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Complete genome sequences of two highly divergent Japanese isolates of Plantago asiatica mosaic virus

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Abstract

Plantago asiatica mosaic virus (PlAMV) is a member of the genus Potexvirus and has an exceptionally wide host range. It causes severe damage to lilies. Here we report on the complete nucleotide sequences of two new Japanese PlAMV isolates, one from the eudicot weed Viola grypoceras (PlAMV-Vi), and the other from the eudicot shrub Nandina domestica Thunb. (PlAMV-NJ). Their genomes contain five open reading frames (ORFs), which is characteristic of potexviruses. Surprisingly, the isolates showed only 76.0–78.0 % sequence identity with each other and with other PlAMV isolates, including isolates from Japanese lily and American nandina. Amino acid alignments of the replicase coding region encoded by ORF1 showed that the regions between the methyltransferase and helicase domains were less conserved than other regions, with several insertions and/or deletions. Phylogenetic analyses of the full-length nucleotide sequences revealed a moderate correlation between phylogenetic clustering and the original host plants of the PlAMV isolates. This study revealed the presence of two highly divergent PlAMV isolates in Japan.

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Authors and Affiliations

  1. Laboratory of Plant Pathology, Graduate School of Agriculture, Tokyo University of Agriculture and Technology (TUAT), 3-5-8 Saiwaicho, Fuchu, Tokyo, 183-8509, Japan

    Ken Komatsu & Naoko Fujita

  2. Vegetable Research Institute, Aomori Prefectural Industrial Technology Research Center, 91 Yanagisawa, Inuotose, Rokunohe, Aomori, 033-0071, Japan

    Kazuo Yamashita

  3. Laboratory of Plant Protection, Faculty of Bioresorce Sciences, Akita Prefectural University, 241-7 Kaidobata-Nishi, Shimoshinjo-Nakano, Akita, 010-015, Japan

    Kota Sugawara & Shin-ichi Fuji

  4. Wageningen University and Research, Droevendaalsesteeg 1, 6708 PB, Wageningen, The Netherlands

    Martin Verbeek

  5. Genetic Resources Center, The National Agriculture and Food Research Organization (NARO), 2-1-2 Kannondai, Tsukuba, Ibaraki, 305-8602, Japan

    Kaoru Hanada & Tamaki Uehara-Ichiki

Authors
  1. Ken Komatsu
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  2. Kazuo Yamashita
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  3. Kota Sugawara
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  4. Martin Verbeek
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  5. Naoko Fujita
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  6. Kaoru Hanada
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  7. Tamaki Uehara-Ichiki
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  8. Shin-ichi Fuji
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Corresponding author

Correspondence to Shin-ichi Fuji.

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Funding

This study was funded by a Grant-in-Aid for Young Scientists (B) (26850231) from the Japan Society for the Promotion of Science.

Conflict of interest

The authors declare no conflict of interest.

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

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Supplementary material 1 (DOC 30 kb)

705_2016_3110_MOESM2_ESM.pptx

Fig. S1 Alignment of amino acid sequences of the replicase encoded by ORF1 in the PlAMV isolates, shown in Fig. 1, and closely related potexvirus species, TVX, and HdRSV. An alignment of the region between the methyltransferase and helicase domains of the replicase is shown. The numbers at the beginning of the alignment show the amino acid positions of the replicase (PPTX 360 kb)

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Komatsu, K., Yamashita, K., Sugawara, K. et al. Complete genome sequences of two highly divergent Japanese isolates of Plantago asiatica mosaic virus. Arch Virol 162, 581–584 (2017). https://doi.org/10.1007/s00705-016-3110-6

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  • DOI: https://doi.org/10.1007/s00705-016-3110-6

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