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Identification of a novel alphaendornavirus from Lonicera maackii

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Abstract

A new alphaendornavirus, tentatively named “Lonicera maackii alphaendornavirus” (LmEV), was identified in a Lonicera maackii plant in Beijing, China, with leaf abnormality of interveinal chlorosis, and its complete genome sequence was determined using small-RNA deep sequencing. The RNA genome of LmEV is 16,176 nt in length and contains a large open reading frame encoding a polyprotein of 5363 aa with conserved domains including a cysteine-rich region, a viral helicase, and an RNA-dependent RNA polymerase. Sequence comparisons showed that LmEV shared the highest nt and aa sequence identity with Vicia faba alphaendornavirus (VfEV) of the genus Alphaendornavirus. In phylogenetic analysis of the RdRp aa sequence LmEV clustered with members of the genus Alphaendornavirus, closest to VfEV. To our knowledge, this is the first report of a novel alphaendornavirus identified in Lonicera maackii. Its effect on the host plant, if any, remains to be investigated.

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Data availability statement

The genome sequences reported here are available in the GenBank database. Materials described in the manuscript are also freely available to any scientist wishing to use them for non-commercial purposes upon request via e-mail with the corresponding author.

References

  1. Adams MJ, Lefkowitz EJ, King AMQ, Harrach B, Harrison RL, Knowles NJ, Kropinski AM, Krupovic M, Kuhn JH, Mushegian AR, Nibert M, Sabanadzovic S, Sanfaçon H, Siddell SG, Simmonds P, Varsani A, Zerbini FM, Gorbalenya AE, Davison AJ (2017) Changes to taxonomy and the international code of virus classification and nomenclature ratified by the International Committee on Taxonomy of Viruses. Arch Virol 162:2505–2538

    Article  CAS  Google Scholar 

  2. Fukuhara T, Koga R, Aoki N, Yuki C, Yamamoto N, Oyama N, Udagawa T, Horiuchi H, Miyazaki S, Higashi Y, Takeshita M, Ikeda K, Arakawa M, Matsumoto N, Moriyama H (2006) The wide distribution of endornaviruses, large double-stranded RNA replicons with plasmid-like properties. Arch Virol 151:995–1002

    Article  CAS  Google Scholar 

  3. Stielow B, Klenk HP, Menzel W (2011) Complete genome sequence of the first endornavirus from the ascocarp of the ectomycorrhizal fungus Tuber aestivum Vittad. Arch Virol 156:343–345

    Article  CAS  Google Scholar 

  4. Roossinck MJ, Sabanadzovic S, Okada R, Valverde RA (2011) The remarkable evolutionary history of endornaviruses. J Gen Virol 92:2674–2678

    Article  CAS  Google Scholar 

  5. Peng XQ, Pan H, Muhammad A, An HL, Fang SG, Li WM, Zhang SB (2018) Complete genome sequence of a new strain of Lagenaria siceraria endornavirus from China. Arch Virol 163:805–808

    Article  CAS  Google Scholar 

  6. Fukuhara T (2019) Endornaviruses: persistent dsRNA viruses with symbiotic properties in diverse eukaryotes. Virus Genes 55:165–173

    Article  CAS  Google Scholar 

  7. Valverde RA, Khalifa ME, Okada R, Fukuhara T, Sabanadzovic S (2019) ICTV virus taxonomy profile: Endornaviridae. J Gen Virol 100:1204–1205

    Article  CAS  Google Scholar 

  8. Okada R, Kiyota E, Sabanadzovic S, Moriyama H, Fukuhara T, Saha P, Roossinck MJ, Severin A, Valverde RA (2011) Bell pepper endornavirus: molecular and biological properties, and occurrence in the genus Capsicum. J Gen Virol 92:2664–2673

    Article  CAS  Google Scholar 

  9. Okada R, Yong CK, Valverde RA, Sabanadzovic S, Aoki N, Hotate S, Kiyota E, Moriyama H, Fukuhara T (2013) Molecular characterization of two evolutionarily distinct endornaviruses co-infecting common bean (Phaseolus vulgaris). J Gen Virol 94:220–229

    Article  CAS  Google Scholar 

  10. Hacker CV, Brasier CM, Buck KW (2005) A double-stranded RNA from a Phytophthora species is related to the plant endornaviruses and contains a putative UDP glycosyltransferase gene. J Gen Virol 86:1561–1570

    Article  CAS  Google Scholar 

  11. Sabanadzovic S, Wintermantel WM, Valverde RA, McCreight JD, Aboughanem-Sabanadzovic N (2016) Cucumis melo endornavirus: genome organization, host range and co-divergence with the host. Virus Res 214:49–58

    Article  CAS  Google Scholar 

  12. Roossinck MJ (2010) Lifestyles of plant viruses. Philos Trans R Soc B 365:1899–1905

    Article  Google Scholar 

  13. Zhang PQ, Liu YJ, Chen X, Yang Z, Zhu MH, Li YP (2016) Pollution resistance assessment of existing landscape plants on Beijing streets based on air pollution tolerance index method. Ecotoxicol Environ Saf 132:212–223

    Article  CAS  Google Scholar 

  14. Li YQ, Jia AN, Qiao Y, Xiang J, Zhang YJ, Wang WH (2018) Virome analysis of lily plants reveals a new potyvirus. Arch Virol 163:1079–1082

    Article  CAS  Google Scholar 

  15. Zerbino DR, Birney E (2008) Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res 18:821–829

    Article  CAS  Google Scholar 

  16. Tuomivirta TT, Kaitera J, Hantula J (2009) A novel putative virus of Gremmeniella abietina type B (Ascomycota: Helotiaceae) has a composite genome with endornavirus affinities. J Gen Virol 90:2299–2305

    Article  CAS  Google Scholar 

  17. Tamura K, Stecher G, Peterson D, Filipski A, Kumar S (2013) MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30:2725–2729

    Article  CAS  Google Scholar 

  18. Escalante C, Valverde RA (2019) Morphological and physiological characteristics of endornavirus-infected and endornavirus-free near-isogenic lines of bell pepper (Capsicum annuum). Sci Hortic 250:104–112

    Article  Google Scholar 

  19. Khankhum S, Valverde RA (2018) Physiological traits of endornavirus-infected and endornavirus-free common bean (Phaseolus vulgaris) cv Black Turtle Soup. Arch Virol 163:1051–1056

    Article  CAS  Google Scholar 

  20. Pfeiffer P (1998) Nucleotide sequence, genetic organization and expression strategy of the double-stranded RNA associated with the ‘447’ cytoplasmic male sterility trait in Vicia faba. J Gen Virol 79:2349–2358

    Article  CAS  Google Scholar 

  21. Uchida K, Sakuta K, Ito A, Takahashi Y, Katayama Y, Omatsu T, Mizutani T, Arie T, Komatsu K, Fukuhara T, Uematsu S, Okada R, Moriyama H (2021) Two novel endornaviruses co-infecting a Phytophthora pathogen of Asparagus officinalis modulate the developmental stages and fungicide sensitivities of the host oomycete. Front Microbiol 12:633502

    Article  Google Scholar 

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Acknowledgements

This work was supported by a grant from the Beijing Municipal Education Committee (CIT&TCD201904055).

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Author notes

  1. Zheng Dong and Hang Yin contributed equally to this work.

Authors and Affiliations

  1. College of Bioscience and Resource Environment, Beijing University of Agriculture, Beijing, 102206, China

    Zheng Dong, Hang Yin, Xulong Wang, Shuhao Lu, Wenjie Zuo, Zhibin Liu & Yongqiang Li

  2. Key Laboratory for Northern Urban, Agriculture of Ministry of Agriculture and Rural Affairs, Beijing University of Agriculture, Beijing, 102206, China

    Zheng Dong, Hang Yin, Xulong Wang, Shuhao Lu, Wenjie Zuo, Zhibin Liu & Yongqiang Li

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  1. Zheng Dong
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  2. Hang Yin
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  3. Xulong Wang
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Correspondence to Yongqiang Li.

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Dong, Z., Yin, H., Wang, X. et al. Identification of a novel alphaendornavirus from Lonicera maackii. Arch Virol 167, 675–679 (2022). https://doi.org/10.1007/s00705-021-05347-w

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  • DOI: https://doi.org/10.1007/s00705-021-05347-w

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