Skip to main content
Erschienen in: Archives of Virology 2/2020

30.11.2019 | Annotated Sequence Record

Complete genomic sequence of crow-dipper mosaic-associated virus, a novel macluravirus infecting Pinellia ternata

verfasst von: Rong Wang, Bingwei Chen, Yong Li, Tianyou Wang, Wanlong Ding

Erschienen in: Archives of Virology | Ausgabe 2/2020

Einloggen, um Zugang zu erhalten

Abstract

A new macluravirus infecting Pinellia ternata in China was identified by high-throughput sequencing (HTS) and tentatively named “crow-dipper mosaic-associated virus” (CrdMV). The complete genome sequence of CrdMV was determined by reverse transcription (RT) PCR and rapid amplification of cDNA ends (RACE) PCR. The genomic RNA of CrdMV consists of 8,454 nucleotides (nt), excluding the poly(A) tail at the 3′ end. CrdMV has a genomic structure typical of macluraviruses, with large open reading frame encoding a polyprotein of 2,696 amino acids (aa). CrdMV shares 54.40%–59.37% nt sequence identity at the genome sequence level, 48.00%–58.58% aa sequence identity, at the polyprotein sequence level and 37.27%–49.22% aa sequence identity at the CP sequence level with other members of the genus Macluravirus. These values are well below the species demarcation threshold for the family Potyviridae. Phylogenetic analysis based on the amino acid sequences of polyproteins confirmed that CrdMV clusters closely with broad-leafed dock virus A (BDVA, GenBank accession no. KU053507). These results suggest that CrdMV should be considered a distinct member of the genus Macluravirus.
Anhänge
Nur mit Berechtigung zugänglich
Literatur
1.
Zurück zum Zitat Adams MJ, Zerbini FM, French R et al (2012) Potyviridae. In: King AMQ, Adams MJ, Carstens EB et al (eds) Virus taxonomy: ninth report of the international committee on taxonomy of viruses. Elsevier, San Diego, pp 1069–1089 Adams MJ, Zerbini FM, French R et al (2012) Potyviridae. In: King AMQ, Adams MJ, Carstens EB et al (eds) Virus taxonomy: ninth report of the international committee on taxonomy of viruses. Elsevier, San Diego, pp 1069–1089
2.
Zurück zum Zitat Elangovan S, Srikakulam N, Pandi G et al (2019) The first complete genomic sequence of cardamom mosaic virus, a member of the genus Macluravirus (family Potyviridae). Arch Virol 164:1723–1726CrossRef Elangovan S, Srikakulam N, Pandi G et al (2019) The first complete genomic sequence of cardamom mosaic virus, a member of the genus Macluravirus (family Potyviridae). Arch Virol 164:1723–1726CrossRef
3.
Zurück zum Zitat Lan P, Meng Y, Shen P et al (2018) Complete genome sequence of yam chlorotic necrosis virus, a novel macluravirus infecting yam. Arch Virol 163:2275–2278CrossRef Lan P, Meng Y, Shen P et al (2018) Complete genome sequence of yam chlorotic necrosis virus, a novel macluravirus infecting yam. Arch Virol 163:2275–2278CrossRef
4.
Zurück zum Zitat Zhang P, Peng J, Guo H et al (2016) Complete genome sequence of yam chlorotic necrotic mosaic virus from Dioscorea parviflora. Arch Virol 161:1715–1717CrossRef Zhang P, Peng J, Guo H et al (2016) Complete genome sequence of yam chlorotic necrotic mosaic virus from Dioscorea parviflora. Arch Virol 161:1715–1717CrossRef
5.
Zurück zum Zitat Chen J, Li D (1994) Separating and partial characterization of two viruses from natural-infected Pinellia ternata. Biotechnology 4(4):24–28 Chen J, Li D (1994) Separating and partial characterization of two viruses from natural-infected Pinellia ternata. Biotechnology 4(4):24–28
6.
Zurück zum Zitat Chen J, Zheng HY, Lin L et al (2004) A virus related to Soybean mosaic virus from Pinellia ternata in China and its comparison with local soybean SMV isolates. Arch Virol 149(2):349–363CrossRef Chen J, Zheng HY, Lin L et al (2004) A virus related to Soybean mosaic virus from Pinellia ternata in China and its comparison with local soybean SMV isolates. Arch Virol 149(2):349–363CrossRef
7.
Zurück zum Zitat Cui LY, Pang XJ, Qi YH et al (2018) Identification of the pathogens of Pinellia ternata virus by small RNA deep sequencing. Chin J Biochem Mol Biol 34(12):1334–1341 Cui LY, Pang XJ, Qi YH et al (2018) Identification of the pathogens of Pinellia ternata virus by small RNA deep sequencing. Chin J Biochem Mol Biol 34(12):1334–1341
8.
Zurück zum Zitat Zerbino DR, Birney E (2008) Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res 18:821–829CrossRef Zerbino DR, Birney E (2008) Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res 18:821–829CrossRef
9.
Zurück zum Zitat Scotto-Lavino E, Du G, Frohman MA (2006) 3’ end cDNA amplification using classic RACE. Nat Protoc 1(6):2742–2745CrossRef Scotto-Lavino E, Du G, Frohman MA (2006) 3’ end cDNA amplification using classic RACE. Nat Protoc 1(6):2742–2745CrossRef
10.
Zurück zum Zitat Scotto-Lavino E, Du G, Frohman MA (2006) 5’ end cDNA amplification using classic RACE. Nat Protoc 1(6):2555–2562CrossRef Scotto-Lavino E, Du G, Frohman MA (2006) 5’ end cDNA amplification using classic RACE. Nat Protoc 1(6):2555–2562CrossRef
11.
Zurück zum Zitat Urcuqui-Inchima S, Haenni AL, Bernardi F (2001) Potyvirus proteins: a wealth of functions. Virus Res 74:157–175CrossRef Urcuqui-Inchima S, Haenni AL, Bernardi F (2001) Potyvirus proteins: a wealth of functions. Virus Res 74:157–175CrossRef
12.
Zurück zum Zitat Tamura K, Peterson D, Peterson N et al (2011) MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28:2731–2739CrossRef Tamura K, Peterson D, Peterson N et al (2011) MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol Biol Evol 28:2731–2739CrossRef
Metadaten
Titel
Complete genomic sequence of crow-dipper mosaic-associated virus, a novel macluravirus infecting Pinellia ternata
verfasst von
Rong Wang
Bingwei Chen
Yong Li
Tianyou Wang
Wanlong Ding
Publikationsdatum
30.11.2019
Verlag
Springer Vienna
Erschienen in
Archives of Virology / Ausgabe 2/2020
Print ISSN: 0304-8608
Elektronische ISSN: 1432-8798
DOI
https://doi.org/10.1007/s00705-019-04471-y

Weitere Artikel der Ausgabe 2/2020

Archives of Virology 2/2020 Zur Ausgabe

Leitlinien kompakt für die Innere Medizin

Mit medbee Pocketcards sicher entscheiden.

Seit 2022 gehört die medbee GmbH zum Springer Medizin Verlag

Update Innere Medizin

Bestellen Sie unseren Fach-Newsletter und bleiben Sie gut informiert.