The turnip yellow mosaic virus tRNA-like structure cannot be replaced by generic tRNA-like elements or by heterologous 3' untranslated regions known to enhance mRNA expression and stability

The tRNA-like structure (TLS) at the 3' end of the turnip yellow mosaic virus genome was replaced with heterologous tRNA-like elements, and with a poly(A) tail, in order to assess its role. Replacement with the valylatable TLSs from two closely related tymoviruses resulted in infectious viruses. In contrast, no systemic symptoms on plants, and only low viral accumulations in protoplasts, were observed for three chimeric genomes with 3' sequences known to enhance mRNA stability and translatability. One of these chimeras had a poly(A) tail, and the others had the TLS with associated upstream pseudoknot tracts from the 3' ends of brome mosaic and tobacco mosaic viruses. The latter two chimeric RNAs were shown to be appropriately folded by demonstrating their aminoacylation in vitro with tyrosine and histidine, respectively. The results show that enhancement of genome stability or gene expression is not the major role of the turnip yellow mosaic virus TLS. The major role is likely to be replicational, dependent on features present in tymoviral TLSs but not in generic tRNA-like structures.

[1]  M. Pinck,et al.  Enzymatic Binding of Valine to the 3′ End of TYMV-RNA , 1970, Nature.

[2]  L. Philipson,et al.  Binding of histidine to tobacco mosaic virus RNA. , 1972, Biochemical and biophysical research communications.

[3]  P. Kaesberg,et al.  Enzyme-mediated binding of tyrosine to brome-mosaic-virus ribonucleic acid. , 1972, The Biochemical journal.

[4]  T. Hall,et al.  Aminoacylation of RNA from several viruses: amino acid specificity and differential activity of plant, yeast and bacterial synthetases. , 1974, The Journal of general virology.

[5]  S. Litvak,et al.  Further studies on the enzymatic aminoacylation of TMV‐RNA by histidine , 1974, FEBS letters.

[6]  M. Zaitlin,et al.  A genetic map for the cowpea strain on TMV. , 1976, Virology.

[7]  T. Hall,et al.  Aminoacylation properties of eggplant mosaic virus RNA. Separation and association of tRNAs. , 1978, Virology.

[8]  J. Ebel,et al.  Valylation of the two RNA components of turnip-yellow mosaic virus and specificity of the tRNA aminoacylation reaction. , 1978, European journal of biochemistry.

[9]  T. Hall.  Transfer RNA-like structures in viral genomes. , 1979, International review of cytology.

[10]  A. Rao,et al.  Comparative studies on tomato aspermy and cucumber mosaic viruses. VI. Partial compatibility of genome segments from the two viruses. , 1981, Virology.

[11]  P. Ahlquist,et al.  Near identity of 3′ RNA secondary structure in bromoviruses and cucumber mosaic virus , 1981, Cell.

[12]  A. Haenni,et al.  Length requirements for tRNA-specific enzymes and cleavage specificity at the 3' end of turnip yellow mosaic virus RNA. , 1982, Nucleic acids research.

[13]  J. Karn,et al.  Nucleotide sequence of tobacco mosaic virus RNA. , 1982, Proceedings of the National Academy of Sciences of the United States of America.

[14]  R. Joshi,et al.  Aminoacyl RNA domain of turnip yellow mosaic virus Val-RNA interacting with elongation factor Tu. , 1984, Nucleic acids research.

[15]  T. Dreher,et al.  Mutant viral RNAs synthesized in vitro show altered aminoacylation and replicase template activities , 1984, Nature.

[16]  W. Dawson,et al.  cDNA cloning of the complete genome of tobacco mosaic virus and production of infectious transcripts. , 1986, Proceedings of the National Academy of Sciences of the United States of America.

[17]  L. Lane.  Propagation and purification of RNA plant viruses , 1986 .

[18]  W. Miller,et al.  Minus-strand initiation by brome mosaic virus replicase within the 3' tRNA-like structure of native and modified RNA templates. , 1986, Journal of molecular biology.

[19]  R. Joshi,et al.  Interaction of turnip yellow mosaic virus Val‐RNA with eukaryotic elongation factor EF‐1 [alpha]. Search for a function. , 1986, The EMBO journal.

[20]  J. Barciszewski,et al.  The primary structure of the first plant tRNAHis , 1986 .

[21]  The nucleotide sequence of a valine accepting tRNA from Lupinus luteus (lupin) seeds. , 1987, Nucleic acids research.

[22]  C. Pleij,et al.  3-D graphics modelling of the tRNA-like 3'-end of turnip yellow mosaic virus RNA: structural and functional implications. , 1987, Journal of biomolecular structure & dynamics.

[23]  C. Pleij,et al.  Structural similarities among valine-accepting tRNA-like structures in tymoviral RNAs and elongator tRNAs , 1987 .

[24]  T. Dreher,et al.  Valylation of tRNA-like transcripts from cloned cDNA of turnip yellow mosaic virus RNA demonstrate that the L-shaped region at the 3' end of the viral RNA is not sufficient for optimal aminoacylation. , 1988, Biochimie.

[25]  M. Ishikawa,et al.  Replication of chimeric tobacco mosaic viruses which carry heterologous combinations of replicase genes and 3' noncoding regions. , 1988, Virology.

[26]  T. Dreher,et al.  Mutational analysis of the sequence and structural requirements in brome mosaic virus RNA for minus strand promoter activity. , 1988, Journal of molecular biology.

[27]  L. H. Schulman,et al.  Anticodon switching changes the identity of methionine and valine transfer RNAs. , 1988, Science.

[28]  R. Schaaper.  Mechanisms of mutagenesis in the Escherichia coli mutator mutD5: role of DNA mismatch repair. , 1988, Proceedings of the National Academy of Sciences of the United States of America.

[29]  P. Ahlquist,et al.  Infectious in vitro transcripts from cowpea chlorotic mottle virus cDNA clones and exchange of individual RNA components with brome mosaic virus , 1988, Journal of virology.

[30]  T. Dreher,et al.  Replication in vivo of mutant brome mosaic virus RNAs defective in aminoacylation. , 1989, Journal of molecular biology.

[31]  T. Dreher,et al.  Infectious TYMV RNA from cloned cDNA: effects in vitro and in vivo of point substitutions in the initiation codons of two extensively overlapping ORFs. , 1989, Nucleic acids research.

[32]  G. Sarkar,et al.  The "megaprimer" method of site-directed mutagenesis. , 1990, BioTechniques.

[33]  Y. Okada,et al.  Mutational analysis of the pseudoknot region in the 3' noncoding region of tobacco mosaic virus RNA , 1990, Journal of virology.

[34]  P. Keese,et al.  The nucleotide sequence of the genomic RNA of kennedya yellow mosaic tymovirus-Jervis Bay isolate: relationships with potex- and carlaviruses. , 1990, The Journal of general virology.

[35]  C. Florentz,et al.  Efficient aminoacylation of a yeast tRNAAsp transcript with a 5' extension , 1990, FEBS letters.

[36]  V. Walbot,et al.  RNA pseudoknot domain of tobacco mosaic virus can functionally substitute for a poly(A) tail in plant and animal cells. , 1990, Genes & development.

[37]  J. Abrahams,et al.  Prediction of RNA secondary structure, including pseudoknotting, by computer simulation. , 1990, Nucleic acids research.

[38]  C. Pleij,et al.  tRNA-like structures. Structure, function and evolutionary significance. , 1991, European journal of biochemistry.

[39]  H. Himeno,et al.  Identity determinants of E. coli tRNA(Val). , 1991, Biochemical and biophysical research communications.

[40]  Turnip yellow mosaic virus RNAs with anticodon loop substitutions that result in decreased valylation fail to replicate efficiently , 1991, Journal of virology.

[41]  C. Pleij,et al.  tRNA‐like structures , 1991 .

[42]  The 3′ promoter region involved in RNA synthesis directed by the turnip yellow mosaic virus genome in vitro , 1991, FEBS letters.

[43]  P. Ahlquist,et al.  Biological activities of hybrid RNAs generated by 3'-end exchanges between tobacco mosaic and brome mosaic viruses , 1991, Journal of virology.

[44]  T. Dreher,et al.  Specific valylation of turnip yellow mosaic virus RNA by wheat germ valyl-tRNA synthetase determined by three anticodon loop nucleotides. , 1992, Biochemistry.

[45]  T. Dreher,et al.  Second-site suppressor mutations assist in studying the function of the 3' noncoding region of turnip yellow mosaic virus RNA , 1992, Journal of virology.

[46]  Efficient mischarging of a viral tRNA-like structure and aminoacylation of a minihelix containing a pseudoknot: histidinylation of turnip yellow mosaic virus RNA. , 1992, Nucleic acids research.

[47]  T. Hall,et al.  Contributions of the brome mosaic virus RNA-3 3'-nontranslated region to replication and translation , 1993, Journal of virology.

[48]  A phylogenetically conserved sequence within viral 3' untranslated RNA pseudoknots regulates translation. , 1993, Molecular and cellular biology.

[49]  H. Swerdlow,et al.  Rapid cycle sequencing in an air thermal cycler. , 1993, BioTechniques.

[50]  T. Dreher,et al.  Cis-preferential replication of the turnip yellow mosaic virus RNA genome. , 1993, Proceedings of the National Academy of Sciences of the United States of America.

[51]  E. Koonin,et al.  Evolution and taxonomy of positive-strand RNA viruses: implications of comparative analysis of amino acid sequences. , 1993, Critical reviews in biochemistry and molecular biology.

[52]  T. Dreher,et al.  In vitro transcription of RNAs with defined 3' termini from PCR-generated templates. , 1993, BioTechniques.

[53]  Amplification in vivo of brome mosaic virus RNAs bearing 3' noncoding region from cucumber mosaic virus. , 1994, Virology.

[54]  D. Gallie,et al.  The role of the 3'-untranslated region of non-polyadenylated plant viral mRNAs in regulating translational efficiency. , 1994, Gene.

[55]  J. Karn,et al.  Nucleotide sequence of tobacco mosaic virus RNA ( oligonucleotide primers / cDNA library / RNA polymorphism / eukaryotic ribosome binding / leaky amber termination ) , 2022 .