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Occurrence of leek yellow stripe virus and onion yellow dwarf virus from edible Allium plants in the south Marmara region of Turkey

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Abstract

Among edible Allium plants (leek, onion, and garlic), leek yellow stripe (LYSV) and onion yellow dwarf virus (OYDV) are the most common viruses worldwide. While the presence of these two viruses in Turkey has previously been confirmed, only a few studies on their prevalence and genetic diversity have been performed. The aim of this study, conducted in the southern Marmara region of Turkey (SMR), was to identify the presence and genetic diversity of these viruses. Samples were collected from 494 plants exhibiting virus and virus-like symptoms. Samples were tested for the relevant viruses by double-antibody sandwich enzyme-linked immunosorbent assay and reverse transcription polymerase chain reaction (DAS-ELISA and RT-PCR, respectively). Tests revealed the presence of OYDV in 95 samples and LYSV in 52, whereas 33 samples were observed to have a combined infection. To examine the genetic diversity, 10 isolates from each virus were chosen from the infected samples. Using RT-PCR, the complete coat protein (CP) gene for LYSV and a partial sequence region of the nuclear inclusion b + CP gene for OYDV were amplified, cloned, and sequenced from the selected isolates. The sequence data were compared with the isolates in GenBank; it was determined that SMR LYSV and OYDV isolates show similarities over 77% with world isolates at the nucleotide and amino acid levels. Phylogenetic analyses showed that the LYSV and OYDV isolates had some diversity with isolates from different parts of the world, and the host had an important role in the phylogenetic relationships, particularly for LYSV.

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Authors and Affiliations

  1. Mersin Directorate of Agricultural Quarantine, Ministry of Agriculture and Forestry, Mersin, Turkey

    Hasan Tuna Tuzlali

  2. Department of Plant Protection, Faculty of Agriculture, Canakkale Onsekiz Mart University, Canakkale, Turkey

    Ali Karanfil & Savaş Korkmaz

Authors
  1. Hasan Tuna Tuzlali
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  2. Ali Karanfil
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  3. Savaş Korkmaz
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Contributions

SK: designed the study. HTT and AK: collected the samples and performed the laboratory tests. AK and SK: performed the bioinformatic analyses. All authors interpreted of results, drafted manuscript preparation, and approved the final version of the manuscript.

Corresponding author

Correspondence to Savaş Korkmaz.

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The authors declare that they have no known competing financial interests or personal relationships that could have appearedto influence the work reported in this paper.

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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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Informed consent was obtained from all individual participantsincluded in the study.

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Tuzlali, H.T., Karanfil, A. & Korkmaz, S. Occurrence of leek yellow stripe virus and onion yellow dwarf virus from edible Allium plants in the south Marmara region of Turkey. 3 Biotech 11, 516 (2021). https://doi.org/10.1007/s13205-021-03067-1

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  • DOI: https://doi.org/10.1007/s13205-021-03067-1

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