biologia plantarum

International journal on Plant Life established by Bohumil Nìmec in 1959

Biologia plantarum 63:153-163, 2019 | DOI: 10.32615/bp.2019.018

Virus-induced gene silencing in Nicotiana benthamiana triggered by heterologous gene sequences from Viola philippica

Q.X. Li1,*, J. Wang1, S. Zheng1, N. Yang1, K. Sun1,*, C.Y. He2
1 Life Science College, Northwest Normal University, Anning, 730070 Lanzhou, Gansu, P.R. China
2 State Key Laboratory of Systematic and Evolutionary Botany, Institute of Botany, Chinese Academy of Sciences, Xiangshan, 100093 Beijing, P.R. China

Virus-induced gene silencing (VIGS) is a particularly useful tool for functional genomics. In the present study, we attempted to utilize this technology to infer the function of genes from Viola philippica using a tobacco rattle virus (TRV) construct. Firstly, the phytoene desaturase gene from V. philippica (VpPDS) was silenced, and local leaf bleaching was observed but did not exhibit systemic effects, thereby limiting utilization of TRV-mediated gene silencing in the recipient plant. However, we observed systemic gene silencing in Nicotiana benthamiana when the VpPDS sequence was used as a trigger, thereby suggesting that heterologous gene sequences could elicit gene silencing. We then investigated the role of gene PISTILLATA from V. philippica (VpPI) of the B-class MADS-box gene family, which regulates the identity and development of stamens and petals. Using the coding region of VpPI as triggers, we determined the gene silencing efficiency of the corresponding GLOBOSA paralogs in N. benthamiana (NbGLO1 and NbGLO2), and we observed stamen-to-carpel transformation and distorted corollas in N. benthamiana suggesting that VpPI functioned as the NbGLO gene. However, the 3'-untranslated region (3'UTR) of VpPI and each 3'UTR of the NbGLO genes downregulated its own corresponding gene, hardly producing floral homeotic alterations. This work provides a better understanding of gene-specific probe design for gene silencing as well as shows that heterologous sequence-triggered VIGS is an efficient way to investigate functional conservation of orthologous genes.

Keywords: gene-specific probe, GLOBOSA, phytoene desaturase, PISTILLATA

Accepted: November 15, 2018; Prepublished online: November 15, 2018; Published online: January 19, 2019  Show citation

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Li, Q.X., Wang, J., Zheng, S., Yang, N., Sun, K., & He, C.Y. (2019). Virus-induced gene silencing in Nicotiana benthamiana triggered by heterologous gene sequences from Viola philippica. Biologia plantarum63, Article 153-163. https://doi.org/10.32615/bp.2019.018
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References

  1. Becker, A., Lange, M.: VIGS-genomics goes functional. - Trends Plant Sci. 15: 1-4, 2010. Go to original source...
  2. Benavente, L.M., Ding, X.S., Redinbaugh, M.G., Nelson, R.S., Balint-Kurti, P.: Virus-induced gene silencing in diverse maize lines using the brome mosaic virus-based silencing vector. - Maydica. 57: 206-214, 2012.
  3. Bilichak, A., Kovalchuk, I.: Increasing a stable transformation efficiency of Arabidopsis by manipulating the endogenous gene expression using virus-induced gene silencing. - Methods mol. Biol. 1456: 225-236, 2017. Go to original source...
  4. Bowman, J.L., Smyth, D.R., Meyerowitz, E.M.: Genes directing flower development in Arabidopsis. - Plant Cell 1: 37-52, 1989. Go to original source...
  5. Brigneti, G., Martin-Hernandez, A.M., Jin, H., Chen, J., Baulcombe, D.C., Baker, B., Jones, J.D.: Virus-induced gene silencing in Solanum species. - Plant J. 39: 264-272, 2004. Go to original source...
  6. Burch-Smith, T.M., Anderson, J.C., Martin, G.B., Dinesh-Kumar, S.P.: Applications and advantages of virus-induced gene silencing for gene function studies in plants. - Plant J. 39: 734-746, 2004. Go to original source...
  7. Burch-Smith, T.M., Schiff, M., Liu, Y., Dinesh-Kumar, S.P.: Efficient virus-induced gene silencing in Arabidopsis. - Plant Physiol. 142: 21-27, 2006. Go to original source...
  8. Chen, J.C., Jiang, C.Z., Gookin, T.E., Hunter, D.A., Clark, D.G., Reid, M.S.: Chalcone synthase as a reporter in virus-induced gene silencing studies of flower senescence. - Plant mol. Biol. 55: 521-530, 2004. Go to original source...
  9. Chung, E., Seong, E., Kim, Y.C., Chung, E.J., Oh, S.K., Lee, S., Park, J.M., Joung, Y.H., Choi, D.: A method of high frequency virus-induced gene silencing in chili pepper (Capsicum annuum L. cv. Bukang). - Mol. Cells 17: 377-380, 2004.
  10. Constantin, G.D., Krath, B.N., MacFarlane, S.A., Nicolaisen, M., Johansen, I.E., Lund, O.S.: Virus-induced gene silencing as a tool for functional genomics in a legume species. - Plant J. 40: 622-631, 2004. Go to original source...
  11. Dinesh-Kumar, S.P., Anandalakshmi, R., Marathe, R., Schiff, M., Liu, Y.: Virus-induced gene silencing. - Methods mol. Biol. 236: 287-294, 2003. Go to original source...
  12. Gao, X., Britt, R.C., Jr., Shan, L., He, P.: Agrobacterium-mediated virus-induced gene silencing assay in cotton. - J. Vis. Exp. 54: 2938, 2011. Go to original source...
  13. Geuten, K., Irish, V.: Hidden variability of floral homeotic B genes in Solanaceae provides a molecular basis for the evolution of novel functions. - Plant Cell 22: 2562-2578, 2010. Go to original source...
  14. Gould, B., Kramer, E.M.: Virus-induced gene silencing as a tool for functional analyses in the emerging model plant Aquilegia (columbine, Ranunculaceae). - Plant Methods 3: 6, 2007. Go to original source...
  15. Hein, I., Barciszewska-Pacak, M., Hrubikova, K., Williamson, S., Dinesen, M., Soenderby, I.E., Sundar, S., Jarmolowski, A., Shirasu, K., Lacomme, C.: Virus-induced gene silencing-based functional characterization of genes associated with powdery mildew resistance in barley. - Plant Physiol. 138: 2155-2164, 2005. Go to original source...
  16. Hill, J.P., Lord, E.M.: Floral development in Arabidopsis thaliana: a comparison of the wild type and the homeotic pistillata mutant. - Can. J. Bot. 67: 2922-2936, 1989. Go to original source...
  17. Howes, T., Kumagai, M.H.: Virus-induced gene silencing in Nicotiana benthamiana using DEAD-box helices sequence derived from Dunaliella salina. - J. Young Investig. 12: 1-6, 2005.
  18. Kumagai, M.H., Donson, J., Della-Cioppa, G., Harvey, D., Hanley, K., Grill, L.K.: Cytoplasmic inhibition of carotenoid biosynthesis with virus-derived RNA. - Proc. nat. Acad. Sci. USA 92: 1679-1683, 1995. Go to original source...
  19. Li, Q.X., Huo, Q.D., Wang, J., Zhao, J., Sun, K., He, C.Y.: Expression of B-class MADS-box genes in response to variations in photoperiod is associated with chasmogamous and cleistogamous flower development in Viola philippica. - BMC Plant Biol. 6: 151, 2016. Go to original source...
  20. Liu, E., Page, J.E.: Optimized cDNA libraries for virus-induced gene silencing (VIGS) using tobacco rattle virus. - Plant Methods 4: 5, 2008. Go to original source...
  21. Liu, Y., Schiff, M., Dinesh-Kumar, S.P.: Virus-induced gene silencing in tomato. - Planta 31: 777-786, 2002. Go to original source...
  22. Liu, Y., Sun, W., Zeng, S., Huang, W., Liu, D., Hua, W., Shen, X., Wang, Y.: Virus-induced gene silencing in two novel functional plants, Lycium barbarum L. and Lycium ruthenicum Murr. - Sci. horticult. 170: 267-274, 2014. Go to original source...
  23. Livak, K.J., Schmittgen, T.D.: Analysis of relative gene expression data using real-time quantitative PCR and the 2-△△CT method. - Methods 25: 402-408, 2001. Go to original source...
  24. Ma, M., Yan, Y., Huang, L., Chen, M., Zhao, H.: Virus-induced gene-silencing in wheat spikes and grains and its application in functional analysis of HMW-GS-encoding genes. - BMC Plant Biol. 12: 141, 2012. Go to original source...
  25. Meng, L.H., Wang, R.H., Zhu, B.Z., Zhu, H.L., Luo, Y.B., Fu, D.Q.: Efficient virus-induced gene silencing in Solanum rostratum. - PLoS ONE 11: e0156228, 2016. Go to original source...
  26. Pflieger, S., Blanchet, S., Camborde, L., Drugeon, G., Rousseau, A., Noizet, M., Planchais, S., Jupin, I.: Efficient virus-induced gene silencing in Arabidopsis using a 'one-step' TYMV-derived vector. - Plant J. 56: 678-690, 2008. Go to original source...
  27. Purkayastha, A., Mathur, S., Verma, V., Sharma, S., Dasgupta, I.: Virus-induced gene silencing in rice using a vector derived from a DNA virus. - Planta 232: 1531-1540, 2010. Go to original source...
  28. Ratcliff, F., Harrison, B.D., Baulcombe, D.C.: A similarity between viral defense and gene silencing in plants. - Science 276: 1558-1560, 1997. Go to original source...
  29. Ratcliff, F., Martin-Hernandez, A.M., Baulcombe, D.C.: Tobacco rattle virus as a vector for analysis of gene function by silencing. - Plant J. 25: 237-245, 2001. Go to original source...
  30. Robertson, D.: VIGS vectors for gene silencing: many targets, many tools. - Annu. Rev. Plant Biol. 55: 495-519, 2004. Go to original source...
  31. Roque, E., Serwatowska, J., Rochina, M.C., Wen, J.Q., Mysore, K.S., Yenush, L., Beltrán, J.P., Caòas, L.A.: Functional specialization of duplicated AP3-like genes in Medicago truncatula. - Plant J. 73: 663-675, 2013. Go to original source...
  32. Ryu, C.M., Anand, A., Lang, L., Mysore, K.S.: Agrodrench: a novel and effective agroinoculation method for virus-induced gene silencing in roots and diverse Solanaceous species. - Plant J. 40: 322-331, 2004. Go to original source...
  33. Sasaki, S., Yamagishi, N., Yoshikawa, N.: Efficient virus-induced gene silencing in apple, pear and Japanese pear using apple latent pherical virus vectors. - Plant Methods 7: 15, 2011. Go to original source...
  34. Senthil-Kumar, M., Hema, R., Anand, A., Kang, L., Udayakumar, M., Mysore, K.S.: A systematic study to determine the extent of gene silencing in Nicotiana benthamiana and other Solanaceae species when heterologous gene sequences are used for virus-induced gene silencing. - New Phytol. 176: 782-791, 2007. Go to original source...
  35. Senthil-Kumar, M., Udayakumar, M.: High-throughput virus-induced gene-silencing approach to assess the functional relevance of a moisture stress-induced cDNA homologous to lea4. - J. exp. Bot. 57: 2291-2302, 2006. Go to original source...
  36. Sundström, J. F., Nakayama, N., Glimelius, K., Irish, V.F.: Direct regulation of the floral homeotic APETALA1 gene by APETALA3 and PISTILLATA in Arabidopsis. - Plant J. 46: 593-600, 2006. Go to original source...
  37. Tamura, K., Peterson, D., Peterson, N., Stecher, G., Nei, M., Kumar, S.: MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. - Mol. Biol. Evol. 28: 2731-2739, 2011. Go to original source...
  38. Thomas, C.L., Jones, L., Baulcombe, D.C., Maule, A.J.: Size constraints for targeting post transcriptional gene silencing and for RNA-directed methylation in Nicotiana benthamiana using a potato virus X vector. - Plant J. 25: 417-425, 2001. Go to original source...
  39. Tian, J., Cheng, L., Han, Z., Yao, Y.: Tobacco rattle virus mediated gene silencing in strawberry plants. - Plant Cell Tissue Organ Cult. 120: 1131-1138, 2015. Go to original source...
  40. Tuttle, J. R., Haigler, C.H., Robertson, D.: Method: low-cost delivery of the cotton leaf crumple virus-induced gene silencing system. - Plant Methods 8: 27, 2012. Go to original source...
  41. Vandenbussche, M., Theissen, G., Van de Peer, Y., Gerats, T.: Structural diversification and neo-functionalization during floral MADS-box gene evolution by C-terminal frame shift mutations. - Nucl. Acids Res. 31: 4401-4409, 2003. Go to original source...
  42. Wege, S., Scholz, A., Gleissberg, S., Becker, A.: Highly efficient virus-induced gene silencing (VIGS) in California poppy (Eschscholzia californica): an evaluation of VIGS as a strategy to obtain functional data from non-model plants. - Ann. Bot. 100: 641-649, 2007. Go to original source...
  43. Yuan, C., Li, C., Yan, L., Jackson, A.O., Liu, Z., Han, C., Yu, J., Li, D.: A high throughput barley stripe mosaic virus vector for virus induced gene silencing in monocots and dicots. - PLoS ONE 6: e26468, 2011. Go to original source...
  44. Zahn, L.M., Leebens-Mack, J., De Pamphilis, C.W., Ma, H., Theissen, G.: To be or not to be a flower: the role of DEFICIENS and GLOBOSA orthologs in the evolution of the angiosperms. - J. Hered. 96: 225-240, 2005. Go to original source...
  45. Zhang, C., Bradshaw, J.D., Whitham, S.A., Hill, J.H.: The development of an efficient multipurpose bean pod mottle virus viral vector set for foreign gene expression and RNA silencing. - Plant Physiol. 153: 52-65, 2010. Go to original source...
  46. Zhang, C., Ghabrial, S.A.: Development of bean pod mottle virus-based vectors for stable protein expression and sequence-specific virus-induced gene silencing in soybean. - Virology 344: 401-411, 2006. Go to original source...
  47. Zhang, J.S., Li, Z.C., Zhao, J., Zhang, S.H., Quan, H., Zhao, M., He, C.Y.: Deciphering the Physalis floridana double-layered-lantern1 mutant provides insights into functional divergence of the GLOBOSA duplicates within the Solanaceae. - Plant Physiol. 164: 748-764, 2014a. Go to original source...
  48. Zhang, J.S., Zhao, J., Zhang, S.H., He, C.Y.: Efficient gene silencing mediated by tobacco rattle virus in an emerging model plant Physalis. - PLoS ONE 9: e85534, 2014b. Go to original source...
  49. Zhang, S.H., Zhang, J.S., Zhao, J., He, C.Y.: Distinct subfunctionalization and neofunctionalization of the B-class MADS-box genes in Physalis floridana. - Planta 241: 387-402, 2015. Go to original source...