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Evolutionary Analysis of Tomato Brown Rugose Fruit Virus Reveals Purifying Selection on the Coat Protein Gene | ||
| Journal of Genetic Resources | ||
| دوره 12، شماره 1، 2026، صفحه 84-93 اصل مقاله (370.66 K) | ||
| نوع مقاله: Research Article | ||
| شناسه دیجیتال (DOI): 10.22080/jgr.2026.31520.1461 | ||
| نویسندگان | ||
| Mahsa Mostafavi؛ Sahar Kordbacheh؛ Parastoo Pouraziz؛ Davoud Koolivand* | ||
| Department of Plant Protection, Faculty of Agriculture, University of Zanjan, Zanjan, Iran | ||
| تاریخ دریافت: 21 فروردین 1405، تاریخ بازنگری: 08 خرداد 1405، تاریخ پذیرش: 04 تیر 1405 | ||
| چکیده | ||
| Tomato (Solanum lycopersicum) is one of the world’s most economically important vegetable crops, yet its productivity is increasingly threatened by viral pathogens that reduce yield and fruit quality. Among emerging viruses, tomato brown rugose fruit virus (ToBRFV), a member of the genus Tobamovirus, has become a global concern due to its rapid mechanical and seed transmission and its capacity to infect both greenhouse and open-field tomato production systems. This study aimed to characterize the genetic diversity and evolutionary dynamics of ToBRFV populations in Iran using complete coat protein (CP) gene sequences. Twenty-eight symptomatic tomato samples were collected from greenhouses in located in Bam and Qanad , Kerman Province, of which five were confirmed as ToBRFV-positive via PCR targeting a 620 bp fragment of the CP gene. Phylogenetic analysis was performed using the Maximum Likelihood method in MEGA (Version 12.1), whereas population genetic parameters and neutrality tests (Tajima’s D; Fu and Li’s D and F) were estimated using DnaSP. Recombination events were assessed using multiple algorithms implemented in RDP4 (Version 4.8). The Iranian isolates exhibited high haplotype diversity (Hd = 0.9) but low nucleotide diversity (π = 0.01375), indicating substantial haplotypic variation despite overall sequence conservation. A dN/dS ratio of 0.598 indicated that the CP gene is under purifying selection, and no statistically supported recombination events were detected. These findings demonstrate that ToBRFV populations in Iran maintain considerable genetic diversity at the haplotype level while preserving evolutionary stability in the CP gene, reflecting its functional constraints and importance in viral fitness. | ||
| کلیدواژهها | ||
| Coat protein؛ Genetic diversity؛ Phylogenetic analysis؛ Tobamovirus؛ Tomato brown rugose fruit virus | ||
| مراجع | ||
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Abrahamian, P., Cai, W., Nunziata, S. O., Ling, K.-S., Jaiswal, N., Mavrodieva, V. A., Rivera, Y., & Nakhla, M. K. (2022). Comparative analysis of tomato brown rugose fruit virus isolates shows limited genetic diversity. Viruses, 14(12), 2816. https://www.mdpi.com/1999-4915/14/12/2816
Baenas, N., Belović, M., Ilic, N., Moreno, D. A., & García-Viguera, C. (2019). Industrial use of pepper (Capsicum annum L.) derived products: Technological benefits and biological advantages. Food Chemstry, 274, 872-885. https://doi.org/10.1016/j.foodchem.2018.09.047
Çelik, A., Coşkan, S., Morca, A. F., Santosa, A. I., & Koolivand, D. (2022). Insight into population structure and evolutionary analysis of the emerging tomato brown rugose fruit virus. Plants, 11(23), 3279. https://doi.org/10.3390/plants11233279
Davino, S., Caruso, A. G., Bertacca, S., Barone, S., & Panno, S. (2020). Tomato brown rugose fruit virus: Seed transmission rate and efficacy of different seed disinfection treatments. Plants, 9(11), 1615. https://doi.org/10.3390/plants9111615
Elena, S. F., & Sanjuán, R. (2005). Adaptive value of high mutation rates of RNA viruses: Separating causes from consequences. Journal of Virology, 79(18), 11555-11558. https://doi.org/10.1128/JVI.79.18.11555-11558.2005
Esmaeilzadeh, F., Koolivand, D. (2021). Occurrence of tomato brown rugose fruit virus in tomato in Iran. Journal of Plant Pathology, 104(3) 457. https://doi.org/10.1007/s42161-021-01009-7
Esmaeilzadeh, F., Koolivand, D. (2022). First report of tomato brown rugose fruit virus infecting bell pepper in Iran. Journal of Plant Pathology, 104(2) 893. https://doi.org/10.1007/s42161-022-01094-2
Esmaeilzadeh, F., Santosa, A. I., Çelik, A., & Koolivand, D. (2023a). Revealing an Iranian isolate of tomato brown rugose fruit virus: Complete genome analysis and mechanical transmission. Microorganisms, 11(10), 2434. https://doi.org/10.3390/microorganisms11102434
Esmaeilzadeh, F., & Koolivand, D. (2023b). Co-infection of tomato brown rugose fruit virus and tomato spotted wilt virus in pepper from Iran. Journal of Plant Pathology, 105(4), 1129–1134. https://doi.org/10.1007/s42161-023-01436-8
Fougere, G. C., Xu, D., Gaiero, J. R., McCreary, C., Marchand, G., Despres, C., Wang, A., Fall, M. L., & Griffiths, J. S. (2025). Genomic diversity of tomato brown rugose fruit virus in Canadian greenhouse production systems. Viruses, 17(5), 696. https://doi.org/10.3390/v17050696
Fu, Y.-X., & Li, W.-H. (1993). Statistical tests of neutrality of mutations. Genetics, 133(3), 693-709. https://doi.org/10.1093/genetics/133.3.693
Gambino, G., Perrone, I., & Gribaudo, I. (2008). A rapid and effective method for RNA extraction from different tissues of grapevine and other woody plants. Phytochemical Analysis, 19(6), 520-525. https://doi.org/10.1002/pca.1078
Ghorbani, A., Rostami, M., Seifi, S., & Izadpanah, K. (2021). First report of tomato brown rugose fruit virus in greenhouse tomato in Iran. New Disease Reports, 44, e12040. https://doi.org/10.1002/ndr2.12040
Hak, H., & Spiegelman, Z. (2021). The tomato brown rugose fruit virus movement protein overcomes Tm-2² resistance in tomato while attenuating viral transport. Molecular Plant-Microbe Interactions, 34(9), 1024-1032. https://doi.org/10.1094/MPMI-01-21-0023-R
Hanssen, I. M., & Lapidot, M. (2012). Major tomato viruses in the Mediterranean basin. Advances in Virus Research, 84, 31-66. https://doi.org/10.1016/B978-0-12-394314-9.00002-6
Hudson, R. R. (2000). A new statistic for detecting genetic differentiation. Genetics, 155(4), 2011-2014. https://doi.org/10.1093/genetics/155.4.2011
Ishibashi, K., & Ishikawa, M. (2016). Replication of tobamovirus RNA. Annual Review of Phytopathology, 54, 55-78. https://doi.org/10.1146/annurev-phyto-080615-100217
Jones, R. A. C., & Naidu, R. A. (2019). Global dimensions of plant virus diseases: Current status and future perspectives. Annual Review of Virology, 6(1), 387-409. https://doi.org/10.1146/annurev-virology-092818-015606
Knapp, E., & Lewandowski, D. J. (2001). Tobacco mosaic virus, not just a single component virus anymore. Molecular Plant Pathology, 2(3), 117-123. https://doi.org/10.1046/j.1364-3703.2001.00064.x
Larkin, M. A., Blackshields, G., Brown, N. P., Chenna, R., McGettigan, P. A., McWilliam, H., Valentin, F., Wallace, I. M., Wilm, A., & Lopez, R. (2007). Clustal W and Clustal X version 2.0. Bioinformatics, 23(21), 2947-2948. https://doi.org/10.1093/bioinformatics/btm404
Lanfermeijer, F. C., Jiang, G., Ferwerda, M. A., Dijkhuis, J., de Haan, P., Yang, R., & Hille, J. (2004). The durable resistance gene Tm-22 from tomato confers resistance against ToMV in tobacco and preserves its viral specificity. Plant Science, 167(4), 687-692. https://doi.org/10.1016/j.plantsci.2004.04.027
Oladokun, J., Halabi, M., Barua, P., & Nath, P. (2019). Tomato brown rugose fruit disease: Current distribution, knowledge and future prospects. Plant Pathology, 68(9), 1579-1586. https://doi.org/10.1111/ppa.13062
Olmstead, R. G. (1996). Molecular systematics (2nd ed.), edited by David M. Hillis, Craig Moritz, and Barbara K. Mable. Systematic Biology, 45(4), 607-608. https://doi.org/10.1093/sysbio/45.4.607
Panno, S., Caruso, A. G., Barone, S., Lo Bosco, G., Rangel, E. A., & Davino, S. (2020). Spread of tomato brown rugose fruit virus in Sicily and evaluation of the spatiotemporal dispersion in experimental conditions. Agronomy, 10(6), 834. https://doi.org/10.3390/agronomy10060834
Rozas, J., Ferrer-Mata, A., Sánchez-DelBarrio, J. C., Guirao-Rico, S., Librado, P., Ramos-Onsins, S. E., & Sánchez-Gracia, A. (2017). DnaSP 6: DNA sequence polymorphism analysis of large data sets. Molecular Biology and Evolution, 34(12), 3299-3302. https://doi.org/10.1093/molbev/msx248
Salem, N., Mansour, A., Ciuffo, M., Falk, B. W., & Turina, M. (2016). A new tobamovirus infecting tomato crops in Jordan. Archives of Virology, 161(2), 503-506. https://doi.org/10.1007/s00705-015-2677-7
Salem, N. M., Sulaiman, A., Samarah, N., Turina, M., & Vallino, M. (2022). Localization and mechanical transmission of tomato brown rugose fruit virus in tomato seeds. Plant Disease, 106(1), 275-281. https://doi.org/10.1094/PDIS-11-20-2413-RE
Tajima, F. (1989). Statistical method for testing the neutral mutation hypothesis by DNA polymorphism. Genetics, 123(3), 585-595. https://doi.org/10.1093/genetics/123.3.585
Tamura, K. (1992). Estimation of the number of nucleotide substitutions when there are strong transition-transversion and G + C-content biases. Molecular Biology and Evolution, 9(4), 678-687. https://doi.org/10.1093/oxfordjournals.molbev.a040752
Tamura, K., Stecher, G., & Kumar, S. (2021). MEGA11: Molecular evolutionary genetics analysis version 11. Molecular Biology and Evolution, 38(7), 3022-3027. https://doi.org/10.1093/molbev/msab120
van de Vossenberg, B., Visser, M., Bruinsma, M., Koenraadt, H. M. S., Westenberg, M., & Botermans, M. (2020). Real-time tracking of tomato brown rugose fruit virus (ToBRFV) outbreaks in the Netherlands using Nextstrain. PLoS One, 15(10), e0234671. https://doi.org/10.1371/journal.pone.0234671
Yan, Z. Y., Ma, H. Y., Wang, L., Tettey, C., Zhao, M. S., Geng, C., Tian, Y. P., & Li, X. D. (2021). Identification of genetic determinants of tomato brown rugose fruit virus that enable infection of plants harbouring the Tm-2² resistance gene. Molecular Plant Pathology, 22(11), 1347-1357. https://doi.org/10.1111/mpp.13115
Zhang, S., Griffiths, J. S., Marchand, G., Bernards, M. A., & Wang, A. (2022). Tomato brown rugose fruit virus: An emerging and rapidly spreading plant RNA virus that threatens tomato production worldwide. Molecular Plant Pathology, 23(9), 1262-1277. https://doi.org/10.1111/mpp.13229 | ||
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