Identification and characterization of plant genes involved in Agrobacterium-mediated plant transformation by virus-induced silencing

Molecular Plant-Microbe Interactions

Volumn 20, Issue 1, 2007, Pages 41-52

  Anand, Ajith ^a   Vaghchhipawala, Zarir ^a   Ryu, Choong Min ^a,d   Kang, Li ^a   Wang, Keri ^a   Del Pozo, Olga ^b,e   Martin, Gregory B ^b,c   Mysore, Kirankumar S ^a  

^a PLANT BIOLOGY DIVISION   (United States)

^b United States Department of Agriculture Agricultural Research Service and Boyce Thompson Institute for Plant Research   (United States)

^c Department of Obstetrics Gynecology   (United States)

^d Korea Research Institute of Bioscience and Biotechnology (KRIBB)   (South Korea)

^e UNIVERSITY OF SEVILLE   (Spain)

Author keywords

Functional genomics; Tobacco rattle virus

Indexed keywords

EXPANSIN PROTEIN, PLANT; HISTONE; MEMBRANE PROTEIN; NODULIN; VEGETABLE PROTEIN;

ARTICLE; GENE; GENE EXPRESSION REGULATION; GENE SILENCING; GENETIC TRANSFORMATION; GENETICS; MICROBIOLOGY; PLANT LEAF; PLANT TUMOR; RHIZOBIUM RADIOBACTER; TOBACCO;

GENE EXPRESSION REGULATION, PLANT; GENE SILENCING; GENES, PLANT; HISTONES; MEMBRANE PROTEINS; PLANT LEAVES; PLANT PROTEINS; PLANT TUMORS; RHIZOBIUM RADIOBACTER; TOBACCO; TRANSFORMATION, GENETIC;

AGROBACTERIUM; AGROBACTERIUM TUMEFACIENS; BACTERIA (MICROORGANISMS); NICOTIANA BENTHAMIANA; NICOTIANA TABACUM; RHIZOBIUM; TOBACCO RATTLE VIRUS;

EID: 33845603601     PISSN: 08940282     EISSN: None     Source Type: Journal    
DOI: 10.1094/MPMI-20-0041     Document Type: Article

References (69)

1. Anand, A., and Mysore, K. S. 2005. Current advances in Agrobacterium-plant interactions and their implications on agricultural biotechnology. Pages 221-242 in: Advances in Plant Physiology Vol. 8. A. Hemantaranjan, ed. Scientific Publishers, Jodhpur, India.
2. Ballas, N., and Citovsky, V. 1997. Nuclear localization signal binding protein from Arabidopsis mediates nuclear import of Agrobacterium VirD2 protein. Proc. Natl. Acad. Sci. U.S.A. 94:10723-10728.
3. Baulcombe, D. C. 1999. Fast forward genetics based on virus-induced gene silencing. Curr. Opin. Plant Biol. 2:109-113.
4. Baulcombe, D. C. 2002. RNA silencing. Curr. Biol. 12:R82.
5. Bradford, M. M. 1976. A rapid and sensitive method for the quantitation of microgram quantities of protein utilizing the principle of protein-dye binding. Anal. Biochem. 72:248-254.
6. Bundock, P., den Dulk-Ras, A., Beijersbergen, A., and Hooykaas, P. J. J. 1995. Trans-kingdom T-DNA transfer from Agrobacterium tumefaciens to Saccharomyces cerevisiae. EMBO (Eur. Mol. Biol. Organ.) J. 14:3206-3214.
7. Burch-Smith, T. M., Anderson, J. C., Martin, G. B., and Dinesh-Kumar, S. P. 2004. Applications and advantages of virus-induced gene silencing for gene function studies in plants. Plant J. 39:734-746.
8. Cascales, E., and Christie, P. J. 2004. Definition of a bacterial type IV secretion pathway for a DNA substrate. Science 304:1170-1173.
9. Christie, P. J. 2004. Type IV secretion: The Agrobacterium VirB/D4 and related conjugation systems. Biochem. Biophys. Acta. 1694:219-234.
10. Cohn, J., Day, R. B., and Stacey, G. 1998. Legume nodule organogenesis. Trends Plant Sci. 3:105-110.
11. Constantin, G. D., Krath, B. N., MacFarlane, S. A., Nicolaisen, M., Johansen, I. E., and Lund, O. S. 2004. Virus-induced gene silencing as a tool for functional genomics in a legume species. Plant J. 40:622-631.
12. Cosgrove, D. J. 2000. Loosening of plant cell walls by expansins. Nature 407:321-326.
13. Cosgrove, D. J., Li, L. C., Cho, H.-T., Hoffmann-Benning, S., Moore, R. C., and Blecker, D. 2002. The growing world of expansins. Plant Cell Physiol. 43:1436-1444.
14. de Groot, M. J., Bundock, P., Hooykaas, P. J. J, and Beijersbergen, A. G. 1998. Agrobacterium tumefaciens-mediated transformation of filamentous fungi. Nat. Biotechnol. 16:839-842.
15. del Pozo, O., Pedley, K. F. and Martin, G. B. 2004. MAPKKKα is a positive regulator of cell death associated with both plant immunity and disease. EMBO (Eur. Mol. Biol. Organ.) J. 23:3072-3082.
16. Denarie, J., Debelle, F., and Prome, J. C. 1996. Rhizobium lipo-chitooligosaccharide nodulation factors: Signaling molecules mediating recognition and morphogenesis. Ann. Rev. Biochem. 65:503-535.
17. Dinesh-Kumar, S. P., Anandalakshmi, R., Marathe, R., Schiff, M., and Liu, Y. 2003. Virus-induced gene silencing. Pages 287-293 in: Plant Functional Genomics. Vol. 236. E. Grotewold., ed. Humana Press, Totowa, NJ, U.S.A.
18. Ditt, R. F., Nester, E. W., and Comai, L. 2001. Plant gene expression response to Agrobacterium tumefaciens. Proc. Natl. Acad. Sci. U.S.A. 98:10954-10959.
19. Douglas, C. J., Staneloni, R. J., Rubin, R. A., and Nester, E. W. J 1985. Agrobacterium tumefaciens mutants affected in attachment to plant cells. J. Bacteriol. 161:850-860.
20. Ekengren, S. K., Liu, Y., Schiff, M., Dinesh-Kumar, S. P., and Martin, G. B. 2003. Two MAPK cascades, NPR1, and TGA transcription factors play a role in Pto-mediated disease resistance in tomato. Plant J. 36:905-917.
21. Gaspar, Y. M., Nam, J., Schultz, C. J., Lee, L. -Y., Gilson, P. R., Gelvin, S. B., and Bacic A. 2004. Characterization of the Arabidopsis lysine-rich arabinogalactan-protein AtAG17 mutant (rat1) that results in a decreased efficiency of Agrobacterium transformation. Plant Physiol. 135:21662-22171.
22. Gelvin, S. B. 2000. Agrobacterium and plant genes involved in T-DNA transfer and integration. Annu. Rev. Plant Physiol. Plant Mol. Biol. 51:223-256.
23. Gelvin, S. B. 2003a. Agrobacterium-mediated plant transformation: The biology behind the "gene-jockeying" tool. Microbiol. Mol. Biol. Rev. 67:16-37.
24. Gelvin, S. B. 2003b. Improving plant genetic engineering by manipulating the host. Trends Biotechol. 21:95-98.
25. Jefferson, R. A., Kavanagh, T. A., and Bevan, M. W. 1987. GUS fusions: β-glucuronidase as a sensitive and versatile gene fusion marker in higher plants. EMBO (Eur. Mol. Biol. Organ.) J. 6:901-907.
26. Kang, L., Tang, X., and Mysore, K. S. 2004. Pseudomonas type III effector AvrPto suppresses the programmed cell death induced by two non-host pathogens in Nicotiana benthamiana and tomato. Mol. Plant-Microbe Interact. 17:1328-1336.
27. Kelly, B. A., and Kado, C. I. 2002. Agrobacterium-mediated T-DNA transfer and integration into the chromosome of Streptomyces lividans. Mol. Plant Pathol. 3:125-134.
28. Kunik, T., Tzfira, T., Kapulnik, Y., Gafni, Y., Dingwall, C., and Citovsky V. 2001. Genetic transformation of HeLa cells by Agrobacterium. Proc. Natl. Acad. Sci. U.S.A. 98:1871-1876.
29. Lacroix, B., Vaidya, M., Tzfira, T., and Citovsky V. 2005. The VirE3 protein of Agrobacterium mimics a host cell function required for plant genetic transformation. EMBO (Eur. Mol. Biol. Organ.) J. 24:428-437.
30. Lee, Y., Choi, D., and Kende, H. 2001. Expansins: Ever-expanding numbers and functions. Curr. Opin. Plant. Biol. 4:527-532.
31. Li, J., Vaidya, M., White, C., Vainstein, A., Citovsky, V., and Tzfira T. 2005. Involvement of KU80 in T-DNA integration in plant cells. Proc. Natl. Acad. Sci. U.S.A. 102:19231-19236.
32. Liu, Y., Schiff, M., and Dinesh-Kumar, S. P. 2002a. Virus-induced gene silencing in tomato. Plant J. 31:777-786.
33. Liu, Y., Schiff, M., Marathe, R., and Dinesh-Kumar, S. P. 2002b. Tobacco Rar1, EDS1 and NPR1/NIMI1 like genes are required for N-mediated resistance to tobacco mosaic virus. Plant J. 30:415-429.
34. Liu, Y., Nakayama, N., Schiff, M., and Dinesh-Kumar, S. P. 2004a. Involvement of MEK1, MAPKK, NTF6, MAPK, WRKY/MYB transcription factors, CO11 and CTR1 in N-mediated resistance to tobacco mosaic virus. Plant J. 38:800-809.
35. Liu, Y., Nakayama, N., Schiff, M., Litt, A., Irish, V. F., and Dinesh-Kumar, S. P. 2004b. Virus induced gene silencing of a DEFICIENS ortholog in Nicotiana benthamiana. Plant Mol. Biol. 54:701-711.
36. Liu, Z., Hong, S. -W., Escobar, M. A., Vierling, E., Mitchell, D. L., Mount, D. W., and Hall J. D. 2003. Arabidopsis UVH6, a homolog of human XPD and yeast RAD3 DNA repair genes, functions in DNA repair and is essential for plant growth. Plant Physiol. 132:1405-1414.
37. Lu, R., Malcuit, I., Moffett, P., Ruiz, M. T., Peart, J., Wu, A.-J., Rathjen, J. P., Bendahmane, A., Day, L., and Baulcombe, D. C. 2003a. High throughput virus-induced gene silencing implicates heat shock protein 90 in plant disease resistance. EMBO (Eur. Mol. Biol. Organ.) J. 22:5690-5699.
38. Lu, R., Martin-Hernandez, A. M., Peart, J. R., Malcuit, I., and Baulcombe, D. C. 2003b. Virus-induced gene silencing in plants. Methods 30:296-303.
39. Matthews, R. 1991. Plant Virology, 3rd ed. Academic Press, San Diego. CA, U.S.A.
40. Matthysse, A. G. 1987. Characterization of nonattaching mutants of Agrobacterium tumefaciens. J. Bacteriol. 169:313-323.
41. Mysore, K. S., Bassuner, B., Deng, X. B., Darbinian, N. S., Motchoulski, A., Ream, W., and Gelvin, S. B. 1998. Role of the Agrobacterium tumefaciens VirD2 protein in T-DNA transfer and integration. Mol. Plant-Microbe Interact. 11:668-683.
42. Mysore, K. S., Nam, J., and Gelvin, S. B. 2000. An Arabidopsis histone H2A mutant is deficient in Agrobacterium T-DNA integration. Proc. Natl. Acad. Sci. U.S.A. 97:948-953.
43. Nam, J., Matthysse, A. G., and Gelvin, S. B. 1997. Differences in susceptibility of Arabidopsis ecotypes to crown gall disease may result from a deficiency in T-DNA integration. Plant Cell 9:317-333.
44. Nam, J., Mysore, K. S., Zheng, C., Knue, M. K., Matthysse, A. G., and Gelvin, S. B. 1999. Identification of T-DNA tagged Arabidopsis mutants that are resistant to transformation by Agrobacterium. Mol. Gen. Genet. 261:429-438.
45. Narasimhulu, S., Deng, X.-B, Sarria, R., and Gelvin, S. B. 1996. Early transcription of Agrobacterium T-DNA genes in tobacco and maize. Plant Cell 8:873-886.
46. Piers, K. L., Heath, J. D., Liang, X., Stephens, K. M., and Nester, E. W. 1996. Agrobacterium tumefaciens-mediated transformation of yeast. Proc. Natl. Acad. Sci. U.S.A. 93:613-1618.
47. Rho, H. S., Kang, S., and Lee, Y. H. 2001. Agrobacterium tumefaciens-mediated transformation of plant pathogenic fungus, Magnaporthe grisea. Mol. Cells 12:407-411.
48. Ruiz, M. T., Voinnet, O., and Baulcombe, D. C. 1998. Initiation and maintenance of virus-induced gene silencing. Plant Cell 10:937-946.
49. Ryu, C.-M., Anand, A., Kang, L., and Mysore, K. S. 2004. Agrodrench: A novel and effective agroinoculation method for virus-induced gene silencing in roots and diverse solanaceous species. Plant J. 40:322-331.
50. Sampedro, J., and Cosgrove, D. J. 2005. The Expansin superfamily. Genome Biol. 6:R242.
51. Schrammeijer, B., den Dulk-Ras, A., Vergunst, A. C., Jurado Jacome, E., and Hooykaas, P. J. J. 2003. Analysis of Vir protein translocation from Agrobacterium tumefaciens using Saccharomyces cerevisiae as a model: Evidence for transport of a novel effector protein VirE3. Nucleic Acids Res. 31:860-868.
52. Schultze, M., and Kondorosi, A. 1998. Regulation of symbiotic root nodule development. Annu. Rev. Genet. 32:33-57.
53. Staiger, C. J. 2000. Signaling to the actin cytoskeleton in plants. Ann. Rev. Plant Physiol. Plant Mol. Biol. 51:257-288.
54. Stephens, D. J., and Banting, G. 2000. The use of yeast two-hybrid screens in studies of protein: Protein interactions involved in trafficking. Traffic 1:763-768.
55. Tzfira, T., and Citovsky, V. 2002. Partners-in-infection: Host proteins involved in the transformation of plant cells by Agrobacterium. Trends Cell Biol. 12:21-129.
56. Tzfira, T., Vaidya, M., and Citovsky, V. 2001. VIP1, an Arabidopsis protein that interacts with Agrobacterium VirE2, is involved in VirE2 nuclear import and Agrobacterium infectivity. EMBO (Eur. Mol. Biol. Organ.) J. 20:3596-3607.
57. Tzfira, T., Vaidya, M., and Citovsky, V. 2004. Involvement of targeted proteolysis in plant genetic transformation by Agrobacterium. Nature 431:87-92.
58. van Attikum, H., Bundock, P., and Hooykaas, P. J. J. 2001. Non-homologous end-joining proteins are required for Agrobacterium T-DNA integration. EMBO (Eur. Mol. Biol. Organ.) J. 20:6550-6558.
59. Veena, S., Jiang, H., Doerge, R. W., and Gelvin, S. B. 2003. Transfer of T-DNA and Vir proteins to plant cells by Agrobacterium tumefaciens induces expression of host genes involved in mediating transformation and suppresses host defense gene expression. Plant J. 35:219-226.
60. Vergunst, A. C., Schrammeijer, B., den Dulk-Ras, A., de Vlaam, C. M. T., Regensburg-Tuink, T. J., and Hooykaas P. J. J. 2000. VirB/D4-dependent protein translocation from Agrobacterium into plant cells. Science 290:979-982.
61. von Mering, C., Krause, R., Snel, B., Cornell, M., Oliver, S. G., Fields, S., and Bork, P. 2002. Comparative assessment of large-scale data sets of protein-protein interactions. Nature 417:399-403.
62. Wagner, V. T., and Matthysse, A. G. 1992. Involvement of a vitronectin-like protein in attachment of Agrobacterium tumefaciens to carrot suspension cells. J. Bacteriol. 174:5999-6003.
63. Wasteneys, G. O., and Galway, M. E. 2003. Remodeling the cytoskeleton for growth and form: And overview with some new views. Ann. Rev. Plant Biol. 54:691-722.
64. Waterhouse, P. M., Wang, M.-B., and Lough, T. 2001. Gene silencing as an adaptive defence against viruses. Nature 411:834-842.
65. Yi, H. C., Mysore, K. S., and Gelvin, S. B. 2002. Expression of the Arabidopsis histone H2A-1 gene correlates with susceptibility to Agrobacterium transformation. Plant J. 32:285-298.
66. Yi, H. C., Sardesai, N., Fujinuma, T., Chan, C.-W., Veena, S., and Gelvin, S. B. 2006. Constitutive expression exposes functional redundancy between the Arabidopsis Histone H2A Gene HTA1 and other H2A gene family members. Plant Cell 18:1575-1589.
67. Zhu, J., Oger, P. M., Schrammeijer, B, Hooykaas, P. J. J., Farrand, S. K., and Winans, S. C. 2000. The bases of crown gall tumorigenesis. J. Bacteriol. 182:3885-3895.
68. Zhu, Y., Nam, J., Mysore, K. S., Lee, L. -Y., Cao, H., Valentine, L., Li, J., Kaiser, A. D., Kopecky, A. L. Hwang, H. H., Bhattacharjee, S., Rao, P. K., Tzfira, T., Rajagopal, J., Yi, H., Veena, S., Yadav, B. S., Crane, Y. M., Lin, K., Larcher, Y., Gelvin, M. J., Knue, M., Ramos, C., Zhao, X., Davis, S. J., Kim, S. I., Ranjith-Kumar, C. T., Choi, Y. J., Hallan, V. K., Chattopadhyay, S., Sui, X., Ziemienowicz, A., Matthysse, A. G., Citovsky, V., Hohn, B., and Gelvin, S. B. 2003a. Identification of Arabidopsis rat mutants. Plant Physiol. 132:494-505.
69. Zhu, Y., Nam, J., Carpita, N. C., Matthysse, A. G., and Gelvin, S. B. 2003b. Agrobacterium-mediated root transformation is inhibited by mutation of an Arabidopsis cellulose synthase-like gene. Plant Physiol. 133:1000-1010.