Abstract
During the past 30 years, most plant pathogenic viruses and viroids have been characterized in terms of their base sequence. A few, such as viruses in the family Luteoviridae, were harder to crack than others but recently yielded to this approach (e.g. Huang et al., 2005). With the primary base sequences of these viruses determined, it was possible to infer relationships but also to identify the positions of functional units. Additionally, it was often possible to unravel the complex interactions in time and space involved with genome expression. Thus, because of their relatively small genome sizes, viruses were in the vanguard of what has come to be grouped under the generic title “omic” technologies; the word “transcriptomics” was not used to describe these early technological thrusts but might be now.
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References
Bariani, H.S., A.L. Shannon, P.G.W. Chu, and P.M. Waterhouse, 1994. Detection of five seedborne legume viruses in one sensitive multiplex polymerase chain reaction test, Phytopathology, 84, 1201–1205.
Brandsma, J., and G. Miller, 1980. Nucleic acid spot hybridization: Rapid quantitative screening of lymphoid cell lines for Epstein-Barr viral DNA, Proc. Natl. Acad. Sci. USA, 77, 6851–6855.
Cooper, J.I., and M.L. Edwards, 1986. Variations and limitations of enzyme amplified immunoassays, in Developments and applications in Virus Testing, edited by R.A.C. Jones and L. Torrance, Association of Applied Biologists, Wellesbourne, U.K., pp. 139–154.
Edelstein, M.L., M.R. Abedi, J. Wixon, and R.M. Edelstein, 2004. Gene therapy clinical trials worldwide 1989–2004—an overview, J. Gene Medic., 6, 597–602.
Gibbs, M.J., I. Cooper, and P.M. Waterhouse, 1996. The genome organization and affinities of an Australian isolate of carrot mottle umbravirus, Virology, 224, 310–313.
Gibbs, A.J., and A. MacKenzie, 1997. A primer pair for amplifying part of the genome of all potyvirids by RT-PCR, J. Virol. Meth., 63, 9–16.
Gould, A.R., and R.H. Symons, 1983. A molecular biological approach to relationships among viruses, Ann. Rev. Phytopathol., 21, 179–199.
Harper, G., J.O. Osuji, J.P.S. Heslop Harrison, and R. Hull, 1999. Integration of banana streak badnavirus into the Musa genome: Molecular and cytological evidence, Virology, 255, 207–213.
Huang, L.F., M. Naylor, D.W. Pallett, J. Reeves, J.I. Cooper, and H. Wang, 2005. The complete genome sequence, organisation and affinities of carrot red leaf virus, Arch. Virol., 150, 1845–1855.
Jackson, R.J., A.J. Ramsay, C.D. Christensen, S. Beaton, D.F. Hall, and I.A. Ramshaw, 2001. Expression of mouse interleukin-4 by a recombinant ectromelia virus suppresses cytolytic lymphocyte responses and overcomes genetic resistance to mousepox, J. Virol., 75, 1205–1210.
Jones, R.A.C., and L. Torrance, 1986. Developments in Applied Biology 1. Developments and Applications in Virus Testing, Association of Applied Biologists, Wellesbourne, U.K., 312 p.
Mackay, I.M., K.E. Arden, and A. Nitsche, 2002. Real–time PCR in virology, Nucl. Acids Res., 30, 1292–1305.
McCann, S., 1999. Web PCR, Nat Biotechnol., 17, 304.
MacKenzie, D.J., M.A. McLean, S. Mukerji, and M. Green, 1997. Improved RNA extraction from woody plants for the detection of viral pathogens by reverse transcription–polymerase chain reaction, Plant Dis., 81, 222–226.
Mullis, K.B., 1990. The unusual origins of the polymerase chain reaction, Sci. Am., 263, 56–65.
Nathwani, A.C., A.M. Davidoff, and D.C. Leach, 2004. A review of gene therapy for haematological disorders, Br. J. Haematol., 128, 3–17.
Newbury, H.J., and J.V. Possingham, 1979. Factors affecting the extraction of intact ribonucleic acid from plant tissues containing interfering phenolic compounds, Plant Physiol., 60, 543–547.
Olmos, A., M. Cambra, M.A. Dasi, T. Candresse, O. Esteban, M.T. Gorris, and M. Asensio, 1997. Simultaneous detection and typing of plum pox virus (PPV) isolates by Semi-nested PCR and PCR-ELISA, J. Virol. Meth., 68, 127–137.
Revers, F., H. Lot, S. Souche, O. Le Gall, T. Candresse, and J. Dunez, 1997. Biological and molecular variability of lettuce mosaic virus isolates, Phytopathology, 87, 397–403.
Robertson, N.L., and D.C. Ianson, 2005. First Report of Turnip mosaic virus in rhubarb in Alaska, Plant Dis., 89, 430.
Robertson, N.L., R. French, and S.M. Gray, 1991. Use of group specific primers and the detection and identification of luteoviruses, J. Gen. Virol., 72, 1473–1477.
Rybicki, E.P., and F.L. Hughes, 1990. Detection and typing of maize streak virus and other distantly related geminiviruses of grasses by polymerase chain reaction amplification of a conserved viral sequence, J. Gen. Virol., 71, 2519–2526.
Saiki, R.K., D.H. Gelfand, S. Stoffel, S.J. Scharf, R. Higuchi, G.T. Horn, K.B. Mullis, and H.A. Erlich, 1988. Primer-directed enzymatic amplification of DNA with a thermostable DNA polymerase, Science, 239, 487–491.
Stevens, M., R. Hull, and H.G. Smith, 1997. Comparison of ELISA and RT-PCR for the detection of beet yellows closterovirus in plants and aphids, J. Virol. Meth., 68, 9–16.
Tian, T., V.A. Klaasen, J. Soong, G. Wisler, J.E. Duffus, and B.W. Falk, 1996. Generation of cDNAs specific to lettuce infectious yellows closterovirus and other whitefly-transmitted viruses by RT-PCR and degenerate oligonucleotide primers corresponding to the closterovirus gene coding the heat shock protein, Phytopathology, 86, 1167–1173.
Thomson, D., and R.G. Dietzgen, 1995. Detection of DNA and RNA plant viruses by PCR and RT-PCR using a rapid virus release protocol without tissue homogenization, J. Virol. Meth., 54, 85–95.
Tyagi, S., D.P. Bratu, and F.R. Kramer, 1998. Multicolor molecular beacons for allele discrimination, Nat. Biotechnol., 16, 49–53.
Wetzel, T., T. Candresse, G. Macquaire, M. Ravelonandro, and J. Dunez, 1992. A highly sensitive immunocapture polymerase chain reaction method for plum pox potyvirus detection, J. Virol. Meth., 39, 27–37.
Whitham, S.A., S. Quan, H.S. Chang, B. Cooper, B. Estes, T. Zhu, X. Wang, and Y.M. Hou, 2003. Diverse RNA viruses elicit the expression of common sets of genes in susceptible Arabidopsis thaliana plants, Plant J. 33, 271–283.
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Cooper, I. (2006). GENOMIC APPROACHES IN VIRUS DIAGNOSTICS A PERSONAL ASSESSMENT OF REALITIES WHEN FACED WITH VIRUSES IN A PLANT BIOSECURITY CONTEXT. In: Cooper, I., Kühne, T., Polishchuk, V.P. (eds) Virus Diseases and Crop Biosecurity. NATO Security through Science Series. Springer, Dordrecht. https://doi.org/10.1007/978-1-4020-5298-9_6
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DOI: https://doi.org/10.1007/978-1-4020-5298-9_6
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