More About Plant Virus Evolution: Past, Present, and Future

Origin and Evolution of Viruses

Volumn , Issue , 2008, Pages 229-250

  Gibbs, Adrian ^a   Gibbs, Mark ^b   Ohshima, Kazusato ^c   García Arenal, Fernando ^d  

^a Australian National University ^*  (Australia)

^b AUSTRALIAN NATIONAL UNIVERSITY   (Australia)

^c SAGA UNIVERSITY   (Japan)

^d UNIVERSIDAD POLITÉCNICA DE MADRID   (Spain)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 49749142785     PISSN: None     EISSN: None     Source Type: Book    
DOI: 10.1016/B978-0-12-374153-0.00011-4     Document Type: Chapter

References (160)

1. Aldaoud R., Dawson W.O., Jones G.E. Rapid, random evolution of the genetic structure of replicating tobacco mosaic virus us populations. Intervirology 1989, 30:227-233.
2. Ali A., Li H., Schneider W.L., Sherman D.J., Gray S., Smith D., Roossinck M.J. Analysis of genetic bottlenecks during horizontal transmission of Cucumber mosaic virus. J. Virol. 2006, 80:8345-8350.
3. Amin I., Mansoor S., Amrao L., Hussain M., Irum S., Zafar Y., et al. Mobilisation into cotton and spread of a recombinant cotton leaf curl disease satellite. Arch. Virol. 2006, 151:2055-2065.
4. Anandalakshmi R., Pruss G.J., Ge X., Marathe R., Mallory A.C., Smith T.H., Vance V.B. A viral suppressor of gene silencing in plants. Proc. Natl Acad. Sci. USA 1998, 95:13079-13084.
5. Anzola J.V., Dall.D.J., Xu Z., Nuss D.L. Complete nucleotide sequence of wound tumor necrosis virus genomic segments encoding nonstructural polypeptides. Virology 1989, 171:222-228.
6. Aranda M.A., Fraile A., García-Arenal F., Malpica J.M. Experimental evaluation of the ribonuclease protection assay method for the assessment of genetic heterogeneity in populations of RNA viruses. Arch. Virol. 1995, 140:1373-1383.
7. Argos P. A sequence motif in many polymerases. Nucleic Acids Res. 1988, 16:9909-9916.
8. Bawden F.C. Plant Viruses and Virus Diseases 1956, Chronica Botanica, Waltham, MA. 3rd edn.
9. Beck J., Nassal M. Hepatitis B virus replication. World J. Gastroenterol. 2007, 13:48-64.
10. Beijerinck M.W. Ueber ein contagium vivum fluidum als Ursache der Fleckenkrankheit der Tabaksblätter. Verhandelingen der Koninklyke akademie van Wettenschapppen te Amsterdam 1898, 65:3-21.
11. Berns K.I. Parvovirus replication. Microbiol. Rev. 1990, 54:316-329.
12. Blok J., Mackenzie A., Guy P., Gibbs A.J. Nucleotide sequence comparisons of turnip yellow mosaic virus isolates from Australia and Europe. Arch. Virol. 1987, 97:283-295.
13. Bonnet J., Fraile A., Sacristan S., Malpica J.M., Garcia-Arenal F. Role of recombination in the evolution of natural populations of Cucumber mosaic virus, a tripartite RNA plant virus. Virology 2005, 332:359-368.
14. Botstein D. A theory of modular evolution for bacteriophages. Ann. N.Y. Acad. Sci. 1980, 354:484-491.
15. Briddon R.W., Bull S.E., Amin I., Mansoor S., Bedford I.D., Rishi N., et al. Diversity of DNA 1: a satellite-like molecule associated with monopartite begomovirus-DNA beta complexes. Virology 2004, 324:462-474.
16. Brunt A.A., Crabtree K., Dallwitz M., Gibbs A., Watson L. Viruses of Plants 1996, C.A.B. International, Oxford.
17. Chare E.R., Holmes E.C. A phylogenetic survey of recombination frequency in plant RNA viruses. Arch. Virol. 2006, 151:933-946.
18. Chaw S.-M., Chang C.-C., Chen H.-L., Li W.H. Dating the Monocot-Dicot divergence and the origin of core Eudicots using whole chloroplast genomes. J. Mol. Evol. 2004, 58:424-441.
19. Chin L.-S., Forster J.L., Falk B.W. The beet western yellows virus ST9-associated RNA shares structural and nucleotide sequence homology with carmo-like viruses. Virology 1993, 192:473-482.
20. Cilia M.L., Jackson D. Plasmodesmata form and function. Curr. Opin. Cell Biol. 2004, 16:500-506.
21. D'Arcy W.G. The Solanaceae since 1976, with a review of its biogeography. III. Taxonomy, Chemistry, Evolution 1991, Royal Botanic Gardens and Linnaeansociety of London, London, Solanaceae. J.G. Hawkes, R.N. Lester, M. Nee, N. Estrada (Eds.).
22. Dangl J.L., Jones J.D.G. Plant pathogens and integrated defense responses to infection. Nature, Lond. 2001, 411:826-833.
23. Dawson W.O., Beck D.L., Knorr D.A., Grantham G.L. cDNA cloning of the complete genome of tobacco mosaic virus and production of infectious trancripts. Proc. Natl Acad. Sci. USA 1986, 83:1832-1836.
24. Deleris A., Gallego-Bartolome J., Bao J., Kasschau K.D., Carrington J.C., Voinnet O. Hierarchical action and inhibition of plant Dicer-like proteins in antiviral defense. Science 2006, 313:68-71.
25. Demler S.A., Borkhsenious O.N., Rucker D.G., de Zoeten G.A. Assessment of the autonomy of replicative and structural functions encoded by the luteo-phase of pea enation mosaic virus. J. Gen. Virol. 1994, 75:997-1007.
26. Desbiez C., Lecoq H. The nucleotide sequence of Watermelon mosaic virus (WMV, Potyvirus) reveals interspecific recombination between two related potyviruses in the 5' part of the genome. Arch. Virol. 2004, 149:1619-1632.
27. Dobzhansky T. Nothing in biology makes sense except in the light of evolution. Am. Biol. Teacher 1973, 35:125-129.
28. Dolja V.V., Boyko V.P., Agranovsky A.A., Koonin E.V. Phylogeny of capsid proteins of rod-shaped and filamentous RNA plant viruses: two families with distinct patterns of sequence and probably structure conservation. Virology 1991, 184:79-86.
29. Domingo E., Holland J.J. RNA virus mutations and fitness for survival. Annu. Rev. Microbiol. 1997, 51:151-178.
30. Donis-Keller H., Browning K.S., Clarck J.M. Sequence heterogeneity in satellite tobacco necrosis virus RNA. Virology 1981, 110:43-54.
31. Drake J.W., Holland J.J. Mutation rates among lytic RNA viruses. Proc. Natl Acad. Sci. USA 1999, 96:13910-13913.
32. Drake J.W., Charlesworth B., Charlesworth D., Crow J.F. Rates of spontaneous mutation. Genetics 1998, 148:1667-1686.
33. Dwyer G.I., Gibbs M.J., Gibbs A.J., Jones R.A.C. Wheat streak mosaic virus in Australia: Relationship to isolates from the Pacific Northwest of the USA and its dispersion via seed transmission. Plant Dis. 2007, 91:164-170.
34. Eigen M. On the nature of virus quasispecies. Trends Microbiol. 1996, 4:216-218.
35. Eigen M., Schuster P. The hypercycle. A principle of natural self-orgenization. Pt.A: emergence of the hypercycle. Naturwissenchaften 1977, 64:541-565.
36. Escriu F., Fraile A., García-Arenal F. Constraints to genetic exchange support gene coadaptation in a tripartite RNA virus. PLoS Pathog. 2007, 3:e8.
37. Falk B.W., Tian T., Yeh H.-H. Luteovirus-associated viruses and subviral RNAs. Satellites and Defective Viral RNAs 1999, 159-175. Springer, Berlin. P.K. Vogt, A.O. Jackson (Eds.).
38. Fauquet C.M., Mayo M.A., Maniloff J., Desselberger U., Ball L.A. Virus Taxonomy: Classification and Nomenclature of Viruses. 8th Report of the International Committee on the Taxonomy of Viruses 2005, 1 vol. Elsevier-Academic Press, Virus Taxonomy: classification and Nomenclatura of viruses 8th Report of the international committee on the toxonomy of viruses 1 vol. San Diego.
39. Fraile A., Escriu F., Aranda M.A., Malpica J.M., Gibbs A.J., García-Arenal F. A century of tobamovirus evolution in an Australian population of Nicotiana glauca. J. Virol. 1997, 71:8316-8320.
40. French R., Stenger D.C. Evolution of wheat streak mosaic virus: dynamics of population growth within plants may explain limited variation. Annu. Rev. Phytopathol. 2003, 41:199-214.
41. Froissart R., Roze D., Uzest M., Galibert L., Blanc S., Michalakis Y. Recombination every day: abundant recombination in a virus during a single multi-cellular host infection. PLoS Biol. 2005, 3:e89.
42. Fukuda M., Okada Y., Otsuki Y., Takebe I. The site of initiation of rod assembly on the RNA of a tomato and a cowpea strain of tobacco mosaic virus. Virology 1980, 101:493-502.
43. Furió V., Moya A., Sanjuán R. The cost of replication fidelity in an RNA virus. Proc. Natl Acad. Sci. USA 2005, 102:10233-10237.
44. García-Andrés S., Accotto P.G., Navas-Castillo J., Moriones E. Founder effect, plant host, and recombination shape the emergent population of begomoviruses that cause the tomato yellow leaf curl disease in the Mediterranean basin. Virology 2007, 359:302-312.
45. García-Arena F., Palukaitis P., Zaitlin M. Strains and mutants of tobacco mosaic virus are both found in virus derived from single-lesion-passaged inoculum. Virology 1984, 132:131-137.
46. García-Arenal F., McDonald B.A. An analysis of the durability of resistance of plant to viruses. Phytopathology 2003, 93:941-952.
47. García-Arenal F., Fraile A., Malpica J.M. Variability and genetic structure of plant virus populations. Annu. Rev. Phytopathol. 2001, 39:157-186.
48. Geering A.D.W., Olszewski N.E., Harper G., Lockhart B.E.L., Hull R., Thomas J.E. Banana contains a diverse array of endogenous badnaviruses. J. Gen. Virol. 2005, 86:511-520.
49. Gibbs A. Plant virus classification. Adv. Virus Res. 1968, 14:263-328.
50. Gibbs A. Molecular evolution of viruses; 'trees,''clocks' and 'modules. ' J. Cell Sci. 1987, 7:319-337.
51. Gibbs A., Harrison B. Plant Virology: The Principles 1976, Edward Arnold, London.
52. Gibbs A., Keese P. In search of the origins of viral genes. Molecular Basis of Virus Evolution 1995, 76-90. Cambridge University Press, Cambridge. A.J. Gibbs, C.H. Calisher, F. García-Arenal (Eds.).
53. Gibbs A.J., Keese P.L., Gibbs M.J., Garcia-Arenal F. Plant virus evolution; past, present and future. Origin and Evolution of Viruses 1999, 263-285. Academic Press, New York. E. Domingo, R. Webster, J. Holland (Eds.).
54. Gibbs M.J. The genome of carrot mottle mimic umbravirus and the evolution of the carmo and sobemo virus families 1995, D. Phil. thesis, University of Oxford, Oxford.
55. Gibbs M.J., Weiller G.F. Evidence that a plant virus switched hosts to infect a vertebrate and then recombined with a vertebrate-infecting virus. Proc. Natl Acad. Sci. USA 1999, 96:8022-8027.
56. Gibbs M.J., Cooper J.I., Waterhouse P.M. The genome organization and affinities of an Australian isolate of carrot mottle umbravirus. Virology 1996, 224:310-313.
57. Gibbs M.J., Ziegler A., Robinson D.J., Waterhouse P.M., Cooper J.I. Carrot mottle mimic virus (CMoMV): A second umbravirus associated with carrot motley dwarf disease recognised by nucleic acid hybridisation. Mol. Plant Pathol. 1996, On-Line http://www.bspp.org.uk/mppol/1996/1111gibbs.
58. Gibbs M.J., Koga R., Moriyama H., Pfeiffer P., Fukuhara T. Phylogenetic analysis of some large double-stranded RNA replicons from plants suggests they evolved from a defective single-stranded RNA virus. J. Gen. Virol. 2000, 81:227-233.
59. Gibbs, M.J., Ohshima, K., and Gibbs, A.J. (2007). Potyvirus: a genus for the Holocene. in preparation.
60. Gierer A., Mundry K.W. Production of mutants of tobacco mosaic virus by chemical alteration of its ribonucleic acid in vitro. Nature, Lond. 1958, 182:1457-1458.
61. Goelet P., Lomonossoff G.P., Butler P.J.G., Akam M.E., Gait M.J., Karn J.N. Nucleotide sequence of tobacco mosaic virus RNA. Proc. Natl Acad. Sci. USA 1982, 79:5818-5822.
62. Gog J.R., Grenfell B.T. Dynamics and selection of many-strain pathogens. Proc. Natl Acad. Sci. USA 2002, 99:17209-17214.
63. Goldbach R., de Haan P. RNA viral supergroups and the evolution of RNA viruses. The Evolutionary Biology of Viruses 1994, 161-184. Raven Press, New York. S. Morse (Ed.).
64. Goulden M.G., Davies J.W., Wood K.R., Lomonossoff G.P. Structure of tobraviral particles: a model suggested from sequence conservation in tobraviral and tobamoviral coat proteins. J. Mol. Biol. 1992, 227:1-8.
65. Grenfell B.T., Pybus O.G., Gog J.R., Wood J.L., Daly J.M., Mumford J.A., EC H. Unifying the epidemiological and evolutionary dynamics of pathogens. Science 2004, 303:327-332.
66. Hacker C.V., Brasier C.M., Buck K.W. A double-stranded RNA from a Phytophthora species is related to the plant endornaviruses and contains a putative UDP glycosyltransferase gene. J. Gen. Virol. 2005, 86:1561-1570.
67. Hamilton A.J., Baulcombe D.C. A species of small antisense RNA in post-transcriptional gene silencing in plants. Science 1999, 286:950-952.
68. Hanada K., Harrison B.D. Effects of virus genotype and temperature on seed transmission of nepoviruses. Ann. Appl. Biol. 1977, 85:79-92.
69. Harrison B.D. Plant virus ecology: ingredients, interactions and environment influences. Ann. Appl. Biol. 1981, 99:195-209.
70. Harrison B.D. Virus variation in relation to resistance-breaking in plants. Euphytica 2002, 124:181-192.
71. Haseloff J., Goelet P., Zimmern D., Ahlquist P., Dasgupta R., Kaesberg P. Striking similarities in amino acid sequence among nonstructural proteins encoded by RNA viruses that have dissimilar genomic organization. Proc. Natl Acad. Sci. USA 1984, 81:4358-4362.
72. Hibino H. Biology and epidemiology of rice viruses. Annu. Rev. Phytopathol. 1996, 34:249-274.
73. Hillman B.I., Anzola J.V., Halpern B.T., Cavileer T.D., Nuss D.L. First field isolation of wound tumor virus from a plant host: minimal sequence divergence from the type strain isolated from an insect vector. Virology 1991, 185:896-900.
74. Himber C., Dunoyer P., Moissiard G., Ritzenthaler C., Voinnet O. Transitivity-dependent and -independent cell-to-cell movement of RNA silencing. EMBO J. 2003, 22:4523-4533.
75. Holmes F.O. Handbook of Phytopathogenic Viruses 1939, Burgess Publishing, Minneapolis, Minnesota.
76. Holmes F.O. Indications of a New-World origin of tobacco-mosaic virus. Phytopathology 1950, 41:341-349.
77. Hughes A.L., Friedman R. Poxvirus genome evolution by gene gain and loss. Mol. Phylogenet. Evol. 2005, 35:186-195.
78. Hull R. Matthews' Plant Virology 2001, Academic Press, New York. 4th edn.
79. Iglesia F., de la, Elena S.F. Fitness declines in Tobacco etch virus upon serial bottlenecks transfers. J. Virol. 2007, 81:4941-4947.
80. Jeanmougin F., Thompson J.D., Gibson T.J., Gouy M., G H.D. Multiple sequence alignment with Clustal X. Trends in Biochemical Sciences 1998, 23:403-405.
81. Jones R.A.C., Coutts B.A., Mackie A.E., Dwyer G.I. Seed transmission of Wheat streak mosaic virus shown unequivocally in wheat. Plant Dis. 2005, 89:1048-1050.
82. Kamer G., Argos P. Primary structural comparisons of RNA-dependent polymerases from plant, animal and bacterial viruses. Nucleic Acids Res. 1984, 12:7269-7282.
83. Kassanis B., Nixon H.L. Activation of one plant virus by another. Nature, Lond. 1960, 187:713-714.
84. Keese P., Gibbs A. Origins of genes: big bang or continuous creation?. Proc. Natl Acad. Sci. USA 1992, 89:9489-9493.
85. Keese P., Gibbs A. Plant viruses: master explorers of evolutionary space. Curr. Opin. Genet. Dev. 1993, 3:873-877.
86. Koonin E.V., Dolja V.V. Evolution and taxonomy of positive-strand RNA viruses: implications of comparative analysis of amino acid sequences. Crit. Rev. Biochem. Mol. Biol. 1993, 28:375-430.
87. Koonin E.V., Dolja V.V. Evolution of complexity in the viral world: The dawn of a new vision. Virus Res. 2006, 117:1-4.
88. Koonin E.V., Senkevich T.G., Dolja V.V. The ancient virus world and evolution of cells Biol. Direct 2006, 1:29.
89. Kormelink R., De Haan P., Meurs C., Peters D., Goldbach R. The nucleotide sequence of the M RNA segment of tomato spotted wilt virus, a bunyavirus with two ambisense RNA segments. J. Gen. Virol. 1992, 73:2795-2804.
90. Kunkel L.O. Variation in phytopathogenic viruses. Annu. Rev. Microbiol. 1947, 1:85-100.
91. Kurath G., Palukaitis P. Serial passage of infectious transcripts of a cucumber mosaic virus satellite RNA clone results in sequence heterogeneity. Virology 1990, 176:8-15.
92. Lai M.M. RNA recombination in animal and plant viruses. Microbiol. Rev. 1992, 56:61-79.
93. Lartey R.T., Voss T.C., Melcher U. Tobamovirus evolution: gene overlaps, recombination and taxonomic implications. Mol. Biol. Evol. 1996, 13:1327-1338.
94. Lecellier C.H., Dunoyer P., Arar K., Lehmann-Che J., Eyquem S., Himber C., et al. A cellular microRNA mediates antiviral defense in human cells. Science 2005, 308:557-560.
95. Lindbo J.A., Silva-Rosales L., Proebsting W.M., Dougherty W.G. Induction of a highly specific antiviral state in transgenic plants: Implications for regulation of gene expression and virus resistance. Plant Cell 1993, 5:1749-1759.
96. Lucas W. Plant viral movement proteins: agents for cell-to-cell trafficking of viral genomes. Virology 2006, 344:169-184.
97. MacLean G.D., Waterhouse P.M., Evans G., Gibbs M.J. Commercialization of transgenic crops: risk, benefit and trade considerations 1997, Australian Government Publishing Service, Canberra.
98. Malpica J.M., Fraile A., Moreno I., Obies C.I., Drake J.W., Garcia-Arenal F. The rate and character of spontaneous mutation in an RNA virus. Genetics 2002, 162:1011-1505.
99. Marco A., Marín I. Retrovirus-like elements in plants. Recent Res. Dev. Plant Sci. 2005, 3:1-10.
100. Margis R., Fusaro A., Smith N., Curtin S., Watson J., Finnegan E., Waterhouse P. The evolution and diversification of Dicers in plants. FEBS Lett. 2006, 580:2442-2450.
101. Martin D.P., van der Walt E., Posada D., Rybicki E.P. The evolutionary value of recombination is constrained by genome modularity. PLoS Genet. 2005, 1:e51.
102. Martin D.P., Williamson C., Posada D. RDP2: recombination detection and analysis from sequence alignments. Bioinformatics 2005, 21:260-262.
103. McKinney H.H. Mosaic diseases of wheat and related cereals. US Department of Agriculture Circular 1937, pp.:1-23.
104. Meehan B.M., Creelan J.L., McNulty M.S., Todd D. Sequence of porcine circovirus DNA: affinities with plant circoviruses. J. Gen. Virol. 1997, 78:221-227.
105. Mette M.F., Kanno T., Aufsatz W., Jakowitsch J., van der Winden J., Matzke M.A., Matzke A.J.M. Endogenous viral sequences and their potential contribution to heritable virus resistance in plants. EMBO J. 2002, 21:461-469.
106. Moury B. Differential selection of genes of cucumber mosaic virus subgroups. Mol. Biol. Evol. 2004, 21:1602-1611.
107. Moury B., Morel C., Johansen E., Jacquemond M. Evidence for diversifying selection in Potato virus Y and in the coat protein of other potyviruses. J. Gen. Virol. 2002, 83:2563-2573.
108. Murant A.F. Complexes of transmission-dependentand helper viruses. Diagnosis of Plant Virus Diseases 1993, 333-357. CRC Press, Boca Raton, FL. R.E.F. Matthews (Ed.).
109. Nei M. Molecular Evolutionary Genetics 1987, Columbia University Press, New York.
110. Ogawa, T., Tomitaka, Y., Nakagawa, A., and 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, 199-212.
111. Ohshima K., Tomitaka Y., Wood J.T., Minematsu Y., Kajiyama H., Tomimura K., Gibbs A.J. Patterns of recombination in Turnip mosaic virus genomic sequences indicate hotspots of recombination. J. Gen. Virol. 2007, 88:298-315.
112. Overall R., Blackman L. A model of the macromolecular structure of plasmodesmata. Trends Plant Sci. 1996, 1:307-311.
113. Pinel A., Abubakar Z., Traoré O., Konaté G., Fargette D. Molecular epidemiology of the RNA satellite of rice yellow mottle virus in Africa. Arch. Virol. 2003, 148:1721-1733.
114. Pruss G., Ge X., Shi X.M., Carrington J.C., Bowman V.V. Plant viral synergism: the potyviral genome encodes a broad-range pathogenicity enhancer that transactivates replication of heterologous viruses. Plant Cell 1997, 9:859-868.
115. Qiu Y.L., Lee J., Bernasconi-Quadroni F., Soltis D.E., Soltis P.S., Zanis M., et al. The earliest angiosperms: Evidence from mitochondrial, plastid and nuclear genomes. Nature, Lond. 1999, 402:404-407.
116. Ratcliff F., Harrison B.D., Baulcombe D.C. A similarity between viral defense and gene silencing in plants. Science 1997, 276:1558-1560.
117. Raven P.H. The migration and evolution of floras in the southern hemisphere. Bothalia 1983, 14:325-328.
118. Rocheleau L., Pelchat M. The Subviral RNA Database: a toolbox for viroids, the hepatitis delta virus and satellite RNAs research. BMC Microbiol. 2006, 6:24.
119. Rochow W.F. Dependent virus transmission from mixed infections. Aphids as Virus Vectors 1977, 253-273. Academic Press, New York. K.F. Harris, K. Maramorosch (Eds.).
120. Rodríguez-Cerezo E., García-Arenal F. Genetic heterogeneity of the RNA genome population of the plant virus U5-TMV. Virology 1989, 170:418-423.
121. Roossinck M. Symbiosis versus competition in plant virus evolution. Nature Rev. Microbiol. 2005, 3:917-924.
122. Ryabov E.V., Fraser G., Mayo M.A., Barker H., Taliansky M. Umbravirus gene expression helps potato leafroll virus to invade mesophyll tissues and to be transmitted mechanically between plants. Virology 2001, 286:363-372.
123. Sacristán S., Malpica J.M., Fraile A., García-Arenal F. Estimation of population bottlenecks during systemic movement of Tobacco mosaic virus in tobacco plants. J. Virol. 2003, 77:9906-9911.
124. Saitou N., Nei M. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 1987, 4:406-425.
125. Sanjuan R., Moya A., Elena S.F. The contribution of epistasis to the architecture of fitness in an RNA virus. Proc. Natl Acad. Sci. USA 2004, 101:15376-15379.
126. Schneider W.L., Roossinck M.J. Evolutionary related Sindbis-like plant viruses maintain different levels of population diversty in a common host. J. Virol. 2000, 74:3130-3134.
127. Schneider W.L., Roossinck M.J. Genetic diversity in RNA virus quasispecies is controlled by host-virus interactions. J. Virol. 2001, 75:6566-6571.
128. Seal S.E., van den Bosch F., Jeger M.J. Factors influencing begomovirus evolution and their increasing global significance: implications for sustainable control. Crit. Rev. Plant Sci. 2006, 25:23-46.
129. Sharma R., Damgaard D., Alexander T.W., Dugan M.E., Aalhus J.L., Stanford K., McAllister T.A. Detection of transgenic and endogenous plant DNA in digesta and tissues of sheep and pigs fed Roundup Ready canola meal. J. Agric. Food Chem. 2006, 54:1699-1709.
130. Sharp P.M. In search of molecular darwinism. Nature, Lond. 1997, 385:111-112.
131. Simon A.E., Roossinck M.J., Havelda Z. Plant virus satellite and defective interfering RNAs: new paradigms for a new century. Annu. Rev. Phytopathol. 2004, 42:415-437.
132. Skotnicki M.L., Mackenzie A.M., Ding S.W., Mo J.Q., Gibbs A.J. RNA hybrid mismatch polymorphisms in Australian populations of turnip yellow mosaic tymovirus. Arch. Virol. 1993, 132:83-99.
133. Smith A.E., Helenius A. How viruses enter animal cells. Science 2004, 304:237-242.
134. Smith K.M. A Textbook of Plant Virus Diseases 1957, Churchill, London. 2nd edn.
135. Soltis P.S., Soltis D.E., Chase M.W. Angiosperm phylogeny inferred from multiple genes: A research tool for comparative biology. Nature 1999, 402:402-404.
136. Soosaar J.L., Burch-Smith T.M., Dinesh-Kumar S.P. Mechanisms of plant resistance to viruses. Nat. Rev. Microbiol. 2005, 3:789-798.
137. Staginnus C., Richert-Poggeler K.R. Endogenous pararetroviruses: two-faced travelers in the plant genome. Trends Plant Sci. 2006, 11:485-491.
138. Stenger D.C., Seifers D.L., French R. Patterns of polymorphism in wheat streak mosaic virus: sequence space explored by a clade of closely related viral genotypes rivals that between the most divergent strains. Virology 2002, 3-2:58-70.
139. Symon D.E. Gondwanan elements of the Solanaceae. Solanaceae III: Taxonomy, Chemistry, Evolution 1991, Royal Botanic Gardens and Linnaean Society of London, London. J.G. Hawkes, R.N. Lester, M. Nee, N. Estrada (Eds.).
140. Taliansky M.E., Robinson D.J. Trans-acting untranslated elements of groundnut rosette virus satellite RNA are involved in symptom production. J. Gen. Virol. 1997, 78:1277-1285.
141. Taliansky M.E., Robinson D.J. Molecular biology of umbraviruses: phantom warriors. J. Gen. Virol. 2003, 84:1951-1960.
142. Taliansky M.E., Robinson D.J., Murant A.F. Complete nucleotide sequence and organization of the RNA genome of groundnut rosette umbravirus. J. Gen. Virol. 1996, 77:2335-2345.
143. Tan Z., Wada Y., Chen J., Ohshima K. Inter- and intralineage recombinants are common in natural populations of Turnip mosaic virus. J. Gen. Virol. 2004, 85:2683-2696.
144. Taylor J.M. Human hepatitis delta virus. Curr. Top. Microbiol. Immunol. 1991, 168:141-166.
145. Tepfer M., Balázs E. Virus-resistant Plants: Potential Ecological Impact 1997, Springer, Berlin.
146. Tsompana M., Abad J., Purugganan M., Moyer J.W. The molecular population genetics of the Tomato spotted wilt virus (TSWV) genome. Mol. Ecol. 2005, 14:53-66.
147. Valli A., López-Moya J.J., García J.A. Recombination and gene duplication in the evolutionary diversification of P1 proteins in the family Potyviridae. J. Gen. Virol. 2007, 88:1016-1028.
148. van den Heuvel J.F., Verbeek M., van der Wilk F. Endosymbiotic bacteria associated with circulative transmission of potato leafroll virus by. Myzus persicae. J. Gen. Virol. 1994, 75:2559-2565.
149. Van Regenmortel M.H.V. Tobacco mosaic virus: antigenic structure. The Plant Viruses. 2. The Rod-shaped Plant Viruses 1986, 79-104. Plenum Press, New York. M.H.V. van Regenmortel, H. Fraenkel-Conrat (Eds.).
150. Van Regenmortel M.H.V. The antigenicity of tobacco mosaic virus Philos. Trans. R Soc. Lond. B Biol. Sci. 1999, 354:559-568.
151. Voinnet O. Induction and suppression of RNA silencing: insights from viral infections. Nat. Rev. Genet. 2005, 6:206-220.
152. Waigmann E., Ueki S., Trutnyeva K., Citovsky V. The ins and outs of nondestructive cell-to-cell and systemic movement of plant viruses. Crit. Rev. Plant Sci. 2004, 23:195-250.
153. Wang X.H., Aliyari R., Li W.X., Li H.W., Kim K., Carthew R., et al. RNA interference directs innate immunity against viruses in adult Drosophila. Science 2006, 312:452-454.
154. Ward C.W., Weiller G., Shukla D.D., Gibbs A.J. Molecular systematics of the Potyviridae, the largest plant virus family. Molecular Basis of Virus Evolution 1995, 477-500. Cambridge University Press, Cambridge. A.J. Gibbs, C.H. Calisher, F. Garcia-Arenal (Eds.).
155. Wetzel T., Deitzgen R.G., Dale J.L. Genomic organization of lettuce necrotic yellows rhabdovirus. Virology 1994, 200:401-412.
156. Wright D.A., Voytas D.F. Athila4 of Arabidopsis and Calypso of soybean define a lineage of endogenous plant retroviruses. Genome Res. 2002, 12:122-131.
157. Yano S.T., Panbehi B., Das A., Laten H.M. Diaspora, a large family of Ty3-gypsy retrotransposons in Glycine max, is an envelope-less member of an endogenous plant retrovirus lineage. BMC Evol. Biol. 2005, 5:30.
158. Yarwood C.E. Host passage effects with plant viruses. Adv. Virus Res. 1979, 25:169-190.
159. Young D.J., Watson L. The classification of dicotyledons: a study of the upper levels of the hierarchy. Aust. J. Bot. 1970, 18:387-433.
160. Zanotto P.M.d.A., Gibbs M.J., Gould E.A., Holmes E.C. A reevaluation of the higher taxonomy of viruses based on RNA polymerases. J. Virol. 1996, 70:6083-6096.