Archives of Virology

, Volume 163, Issue 5, pp 1163–1170 | Cite as

Molecular analysis of barley stripe mosaic virus isolates differing in their biological properties and the development of reverse transcription loop-mediated isothermal amplification assays for their detection

  • A. Zarzyńska-Nowak
  • B. Hasiów-Jaroszewska
  • M. Jeżewska
Original Article
  • 129 Downloads

Abstract

Barley stripe mosaic virus (BSMV) is an important seed-transmitted pathogen occurring worldwide. Recently, the occurrence of mild BSMV pathotypes has been observed in barley crops in Poland. In this study, the full-length genome sequences of mild and aggressive Polish and German BSMV isolates was established. Phylogenetic and recombination analysis was performed using Polish and other BSMV isolates described to date. The analysis revealed that Polish isolates differed only in 25 nucleotides, which suggests that point mutations might have had a great impact on the biological properties of the virus. The phylogenetic analysis revealed that the closest relationship was that between European and BSMV-CV42, BSMV-ND18 and BSMV-Type isolates, whereas the highest genetic distance was observed for BSMV-Qasr Ibrim and BSMV-China isolates. A recombination event within the αa protein of BSMV-De-M and BSMV-CV42 isolates was also detected. Moreover, a sensitive reverse transcription loop-mediated isothermal amplification (RT-LAMP) method was developed for rapid detection of BSMV isolates. The RT-LAMP assay can be used for routine diagnostics of BSMV in seed and plant material.

Notes

Acknowledgements

We would like to thank Dr. Frank Rabenstein for providing the German isolate of BSMV used in this study. This study is part of a project supported by the Polish National Science Centre [2015/16/T/NZ9/00406].

Compliance with ethical standards

Conflict of interest

The authors declare that they have no conflict of interest.

Ethical approval

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

Supplementary material

705_2018_3725_MOESM1_ESM.doc (102 kb)
Supplementary material 1 (DOC 102 kb)
705_2018_3725_MOESM2_ESM.tif (2.4 mb)
Supplementary Figure: Detection of BSMV isolates by RT-LAMP. (a) Visual detection of amplification products under UV light. A positive reaction is indicated by a fluorescent bright green color, while the negative control remains orange. (b) Electrophoretic separation of RT-LAMP products. M-Kb Plus DNA Ladder (ThermoFisher Scientific), lines 1-5: BSMV-R samples, lines 6-10: BSMV-M, lines 11-15: BSMV-De-M, NC-negative control (healthy plant) (TIFF 2430 kb)

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Copyright information

© Springer-Verlag GmbH Austria, part of Springer Nature 2018

Authors and Affiliations

  • A. Zarzyńska-Nowak
    • 1
  • B. Hasiów-Jaroszewska
    • 1
  • M. Jeżewska
    • 1
  1. 1.Department of Virology and BacteriologyInstitute of Plant Protection–National Research InstitutePoznańPoland

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