Literatur

Baumstark, T. & Riesner, D. (1995).

Only one of four possible secondary structures of the central conserved region of potato spindle tuber viroid is a substrate for processing in a potato nuclear extract.
Nucleic Acids Res., 23, 4246-4254.

Baumstark, T., Schröder, A.R. & Riesner, D. (1997).

Viroid processing: switch from cleavage to ligation is driven by a change from a tetraloop to a loop E conformation.
EMBO J., 16, 599-610.

Bonfiglioli, R.G., Webb, D.R. & Symons, R.H. (1996).

Tissue and intracellular distribution of coconut cadang cadang viroid and citrus exocortis viroid determined by in situ hybridization and confocal laser scanning and transmission electron microscopy.
Plant J., 4, 457-465.

Branch, A.D., Benenfeld, B.J. & Robertson, H.D. (1988).

Evidence for a rolling circle in the replication of potato spindle tuber viroid.
Proc. Nat. Acad. Sci. U.S.A., 85, 9128-9132.

Branch, A.D. & Robertson, H.D. (1984).

A replication cycle for viroids and other small infectious RNA's.
Science, 223, 450-455.

Branch, A.D., Robertson, H.D. & Dickson, E. (1981).

Longer than unit length viroid minus strands are present in RNA from infected plants.
Proc. Nat. Acad. Sci. U.S.A., 85, 6381-6385.

Chamberlin, M. & Ring, J. (1973).

Characterization of T7-specific ribonucleic acid polymerase. I. General properties of the enzymatic reaction and the template specificity of the enzyme.
J. Biol. Chem., 248, 2235-2244.

Davenloo, P., Rosenberg, A.H., Dunn, J.J. & Studier, F.W. (1984).

Cloning and expression of the gene for bacteriophage T7 RNA polymerase.
Proc. Nat. Acad. Sci. U.S.A., 35, 2035-2039.

Davies, J.W., Kaeseberg, P. & Diener, T.O. (1974).

Potato spindle tuber viroid. XII. An investigation of viroid RNA as a messenger for protein synthesis.
Virology, 61, 281-286.

Devereux, J., Haeberli, P. & Smithies, O. (1984).

A comprehensive set of sequence analysis programs for the VAX.
Nucleic Acids Res., 12, 387-395.

Diener, T.O. (1971).

Potato Spindle Tuber ,,Virus``, IV. A replicating, low weight molecular RNA.
Virology, 45, 411-428.

Diener, T.O.; Hrsg. (1987).

The viroids.
Plenum Press, New York.

Ding, B., Kwon, M.O., Hammond, R. & Owens, R. (1997).

Cell-to-cell movement of potato spindle tuber viroid.
Plant J., 12, 931-936.

Ehresmann, C., Baudin, F., Mougel, M., Romby, P., Ebel, J.-P. & Ehresmann, B. (1987).

Probing the structure of RNAs in solution.
Nucleic Acids Res., 15, 9109-9128.

Fels, A. (1997).

Startstellen der Viroid-Replikation im Kernextrakt.
Dissertation, Heinrich-Heine-Universität Düsseldorf.

Flores, R., Randles, J.W., Bar-Joseph, M. & Diener, T.O. (1998).

A proposed scheme for viroid classification and nomenclature.
Arch. Virol., 143, 623-629.

Flores, R., Randles, J.W., Bar-Joseph, M. & Diener, T.O. (2000).

Viroids.
In Virus Taxonomy. Seventh Report of the international Committee Taxonomy of Viruses. (van Regenmortel, M.H.V.; Hrsg.), S. 1009-1024. Academic Press.

François, J.-C., Nguyen, T.T. & Hélène, C. (1994).

Recognition and cleavage of hairpin structures in nucleic acids by oligodesoxynucleotides.
Nucleic Acids Res., 22, 3943-3950.

Genetics Computer Group (1999).

http://www.gcg.com/

Golomb, M. & Chamberlin, M. (1974).

Characterization of T7-specific ribonucleic acid polymerase. IV. Resolution of the major in vitro transcripts by gel electrophoresis.
J. Biol. Chem., 249, 2858-2863.

Goodman, T.C., Nagel, L., Rappold, W., Klotz, G. & Riesner, D. (1984).

Viroid replication: equilibrium association constant and comparative activity measurements for the viroid-polymerase interactions.
Nucleic Acids Res., 12, 6231-6246.

Gross, H.J., Domdey, H., Lossow, C., Jank, P., Raba, M., Alberty, H. & Sänger, H.L. (1978).

Nucleotide sequence and secondary structure of potato spindle tuber viroid.
Nature, 273, 203-208.

Gross, H.J. & Riesner, D. (1980).

Viroide: Eine Klasse subviraler Krankheitserreger.
Angew. Chemie, 4, 233-330.

Hammond, R.W. (1994).

Agrobacterium-mediate inoculation of pstvd cdnas onto tomato reveals the biological effect of apparently lethal mutations.
Virology, 201, 36-45.

Hanahan, D. (1983).

Studies on transformation of Escherichia coli with plasmids.
J. Mol. Biol., 136, 557-580.

Hanahan, D. (1985).

Techniques for transformation of Escherichia coli.
In DNA Cloning, Volume I, a practical approach (Glover, D.M.; Hrsg.), S. 109-135. Oxford.

Harders, J., Lukács, N., Robert-Nicoud, M., Jovin, T.M. & Riesner, D. (1989).

Imaging of viroids in nuclei from tomato leaf tissue by in situ hybridization and confocal laser scanning microscopy.
EMBO J., 8, 3941-3949.

Hecker, R. (1989).

Die Struktur der intermediären Ribonukleinsäuren bei der Replikation von Viroiden.
Dissertation, Heinrich-Heine-Universität Düsseldorf.

Hecker, R., Wang, Z., Steger, G. & Riesner, D. (1988).

Analysis of RNA structure by temperature-gradient gel electrophoresis: Viroid replication and processing.
Gene, 72, 59-74.

Heinrich, S. (1994).

Kinetik der Umwandlung von metastabilen in stabile Strukturen bei PSTVd.
Diplomarbeit, Heinrich-Heine-Universität Düsseldorf.

Henco, K., Sänger, H.L. & Riesner, D. (1979).

Fine structure melting of viroids as studied by kinetic methods.
Nucleic Acids Res., 6, 3041-3059.

Kadesch, T.R. & Chamberlin, M.J. (1982).

Studies of in vitro transcription by calf thymus RNA polymerase II using a novel duplex DNA template.
J. Biol. Chem., 257, 5286-5295.

Keese, P. & Symons, R.H. (1985).

Domains in viroids: Evidence of intermolecular RNA rearrangement and their contribution to viroid evolution.
Proc. Nat. Acad. Sci. U.S.A., 82, 4582-4586.

Klump, H.H. (1987).

Energetics of order/order transitions in nucleic acids.
Canad. J. Chem., 66, 804-809.

Kozak, M. (1979).

Inability of circular mRNA to attach to eukaryotic ribosomes.
Nature, 280, 82-85.

Krupp, G. (1988).

RNA synthesis: strategies for the use of bacteriophage RNA polymerase.
Gene, 72, 75-89.

Langowski, J., Henco, K., Riesner, D. & Sänger, H.L. (1978).

Common structural features of different viroids: serial arrangement of double helical sections and internal loops.
Nucleic Acids Res., 5, 1589-1610.

Le Cuyter, K. & Crothers, J.R. (1994).

Kinetics of an RNA conformational switch.
Proc. Nat. Acad. Sci. U.S.A., 91, 3373-3377.

Loss, P., Schmitz, M., Steger, G. & Riesner, D. (1991).

Formation of a thermodynamically metastable structure containing hairpin II is critical for infectivity of potato spindle tuber viroid RNA.
EMBO J., 10, 719-727.

Manley, J.L. (1984).

Transcription of eukaryotic genes in a whole-cell extract.
In Transcription and translation--a practical approach (Hames, B D & Higgins, S J; Hrsg.), S. 71-88. IRL Press, Oxford, Washington DC.

Marzluff, W.F. & Huang, R.C.C. (1984).

Transcription of RNA in isolated nuclei.
In Transcription and translation--a practical approach (Hames, B.D. & Higgins, S.J.; Hrsg.), S. 89-129. IRL Press, Oxford, Washington DC.

Masukata, H. & Tomizawa, J. (1990).

A mechanism of formation of a persistent hybrid between elongating RNA and template DNA.
Cell, 62, 331-338.

Mühlbach, H.P. & Sänger, H.L. (1979).

Viroid replication is inhibited by $\alpha$-amanitin.
Nature, 278, 185-188.

Mundt, S. (1993).

Modellbildung zur Korrelation zwischen Struktur und Gelmobilität von einzelsträngiger RNA.
Diplomarbeit, Heinrich-Heine-Universität Düsseldorf.

Nussinov, R., Pieczenik, G., Griggs, J.R. & Kleitmann, D.J. (1978).

Algorithm for loop matching.
SIAM J. Appl. Math., 35, 68-82.

Nussinov, R. & Tinoco, I. Jr (1981).

Sequential folding of a messenger RNA molecule.
J. Mol. Biol., 151, 519-533.

Owens, R. & Hammond, R.W. (1990).

Mutational analysis of viroids.
Sem. Virol., 1, 101-107.

Owens, R.A., Hammond, R.W., Gardner, R.C., Kiefer, M.C., Thompson, S.M. & Cress, D.E. (1986).

Site-specific mutagenesis of potato spindle tuber viroid cDNA.
Plant Mol. Biol., 6, 179-192.

Owens, R.A., Steger, G., Hu, Y., Fels, A., Hammond, R.W. & Riesner, D. (1996).

RNA structural features responsible for potato spindle tuber viroid pathogenicity.
Virology, 222, 144-158.

Palukaitis, P. (1987).

Potato spindle tuber viroid: Investigations on the long-distance, intra-plant transport route.
Virology, 158, 101-107.

Pinard, R., Payant, C. & Brakier-Gingras, L. (1995).

Mutation at position 13 and/or 914 in Escherichia coli 16S ribosomal RNA interfere with the initiation of protein synthesis.
Biochemistry, 34, 9611-9616.

Pingoud, A. (1985).

Spermidine increases the accuracy of type II restriction endonukleases.
Eur. J. Biochem., 147, 105-109.

Pingoud, A., Urbanke, C., Alves, J., Ehbrecht, H.J., Zabeau, M. & Gualerzi, C. (1984).

Effect of polyamines and basic proteins on cleavage of DNA by restriction endonukleases.
Biochemistry, 23, 5697-5703.

Qu, F., Heinrich, C., Loss, P., Steger, G., Tien, P. & Riesner, D. (1993).

Multiple pathways of reversion in viroids for conservation of structural elements.
EMBO J., 12, 2129-2139.

Rachen, M. (1997).

Sequentielle Faltung von Viroid-Transkripten.
Diplomarbeit, Heinrich-Heine-Universität Düsseldorf.

Repsilber, D. (1995).

Strukturbildung während der Transkription von Viroid-RNA.
Diplomarbeit, Heinrich-Heine-Universität Düsseldorf.

Repsilber, D., Wiese, U., Rachen, M., Schröder, A.R., Riesner, D. & Steger, G. (1999).

Formation of metastable RNA structures by sequential folding during transcription: Time-resolved structural analysis of potato spindle tuber viroid (-)-stranded RNA by temperature-gradient gel electrophoresis.
RNA, 5, 574-584.

Riesner, D., Baumstark, T., Qu, F., Klahn, T., Loss, P., Rosenbaum, V., Schmitz, M. & Steger, G. (1992).

Physical basis and biological examples of metastable RNA structures.
In Structural tools for the analysis of protein-nucleic acids complexes. Advances in life science., S. 401-435. Birkhäuser Verlag Basel.

Riesner, D. & Gross, H.J. (1985).

Viroids.
Ann. Rev. Biochem., 54, 531-564.

Riesner, D., Hecker, R. & Steger, G. (1988).

Structure of viroid replication intermediates as studied by thermodynamics and temperature-gradient gel electrophoresis.
In Structure and expression (Sarma, R.H. & Sarma, M.H.; Hrsg.), Vol. 1, From Proteins to Ribosomes, S. 261-285. Adenine Press, Schenectady, New York.

Riesner, D., Henco, K., Rokohl, U., Klotz, G., Kleinschmidt, A.K., Domdey, H., Jank, P., Gross, H.J. & Sänger, H.L. (1979).

Structure and structure formation of viroids.
J. Mol. Biol., 133, 85-115.

Riesner, D., Klaff, P., Steger, G. & Hecker, R. (1987).

Viroids: Subcellular location and structure of replicative intermediates.
In Endocytobiology III (Lee, J.J. & Frederick, J.F.; Hrsg.), S. 212-237. The New York Academy of Science, New York.

Riesner, D. & Steger, G. (1990).

Viroids and viroid-like RNA.
In Nucleic Acids, Subvolume d, Physical Data II, Theoretical Investigations. (Sänger, W.; Hrsg.), Landolt-Börnstein, Group VII Biophysics, Vol I, S. 194-243. Springer-Verlag, Berlin.

Rong, M., Durbin, R.K. & McAllister, W.T. (1998).

Template Strand Switching by T7 RNA Polymerase.
J. Biol. Chem., 273, 10253-10260.

Rosenbaum, V. & Riesner, D. (1987).

Temperature-gradient gel electrophoresis. Thermodynamic analysis of nucleic acids and proteins in purified form and in cellular extracts.
Biophys. Chem., 26, 235-246.

Sambrook, J., Fritsch, E.F. & Maniatis, T.; Hrsg. (1989).

Molecular Cloning - A Laboratory Manual, 2^nd Edition.
Cold Spring Habour Laboratory Press, New York.

Sanger, F., Nickler, S. & Coulson, A.R. (1977).

DNA sequencing with chain termination inhibitors.
Proc. Nat. Acad. Sci. U.S.A., 74, 5463-5467.

Sänger, H.L. & Haas, B. (1987, veröffentlicht 1988).

Correlation between viroid structure and pathogenicity.
Colloq. Ges. Biol. Chem., 38, 1-20.

Sänger, H.L., Klotz, G., Riesner, D., Gross, H.J. & Kleinschmidt, A.K. (1976).

Viroids are single-stranded covalently closed circular RNA molecules existing as highly base-paired rod-like structures.
Proc. Nat. Acad. Sci. U.S.A., 73, 3852-3856.

Schindler, I.M. & Mühlbach, H.P. (1992).

Involvement of nuclear DNA-dependent RNA polymerases in potato spindle tuber viroid replication: a reevaluation.
Plant Sci., 8, 221-229.

Schmitz, A. & Riesner, D. (1998).

Correlation between bending of the VM region and pathogenicity of different potato spindle tuber viroid strains.
RNA, 4, 1295-1303.

Schmitz, M. & Steger, G. (1992).

Base-pair probability profiles of RNA secondary structures.
Comp. Appl. Biosci., 8, 389-399.

Schmitz, M. & Steger, G. (1996).

Description of RNA folding by ``simulated annealing''.
J. Mol. Biol., 255, 254-266.

Schnölzer, M., Haas, B., Ramm, K., Hofmann, H. & Sänger, H.L. (1985).

Correlation between structure and pathogenicity of potato spindle tuber viroid (PSTV).
EMBO J., 4, 2181-2190.

Schröder, A.R.W. (1998).

Konformationsspezifische Antisense-RNAs für metastabile Viroid-Strukturen.
Dissertation, Heinrich-Heine-Universität Düsseldorf.

Schumacher, J., Randles, J.W. & Riesner, D. (1983a).

A two-dimensional electrophoretic technique for the detection of circular viroids and virusoids.
Anal. Biochem., 135, 288-295.

Schumacher, J., Sänger, H.L. & Riesner, D. (1983b).

Subcellular localization of viroids in highly purified nuclei from potato leaf tissue.
EMBO J., 2, 1549-1555.

Semancik, J.S.; Hrsg. (1987).

Viroids and viroid-like pathogens.
CRC Press, Boca Raton, Florida.

Sherman, F., McKnight, G. & Stewart, J.W. (1980).

AUG is the only initiation codon in eukaryotes.
Biochim. Biophys. Acta, 609, 343-349.

Steger, G. (1994).

Thermal denaturation of double-stranded nucleic acids: Prediction of temperatures critical for gradient gel electrophoresis and polymerase chain reaction.
Nucleic Acids Res., 22, 2760-2768.

Steger, G. (1999).

http://www.biophys.uni-duesseldorf.de/service/polandform.html

Steger, G., Hofmann, H., Förtsch, J., Gross, H.J., Randles, J.W., Sänger, H.L. & Riesner, D. (1984).

Conformational transitions in viroids and virusoids: Comparison of results from energy minimization algorithm and from experimental data.
J. Biomol. Struct. Dyn., 2, 543-571.

Steger, G., Müller, H. & Riesner, D. (1980).

Helix-Coil transitions in double-stranded viral RNA: fine resolution melting and ionic strength dependence.
Biochim. Biophys. Acta, 606, 274-284.

Symons, R.H.; Hrsg. (1990).

Viroids and related pathogenic RNAs.
Semin. Virol., 1.

Uhlenbeck, O.C., Baller, J. & Doty, P. (1970).

Complementary oligonucleotide binding to the anticodon loop of f ^Met-transfer RNA.
Nature, 225, 508-512.

Weller, J.W. & Hill, W.E. (1992).

Probing dynamic changes in rRNA conformation in the 30S subunit of the Escherichia coli ribosome.
Biochemistry, 31, 2748-2757.

Wild, U., Ramm, K., Sänger, H.L. & Riesner, D. (1980).

Loops in viroids.
Eur. J. Biochem., 103, 227-235.

Zuker, M. & Stiegler, P. (1981).

Optimal folding of large RNA sequences using thermodynamics and auxiliary information.
Nucleic Acids Res., 9, 133-148.