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Anne E. Simon

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Feng Gao; Wojciech Kasprzak; Bruce A Shapiro; Vera A Stupina; Anne E. Simon
A ribosome-binding, 3' translational enhancer has a T-shaped structure and engages in a long-distance RNA-RNA interaction.
Xuefeng Yuan; Kerong Shi; Anne E. Simon
A local, interactive network of 3' RNA elements supports translation and replication of Turnip crinkle virus.
Grant McFadden; Anne E. Simon
Building bridges between plant and animal viruses.

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All Publications

2012: Feng Gao; Wojciech Kasprzak; Bruce A Shapiro; Vera A Stupina; Anne E. Simon
A ribosome-binding, 3' translational enhancer has a T-shaped structure and engages in a long-distance RNA-RNA interaction.
Journal of virology 2012;86(18):9828-42.
2012: Xuefeng Yuan; Kerong Shi; Anne E. Simon
A local, interactive network of 3' RNA elements supports translation and replication of Turnip crinkle virus.
Journal of virology 2012;86(8):4065-81.
2011: Grant McFadden; Anne E. Simon
Building bridges between plant and animal viruses.
Current opinion in virology 2011;1(5):319-21.
2011: Rong Guo; Arturas Meskauskas; Jonathan D. Dinman; Anne E. Simon
Evolution of a helper virus-derived, ribosome binding translational enhancer in an untranslated satellite RNA of Turnip crinkle virus.
Virology 2011;419(1):10-6.
2011: Maitreyi Chattopadhyay; Kerong Shi; Xuefeng Yuan; Anne E. Simon
Long-distance kissing loop interactions between a 3' proximal Y-shaped structure and apical loops of 5' hairpins enhance translation of Saguaro cactus virus.
Virology 2011;417(1):113-25.
2011: Vera A Stupina; Xuefeng Yuan; Arturas Meskauskas; Jonathan D. Dinman; Anne E. Simon
Ribosome binding to a 5' translational enhancer is altered in the presence of the 3' untranslated region in cap-independent translation of turnip crinkle virus.
Journal of virology 2011;85(10):4638-53.
2010: Mingxia Cao; Xiaohong Ye; Kristen Willie; Junyan Lin; Xiuchun Zhang; Margaret G Redinbaugh; Anne E. Simon; T Jack Morris; Feng Qu
The capsid protein of Turnip crinkle virus overcomes two separate defense barriers to facilitate systemic movement of the virus in Arabidopsis.
Journal of virology 2010;84(15):7793-802.
2010: Xuefeng Yuan; Kerong Shi; Megan Y L Young; Anne E. Simon
The terminal loop of a 3' proximal hairpin plays a critical role in replication and the structure of the 3' region of Turnip crinkle virus.
Virology 2010;402(2):271-80.
2010: Xiaobing Zuo; J Wang; Ping Yu; Dan Eyler; Huan Xu; Mary R Starich; David M Tiede; Anne E. Simon; Wojciech Kasprzak; Charles D Schwieters; Bruce A Shapiro; Yun-Xing Wang
Solution structure of the cap-independent translational enhancer and ribosome-binding element in the 3' UTR of turnip crinkle virus.
Proceedings of the National Academy of Sciences of the United States of America 2010;107(4):1385-90.
2009: Xuefeng Yuan; Kerong Shi; Arturas Meskauskas; Anne E. Simon
The 3' end of Turnip crinkle virus contains a highly interactive structure including a translational enhancer that is disrupted by binding to the RNA-dependent RNA polymerase.
RNA (New York, N.Y.) 2009;15(10):1849-64.
2009: Anne E. Simon; Lee Gehrke
RNA conformational changes in the life cycles of RNA viruses, viroids, and virus-associated RNAs.
Biochimica et biophysica acta 2009;1789(9-10):571-83.
2009: Rong Guo; Wai Lin; Jiuchun Zhang; Anne E. Simon; David B Kushner
Structural plasticity and rapid evolution in a viral RNA revealed by in vivo genetic selection.
Journal of virology 2009;83(2):927-39.
2008: Vera A Stupina; Arturas Meskauskas; John C McCormack; Yaroslava Yingling; Bruce A Shapiro; Jonathan D. Dinman; Anne E. Simon
The 3' proximal translational enhancer of Turnip crinkle virus binds to 60S ribosomal subunits.
RNA (New York, N.Y.) 2008;14(11):2379-93.
2008: Alicia J Manfre; Anne E. Simon
Importance of coat protein and RNA silencing in satellite RNA/virus interactions.
Virology 2008;379(1):161-7.
2008: John C McCormack; Xuefeng Yuan; Yaroslava Yingling; Wojciech Kasprzak; Rodolfo E Zamora; Bruce A Shapiro; Anne E. Simon
Structural domains within the 3' untranslated region of Turnip crinkle virus.
Journal of virology 2008;82(17):8706-20.
2006: Jiuchun Zhang; Guohua Zhang; Rong Guo; Bruce A Shapiro; Anne E. Simon
A pseudoknot in a preactive form of a viral RNA is part of a structural switch activating minus-strand synthesis.
Journal of virology 2006;80(18):9181-91.
2006: Xiaoping Sun; Anne E. Simon
A cis-replication element functions in both orientations to enhance replication of Turnip crinkle virus.
Virology 2006;352(1):39-51.
2006: Jiuchun Zhang; Guohua Zhang; John C McCormack; Anne E. Simon
Evolution of virus-derived sequences for high-level replication of a subviral RNA.
Virology 2006;351(2):476-88.
2006: John C McCormack; Anne E. Simon
Callus cultures of Arabidopsis.
Current protocols in microbiology 2006;Chapter 16():Unit16D.1.
2006: Guohua Zhang; Jiuchun Zhang; Anna T George; Tilman Baumstark; Anne E. Simon
Conformational changes involved in initiation of minus-strand synthesis of a virus-associated RNA.
RNA (New York, N.Y.) 2006;12(1):147-62.
2005: Jiuchun Zhang; Anne E. Simon
Importance of sequence and structural elements within a viral replication repressor.
Virology 2005;333(2):301-15.
2005: Xiaoping Sun; Guohua Zhang; Anne E. Simon
Short internal sequences involved in replication and virion accumulation in a subviral RNA of turnip crinkle virus.
Journal of virology 2005;79(1):512-24.
2004: Jiuchun Zhang; Robert M Stuntz; Anne E. Simon
Analysis of a viral replication repressor: sequence requirements for a large symmetrical internal loop.
Virology 2004;326(1):90-102.
2004: John C McCormack; Anne E. Simon
Biased hypermutagenesis associated with mutations in an untranslated hairpin of an RNA virus.
Journal of virology 2004;78(14):7813-7.
2004: Guohua Zhang; Jiuchun Zhang; Anne E. Simon
Repression and derepression of minus-strand synthesis in a plus-strand RNA virus replicon.
Journal of virology 2004;78(14):7619-33.
2004: Anne E. Simon; Marilyn J Roossinck; Zoltán Havelda
Plant virus satellite and defective interfering RNAs: new paradigms for a new century.
Annual review of phytopathology 2004;42():415-37.
2003: Fengli Zhang; Anne E. Simon
A novel procedure for the localization of viral RNAs in protoplasts and whole plants.
The Plant journal : for cell and molecular biology 2003;35(5):665-73.
2003: Fengli Zhang; Anne E. Simon
Enhanced viral pathogenesis associated with a virulent mutant virus or a virulent satellite RNA correlates with reduced virion accumulation and abundance of free coat protein.
Virology 2003;312(1):8-13.
2003: Xiaoping Sun; Anne E. Simon
Fitness of a turnip crinkle virus satellite RNA correlates with a sequence-nonspecific hairpin and flanking sequences that enhance replication and repress the accumulation of virions.
Journal of virology 2003;77(14):7880-9.
2003: Guohua Zhang; Anne E. Simon
A multifunctional turnip crinkle virus replication enhancer revealed by in vivo functional SELEX.
Journal of molecular biology 2003;326(1):35-48.
2001: Peter D Nagy; Judit Pogany; Anne E. Simon
In vivo and in vitro characterization of an RNA replication enhancer in a satellite RNA associated with turnip crinkle virus.
Virology 2001;288(2):315-24.
2000: H Guan; Anne E. Simon
Polymerization of nontemplate bases before transcription initiation at the 3' ends of templates by an RNA-dependent RNA polymerase: an activity involved in 3' end repair of viral RNAs.
Proceedings of the National Academy of Sciences of the United States of America 2000;97(23):12451-6.
2000: Jianlong Wang; Anne E. Simon
3'-End stem-loops of the subviral RNAs associated with turnip crinkle virus are involved in symptom modulation and coat protein binding.
Journal of virology 2000;74(14):6528-37.
2000: Shigeo Yoshinari; Peter D Nagy; Anne E. Simon; Theo W Dreher
CCA initiation boxes without unique promoter elements support in vitro transcription by three viral RNA-dependent RNA polymerases.
RNA (New York, N.Y.) 2000;6(5):698-707.
2000: H Guan; Clifford D Carpenter; Anne E. Simon
Requirement of a 5'-proximal linear sequence on minus strands for plus-strand synthesis of a satellite RNA associated with turnip crinkle virus.
Virology 2000;268(2):355-63.
2000: H Guan; Clifford D Carpenter; Anne E. Simon
Analysis of cis-acting sequences involved in plus-strand synthesis of a turnip crinkle virus-associated satellite RNA identifies a new carmovirus replication element.
Virology 2000;268(2):345-54.
1999: Peter D Nagy; Judit Pogany; Anne E. Simon
RNA elements required for RNA recombination function as replication enhancers in vitro and in vivo in a plus-strand RNA virus.
The EMBO journal 1999;18(20):5653-65.
1999: Jianlong Wang; Anne E. Simon
Symptom attenuation by a satellite RNA in vivo is dependent on reduced levels of virus coat protein.
Virology 1999;259(1):234-45.
1999: Jianlong Wang; Clifford D Carpenter; Anne E. Simon
Minimal sequence and structural requirements of a subgenomic RNA promoter for turnip crinkle virus.
Virology 1999;253(2):327-36.
1999: Anne E. Simon
Replication, recombination, and symptom-modulation properties of the satellite RNAs of turnip crinkle virus.
Current topics in microbiology and immunology 1999;239():19-36.
1998: Peter D Nagy; Anne E. Simon
In vitro characterization of late steps of RNA recombination in turnip crinkle virus.II. The role of the priming stem and flanking sequences.
Virology 1998;249(2):393-405.
1998: Peter D Nagy; Anne E. Simon
In vitro characterization of late steps of RNA recombination in turnip crinkle virus. I. Role of motif1-hairpin structure.
Virology 1998;249(2):379-92.
1998: Clifford D Carpenter; Anne E. Simon
Analysis of sequences and predicted structures required for viral satellite RNA accumulation by in vivo genetic selection.
Nucleic acids research 1998;26(10):2426-32.
1998: Peter D Nagy; C Zhang; Anne E. Simon
Dissecting RNA recombination in vitro: role of RNA sequences and the viral replicase.
The EMBO journal 1998;17(8):2392-403.
1998: Q Kong; Anne E. Simon
In situ hybridization to RNA in whole Arabidopsis plants.
Methods in molecular biology (Clifton, N.J.) 1998;82():409-15.
1998: Clifford D Carpenter; Anne E. Simon
Preparation of RNA.
Methods in molecular biology (Clifton, N.J.) 1998;82():85-9.
1997: H Guan; C Song; Anne E. Simon
RNA promoters located on (-)-strands of a subviral RNA associated with turnip crinkle virus.
RNA (New York, N.Y.) 1997;3(12):1401-12.
1997: Q Kong; Jong-Won Oh; Clifford D Carpenter; Anne E. Simon
The coat protein of turnip crinkle virus is involved in subviral RNA-mediated symptom modulation and accumulation.
Virology 1997;238(2):478-85.
1997: V Stupina; Anne E. Simon
Analysis in vivo of turnip crinkle virus satellite RNA C variants with mutations in the 3'-terminal minus-strand promoter.
Virology 1997;238(2):470-7.
1997: Q Kong; Jianlong Wang; Anne E. Simon
Satellite RNA-mediated resistance to turnip crinkle virus in Arabidopsis involves a reduction in virus movement.
The Plant cell 1997;9(11):2051-63.
1997: Peter D Nagy; Anne E. Simon
New insights into the mechanisms of RNA recombination.
Virology 1997;235(1):1-9.
1997: Jianlong Wang; Anne E. Simon
Analysis of the two subgenomic RNA promoters for turnip crinkle virus in vivo and in vitro.
Virology 1997;232(1):174-86.
1997: Joel Kreps; Anne E. Simon
Environmental and genetic effects on circadian clock-regulated gene expression in Arabidopsis.
The Plant cell 1997;9(3):297-304.
1997: Peter D Nagy; Clifford D Carpenter; Anne E. Simon
A novel 3'-end repair mechanism in an RNA virus.
Proceedings of the National Academy of Sciences of the United States of America 1997;94(4):1113-8.
1996: Clifford D Carpenter; Anne E. Simon
In vivo repair of 3'-end deletions in a TCV satellite RNA may involve two abortive synthesis and priming events.
Virology 1996;226(2):153-60.
1996: Clifford D Carpenter; Anne E. Simon
Changes in locations of crossover sites over time in de novo generated RNA recombinants.
Virology 1996;223(1):165-73.
1996: Clifford D Carpenter; Anne E. Simon
In vivo restoration of biologically active 3' ends of virus-associated RNAs by nonhomologous RNA recombination and replacement of a terminal motif.
Journal of virology 1996;70(1):478-86.
1995: C Song; Anne E. Simon
Requirement of a 3'-terminal stem-loop in in vitro transcription by an RNA-dependent RNA polymerase.
Journal of molecular biology 1995;254(1):6-14.
1995: J W Oh; Q Kong; C Song; Clifford D Carpenter; Anne E. Simon
Open reading frames of turnip crinkle virus involved in satellite symptom expression and incompatibility with Arabidopsis thaliana ecotype Dijon.
Molecular plant-microbe interactions : MPMI 1995;8(6):979-87.
1995: Q Kong; J W Oh; Anne E. Simon
Symptom attenuation by a normally virulent satellite RNA of turnip crinkle virus is associated with the coat protein open reading frame.
The Plant cell 1995;7(10):1625-34.
1995: C Song; Anne E. Simon
Synthesis of novel products in vitro by an RNA-dependent RNA polymerase.
Journal of virology 1995;69(7):4020-8.
1995: Clifford D Carpenter; J W Oh; C Zhang; Anne E. Simon
Involvement of a stem-loop structure in the location of junction sites in viral RNA recombination.
Journal of molecular biology 1995;245(5):608-22.
1994: C Zhang; Anne E. Simon
Effect of template size on accumulation of defective interfering RNAs in protoplasts.
Journal of virology 1994;68(12):8466-9.
1994: C Song; Anne E. Simon
RNA-dependent RNA polymerase from plants infected with turnip crinkle virus can transcribe (+)- and (-)-strands of virus-associated RNAs.
Proceedings of the National Academy of Sciences of the United States of America 1994;91(19):8792-6.
1994: Clifford D Carpenter; Anne E. Simon
Recombination between plus and minus strands of turnip crinkle virus.
Virology 1994;201(2):419-23.
1994: Clifford D Carpenter; Joel Kreps; Anne E. Simon
Genes encoding glycine-rich Arabidopsis thaliana proteins with RNA-binding motifs are influenced by cold treatment and an endogenous circadian rhythm.
Plant physiology 1994;104(3):1015-25.
1993: P J Cascone; Tarik F Haydar; Anne E. Simon
Sequences and structures required for recombination between virus-associated RNAs.
Science (New York, N.Y.) 1993;260(5109):801-5.
1991: C X Zhang; P J Cascone; Anne E. Simon
Recombination between satellite and genomic RNAs of turnip crinkle virus.
Virology 1991;184(2):791-4.
1991: X H Li; Anne E. Simon
In vivo accumulation of a turnip crinkle virus defective interfering RNA is affected by alterations in size and sequence.
Journal of virology 1991;65(9):4582-90.
1991: Clifford D Carpenter; P J Cascone; Anne E. Simon
Mutations in a satellite RNA of turnip crinkle virus result in addition of poly(U) in vivo.
Virology 1991;183(2):595-601.
1991: Clifford D Carpenter; P J Cascone; Anne E. Simon
Formation of multimers of linear satellite RNAs.
Virology 1991;183(2):586-94.
1991: L Roux; Anne E. Simon; J J Holland
Effects of defective interfering viruses on virus replication and pathogenesis in vitro and in vivo.
Advances in virus research 1991;40():181-211.
1990: P J Cascone; Clifford D Carpenter; X H Li; Anne E. Simon
Recombination between satellite RNAs of turnip crinkle virus.
The EMBO journal 1990;9(6):1709-15.
1990: Clifford D Carpenter; Anne E. Simon
Simplified RNA sequencing using dideoxy chain termination.
BioTechniques 1990;8(1):26-7.
1989: X H Li; L A Heaton; T Jack Morris; Anne E. Simon
Turnip crinkle virus defective interfering RNAs intensify viral symptoms and are generated de novo.
Proceedings of the National Academy of Sciences of the United States of America 1989;86(23):9173-7.
1988: Anne E. Simon; H Engel; R P Johnson; S H Howell
Identification of regions affecting virulence, RNA processing and infectivity in the virulent satellite of turnip crinkle virus.
The EMBO journal 1988;7(9):2645-51.
1987: Anne E. Simon; S H Howell
Synthesis in vitro of infectious RNA copies of the virulent satellite of turnip crinkle virus.
Virology 1987;156(1):146-52.
1986: Anne E. Simon; S H Howell
The virulent satellite RNA of turnip crinkle virus has a major domain homologous to the 3' end of the helper virus genome.
The EMBO journal 1986;5(13):3423-8.
1984: Anne E. Simon; Milton Taylor
Correlation between a mutant APRT protein and altered DNA in CHO cells.
Advances in experimental medicine and biology 1984;165 Pt A():391-5.
1983: Anne E. Simon; Milton Taylor; W E Bradley
Mechanism of mutation at the aprt locus in Chinese hamster ovary cells: analysis of heterozygotes and hemizygotes.
Molecular and cellular biology 1983;3(10):1703-10.
1983: Anne E. Simon; Milton Taylor
High-frequency mutation at the adenine phosphoribosyltransferase locus in Chinese hamster ovary cells due to deletion of the gene.
Proceedings of the National Academy of Sciences of the United States of America 1983;80(3):810-4.
1983: M L Crouch; K M Tenbarge; Anne E. Simon; R Ferl
cDNA clones for Brassica napus seed storage proteins: evidence from nucleotide sequence analysis that both subunits of napin are cleaved from a precursor polypeptide.
Journal of molecular and applied genetics 1983;2(3):273-83.
1983: Anne E. Simon; Milton Taylor
Mechanism of mutation at the adenine phosphoribosyltransferase locus in CHO cells.
Progress in nucleic acid research and molecular biology 1983;29():42-7.
1982: Anne E. Simon; Milton Taylor; W E Bradley; L H Thompson
Model involving gene inactivation in the generation of autosomal recessive mutants in mammalian cells in culture.
Molecular and cellular biology 1982;2(9):1126-33.