New natural hosts and phylogenetic analysis of five Tomato yellow leaf curl virus isolates and associated satellites in Kerman province

Document Type : Research Article

Authors

1 Lecturer of university of Jiroft

2 Department of Plant Protection, College of Agriculture, Shahid Bahonar University of Kerman, Kerman 7616914111, Iran

3 Department of Plant Protection, College of Agriculture, Shahid Bahonar University of Kerman, Kerman, Iran.

4 Department of Plan Protection, College of Agriculture, Shahid Bahonar University of Kerman, Kerman, Iran.

Abstract

Tomato yellow leaf curl virus (TYLCV) is one of the most important tomato infecting viruses worldwide. In this study, symptomatic plant samples of Moldavian dragonhead (Dracocephalum moldavica L.), broad bean, soybean, basil and euphorbia (Euphorbia sp. L.) were collected from Jiroft farms (Kerman province) in 2018-2019 and TYLCV infection as well as association of Tomato leaf curl betasatellite (ToLCB) and/or Gossypium darwinii symptomless alphasatellite (GDarSLA) with some of the samples were identified. Complete nucleotide sequences of the genome of five selected TYLCV isolates obtained from five plant hosts shared identities of 90-99% with each other and 88-97 with the selected GenBank isolates of TYLCV. Furthermore, the genome of ToLCB isolates from Moldavian dragonhead, broad bean, soybean and basil shared identities of 96-99% with each other and 94-95% with the counterpart betasatellite molecules from the GenBank database. Nucleotide sequence of GDarSLA, identified in soybean shared 93-98% identities with two Iranian GenBank isolates of GDarSLA. The above five plants are reported as new natural hosts of TYLCV, ToLCB and/or GDarSLA in Iran and also Moldavian dragonhead as well as broad bean are reported as new natural hosts of the virus in the world. Results of the current study indicate that TYLCV and the associated betasatellite have a wide distribution in Jiroft farms (Kerman province).

Keywords

References

Abraham P., Banwo O.O., Kashina B.D., Alegbejo M.D. 2021. Identification of weed hosts of Tomato yellow leaf curl virus in field-grown tomato in Sudan savanna, Nigeria. International Journal of Horticultural Science and Technology 8(3): 235-246.
Altschul S.F., Gish W., Miller W., Myers E.W., Lipman D.J. 1990. Basic local alignment search tool. Journal of Molecular Biology 215(3): 403-10.
Ammara U.E., Al-Ansari M., Al-Shihi A., Amin I., Mansoor S., Al-Maskri A.Y., Al-Sadi A.M. 2015. Association of three begomoviruses and a betasatellite with leaf curl disease of basil in Oman. Canadian Journal of Plant Pathology 37(4): 506-513.
Bananej K., Kheyr-Pour A., Hossieni G., Ahoonmanesh A. 2004. Complete nucleotide sequence of Iranian tomato yellow leaf curl virus isolate: further evidence for natural recombination amongst begomoviruses. Archives of Virology 149: 1435–1443.
Bananej K., Kraberger S., Varsani A. 2016. Okra enation leaf curl virus in papaya from Iran displaying severe leaf curl symptoms. Journal of Plant Pathology 98(3): 637-639.
Bananej K., Shafiq M., Shahid M.S. 2021. Association of cotton leaf curl Gezira virus with tomato leaf curl betasatellite infecting Carica papaya in Iran. Australasian Plant Disease Notes 16(1): 1-4.
 
Behjatnia A., Izadpanah K., Dry I.B., Rezaian A. 2003. Molecular characterization and taxonomic position of the Iranian isolate of Tomato leaf curl virus. Iranian Journal of Plant Pathology 40: 77–94
Briddon R.W., Bull S.E., Mansoor S., Amin I., Markham P. G. 2002. Universal primers for the PCR-mediated amplification of DNA β; a molecule associated with some monopartite begomoviruses. Molecular Biotechnology 20: 315–318.
Brown J.K. Fauquet C.M. Briddon R.W. Zerbini M., Moriones E., Navas-Castillo J. 2012. Geminiviridae. pp 351–373. In: King A.M.Q., Adams M.J., Carstens E.B. and Lefkowitz E.J. (Eds.), Virus taxonomy: classification and nomenclature of viruses: ninth report of the International Committee on Taxonomy of Viruses. Elsevier/Academic Press, San Diego, USA.
Brown J.K., Zerbini F.M., Navas-Castillo J., Moriones E., Ramos-Sobrinho R., Silva J.C., Fiallo-Olivé E., Briddon R.W., Hernández-Zepeda C., Idris A., Malathi V.G., Martin D.P., Rivera-Bustamante R., Ueda S., Varsani A. 2015. Revision of Begomovirus taxonomy based on pairwise sequence comparisons. Archives of Virology 160(6): 1593-619.
Deng D., McGrath P.F., Robinson D.J., Harrison B.D. 1994. Detection and differentiation of whitefly-transmitted geminiviruses in plants and vector insects by the polymerase chain reaction with degenerate primers. Annals of Applied Biology 125(2): 327–336.
Edgar R.C. 2004. MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Research 32(5): 1792-7.
Fazeli R., Heydarnejad J., Massumi H., Shaabanian M., Varsani A. 2009. Genetic diversity and distribution of tomato-infecting begomoviruses in Iran. Virus Genes 38: 311–319.
Fiallo-Olivé E., Lett J.M., Martin D.P., Roumagnac P., Varsani A., Zerbini F.M., Navas-Castillo J. 2021. ICTV virus taxonomy profile: Geminiviridae. Journal of General Virology 102(12): 001696.
Gnanasekaran P., Chakraborty S. 2018. Biology of viral satellites and their role in pathogenesis. Current Opinion in Virology 33: 96-105.
Gnanasekaran P., Ponnusamy K., Chakraborty S. 2019. A geminivirus betasatellite encoded βC1 protein interacts with PsbP and subverts PsbP-mediated antiviral defense in plants. Molecular Plant Pathology 20(7): 943-960.
Hajimorad M.R, Kheyr‐Pour A., Alavi V., Ahoonmanesh A., Bahar M., Rezaian M.A., Gronenborn B. 1996. Identification of whitefly transmitted tomato yellow leaf curl geminivirus from Iran and a survey of its distribution with molecular probes. Plant Pathology 45(3): 418-25.
Hamza M., Tahir M.N., Mustafa R., Kamal H., Khan M.Z., Mansoor S., Briddon R.W., Amin I. 2018. Identification of a dicot infecting mastrevirus along with alpha- and betasatellite associated with leaf curl disease of spinach (Spinacia oleracea) in Pakistan. Virus Research 256: 174-182.
Heydarnejad J., Hesari M., Massumi H., Varsani A. 2013. Incidence and natural hosts of Tomato leaf curl Palampur virus in Iran. Australasian Plant Pathology 42: 195-203.
Heydarnejad J., Kamali M., Hassanvand V., Massumi H., Shamshiri M. and Varsani A. 2018. Turnip leaf curl disease associated with two begomoviruses in south-eastern Iran. Tropical Plant Pathology 43: 165-169.
Heydarnejad J., Mozaffari A., Massumi H., Fazeli R., Gray A.J., Meredith S., Lakay F., Shepherd D.N., Martin D.P., Varsani A. 2009. Complete sequences of tomato leaf curl Palampur virus isolates infecting cucurbits in Iran. Archives of Virology 154(6): 1015-8.
Hosseinzadeh M.R., Shams-Bakhsh M., Kazempour-Osalou S.H. 2014. Full-length genome sequencing and phylogeny of severe strain isolates of Tomato yellow leaf curl virus (TYLCV-IL) originating from Datura stramonium L. in Bojnurd region, Iran. Agricultural Biotechnology Journal 6(1): 61-76.
Khan A.J., Idris A.M, Al-Saady N.A., Al-Mahruki M.S., Al-Subhi A.M, Brown J.K. 2008. A divergent isolate of tomato yellow leaf curl virus from Oman with an associated DNA beta satellite: an evolutionary link between Asian and the Middle Eastern virus-satellite complexes. Virus Genes 36: 169–176.
Kil E.J., Park J., Choi H.S., Kim C.S., Lee S. 2017. Seed transmission of Tomato yellow leaf curl virus in white soybean (Glycine max). The Plant Pathology Journal 33(4): 424-428.
Kumar J., Kumar J., Singh S.P., Tuli R., 2014. Association of satellites with a mastrevirus in natural infection: complexity of wheat dwarf India virus disease. Journal of Virology 88: 7093-7104.
Kumar S., Stecher G., Li M., Knyaz C., Tamura K. 2018. MEGA X: molecular evolutionary genetics analysis across computing platforms. Molecular Biology and Evolution 35(6):1547.
Lefeuvre P., Martin D.P., Harkins G., Lemey P., Gray A.J.A. Meredith S., Lakay F., Monjane A., Lett J.M., Varsani A., Heydarnejad J. 2010. The spread of Tomato yellow leaf curl virus from the Middle East to the world. PLoS Pathogens 6(10): 1-12.
Kheyr-Pour A., Bananej K., Dafalla G.A., Caciagli P., Noris E., Ahoonmanesh A,. Lecoq H., Gronenborn B. 2000. Watermelon chlorotic stunt virus from the Sudan and Iran: Sequence comparisons and identification of a whitefly-transmission determinant. Phytopathology 90: 629-635.
Martin D.P., Varsani A., Roumagnac P., Botha G., Maslamoney S., Schwab T., Kelz Z., Kumar V., Murrell B. 2021. RDP5: A computer program for analyzing recombination in, and removing signals of recombination from, nucleotide sequence datasets. Virus Evolution 7: veaa087.
Muhire B.M., Varsani A., Martin D.P. 2014. SDT: a virus classification tool based on pairwise sequence alignment and identity calculation. PloS one 9(9): e108277.
Papayiannis L.C., Katis N.I., Idris A.M., Brown J.K. 2011. Identification of weed hosts of Tomato yellow leaf curl virus in Cyprus. Plant Disease 95: 120–5.
Rojas M.R., Gilbertson R.I., Russell D.R., Maxwell D.P. 1993. Use of degenerate primers in the polymerase chain reaction to detect whitefly-transmitted geminiviruses. Plant Disease 77: 340-347.
Roumagnac P., Lett J.M., Fiallo-Olivé E., Navas-Castillo J., Zerbini F.M., Martin D.P., Varsani A. 2022. Establishment of five new genera in the family Geminiviridae: Citlodavirus, Maldovirus, Mulcrilevirus, Opunvirus, and Topilevirus. Archives of Virology 167(2): 695-710.
Salari Kh., Heydarnejad J., Massumi H. and Varsani A. 2023. Incidence of cotton leaf curl Gezira virus and the associated alphasatellites and betasatellites in crops and ornamental plants in southern Iran. Tropical Plant Pathology 48: 62-72.
Salehzadeh M., Afsharifar A., Dehghanpour Farashah S., Rezaei M. 2022. The first report of the Chilli leaf curl virus and its betasatellite from bell peppers and tomatoes from the central provinces of Iran. Iranian Journal of Plant Pathology 57:337–341.
Shamshiri M., Heydarnejad J., Kamali M., Pouramini N., Massumi H. 2019. Identification of wild hosts of tomato yellow leaf curl virus in south-eastern Iran. Archives of Phytopathology and Plant Protection 52(9-10): 917-929.
Shepherd D.N., Martin D.P., Lefeuvre P., Monjane A.L., Owor B.E., Rybicki E.P., Varsani A. 2008. A protocol for the rapid isolation of full geminivirus genomes from dried plant tissue. Journal of Virological Methods 149(1): 97-102.
Varma A., Malathi V.G. 2003. Emerging geminivirus problems: a serious threat to crop production. Annals of Applied Biology 142(2): 145-64.
Yazdani-Khameneh S., Aboutorabi S., Shoori M., Aghazadeh A., Jahanshahi P., Golnaraghi A., Maleki M. 2016. Natural occurrence of Tomato leaf curl New Delhi virus in Iranian cucurbit crops. The Plant Pathology Journal 32(3): 201-208.
Zhang Y.P., Uyemoto J.K., Kirkpatrick B.C. 1998. A small-scale procedure for extracting nucleic acids from woody plants infected with various phytopathogens for PCR assay. Journal of Virological Methods 71(1): 45-50.
Iranian Journal of Plant Pathology
Volume 58, Issue 2
September 2023
Pages 60-76

Files

Share

How to cite

Statistics