxin Wang, Lin Ke, Bin Huang, Chanchan Lu, Yuwen Peng, Jiejun Lin, Lin Rao, Shaofei Wu, Guanwei Chen, Jianping Zheng, Hongying Yan, Fei |
| description | The complete genomic sequence of a waikavirus from Chinese hackberry in Zhejiang province, China, named “hackberry virus A” (HVA), was determined using high-throughput sequencing (HTS) combined with reverse transcription polymerase chain reaction (RT-PCR) and rapid amplification of cDNA ends (RACE) PCR. The bicistronic genomic RNA of HVA was found to consist of 12,691 nucleotides (nt), excluding the 3’-terminal poly(A) tail, and to encode a large polyprotein of 3783 amino acids (aa) and an additional 10.3-kDa protein. The aa sequences of the Pro-Pol and the CP regions of this virus share 39.8–44.2% and 25.5–36.4% identity, respectively, with currently known waikaviruses. These values are significantly below the current species demarcation threshold (< 75% and < 80% aa identity for the CP and Pro-Pol region, respectively) for the family
Secoviridae
, indicating that HVA represents a new species in the genus
Waikavirus
. This is the first report of a virus infecting Chinese hackberry. |
| doi_str_mv | 10.1007/s00705-023-05764-z |
| format | Article |
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Secoviridae
, indicating that HVA represents a new species in the genus
Waikavirus
. This is the first report of a virus infecting Chinese hackberry.</description><identifier>ISSN: 0304-8608</identifier><identifier>EISSN: 1432-8798</identifier><identifier>DOI: 10.1007/s00705-023-05764-z</identifier><identifier>PMID: 37043037</identifier><language>eng</language><publisher>Vienna: Springer Vienna</publisher><subject>Annotated Sequence Record ; Base Sequence ; Biomedical and Life Sciences ; Biomedicine ; Celtis sinensis ; Cloning ; Complementary DNA ; Genome, Viral ; Genomes ; Genomics ; Infectious Diseases ; Laboratories ; Medical Microbiology ; New species ; Next-generation sequencing ; Nucleotide sequence ; Phylogenetics ; Phylogeny ; Plant Diseases ; Plant viruses ; Polyadenylation ; Polymerase chain reaction ; Proteins ; Reverse transcription ; RNA polymerase ; RNA, Viral - genetics ; Virology ; Viruses ; Waikavirus ; Waikavirus - genetics</subject><ispartof>Archives of virology, 2023-05, Vol.168 (5), p.137-137, Article 137</ispartof><rights>The Author(s), under exclusive licence to Springer-Verlag GmbH Austria, part of Springer Nature 2023. Springer Nature or its licensor (e.g. a society or other partner) holds exclusive rights to this article under a publishing agreement with the author(s) or other rightsholder(s); author self-archiving of the accepted manuscript version of this article is solely governed by the terms of such publishing agreement and applicable law.</rights><rights>2023. The Author(s), under exclusive licence to Springer-Verlag GmbH Austria, part of Springer Nature.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><cites>FETCH-LOGICAL-c326t-a403ae3d6c6bb927d578555ea019ac7a53604b91a0e4d950ac233a19d2d312d73</cites><orcidid>0000-0002-0049-8588 ; 0000-0003-0194-3388</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s00705-023-05764-z$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s00705-023-05764-z$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>314,780,784,27924,27925,41488,42557,51319</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/37043037$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Weng, Jiajia</creatorcontrib><creatorcontrib>Wu, Mengting</creatorcontrib><creatorcontrib>Ye, Zhuangxin</creatorcontrib><creatorcontrib>Wang, Lin</creatorcontrib><creatorcontrib>Ke, Bin</creatorcontrib><creatorcontrib>Huang, Chanchan</creatorcontrib><creatorcontrib>Lu, Yuwen</creatorcontrib><creatorcontrib>Peng, Jiejun</creatorcontrib><creatorcontrib>Lin, Lin</creatorcontrib><creatorcontrib>Rao, Shaofei</creatorcontrib><creatorcontrib>Wu, Guanwei</creatorcontrib><creatorcontrib>Chen, Jianping</creatorcontrib><creatorcontrib>Zheng, Hongying</creatorcontrib><creatorcontrib>Yan, Fei</creatorcontrib><title>Complete nucleotide sequence of hackberry virus A, a tentative member of the genus Waikavirus</title><title>Archives of virology</title><addtitle>Arch Virol</addtitle><addtitle>Arch Virol</addtitle><description>The complete genomic sequence of a waikavirus from Chinese hackberry in Zhejiang province, China, named “hackberry virus A” (HVA), was determined using high-throughput sequencing (HTS) combined with reverse transcription polymerase chain reaction (RT-PCR) and rapid amplification of cDNA ends (RACE) PCR. The bicistronic genomic RNA of HVA was found to consist of 12,691 nucleotides (nt), excluding the 3’-terminal poly(A) tail, and to encode a large polyprotein of 3783 amino acids (aa) and an additional 10.3-kDa protein. The aa sequences of the Pro-Pol and the CP regions of this virus share 39.8–44.2% and 25.5–36.4% identity, respectively, with currently known waikaviruses. These values are significantly below the current species demarcation threshold (< 75% and < 80% aa identity for the CP and Pro-Pol region, respectively) for the family
Secoviridae
, indicating that HVA represents a new species in the genus
Waikavirus
. This is the first report of a virus infecting Chinese hackberry.</description><subject>Annotated Sequence Record</subject><subject>Base Sequence</subject><subject>Biomedical and Life Sciences</subject><subject>Biomedicine</subject><subject>Celtis sinensis</subject><subject>Cloning</subject><subject>Complementary DNA</subject><subject>Genome, Viral</subject><subject>Genomes</subject><subject>Genomics</subject><subject>Infectious Diseases</subject><subject>Laboratories</subject><subject>Medical Microbiology</subject><subject>New species</subject><subject>Next-generation sequencing</subject><subject>Nucleotide sequence</subject><subject>Phylogenetics</subject><subject>Phylogeny</subject><subject>Plant Diseases</subject><subject>Plant viruses</subject><subject>Polyadenylation</subject><subject>Polymerase chain reaction</subject><subject>Proteins</subject><subject>Reverse transcription</subject><subject>RNA polymerase</subject><subject>RNA, Viral - genetics</subject><subject>Virology</subject><subject>Viruses</subject><subject>Waikavirus</subject><subject>Waikavirus - 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The bicistronic genomic RNA of HVA was found to consist of 12,691 nucleotides (nt), excluding the 3’-terminal poly(A) tail, and to encode a large polyprotein of 3783 amino acids (aa) and an additional 10.3-kDa protein. The aa sequences of the Pro-Pol and the CP regions of this virus share 39.8–44.2% and 25.5–36.4% identity, respectively, with currently known waikaviruses. These values are significantly below the current species demarcation threshold (< 75% and < 80% aa identity for the CP and Pro-Pol region, respectively) for the family
Secoviridae
, indicating that HVA represents a new species in the genus
Waikavirus
. This is the first report of a virus infecting Chinese hackberry.</abstract><cop>Vienna</cop><pub>Springer Vienna</pub><pmid>37043037</pmid><doi>10.1007/s00705-023-05764-z</doi><tpages>1</tpages><orcidid>https://orcid.org/0000-0002-0049-8588</orcidid><orcidid>https://orcid.org/0000-0003-0194-3388</orcidid></addata></record> |
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| ispartof | Archives of virology, 2023-05, Vol.168 (5), p.137-137, Article 137 |
| issn | 0304-8608 1432-8798 |
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| source | MEDLINE; SpringerLink Journals |
| subjects | Annotated Sequence Record Base Sequence Biomedical and Life Sciences Biomedicine Celtis sinensis Cloning Complementary DNA Genome, Viral Genomes Genomics Infectious Diseases Laboratories Medical Microbiology New species Next-generation sequencing Nucleotide sequence Phylogenetics Phylogeny Plant Diseases Plant viruses Polyadenylation Polymerase chain reaction Proteins Reverse transcription RNA polymerase RNA, Viral - genetics Virology Viruses Waikavirus Waikavirus - genetics |
| title | Complete nucleotide sequence of hackberry virus A, a tentative member of the genus Waikavirus |
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