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Complete genome sequence of yam chlorotic necrosis virus, a novel macluravirus infecting yam

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Abstract

The complete genome sequence of a novel member of the genus Macluravirus was determined from yam plants with chlorotic and necrotic symptoms in China. The genomic RNA consists of 8,261 nucleotides (nt) excluding the 3’-terminal poly(A) tail, containing one long open reading frame (ORF) encoding a large putative polyprotein of 2,627 amino acids. Its genomic structure is typical of macluraviruses, which lack the P1 protein, N-terminal HC-Pro, and D-A-G motif for aphid transmission that are found in potyviruses. The virus shares 56.3-63.8% sequence identity at the genome sequence level and 49.7-63.9% at the polyprotein sequence level with other members of the genus Macluravirus. Phylogenetic analysis based on the complete polyprotein sequence of representative members of the family Potyviridae clearly places the virus within the genus Macluravirus. These results suggest that the virus, tentatively named “yam chlorotic necrosis virus” (YCNV), should be considered a member of a novel species in the genus Macluravirus.

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References

  1. Minutillo SA, Marais A, Mascia T, Faure C, Svanella-Dumas L, Theil S, Payet A, Perennec S, Schoen L, Gallitelli D, Candresse T (2015) Complete nucleotide sequence of Artichoke latent virus shows it to be a member of the genus Macluravirus in the Family Potyviridae. Phytopathol 105(8):1155–1160

    Article  Google Scholar 

  2. Adams M, Zerbini F, French R (2011) Family Potyviridae. Virus taxonomy, 9th report of the international committee for taxonomy of viruses. Elsevier Academic Press, San Diego, pp 1069–1089

    Google Scholar 

  3. Kondo T, Fujita T (2012) Complete nucleotide sequence and construction of an infectious clone of Chinese yam necrotic mosaic virus suggest that macluraviruses have the smallest genome among members of the family Potyviridae. Arch Virol 157:2299–2307

    Article  PubMed  CAS  Google Scholar 

  4. Zhang P, Peng J, Guo H, Chen J, Chen S, Wang J (2016) Complete genome sequence of yam chlorotic necrotic mosaic virus from Dioscorea parviflora. Arch Virol 161(6):1715–1717

    Article  PubMed  CAS  Google Scholar 

  5. Kwon SJ, Cho IS, Choi SK, Yoon JY, Choi GS (2016) Complete sequence analysis of a Korean isolate of Chinese yam necrotic mosaic virus and generation of the virus specific primers for molecular detection. Rea. Plant Dis 22(3):194–197

    Article  CAS  Google Scholar 

  6. Wang M, Li F, Zhou G, Lan P, Xu D, Li R (2015) Molecular detection and characterization of chinese yam mild mosaic virus isolates. J Phytopathol 163(11–12):1036–1040

    Article  CAS  Google Scholar 

  7. Lan P, Li F, Wang M, Li R (2015) Complete genome sequence of a divergent strain of Japanese yam mosaic virus from China. Arch Virol 160(2):573–576

    Article  PubMed  CAS  Google Scholar 

  8. Shen P, Tian X, Zhang S, Ren F, Li P, Yu Y, Li R, Zhou CH, Cao M (2018) Molecular characterization of a novel luteovirus infecting apple by next-generation sequencing. Arch Virol 163(3):761–765

    Article  PubMed  CAS  Google Scholar 

  9. Li R, Mock R, Huang Q, Abad J, Hartung J, Kinard G (2008) A reliable and inexpensive method of nucleic acid extraction for the PCR-based detection of diverse plant pathogens. J Virol Methods 154:48–55

    Article  PubMed  CAS  Google Scholar 

  10. Chen J, Chen J, Adams MJ (2001) A universal PCR primer to detect members of the Potyviridae and its use to examine the taxonomic status of several members of the family. Arch Virol 146:757–766

    Article  PubMed  CAS  Google Scholar 

  11. Kumar S, Stecher G, Tamura K (2016) Molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 33(7):1870

    Article  PubMed  CAS  Google Scholar 

  12. Martin DP, Murrell B, Golden M, Khoosal A, Muhire B (2015) RDP4: detection and analysis of recombination patterns in virus genomes. Virus Evol. 1(1):vev003

    Article  PubMed  PubMed Central  Google Scholar 

Download references

Funding

This study was funded by the National Science Foundation of China (31660509), the Scientific Research Fund of the Yunnan Provincial Education Department (2015Z102), the Program for Innovative Research Team (in Science and Technology) in University of Yunnan Province (Yunjiaoke 2014-22), and Chongqing Research Program of Basic Research and Frontier Technology (cstc2017jcyjBX0016).

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Author notes

  1. Pingxiu Lan and Yu Meng are contributed equally to this work.

Authors and Affiliations

  1. State Key Laboratory for Conservation and Utilization of Bio-Resources in Yunnan, Yunnan Agricultural University, Kunming, 650201, China

    Pingxiu Lan, Yu Meng, Yan Ma, Songtao Tan, Hairu Chen & Fan Li

  2. College of Animal Science and Technology, Yunnan Agricultural University, Kunming, 650201, China

    Pingxiu Lan

  3. National Citrus Engineering Research Center, Citrus Research Institute, Southwest University, Chongqing, 400712, China

    Pan Shen & Mengji Cao

  4. USDA-ARS, National Germplasm Resources Laboratory, Beltsville, MD, 20705, USA

    Ruhui Li

Authors
  1. Pingxiu Lan
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  2. Yu Meng
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  3. Pan Shen
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  4. Ruhui Li
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  5. Yan Ma
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  6. Songtao Tan
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  7. Hairu Chen
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  8. Mengji Cao
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  9. Fan Li
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Corresponding authors

Correspondence to Mengji Cao or Fan Li.

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Conflict of interest

As the corresponding authors, Fan Li and Mengji Cao declare that the authors of this paper have no conflict of interest.

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This article does not contain any studies with human participants or animals performed by any of the authors.

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Handling Editor: Stephen John Wylie.

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Lan, P., Meng, Y., Shen, P. et al. Complete genome sequence of yam chlorotic necrosis virus, a novel macluravirus infecting yam. Arch Virol 163, 2275–2278 (2018). https://doi.org/10.1007/s00705-018-3851-5

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  • DOI: https://doi.org/10.1007/s00705-018-3851-5

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