The Plant Pathology Journal

한국식물병리학회 (The Korean Society of Plant Pathology)
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Complete Genome Sequencing and Infectious cDNA Clone Construction of Soybean Mosaic Virus Isolated from Shanxi

  • Wang, Defu (College of Life Sciences, Shanxi Agricultural University) ;
  • Cui, Liyan (College of Grassland Science, Shanxi Agricultural University) ;
  • Zhang, Li (College of Grassland Science, Shanxi Agricultural University) ;
  • Ma, Zhennan (College of Life Sciences, Shanxi Agricultural University) ;
  • Niu, Yanbing (College of Life Sciences, Shanxi Agricultural University)
  • 투고 : 2020.11.10
  • 심사 : 2021.03.01
  • 발행 : 2021.04.01
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초록

Soybean mosaic virus (SMV) is the predominant viral pathogen that affects the yield and quality of soybean. The natural host range for SMV is very narrow, and generally limited to Leguminosae. However, we found that SMV can naturally infect Pinellia ternata and Atractylodes macrocephala. In order to clarify the molecular mechanisms underlying the cross-family infection of SMV, we used double-stranded RNA extraction, rapid amplification of cDNA ends polymerase chain reaction and Gibson assembly techniques to carry out SMV full-length genome amplification from susceptible soybeans and constructed an infectious cDNA clone for SMV. The genome of the SMV Shanxi isolate (SMV-SX) consists of 9,587 nt and encodes a polyprotein consisting of 3,067 aa. SMV-SX and SMV-XFQ008 had the highest nucleotide and amino acid sequence identities of 97.03% and 98.50%, respectively. A phylogenetic tree indicated that SMV-SX and SMV-XFQ018 were clustered together, sharing the closest relationship. We then constructed a pSMV-SX infectious cDNA clone by Gibson assembly technology and used this clone to inoculate soybean and Ailanthus altissima; the symptoms of these hosts were similar to those caused by the virus isolated from natural infected plant tissue. This method of construction not only makes up for the time-consuming and laborious defect of traditional methods used to construct infectious cDNA clones, but also avoids the toxicity of the Potyvirus special sequence to Escherichia coli, thus providing a useful cloning strategy for the construction of infectious cDNA clones for other viruses and laying down a foundation for the further investigation of SMV cross-family infection mechanisms.

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참고문헌

  1. Ahlquist, P., French, R., Janda, M. and Loesch-Fries, L. S. 1984. Multicomponent RNA plant virus infection derived from cloned viral cDNA. Proc. Natl. Acad. Sci. U. S. A. 81:7066-7070. https://doi.org/10.1073/pnas.81.22.7066
  2. Bedoya, L. C. and Daròs, J. A. 2010. Stability of tobacco etch virus infectious clones in plasmid vectors. Virus Res. 149:234-240. https://doi.org/10.1016/j.virusres.2010.02.004
  3. Boyer, J. C. and Haenni, A. L. 1994. Infectious transcripts and cDNA clones of RNA viruses. Virology 198:415-426. https://doi.org/10.1006/viro.1994.1053
  4. Chapman, S., Kavanagh, T. and Baulcombe, D. 1992. Potato virus X as a vector for gene expression in plants. Plant J. 2:549-557. https://doi.org/10.1046/j.1365-313X.1992.t01-24-00999.x
  5. Chiang, C.-H., Lee, C.-Y., Wang, C.-H., Jan, F.-J., Lin, S.-S., Chen, T.-C., Raja, J. A. J. and Yeh, S.-D. 2007. Genetic analysis of an attenuated papaya ringspot virus strain applied for cross-protection. Eur. J. Plant Pathol. 118:333-348. https://doi.org/10.1007/s10658-007-9130-z
  6. Chiang, C.-H. and Yeh, S.-D. 1997. Infectivity assays of in vitro and in vivo transcripts of papaya ringspot potyvirus. Bot. Bull. Acad. Sin. 38:153-163.
  7. Chikh Ali, M., Said Omar, A. and Natsuaki, T. 2011. An infectious full-length cDNA clone of potato virus YNTN-NW, a recently reported strain of PVY that causes potato tuber necrotic ringspot disease. Arch. Virol. 156:2039-2043. https://doi.org/10.1007/s00705-011-1062-4
  8. Cui, L.-Y., Pang, X.-J., Qi, Y.-H., Wang, B.-X., Wang, D.-F. and Niu, Y.-B. 2018. Identification of the pathogens of Pinellia ternata virus by small RNA deep sequencing. Chin. J. Biochem. Mol. Biol. 34:1334-1341 (in Chinese).
  9. Dolja, V. V., McBride, H. J. and Carrington, J. C. 1992. Tagging of plant potyvirus replication and movement by insertion of β-glucuronidase into the viral polyprotein. Proc. Natl. Acad. Sci. U. S. A. 89:10208-10212. https://doi.org/10.1073/pnas.89.21.10208
  10. Domier, L. L., Franklin, K. M., Hunt, A. G., Rhoads, R. E. and Shaw, J. G. 1989. Infectious in vitro transcripts from cloned cDNA of a potyvirus, tobacco vein mottling virus. Proc. Natl. Acad. Sci. U. S. A. 86:3509-3513. https://doi.org/10.1073/pnas.86.10.3509
  11. Flasinski, S., Gunasinghe, U. B., Gonzales, R. A. and Cassidy, B. G. 1996. The cDNA sequence and infectious transcripts of peanut stripe virus. Gene 171: 299-300. https://doi.org/10.1016/0378-1119(96)00010-8
  12. Flatken, S., Ungewickell, V., Menzel, W. and Maiss, E. 2008. Construction of an infectious full-length cDNA clone of potato virus M. Arch. Virol. 153:1385-1389. https://doi.org/10.1007/s00705-008-0127-5
  13. Galiakparov, N., Tanne, E., Sela, I. and Gafny, R. 2003. Functional analysis of the grapevine virus A genome. Virology 306:42-50. https://doi.org/10.1016/S0042-6822(02)00019-3
  14. Gal-On, A., Antignus, Y., Rosner, A. and Raccah, B. 1991. Infectious in vitro RNA transcripts derived from cloned cDNA of the cucurbit potyvirus, zucchini yellow mosaic virus. J. Gen. Virol. 72:2639-2643. https://doi.org/10.1099/0022-1317-72-11-2639
  15. Hellens, R. P., Edwards, E. A., Leyland, N. R., Bean, S. and Mullineaux, P. M. 2000. pGreen: a versatile and flexible binary Ti vector for Agrobacterium-mediated plant transformation. Plant Mol. Biol. 42:819-832. https://doi.org/10.1023/A:1006496308160
  16. Jakab, G., Droz, E., Brigneti, G., Baulcombe, D. and Malnoe, P. 1997. Infectious in vivo and in vitro transcripts from a fulllength cDNA clone of PVY-N605, a Swiss necrotic isolate of potato virus Y. J. Gen. Virol. 78:3141-3145. https://doi.org/10.1099/0022-1317-78-12-3141
  17. Johansen, I. E. and Lund, O. S. 2008. Insertion of introns: a strategy to facilitate assembly of infectious full length clones. Methods Mol. Biol. 451:535-544. https://doi.org/10.1007/978-1-59745-102-4_36
  18. Kang, M., Seo, J.-K., Choi, H., Choi, H.-S. and Kim, K.-H. 2016. Establishment of a simple and rapid gene delivery system for cucurbits by using engineered of Zucchini yellow mosaic virus. Plant Pathol. J. 32:70-76. https://doi.org/10.5423/PPJ.NT.08.2015.0173
  19. Kim, K.-S., Oh, H.-Y., Suranto, S., Nurhayati, E., Gough, K. H., Shukla, D. D. and Pallaghy, C. K. 2003. Infectivity of in vitro transcripts of Johnsongrass mosaic potyvirus full-length cDNA clones in maize and sorghum. Arch. Virol. 148:563-574. https://doi.org/10.1007/s00705-002-0942-z
  20. Kondo, T. and Fujita, T. 2012. Complete nucleotide sequence and construction of an infectious clone of Chinese yam necrotic mosaic virus suggest that macluraviruses have the smallest genome among members of the family Potyviridae. Arch. Virol. 157:2299-2307. https://doi.org/10.1007/s00705-012-1429-1
  21. Kou, L., Zhao, H., Wang, D., Guo, S. and Niu, Y. 2017. Molecular identification of pathogens infecting Bupleurum chinese. Chin. J. Virol. 33:610-616 (in Chinese).
  22. Krajacic, M., Ivancic-Jelecki, J., Forcic, D., Vrdoljak, A. and Skoric, D. 2007. Purification of plant viral and satellite double-stranded RNAs on DEAE monoliths. J. Chromatogr A. 1144:111-119. https://doi.org/10.1016/j.chroma.2006.11.081
  23. Lee, M. Y., Song, Y. S. and Ryu, K. H. 2011. Development of infectious transcripts from full-length and GFP-tagged cDNA clones of pepper mottle virus and stable systemic expression of GFP in tobacco and pepper. Virus Res. 155:487-494. https://doi.org/10.1016/j.virusres.2010.12.004
  24. Li, H., Dai, H.-Y., Zhang, Z.-H., Gao, X.-Y., Du, G.-D. and Zhang, X.-Y. 2007. Isolation and identification of virus dsRNA from strawberry plants. Agric. Sci. China 6:86-93. https://doi.org/10.1016/S1671-2927(07)60020-0
  25. Lin, S.-S., Hou, R. F. and Yeh, S.-D. 2002. Construction of in vitro and in vivo infectious transcripts of a Taiwan strain of zucchini yellow mosaic virus. Bot. Bull. Acad. Sin. 43:261-269.
  26. Liu, L. and Lomonossoff, G. 2002. Agroinfection as a rapid method for propagating cowpea mosaic virus-based constructs. J. Virol. Methods 105:343-348. https://doi.org/10.1016/S0166-0934(02)00121-0
  27. Naderpour, M. and Johansen, I. E. 2011. Visualization of resistance responses in Phaseolus vulgaris using reporter tagged clones of bean common mosaic virus. Virus Res. 159:1-8. https://doi.org/10.1016/j.virusres.2011.04.004
  28. Nicolas, O., Dunnington, S. W., Gotow, L. F., Pirone, T. P. and Hellmann, G. M. 1997. Variations in the VPg protein allow a potyvirus to overcome va gene resistance in tobacco. Virology 237:452-459. https://doi.org/10.1006/viro.1997.8780
  29. Niu, J. X., Liu, L. K., Zhu, J. and Zuo, W. M. 2003. Study on the RT-PCR detection system for pear vein yellow virus by using dsRNA as template. J. Fruit Sci. 20:143-145 (in Chinese). https://doi.org/10.3969/j.issn.1009-9980.2003.02.016
  30. Niu, Y., Pang, X., Wang, D., Guo, S. and Liu, Y. 2018. Deep sequencing analysis of a strain of pecan mosaic-associated virus infecting Atractylodes macrocephala Koidz. J. Plant Pathol. 100:249-255. https://doi.org/10.1007/s42161-018-0072-4
  31. Puurand, U., Valkonen, J. P. T., Makinen, K., Rabenstein, F. and Saarma, M. 1996. Infectious in vitro transcripts from cloned cDNA of the potato A potyvirus. Virus Res. 40:135-140. https://doi.org/10.1016/0168-1702(95)01263-X
  32. Rajamaki, M.-L. and Valkonen, J. P. T. 2009. Control of nuclear and nucleolar localization of nuclear inclusion protein a of picorna-like potato virus A in Nicotiana species. Plant Cell 21:2485-2502. https://doi.org/10.1105/tpc.108.064147
  33. Rizzo, T. M. and Palukaitis, P. 1990. Construction of full-length cDNA clones of cucumber mosaic virus RNAs 1, 2 and 3: generation of infectious RNA transcripts. Mol. Gen. Genet. 222:249-256. https://doi.org/10.1007/BF00633825
  34. Rohozkova, J. and Navratil, M. 2011. P1 peptidase-a mysterious protein of family Potyviridae. J. Biosci. 36:189-200. https://doi.org/10.1007/s12038-011-9020-6
  35. Sanchez, F., Martinez-Herrera, D., Aguilar, I. and Ponz, F. 1998. Infectivity of turnip mosaic potyvirus cDNA clones and transcripts on the systemic host Arabidopsis thaliana and local lesion hosts. Virus Res. 55:207-219. https://doi.org/10.1016/S0168-1702(98)00049-5
  36. Sastry, K. S. and Zitter, T. A. 2014. Plant virus and viroid diseases in the tropics. Vol. 2. Epidemiology and management. Springer, The Netherlands. 489 pp.
  37. Seo, J.-K., Lee, H.-G. and Kim, K.-H. 2009. Systemic gene delivery into soybean by simple rub-inoculation with plasmid DNA of a soybean mosaic virus-based vector. Arch. Virol. 154:87-99. https://doi.org/10.1007/s00705-008-0286-4
  38. Shentu, S. S. 2006. Detection of viruses infecting Pinellia ternata (Thunb.) Breit and phylogenetic study on soybean mosaic virus. M.S. thesis. Zhejiang University, Zhejiang, China (in Chinese).
  39. Shi, B.-J., Ding, S.-W. and Symons, R. H. 1997. Plasmid vector for cloning infectious cDNAs from plant RNA viruses: high infectivity of cDNA clones of tomato aspermy cucumovirus. J. Gen. Virol. 78:1181-1185. https://doi.org/10.1099/0022-1317-78-5-1181
  40. Shi, Y. H. 2007. Molecular characterization of potyviruses infecting aroid plants for medicinal use in China. Ph.D. thesis. Zhejiang University, Zhejiang, China (in Chinese).
  41. Sparkes, I. A., Runions, J., Kearns, A. and Hawes, C. 2006. Rapid, transient expression of fluorescent fusion proteins in tobacco plants and generation of stably transformed plants. Nat. Protoc. 1:2019-2025. https://doi.org/10.1038/nprot.2006.286
  42. Stephan, D. and Maiss, E. 2006. Biological properties of beet mild yellowing virus derived from a full-length cDNA clone. J. Gen. Virol. 87:445-449. https://doi.org/10.1099/vir.0.81565-0
  43. Stewart, L. R., Bouchard, R., Redinbaugh, M. G. and Meulia, T. 2012. Complete sequence and development of a full-length infectious clone of an Ohio isolate of maize dwarf mosaic virus (MDMV). Virus Res. 165:219-224. https://doi.org/10.1016/j.virusres.2012.02.004
  44. Sun, H., ShenTu, S., Xue, F., Duns, G. and Chen, J. 2008. Molecular characterization and evolutionary analysis of soybean mosaic virus infecting Pinellia ternata in China. Virus Genes 36:177-190. https://doi.org/10.1007/s11262-007-0167-z
  45. Tian, W. H. and Wang, J. Z. 1995. Applications dsRNA analysis to the detection of RNA viruses. J. Hebei Agric. Univ. 18:112-117 (in Chinese).
  46. Tuo, D., Fu, L., Shen, W., Li, X., Zhou, P. and Yan, P. 2017. Generation of stable infectious clones of plant viruses by using Rhizobium radiobacter for both cloning and inoculation. Virology 510:99-103. https://doi.org/10.1016/j.virol.2017.07.012
  47. Tzanetakis, I. E. and Martin, R. R. 2008. A new method for extraction of double-stranded RNA from plants. J. Virol. Methods 149:167-170. https://doi.org/10.1016/j.jviromet.2008.01.014
  48. Valli, A., Lopez-Moya, J. J. and Garcia, J. A. 2007. Recombination and gene duplication in the evolutionary diversification of P1 proteins in the family Potyviridae. J. Gen. Virol. 88:1016-1028. https://doi.org/10.1099/vir.0.82402-0
  49. Wang, D.-F., Zhang, X.-M., Yang, F. and Niu, Y.-B. 2016. Identification and analysis of complete genomic sequence of Youcai mosaic virus Rehmannia glutinosa isolate in Shanxi. Acta Phytopathol. Sin. 46:598-604 (in Chinese).
  50. Yan, P., Shen, W., Gao, X., Li, X., Zhou, P. and Duan, J. 2012. High-throughput construction of intron-containing hairpin RNA vectors for RNAi in plants. PLoS ONE 7:e38186. https://doi.org/10.1371/journal.pone.0038186
  51. Yang, F., Niu, E.-B., Wang, D.-F. and Niu, Y.-B. 2017. Sequence analysis of cp gene of Malva vein clearing virus Althaea rosea isolates in China. Acta Phytopathol. Sin. 47:458-462 (in Chinese).
  52. Zhang, L., Wang, D., Pei, Y., Xian, S. and Niu, Y. 2020. Construction and characterization of an infectious clone of Soybean mosaic virus isolate from Pinellia ternata. Chin. J. Biotechnol. 36:949-958 (in Chinese).
  53. Zheng, C.-M., Chang, R.-Z. and Qiu, L.-J. 2000. Progress on the disease of soybean mosaic virus. Acta Phytopathol. Sin. 30:97-105 (in Chinese).
  54. Zhi, H. J. 2005. Evaluation, inheritance and utilization of resistance in infection and resistance in development to Soybean mosaic virus. Ph.D. thesis. Nanjing Agricultural University, Nanjing, China (in Chinese).
  55. Zhou, X. P. and Li, D. B. 1995. Application of double-stranded RNA technology in the study of plant viruses. Biotechnology 1:1-4.
  56. Zhou, X. and Pu, Z. 1990. Natural infection of pisum sativum by soybean mosaic virus in Nanjing. J. Nanjing Agric. Univ. 13:53-56 (in Chinese).
  57. Zhu, H. Q., Chen, J. P. and Yu, S. Q. 2006. Construction of an infectious cDNA clone of ribgrass mosaic virus Shanghai isolate and its modification to express an epitope of Mycobacterium tuberculosis. Arch. Virol. 151:1853-1861. https://doi.org/10.1007/s00705-006-0740-0