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Phylogenetic and population genetic analyses of plantago asiatica mosaic virus isolates reveal intraspecific diversification

  • Viral and Viroid Diseases
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Abstract

Plantago asiatica mosaic virus (PlAMV) infects ornamental lilies and causes severe necrotic symptoms. PlAMV has also been isolated from several perennial weeds, including Plantago asiatica. While multiple isolates from cultivated lilies have been identified and shown to share a high degree of sequence identity with one another, there have been few studies of PlAMV isolates from weeds. Furthermore, a comprehensive phylogenetic analysis of PIAMV isolates from both lilies and weeds has not been performed. Here, we performed phylogenetic and population genetic analyses of the full-length genome sequences of 36 PlAMV isolates, including 14 new isolates obtained in this study. These analyses suggested intraspecific diversification of PlAMV isolates into five clades, including a clade consisting of ornamental lily isolates (Lily clade) and four other clades consisting of isolates from weeds or medicinal plants. The specific clade membership identified by the phylogenetic analysis was mainly correlated with the geographical location of the members of each clade. All PlAMV isolates except those in the Lily clade had a high level of genetic diversity. The Lily clade had a higher level of genetic differentiation from the other clades. The neutrality test suggested that genetic drift contributed to shaping PlAMV isolates in the Lily clade. Infectivity tests with infectious clones of the representative PIAMV isolates to four plant species, including lilies and P. asiatica, showed that isolates in different phylogenetic clades had variation in infectivity to the subset of plant species.

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Acknowledgements

We are grateful to Dr. Tsutomu Arie for discussion and support, Mr. Hideaki Otsuka for inoculation experiments, and Mr. Takashi Moriyama and Mr. Tsutomu Moriyama for their kind support. We thank Dr. Nobumitsu Sasaki and Dr. Richard Nelson for critical reading of the manuscript. We are also grateful to the Institute of Global Innovation Research at Tokyo University of Agriculture and Technology (GIR-TUAT), Japan for the Special Research Fund. This work was supported in part by Grants-in-Aid for Scientific Research 19K06048 for KK and by Grants-in-aid for JSPS fellow (20F20392) for IH, from the Japan Society for the Promotion of Science.

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Authors and Affiliations

  1. Graduate School of Agriculture, Tokyo University of Agriculture and Technology (TUAT), Fuchu, Japan

    Minako Furuya, Shino Tanai, Islam Hamim, Yuna Yamamoto, Hiroki Saito, Maki N. Inoue & Ken Komatsu

  2. Department of Plant Pathology, Bangladesh Agricultural University, Mymensingh, 2202, Bangladesh

    Islam Hamim

  3. Faculty of Bioresource Sciences, Akita Prefectural University, Akita, Japan

    Haruki Abe, Kazuho Imai, Tatsuya Kon & Shin-ichi Fuji

  4. Graduate School of Science and Technology, Nara Institute of Science and Technology, Ikoma, Japan

    Hiroki Saito

  5. Fukuchi Garlic R&S, Nanbu, Japan

    Kazuo Yamashita

  6. Department of Agriculture, Faculty of Agriculture, Tokyo University of Agriculture, Atsugi, Japan

    Kazuo Yamashita

  7. Research Center of Genetic Resources, National Agriculture and Food Research Organization (NARO), Tsukuba, Japan

    Tamaki Uehara-Ichiki & Kaoru Hanada

  8. Institute of Global Innovation Research (GIR), Tokyo University of Agriculture and Technology (TUAT), Fuchu, Japan

    Maki N. Inoue & Ken Komatsu

  9. Institute of Science and Technology, Niigata University, Niigata, Japan

    Nami Minato

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  1. Minako Furuya
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  2. Shino Tanai
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Correspondence to Ken Komatsu.

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Furuya, M., Tanai, S., Hamim, I. et al. Phylogenetic and population genetic analyses of plantago asiatica mosaic virus isolates reveal intraspecific diversification. J Gen Plant Pathol 89, 224–237 (2023). https://doi.org/10.1007/s10327-023-01129-1

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