Biological and molecular characteristics of four potato virus Y (PVY) isolates based on partial coat protein gene

شریفی نظام آباد، پریسا؛ نصراله نژاد، سعید؛ آقاجانی، محمدعلی؛ دیزجی، اکبر و ندیمی احمد (1398). بررسی شاخص های مهم مرتبط با بیماری ویروسی وای سیب زمینی (Potato virus Y) در مزارع توتون استان گلستان. آفات و بیماری های گیاهی، 87 (2)، 227- 240.

شمس الدین سعید، فاطمه؛ معصومی، حسین؛ حسینی، عاطفه؛ حسنی پور، اکبر؛ حیدرنژاد، جهانگیر؛ شعبانیان، مهدی و میرتاج‌الدینی، منصور (1387). معرفی چند میزبان جدید ویروس Y سیب‌زمینی(PVY)  در استان کرمان. هجدهمین کنگره گیاهپزشکی ایران، همدان، ایران.

طوسی، نفیسه؛ آهون منش، علی؛ پوررحیم، رضا و بهار، مسعود (1383). شناسائی نژادهای C و N ویروس Y سیب زمینی با استفاده از Reverse Transcriptase- Polymerase Chain Reaction ( RT- PCR) و Restriction Fragment Lenth Polymorphism (RFLP). شانزدهمین کنگره گیاه‌پزشکی ایران، تبریز، ایران.

REFERENCES

Adams, M. J., Zerbini, F. M., French, R., Rabenstein, F., Stenger, D. C., & Valkonen, J. P. T. (2012). Family Potyviridae. In A. M. Q. King, M. J. Adams, E. B. Carstens, & E. J. Lefkowitz (Eds.), Virus Taxonomy: Classification and Nomenclature of Viruses. Ninth Report of the International Committee on Taxonomy of Viruses (pp. 1069-1089). Elsevier. https://doi.org/10.1016/B978-0-12-384684-6.00093-8

Aguirre-Ráquira, W., Borda, D., & Hoyos-Carvajal, L. (2014). Potyvirus affecting Uchuva (Physalis peruviana L.) in Centro Agropecuario Marengo, Colombia. Agricultural Sciences, 5(10), 897-905. https://doi.org/10.4236/as.2014.510097

Ahmed, M. A., & Elci, E. (2019). Effects of Potato Virus Y strains on local tomato genotype “Sazlıca”. International Journal of Life Sciences and Biotechnology, 2(3), 205-220. https://dergipark.org.tr/en/pub/ijlsb/issue/47871/585290

Atreya, P. L., Lopez-Moya, J. J., Chu, M., Atreya, C. D., & Pirone, T. P. (1995). Mutational analysis of the coat protein N-terminal amino acids involved in potyvirus transmission by aphids. Journal of General Virology, 76(2), 265-270. https://doi.org/10.1099/0022-1317-76-2-265

Baldauf, P. M., Gray, S. M., & Perry, K. L. (2006). Biological and serological properties of Potato virus Y isolates in northeastern United States potato. Plant Disease, 90(5), 559–566. https://doi.org/10.1094/Pd-90-0559

Boonham, N., Walsh, K., Preston, S., North, J., Smith, P., & Barker, I. (2002). The detection of tuber necrotic isolates of Potato virus Y, and the accurate discrimination of PVY^O, PVY^N and PVY^C strains using RT-PCR. Journal of Virological Methods, 102(1-2), 103-112. https://doi.org/10.1016/s0166-0934(02)00008-3

Bukovinszki, A., Gotz, R., Johansen, E., Maiss, E., & Balazs, E. (2007). The role of the coat protein region in symptom formation on Physalis floridana varies between PVY strains. Virus Research, 127(1), 122-125. https://doi.org/10.1016/j.virusres.2007.03.023

Chachulska, A. M., Chrzanowska, M., Robaglia, C., & Zagórski, W. (1997). Tobacco veinal necrosis determinants are unlikely to be located within the 5′ and 3′ terminal sequences of the potato virus Y genome. Archives of Virology, 142(4), 765-779. https://doi.org/10.1007/s007050050117

Chikh-Ali, M., Bosque-Pérez, N. A., Vander Pol, D., Sembel, D., & Karasev, A. V. (2016a). Occurrence and molecular characterization of recombinant Potato virus Y^NTN isolates from Sulawesi, Indonesia. Plant Disease, 100(2), 269-275. https://doi.org/10.1094/pdis-07-15-0817-re

Chikh-Ali, M., Alruwaili, H., Vander Pol, D., & Karasev, A. V. (2016b). Molecular characterization of recombinant strains of Potato virus Y From Saudi Arabia. Plant Disease, 100(2), 292-297. https://doi.org/10.1094/pdis-05-15-0562-re Chikh-Ali, M., Maoka, T., & Natsuaki, K. T. (2007). The occurrence and characterization of new recombinant isolates of PVY displaying shared properties of PVY^NW and PVY^NTN. Journal of Phytopathology, 155(7-8), 409-415. https://doi.org/10.1111/j.1439-0434.2007.01251.x

Chikh-Ali, M., Maoka, T., Natsuaki, T., & Natsuaki, K. T. (2010). PVY^NTN‐NW, a novel recombinant strain of Potato virus Y predominating in potato fields in Syria. Plant Pathology, 59(1), 31-41. https://doi.org/10.1111/j.1365-3059.2009.02174.x

Chikh-Ali, M., Rowley, J. S., Kuhl, J., Gray, S. M., & Karasev, A. V. (2014). Evidence of a monogenic nature of the Nz gene conferring resistance against Potato virus Y strain Z (PVY^Z) in potato. American Journal of Potato Research, 91(6), 649-654. https://doi.org/10.1007/s12230-014-9395-7

Choi, H.-S., Bhat, A. I., Park, J.-W., Cheon, J.-U., Kim, J.-S., Pappu, H.-R., . . . Takanami, Y. (2004). Studies on Potato virus Y isolates infecting potato and tobacco in Korea. Journal of the Faculty of Agriculture, Kyushu University, 49(2), 253-262. https://doi.org/10.5109/4585

Chrzanowska, M. (1991). New isolates of the necrotic strain of potato virus Y (PVYN) found recently in Poland. Potato Research, 34(2), 179-182. https://doi.org/10.1007/bf02358039

Clark, M. F., & Adams, A. N. (1977). Characteristics of the microplate method of enzyme-linked immunosorbent assay for the detection of plant viruses. Journal of General Virology, 34(3), 475-483. https://doi.org/10.1099/0022-1317-34-3-475

Crescenzi, A., Fanigliulo, A., & Comes, S. (2005). Characterisation of the Potato virus Y isolate PVY-LF02 inducing necrosis in tomato. Acta Horticulturae, 695, 331–337. https://doi.org/10.17660/ActaHortic.2005.695.40

Dolja, V. V., Haldeman-Cahill, R., Montgomery, A. E., Vandenbosch, K. A., & Carrington, J. C. (1995). Capsid protein determinants involved in cell-to-cell and long distance movement of tobacco etch potyvirus. Virology, 206, 1007-1016. https://doi.org/10.1006/viro.1995.1023

Dupuis, B., Nkuriyingoma, P., & Ballmer, T. (2023). Economic impact of Potato virus Y (PVY) in Europe. Potato Research, https://doi.org/10.1007/s11540-023-09623-x

Elena, S. F., Bedhomme, S., Carrasco, P., Cuevas, J. M., de la Iglesia, F., Lafforgue, G., . . . Zwart, M. P. (2011). The evolutionary genetics of emerging plant RNA viruses. Molecular Plant-Microbe Interactions, 24(3), 287-293. https://doi.org/10.1094/mpmi-09-10-0214

Esquivel-Fariña, A., Ferro, C. G., Camelo-García, V. M., Kraide, H. D., Favara, G. M., Rezende, J. A. M., & Kitajima, E. W. (2022). Correction to: Occurrence of natural infection of Physalis peruviana with potato virus Y and pepper yellow mosaic virus in Brazil. Journal of Plant Pathology, 104(4), 1319-1319. https://doi.org/10.1007/s42161-022-01215-x

Eyvazi, A., Dizadji, A., Rastgou, M., & Koohi Habibi, M. (2015). Bioassay and phylogeny of five Iranian isolates of Cucumber mosaic virus from different hosts based on CP gene sequence. Plant Protection Science, 51(4), 200-207. https://doi.org/10.17221/80/2014-pps

Galvino-Costa, S. B. F., dos Reis Figueira, A., de Assis Câmara Rabelo-Filho, F., Moraes, F. H. R., Nikolaeva, O. V., & Karasev, A. V. (2012). Molecular and serological typing of Potato virus Y isolates from Brazil reveals a diverse set of recombinant strains. Plant Disease, 96(10), 1451-1458. https://doi.org/10.1094/pdis-02-12-0163-re

Glais, L., Tribodet, M., & Kerlan, C. (2002). Genomic variability in Potato potyvirus Y (PVY): evidence that PVY^NW and PVY^NTN variants are single to multiple recombinants between PVY^O and PVY^N isolates. Archives of Virology, 147(2), 363-378. https://doi.org/10.1007/s705-002-8325-0

Green, K. J., Brown, C. J., Gray, S. M., & Karasev, A. V. (2017a). Phylogenetic study of recombinant strains of Potato virus Y. Virology, 507, 40-52. https://doi.org/10.1016/j.virol.2017.03.018

Green, K. J., Chikh-Ali, M., Hamasaki, R. T., Melzer, M. J., & Karasev, A. V. (2017b). Potato virus Y (PVY) Isolates from Physalis peruviana are Unable to Systemically Infect Potato or Pepper and Form a Distinct New Lineage Within the PVY(C) Strain Group. Phytopathology, 107(11), 1433-1439. https://doi.org/10.1094/phyto-04-17-0147-r

Hooker, W. J. (1981). Compendium of Potato Diseases. International Potato Center.

Hosseini, A., Massumi, H., Heydarnejad, J., Hosseini Pour, A., & Varsani, A. (2011). Characterisation of potato virus Y isolates from Iran. Virus Genes, 42(1), 128-140. https://doi.org/10.1007/s11262-010-0546-8

Hosseini, H., Mehrvar, M., Zakiaghl, M., & Siampour, M. (2017). Comparative genetic diversity of potato virus Y populations based on coat protein gene. Acta Virologica, 61(2), 161-174. https://doi.org/10.4149/av_2017_02_05

Hu, X. J., Karasev, A. V., Brown, C. J., & Lorenzen, J. H. (2009). Sequence characteristics of potato virus Y recombinants. Journal of General Virology, 90, 3033–3041. https://doi.org/10.1099/Vir.0.014142-0

Joisson, C., Dubs, M. C., Briand, J. P., & Van Regenmortel, M. H. V. (1992). Detection of potyviruses with antisera to synthetic peptides. Research in Virology, 143(3), 167-178. https://doi.org/10.1016/s0923-2516(06)80101-9

Jones, R. A. C. (2009). Plant virus emergence and evolution: Origins, new encounter scenarios, factors driving emergence, effects of changing world conditions, and prospects for control. Virus Research, 141(2), 113–130. https://doi.org/10.1016/j.virusres.2008.07.028

Karasev, A. V., & Gray, S. M. (2013). Continuous and emerging challenges of Potato virus Y in potato. Annual Review of Phytopathology, 51(1), 571-586. https://doi.org/10.1146/annurev-phyto-082712-102332

Kerlan, C. (2006). Potato virus Y, Descriptions of Plant Viruses no. 414. In Association of applied biologists (AAB), UK. http://www.dpvweb.net/dpv/showadpv.php?dpvno=414

Kisten, L., Moodley, V., Gubba, A., & Mafongoya, P. L. (2016). First Report of Potato virus Y (PVY) on Physalis peruviana in South Africa. Plant Disease, 100(7), 1511-1511. https://doi.org/10.1094/pdis-12-15-1442-pdn

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), 1547-1549. https://doi.org/10.1093/molbev/msy096

Lacroix, C., Glais, L., Kerlan, C., Verrier, J. L., & Jacquot, E. (2010). Biological characterization of French Potato virus Y (PVY) isolates collected from PVY‐susceptible or ‐resistant tobacco plants possessing the recessive resistance gene va. Plant Pathology, 59(6), 1133-1143. https://doi.org/10.1111/j.1365-3059.2010.02342.x

Lefkowitz, E. J., Dempsey, D. M., Hendrickson, R. C., Orton, R. J., Siddell, S. G., & Smith, D. B. (2018). Virus taxonomy: the database of the International Committee on Taxonomy of Viruses (ICTV). Nucleic Acids Research, 46(D1), D708-D717. https://doi.org/10.1093/nar/gkx932

Lemmetty, A., Latvala, S., Jones, A. T., Susi, P., McGavin, W. J., & Lehto, K. (1997). Purification and properties of a new virus from black currant, its affinities with nepoviruses, and its close association with black currant reversion disease. Phytopathology, 87(4), 404-413. https://doi.org/10.1094/PHYTO.1997.87.4.404

Letunic, I., & Bork, P. (2021). Interactive Tree Of Life (iTOL) v5: an online tool for phylogenetic tree display and annotation. Nucleic Acids Research, 49(W1), W293-W296. https://doi.org/10.1093/nar/gkab301

Lorenzen, J., Nolte, P., Martin, D., Pasche, J. S., & Gudmestad, N. C. (2008). NE-11 represents a new strain variant class of Potato virus Y. Archives of Virology, 153(3), 517-525. https://doi.org/10.1007/s00705-007-0030-5

Lorenzen, J. H., Meacham, T., Berger, P. H., Shiel, P. J., Crosslin, J. M., Hamm, P. B., & Kopp, H. (2006). Whole genome characterization of Potato virus Y isolates collected in the western USA and their comparison to isolates from Europe and Canada. Archives of Virology, 151(6), 1055-1074. https://doi.org/10.1007/s00705-005-0707-6

Moodley, V., Naidoo, R., Gubba, A., & Mafongoya, P. L. (2019). Development of Potato virus Y (PVY) resistant pepper (Capsicum annuum L.) lines using marker-assisted selection (MAS). Physiological and Molecular Plant Pathology, 105, 96-101. https://doi.org/10.1016/j.pmpp.2018.12.002

Mostafaei, S., Mosahebi, G., Kouhi habibi, M., & Ansari dezfouli, E. (2008). Study of biological and molecular characterization of pepper-PVY isolated from Tehran pepper fields and it’s comparison with other PVY isolates. Iranian Journal of Virology, 2(4), 31-34. https://doi.org/10.21859/isv.1.4.31

Moury, B., & Simon, V. (2011). dN/dS-based methods detect positive selection linked to trade-offs between different fitness traits in the coat protein of Potato virus Y. Molecular Biology and Evolution, 28(9), 2707–2717. https://doi.org/10.1093/molbev/msr105

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. https://doi.org/10.1371/journal.pone.0108277

Ogawa, T., Nakagawa, A., Hataya, T., & Ohshima, K. (2012). The genetic structure of populations of Potato virus Y in Japan; based on the analysis of 20 full genomic sequences. Journal of Phytopathology, 160(11-12), 661-673. https://doi.org/10.1111/j.1439-0434.2012.01959.x

Ogawa, T., Tomitaka, Y., Nakagawa, A., & Ohshima, K. (2008). Genetic structure of a population of Potato virus Y inducing potato tuber necrotic ringspot disease in Japan; comparison with North American and European populations. Virus Research, 131(2), 199-212. https://doi.org/10.1016/j.virusres.2007.09.010

Pappu, S. S., Brand, R., Pappu, H. R., Rybicki, E. P., Gough, K. H., Frenkel, M. J., & Niblett, C. L. (1993). A polymerase chain reaction method adapted for selective amplification and cloning of 3' sequences of potyviral genomes: application to dasheen mosaic virus. Journal of Virological Methods, 43, 267. https://doi.org/ 10.1016/0166-0934(93)90158-n

Pourrahim, R., & Farzadfar, S. (2016). Population analysis of Iranian Potato virus Y isolates using complete genome sequence. The Plant Pathology Journal, 32(1), 33-46. https://doi.org/10.5423/PPJ.OA.07.2015.0144

Pourrahim, R., Farzadfar, S., Golnaraghi, A. R., & Ahoonmanesh, A. (2007). Incidence and distribution of important viral pathogens in some Iranian potato fields. Plant Disease, 91(5), 609–615. https://doi.org/10.1094/Pdis-91-5-0609

Quenouille, J., Vassilakos, N., & Moury, B. (2013). Potato virus Y: a major crop pathogen that has provided major insights into the evolution of viral pathogenicity. Molecular Plant Pathology, 14(5), 439–452. https://doi.org/10.1111/Mpp.12024

Revers, F., Le Gall, O., Candresse, T., Le Romancer, M., & Dunez, J. (1996). Frequent occurrence of recombinant potyvirus isolates. Journal of General Virology, 77, 1953–1965. https://doi.org/10.1099/0022-1317-77-8-1953

Rojas, M. R., Zerbini, F. M., Allison, R. F., Gilbertson, R. L., & Lucas, W. J. (1997). Capsid protein and helper component-proteinase function as potyvirus cell-to-cell movement proteins. Virology, 237, 283-295. https://doi.org/10.1006/viro.1997.8777

Sadeghi, M. S., Behjatnia, S. A. A., Masumi, M., & Izadpanah, K. (2008). Characterisation of a strain of Potato virus Y causing eggplant mosaic in southern Iran. Australasian Plant Pathology, 37(1), 79–86. https://doi.org/10.1071/ap07087

Scholthof, K. B., Adkins, S., Czosnek, H., Palukaitis, P., Jacquot, E., Hohn, T., . . . Foster, G. D. (2011). Top 10 plant viruses in molecular plant pathology. Molecular Plant Pathology, 12(9), 938-954. https://doi.org/10.1111/j.1364-3703.2011.00752.x

Schubert, J., Fomitcheva, V., & Sztangret-Wisniewska, J. (2007). Differentiation of Potato virus Y strains using improved sets of diagnostic PCR-primers. Journal of Virological Methods, 140(1-2), 66-74. https://doi.org/10.1016/j.jviromet.2006.10.017

Shamsaddin Saeed, F., Massumi, F., Hosseini, A., Hosseini Pour, A., Heydarnejad, M., Shaabanian, M., & Mirtajeddini, S. M. (2008, Aug). Some new hosts of Potato virus Y in Kerman 18^th Iranian Plant Protection Congress, Hamedan, Iran.  (In Persian)

Sharifi-Nezamabad, P., Nasrollanejad, S., Aghajani, M. A., Dizadji, A., & Nadimi, A. (2020). Investigating the Potato virus Y main disease indicators in tobacco fields of Golestan province. Journal of Applied Entomology and Phytopathology, 87(2), 227-240. https://doi.org/10.22092/jaep.2019.127197.1297  (In Persian).

Singh, R. P., Valkonen, J. P., Gray, S. M., Boonham, N., Jones, R. A., Kerlan, C., & Schubert, J. (2008). Discussion paper: The naming of Potato virus Y strains infecting potato. Archives of Virology, 153(1), 1-13. https://doi.org/10.1007/s00705-007-1059-1

Sokhansanj, Y., Rakhshandehroo, F., & Pourrahim, R. (2012). First report of Tomato ringspot virus infecting pepper in Iran. Plant Disease, 96(12), 1828-1828. https://doi.org/10.1094/pdis-07-12-0664-pdn

Tian, Y. P., Hepojoki, J., Ranki, H., Lankinen, H., & Valkonen, J. P. (2014). Analysis of potato virus Y coat protein epitopes recognized by three commercial monoclonal antibodies. PLoS ONE, 9(12), e115766. https://doi.org/10.1371/journal.pone.0115766

Toosi, N., Ahoonmanesh, A., Pourrahim, R., & Bahar, M. (2004). Detection of Potato Virus Y (PVY) C and N strains by reverse-transcriptase- polymerase chain reaction (RT-PCR) and restriction fragment length polymorphism (RFLP) 16^th Iranian Plant Protection Congress, Tabriz, Iran.  (In Persian)

Tsedaley, B. (2015). A review paper on Potato virus Y (PVY) biology, economic importance and its managements. Journal of Biology, Agriculture and Healthcare, 5, 110-126.

van der Vlugt, R. A. A., Leunissen, J., & Goldbach, R. (1993). Taxonomic relationships between distinct potato virus Y isolates based on detailed comparisons of the viral coat proteins and 3′-nontranslated regions. Archives of Virology, 131(3-4), 361-375. https://doi.org/10.1007/bf01378638

Visser, J. C., & Bellstedt, D. U. (2009). An assessment of molecular variability and recombination patterns in South African isolates of Potato virus Y. Archives of Virology, 154(12), 1891-1900. https://doi.org/10.1007/s00705-009-0525-3

Wylie, S. J., Adams, M., Chalam, C., Kreuze, J., López-Moya, J. J., Ohshima, K., . . . Wang, A. (2017). ICTV virus taxonomy profile: Potyviridae. Journal of General Virology, 98(3), 352. https://doi.org/10.1099/jgv.0.000740