Global Population Structure of Apple Mosaic Virus (ApMV, Genus Ilarvirus)

Çeli̇k, Ali; Morca, Ali Ferhan; Coşkan, Sevgi; Santosa, Adyatma Irawan

doi:10.3390/v15061221

Cited by 5 publications

(1 citation statement)

References 36 publications

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“…These values provide insights into the genetic differentiation and level of gene flow between populations within clades and across continents. Infrequent gene flow was considered significant if F ST > 0.33, while frequent gene flow was suggested if F ST < 0.33 [31]. Furthermore, the nucleotide sequences of the complete ToBRFV genome were used to calculate the ratio of nonsynonymous (dN) to synonymous (dS) nucleotide substitutions per site (ω = dN/dS) using the single-likelihood ancestor counting (SLAC) method available on the DataMonkey server (www.datamonkey.org) (accessed on 2 August 2023).…”

Section: Population Genetic Parametersmentioning

confidence: 99%

Revealing an Iranian Isolate of Tomato Brown Rugose Fruit Virus: Complete Genome Analysis and Mechanical Transmission

Esmaeilzadeh,

Santosa,

Çelik

et al. 2023

Microorganisms

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An analysis of the complete genome sequence of a novel isolate of tomato brown rugose fruit virus (ToBRFV) obtained from tomatoes in Iran and named ToBRFV-Ir is presented in this study. Comprehensive phylogenetic analysis utilizing key viral proteins, including 126 KDa, 183 KDa, movement protein (MP), and coat protein (CP), as well as the complete genome sequence, classified ToBRFV-Ir and 65 isolates from GenBank into three distinct clades. Notably, genetic diversity assessment revealed relatively low variability among the isolates, irrespective of their geographical or clade affiliation. Natural selection analysis based on the complete genome sequence showed that dN/dS values were consistently <1, indicating the prevailing role of negative selection across all populations. Analyses using the Recombination Detection Program and SplitsTree found no evidence of recombination events or signals in the complete genome sequence of the tested isolates. Thus, these results suggest that the genetic composition of ToBRFV remains stable without significant genetic exchange or recombination events occurring. A simple arithmetic comparison of the patristic distances and dates suggested that the time to the most recent common ancestor (TMRCA) of the ToBRFV populations is approximately 0.8 up to 2.7 with the closest tobamoviruses. An evolutionary study of the tested isolates from various countries based on the complete genome suggests Peruvian ancestry. The ToBRF-Ir isolate was successfully transmitted through mechanical inoculations to Solanum lycopersicum and Nicotiana rustica. These findings shed light on the genetic dynamics and transmission mechanisms of ToBRFV, providing valuable insights into its molecular characteristics and potential spread among susceptible plant species.

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Section: Population Genetic Parametersmentioning

confidence: 99%

Revealing an Iranian Isolate of Tomato Brown Rugose Fruit Virus: Complete Genome Analysis and Mechanical Transmission

Esmaeilzadeh,

Santosa,

Çelik

et al. 2023

Microorganisms

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European and American grapevines were successfully recovered from GFkV, GLRaV1, GLRaV2, and GLRaV3 viruses by a modified thermotherapy and shoot tip culture

Sağlam,

Çalkan Sağlam,

Güler

et al. 2023

Phytoparasitica

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The purpose of this study was to look into the use of thermotherapy and shoot tip culture to disinfect grapevines from Grapevine fanleaf nepovirus (GFLV), Grapevine eck virus (GFkV), and Grapevine leafroll closterovirus (GLRaV) -1,-2,-3, all of which are required for certi ed sapling production. The GFkV, GLRaV-1,2,3-infected grapevine scions were taken from the initial testing and put into 10-liter plastic containers.They were rooted, and saplings were grown from them. The grapevines were then treated to a modi ed thermotherapy treatment for 40 days, which included 8 hours of darkness at 60-70% relative humidity and 32°C temperature and 16 hours of light (4000-5000 lux) at 60-70% relative humidity and 40°C temperature. The experimental materials were treated to shoot tip culture procedures after thermotherapy.At the end of the acclimation, all materials were tested again. At the conclusion of the testing procedures, the entire factory was virus-free. The survival rates of the grapevines differed, with 41B rootstock having a 100% survival rate and the rest having at least one survived plant out of six. When paired with rapid multiplication through in-vitro propagation, the proposed thermotherapy approach used in this study has a high potential for virus-free grapevine sapling propagation.

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Impact of coat protein on evolution of ilarviruses

Çelik,

Santosa

2024

Current Topics in Membranes

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Global Population Structure of Apple Mosaic Virus (ApMV, Genus Ilarvirus)

Cited by 5 publications

References 36 publications

Revealing an Iranian Isolate of Tomato Brown Rugose Fruit Virus: Complete Genome Analysis and Mechanical Transmission

Revealing an Iranian Isolate of Tomato Brown Rugose Fruit Virus: Complete Genome Analysis and Mechanical Transmission

European and American grapevines were successfully recovered from GFkV, GLRaV1, GLRaV2, and GLRaV3 viruses by a modified thermotherapy and shoot tip culture

Impact of coat protein on evolution of ilarviruses

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