| Year |
Citation |
Score |
| 2023 |
Mikkelsen AA, Gao F, Carino E, Bera S, Simon AE. -1 Programmed ribosomal frameshifting in Class 2 umbravirus-like RNAs uses multiple long-distance interactions to shift between active and inactive structures and destabilize the frameshift stimulating element. Nucleic Acids Research. PMID 37742076 DOI: 10.1093/nar/gkad744 |
0.537 |
|
| 2023 |
Uhl S, Jang C, Frere JJ, Jordan TX, Simon AE, tenOever BR. ADAR1 Biology Can Hinder Effective Antiviral RNA Interference. Journal of Virology. e0024523. PMID 37017521 DOI: 10.1128/jvi.00245-23 |
0.483 |
|
| 2023 |
Bera S, Ilyas M, Mikkelsen AA, Simon AE. Conserved Structure Associated with Different 3'CITEs Is Important for Translation of Umbraviruses. Viruses. 15. PMID 36992347 DOI: 10.3390/v15030638 |
0.511 |
|
| 2022 |
Johnson PZ, Reuning HM, Bera S, Gao F, Du Z, Simon AE. Novel 3' Proximal Replication Elements in Umbravirus Genomes. Viruses. 14. PMID 36560619 DOI: 10.3390/v14122615 |
0.495 |
|
| 2022 |
Quito-Avila DF, Reyes-Proaño EG, Mendoza A, Margaria P, Menzel W, Bera S, Simon AE. Two new umbravirus-like associated RNAs (ulaRNAs) discovered in maize and johnsongrass from Ecuador. Archives of Virology. PMID 35821148 DOI: 10.1007/s00705-022-05525-4 |
0.502 |
|
| 2022 |
Liu J, Simon AE. Identification of Novel 5' and 3' Translation Enhancers in Umbravirus-Like Coat Protein-Deficient RNA Replicons. Journal of Virology. e0173621. PMID 35297668 DOI: 10.1128/jvi.01736-21 |
0.609 |
|
| 2022 |
Johnson PZ, Kasprzak WK, Shapiro BA, Simon AE. Structural characterization of a new subclass of panicum mosaic virus-like 3' cap-independent translation enhancer. Nucleic Acids Research. PMID 35104872 DOI: 10.1093/nar/gkac007 |
0.462 |
|
| 2021 |
Wang X, Olmedo-Velarde A, Larrea-Sarmiento A, Simon AE, Kong A, Borth W, Suzuki JY, Wall MM, Hu J, Melzer M. Genome characterization of fig umbra-like virus. Virus Genes. PMID 34524603 DOI: 10.1007/s11262-021-01867-4 |
0.402 |
|
| 2021 |
Kwon SJ, Bodaghi S, Dang T, Gadhave KR, Ho T, Osman F, Al Rwahnih M, Tzanetakis IE, Simon AE, Vidalakis G. Complete Nucleotide Sequence, Genome Organization, and Comparative Genomic Analyses of Citrus Yellow-Vein Associated Virus (CYVaV). Frontiers in Microbiology. 12: 683130. PMID 34168635 DOI: 10.3389/fmicb.2021.683130 |
0.55 |
|
| 2021 |
Liu J, Carino E, Bera S, Gao F, May JP, Simon AE. Structural Analysis and Whole Genome Mapping of a New Type of Plant Virus Subviral RNA: Umbravirus-Like Associated RNAs. Viruses. 13. PMID 33918656 DOI: 10.3390/v13040646 |
0.594 |
|
| 2021 |
Ilyas M, Du Z, Simon AE. has an Xrn-resistant, translated subgenomic RNA and a BTE 3' CITE. Journal of Virology. PMID 33597210 DOI: 10.1128/JVI.02109-20 |
0.53 |
|
| 2020 |
May JP, Simon AE. Targeting of viral RNAs by Upf1-mediated RNA decay pathways. Current Opinion in Virology. 47: 1-8. PMID 33341474 DOI: 10.1016/j.coviro.2020.11.002 |
0.497 |
|
| 2020 |
May JP, Johnson PZ, Ilyas M, Gao F, Simon AE. The Multifunctional Long-Distance Movement Protein of Protects Viral and Host Transcripts from Nonsense-Mediated Decay. Mbio. 11. PMID 32156817 DOI: 10.1128/Mbio.00204-20 |
0.616 |
|
| 2019 |
Johnson PZ, Kasprzak WK, Shapiro BA, Simon AE. RNA2Drawer: Geometrically Strict Drawing of Nucleic Acid Structures with Graphical Structure Editing and Highlighting of Complementary Subsequences. Rna Biology. PMID 31441369 DOI: 10.1080/15476286.2019.1659081 |
0.4 |
|
| 2018 |
May JP, Yuan X, Sawicki E, Simon AE. RNA virus evasion of nonsense-mediated decay. Plos Pathogens. 14: e1007459. PMID 30452463 DOI: 10.1371/Journal.Ppat.1007459 |
0.637 |
|
| 2018 |
Gao F, Alekhina OM, Vassilenko KS, Simon AE. Unusual dicistronic expression from closely spaced initiation codons in an umbravirus subgenomic RNA. Nucleic Acids Research. PMID 30272199 DOI: 10.1093/Nar/Gky871 |
0.55 |
|
| 2018 |
Bayne CF, Widawski ME, Gao F, Masab MH, Chattopadhyay M, Murawski AM, Sansevere RM, Lerner BD, Castillo RJ, Griesman T, Fu J, Hibben JK, Garcia-Perez AD, Simon AE, Kushner DB. SELEX and SHAPE reveal that sequence motifs and an extended hairpin in the 5' portion of Turnip crinkle virus satellite RNA C mediate fitness in plants. Virology. 520: 137-152. PMID 29864677 DOI: 10.1016/J.Virol.2018.05.010 |
0.565 |
|
| 2018 |
Kasprzak WK, Kim T, Le M, Gao F, Young MY, Yuan X, Seog J, Simon AE, Shapiro BA. Simulations of Optical Tweezers Experiments Reveal Details of RNA Structure Unfolding Biophysical Journal. 114: 214a-215a. DOI: 10.1016/J.Bpj.2017.11.1199 |
0.467 |
|
| 2017 |
Du Z, Alekhina OM, Vassilenko KS, Simon AE. Concerted action of two 3' cap-independent translation enhancers increases the competitive strength of translated viral genomes. Nucleic Acids Research. 45: 9558-9572. PMID 28934492 DOI: 10.1093/Nar/Gkx643 |
0.545 |
|
| 2017 |
Gao F, Simon AE. Differential use of 3'CITEs by the subgenomic RNA of Pea enation mosaic virus 2. Virology. 510: 194-204. PMID 28750323 DOI: 10.1016/J.Virol.2017.07.021 |
0.576 |
|
| 2017 |
Aguado LC, Schmid S, May J, Sabin LR, Panis M, Blanco-Melo D, Shim JV, Sachs D, Cherry S, Simon AE, Levraud JP, tenOever BR. RNase III nucleases from diverse kingdoms serve as antiviral effectors. Nature. PMID 28658212 DOI: 10.1038/Nature22990 |
0.637 |
|
| 2017 |
Le MT, Kasprzak WK, Shapiro BA, Simon AE. Combined single molecule experimental and computational approaches for understanding the unfolding pathway of a viral translation enhancer that participates in a conformational switch. Rna Biology. 0. PMID 28548627 DOI: 10.1080/15476286.2017.1325069 |
0.64 |
|
| 2017 |
Le MT, Kasprzak WK, Kim T, Gao F, Young MY, Yuan X, Shapiro BA, Seog J, Simon AE. Folding behavior of a T-shaped, ribosome-binding translation enhancer implicated in a wide-spread conformational switch. Elife. 6. PMID 28186489 DOI: 10.7554/Elife.22883 |
0.555 |
|
| 2017 |
May J, Johnson P, Saleem H, Simon AE. A Sequence-Independent, Unstructured IRES is Responsible for Internal Expression of the Coat Protein of Turnip Crinkle Virus. Journal of Virology. PMID 28179526 DOI: 10.1128/Jvi.02421-16 |
0.646 |
|
| 2017 |
Le M, Kasprzak WK, Kim T, Gao F, Young MY, Yuan X, Shapiro BA, Seog J, Simon AE. Author response: Folding behavior of a T-shaped, ribosome-binding translation enhancer implicated in a wide-spread conformational switch Elife. DOI: 10.7554/Elife.22883.019 |
0.315 |
|
| 2016 |
Kuhlmann MM, Chattopadhyay M, Stupina VA, Gao F, Simon AE. An RNA Element that Facilitates Programmed Ribosomal Readthrough in Turnip Crinkle Virus Adopts Multiple Conformations. Journal of Virology. PMID 27440887 DOI: 10.1128/Jvi.01129-16 |
0.678 |
|
| 2015 |
Weaver SC, Simon AE. Editorial overview: Virus-vector interactions. Current Opinion in Virology. PMID 26616158 DOI: 10.1016/J.Coviro.2015.11.001 |
0.332 |
|
| 2015 |
Gao F, Simon AE. Multiple Cis-acting elements modulate programmed -1 ribosomal frameshifting in Pea enation mosaic virus. Nucleic Acids Research. PMID 26578603 DOI: 10.1093/Nar/Gkv1241 |
0.619 |
|
| 2015 |
Le MT, Brown RE, Simon AE, Dayie TK. In Vivo, Large-Scale Preparation of Uniformly (15)N- and Site-Specifically (13)C-Labeled Homogeneous, Recombinant RNA for NMR Studies. Methods in Enzymology. 565: 495-535. PMID 26577743 DOI: 10.1016/Bs.Mie.2015.07.020 |
0.582 |
|
| 2015 |
Chattopadhyay M, Stupina VA, Gao F, Szarko CR, Kuhlmann MM, Yuan X, Shi K, Simon AE. Requirement for Host RNA Silencing Components and the Virus Silencing Suppressor when Second-Site Mutations Compensate For Structural Defects in the 3' UTR. Journal of Virology. PMID 26355083 DOI: 10.1128/Jvi.01566-15 |
0.572 |
|
| 2015 |
Murawski AM, Nieves JL, Chattopadhyay M, Young MY, Szarko C, Tajalli HF, Azad T, Jean-Jacques NB, Simon AE, Kushner DB. Rapid evolution of in vivo-selected sequences and structures replacing 20% of a subviral RNA. Virology. 483: 149-162. PMID 25974866 DOI: 10.1016/J.Virol.2015.04.002 |
0.578 |
|
| 2015 |
Simon AE. 3'UTRs of carmoviruses. Virus Research. 206: 27-36. PMID 25662021 DOI: 10.1016/J.Virusres.2015.01.023 |
0.639 |
|
| 2014 |
Dashti A, Schwander P, Langlois R, Fung R, Li W, Hosseinizadeh A, Liao HY, Pallesen J, Sharma G, Stupina VA, Simon AE, Dinman JD, Frank J, Ourmazd A. Trajectories of the ribosome as a Brownian nanomachine. Proceedings of the National Academy of Sciences of the United States of America. 111: 17492-7. PMID 25422471 DOI: 10.1073/Pnas.1419276111 |
0.552 |
|
| 2014 |
Gao F, Kasprzak WK, Szarko C, Shapiro BA, Simon AE. The 3' untranslated region of Pea Enation Mosaic Virus contains two T-shaped, ribosome-binding, cap-independent translation enhancers. Journal of Virology. 88: 11696-712. PMID 25100834 DOI: 10.1128/Jvi.01433-14 |
0.605 |
|
| 2014 |
Chattopadhyay M, Kuhlmann MM, Kumar K, Simon AE. Position of the kissing-loop interaction associated with PTE-type 3'CITEs can affect enhancement of cap-independent translation. Virology. 458: 43-52. PMID 24928038 DOI: 10.1016/J.Virol.2014.03.027 |
0.625 |
|
| 2014 |
Babaie G, Kouhi Habibi M, Massah A, Dizadji A, Izadinejad L, Simon A. Complete Genome Sequence and Genome Analysis of Eggplant mottled dwarf virus
-Iranian Isolate Journal of Phytopathology. 163: 331-341. DOI: 10.1111/Jph.12256 |
0.578 |
|
| 2013 |
Gao F, Gulay SP, Kasprzak W, Dinman JD, Shapiro BA, Simon AE. The kissing-loop T-shaped structure translational enhancer of Pea enation mosaic virus can bind simultaneously to ribosomes and a 5' proximal hairpin. Journal of Virology. 87: 11987-2002. PMID 23986599 DOI: 10.1128/Jvi.02005-13 |
0.744 |
|
| 2013 |
Stupina VA, Simon AE. Preparation of biologically active Arabidopsis ribosomes and comparison with yeast ribosomes for binding to a tRNA-mimic that enhances translation of plant plus-strand RNA viruses. Frontiers in Plant Science. 4: 271. PMID 23885260 DOI: 10.3389/Fpls.2013.00271 |
0.484 |
|
| 2013 |
Simon AE, Miller WA. 3' cap-independent translation enhancers of plant viruses. Annual Review of Microbiology. 67: 21-42. PMID 23682606 DOI: 10.1146/Annurev-Micro-092412-155609 |
0.651 |
|
| 2012 |
Gao F, Kasprzak W, Stupina VA, Shapiro BA, Simon AE. A ribosome-binding, 3' translational enhancer has a T-shaped structure and engages in a long-distance RNA-RNA interaction. Journal of Virology. 86: 9828-42. PMID 22761367 DOI: 10.1128/Jvi.00677-12 |
0.635 |
|
| 2012 |
Yuan X, Shi K, Simon AE. A local, interactive network of 3' RNA elements supports translation and replication of Turnip crinkle virus. Journal of Virology. 86: 4065-81. PMID 22345459 DOI: 10.1128/Jvi.07019-11 |
0.655 |
|
| 2012 |
Sharma G, Stupina V, Pallesen J, Shapiro B, Simon A, Dinman J, Frank J. Cryo-Electron Microscopy (Cryo-EM) Structure of a Cap-Independent Translational Enhancer of the Turnip Crinkle Virus (TCV) Bound to the Eukaryotic Ribosome Biophysical Journal. 102: 393a. DOI: 10.1016/J.Bpj.2011.11.2147 |
0.662 |
|
| 2011 |
McFadden G, Simon AE. Building bridges between plant and animal viruses. Current Opinion in Virology. 1: 319-21. PMID 22440834 DOI: 10.1016/J.Coviro.2011.10.004 |
0.311 |
|
| 2011 |
Guo R, Meskauskas A, Dinman JD, Simon AE. Evolution of a helper virus-derived, ribosome binding translational enhancer in an untranslated satellite RNA of Turnip crinkle virus. Virology. 419: 10-6. PMID 21862095 DOI: 10.1016/J.Virol.2011.07.019 |
0.774 |
|
| 2011 |
Chattopadhyay M, Shi K, Yuan X, Simon AE. 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. 417: 113-25. PMID 21664637 DOI: 10.1016/J.Virol.2011.05.007 |
0.644 |
|
| 2011 |
Wirden M, Soulie C, Valantin M, Fourati S, Simon A, Lambert-Niclot S, Bonmarchand M, Clavel-Osorio C, Marcelin A, Katlama C, Calvez V. Historical HIV-RNA resistance test results are more informative than proviral DNA genotyping in cases of suppressed or residual viraemia Journal of Antimicrobial Chemotherapy. 66: 709-712. PMID 21393164 DOI: 10.1093/Jac/Dkq544 |
0.332 |
|
| 2011 |
Stupina VA, Yuan X, Meskauskas A, Dinman JD, Simon AE. 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. 85: 4638-53. PMID 21389125 DOI: 10.1128/Jvi.00005-11 |
0.765 |
|
| 2010 |
Cao M, Ye X, Willie K, Lin J, Zhang X, Redinbaugh MG, Simon AE, Morris TJ, Qu F. The capsid protein of Turnip crinkle virus overcomes two separate defense barriers to facilitate systemic movement of the virus in Arabidopsis. Journal of Virology. 84: 7793-802. PMID 20504923 DOI: 10.1128/Jvi.02643-09 |
0.464 |
|
| 2010 |
Yuan X, Shi K, Young MY, Simon AE. 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. 402: 271-80. PMID 20403628 DOI: 10.1016/J.Virol.2010.03.036 |
0.573 |
|
| 2010 |
Zuo X, Wang J, Yu P, Eyler D, Xu H, Starich MR, Tiede DM, Simon AE, Kasprzak W, Schwieters CD, Shapiro BA, Wang YX. 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. 107: 1385-90. PMID 20080629 DOI: 10.1073/Pnas.0908140107 |
0.606 |
|
| 2009 |
Yuan X, Shi K, Meskauskas A, Simon AE. 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.). 15: 1849-64. PMID 19656866 DOI: 10.1261/Rna.1708709 |
0.684 |
|
| 2009 |
Simon AE, Gehrke L. RNA conformational changes in the life cycles of RNA viruses, viroids, and virus-associated RNAs. Biochimica Et Biophysica Acta. 1789: 571-83. PMID 19501200 DOI: 10.1016/J.Bbagrm.2009.05.005 |
0.63 |
|
| 2009 |
Guo R, Lin W, Zhang J, Simon AE, Kushner DB. Structural plasticity and rapid evolution in a viral RNA revealed by in vivo genetic selection. Journal of Virology. 83: 927-39. PMID 19004956 DOI: 10.1128/Jvi.02060-08 |
0.819 |
|
| 2009 |
Kasprzak WK, Yingling YG, Simon AE, Shapiro BA. Computational and Experimental Determination of the tRNA-like Structure in the 3′UTR of the Turnip Crinkle Virus (TCV) Biophysical Journal. 96: 19a-20a. DOI: 10.1016/J.Bpj.2008.12.1003 |
0.487 |
|
| 2008 |
Stupina VA, Meskauskas A, McCormack JC, Yingling YG, Shapiro BA, Dinman JD, Simon AE. The 3' proximal translational enhancer of Turnip crinkle virus binds to 60S ribosomal subunits. Rna (New York, N.Y.). 14: 2379-93. PMID 18824512 DOI: 10.1261/Rna.1227808 |
0.702 |
|
| 2008 |
Manfre AJ, Simon AE. Importance of coat protein and RNA silencing in satellite RNA/virus interactions. Virology. 379: 161-7. PMID 18639914 DOI: 10.1016/J.Virol.2008.06.011 |
0.62 |
|
| 2008 |
McCormack JC, Yuan X, Yingling YG, Kasprzak W, Zamora RE, Shapiro BA, Simon AE. Structural domains within the 3' untranslated region of Turnip crinkle virus. Journal of Virology. 82: 8706-20. PMID 18579599 DOI: 10.1128/Jvi.00416-08 |
0.544 |
|
| 2006 |
McCormack JC, Simon AE. Callus cultures of Arabidopsis. Current Protocols in Microbiology. Unit16D.1. PMID 18770584 DOI: 10.1002/9780471729259.Mc16D01S00 |
0.421 |
|
| 2006 |
Zhang J, Zhang G, Guo R, Shapiro BA, Simon AE. A pseudoknot in a preactive form of a viral RNA is part of a structural switch activating minus-strand synthesis. Journal of Virology. 80: 9181-91. PMID 16940529 DOI: 10.1128/Jvi.00295-06 |
0.831 |
|
| 2006 |
Sun X, Simon AE. A cis-replication element functions in both orientations to enhance replication of Turnip crinkle virus. Virology. 352: 39-51. PMID 16757010 DOI: 10.1016/J.Virol.2006.03.051 |
0.602 |
|
| 2006 |
Zhang J, Zhang G, McCormack JC, Simon AE. Evolution of virus-derived sequences for high-level replication of a subviral RNA. Virology. 351: 476-88. PMID 16682064 DOI: 10.1016/J.Virol.2006.03.011 |
0.798 |
|
| 2006 |
Zhang G, Zhang J, George AT, Baumstark T, Simon AE. Conformational changes involved in initiation of minus-strand synthesis of a virus-associated RNA. Rna (New York, N.Y.). 12: 147-62. PMID 16301603 DOI: 10.1261/Rna.2166706 |
0.815 |
|
| 2006 |
Simon A. Plant RNA Viruses Current Protocols in Microbiology. 1. DOI: 10.1002/9780471729259.Mc1600S8 |
0.566 |
|
| 2005 |
Zhang J, Simon AE. Importance of sequence and structural elements within a viral replication repressor. Virology. 333: 301-15. PMID 15721364 DOI: 10.1016/J.Virol.2004.12.015 |
0.786 |
|
| 2005 |
Sun X, Zhang G, Simon AE. Short internal sequences involved in replication and virion accumulation in a subviral RNA of turnip crinkle virus. Journal of Virology. 79: 512-24. PMID 15596844 DOI: 10.1128/Jvi.79.1.512-524.2005 |
0.664 |
|
| 2004 |
Simon AE, Roossinck MJ, Havelda Z. Plant virus satellite and defective interfering RNAs: new paradigms for a new century. Annual Review of Phytopathology. 42: 415-37. PMID 15283672 DOI: 10.1146/Annurev.Phyto.42.040803.140402 |
0.567 |
|
| 2004 |
Zhang J, Stuntz RM, Simon AE. Analysis of a viral replication repressor: sequence requirements for a large symmetrical internal loop. Virology. 326: 90-102. PMID 15262498 DOI: 10.1016/J.Virol.2004.05.006 |
0.817 |
|
| 2004 |
McCormack JC, Simon AE. Biased hypermutagenesis associated with mutations in an untranslated hairpin of an RNA virus. Journal of Virology. 78: 7813-7. PMID 15220455 DOI: 10.1128/Jvi.78.14.7813-7817.2004 |
0.589 |
|
| 2004 |
Zhang G, Zhang J, Simon AE. Repression and derepression of minus-strand synthesis in a plus-strand RNA virus replicon. Journal of Virology. 78: 7619-33. PMID 15220437 DOI: 10.1128/Jvi.78.14.7619-7633.2004 |
0.83 |
|
| 2003 |
Zhang F, Simon AE. A novel procedure for the localization of viral RNAs in protoplasts and whole plants. The Plant Journal : For Cell and Molecular Biology. 35: 665-73. PMID 12940959 DOI: 10.1046/J.1365-313X.2003.01837.X |
0.667 |
|
| 2003 |
Zhang F, Simon AE. 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. 312: 8-13. PMID 12890616 DOI: 10.1016/S0042-6822(03)00345-3 |
0.709 |
|
| 2003 |
Sun X, Simon AE. 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. 77: 7880-9. PMID 12829828 DOI: 10.1128/Jvi.77.14.7880-7889.2003 |
0.593 |
|
| 2003 |
Zhang G, Simon AE. A multifunctional turnip crinkle virus replication enhancer revealed by in vivo functional SELEX. Journal of Molecular Biology. 326: 35-48. PMID 12547189 DOI: 10.1016/S0022-2836(02)01366-9 |
0.557 |
|
| 2001 |
Nagy PD, Pogany J, Simon AE. In vivo and in vitro characterization of an RNA replication enhancer in a satellite RNA associated with turnip crinkle virus. Virology. 288: 315-24. PMID 11601903 DOI: 10.1006/Viro.2001.1099 |
0.668 |
|
| 2000 |
Guan H, Simon AE. 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. 97: 12451-12456. PMID 11070075 DOI: 10.1073/Pnas.97.23.12451 |
0.647 |
|
| 2000 |
Wang J, Simon AE. 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. 74: 6528-37. PMID 10864666 DOI: 10.1128/Jvi.74.14.6528-6537.2000 |
0.602 |
|
| 2000 |
Yoshinari S, Nagy PD, Simon AE, Dreher TW. CCA initiation boxes without unique promoter elements support in vitro transcription by three viral RNA-dependent RNA polymerases Rna. 6: 698-707. PMID 10836791 DOI: 10.1017/S1355838200992410 |
0.665 |
|
| 2000 |
Guan H, Carpenter CD, Simon AE. Requirement of a 5'-proximal linear sequence on minus strands for plus-strand synthesis of a satellite RNA associated with turnip crinkle virus. Virology. 268: 355-63. PMID 10704343 DOI: 10.1006/Viro.1999.0154 |
0.655 |
|
| 2000 |
Guan H, Carpenter CD, Simon AE. 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. 268: 345-54. PMID 10704342 DOI: 10.1006/Viro.1999.0153 |
0.631 |
|
| 1999 |
Nagy PD, Pogany J, Simon AE. RNA elements required for RNA recombination function as replication enhancers in vitro and in vivo in a plus-strand RNA virus. The Embo Journal. 18: 5653-65. PMID 10523308 DOI: 10.1093/Emboj/18.20.5653 |
0.653 |
|
| 1999 |
Wang J, Simon AE. Symptom attenuation by a satellite RNA in vivo is dependent on reduced levels of virus coat protein. Virology. 259: 234-45. PMID 10364508 DOI: 10.1006/Viro.1999.9781 |
0.58 |
|
| 1999 |
Wang J, Carpenter CD, Simon AE. Minimal sequence and structural requirements of a subgenomic RNA promoter for turnip crinkle virus. Virology. 253: 327-36. PMID 9918891 DOI: 10.1006/Viro.1998.9538 |
0.646 |
|
| 1999 |
Simon AE. Replication, recombination, and symptom-modulation properties of the satellite RNAs of turnip crinkle virus. Current Topics in Microbiology and Immunology. 239: 19-36. PMID 9893367 DOI: 10.1007/978-3-662-09796-0_2 |
0.566 |
|
| 1998 |
Nagy PD, Simon AE. In vitro characterization of late steps of RNA recombination in turnip crinkle virus.II. The role of the priming stem and flanking sequences. Virology. 249: 393-405. PMID 9791030 DOI: 10.1006/Viro.1998.9342 |
0.642 |
|
| 1998 |
Nagy PD, Simon AE. In vitro characterization of late steps of RNA recombination in turnip crinkle virus. I. Role of motif1-hairpin structure. Virology. 249: 379-92. PMID 9791029 DOI: 10.1006/Viro.1998.9341 |
0.652 |
|
| 1998 |
Kong Q, Simon AE. In situ hybridization to RNA in whole Arabidopsis plants Methods in Molecular Biology (Clifton, N.J.). 82: 409-415. PMID 9664442 DOI: 10.1385/0-89603-391-0:409 |
0.515 |
|
| 1998 |
Carpenter CD, Simon AE. Preparation of RNA. Methods in Molecular Biology (Clifton, N.J.). 82: 85-9. PMID 9664416 DOI: 10.1385/0-89603-391-0:85 |
0.573 |
|
| 1998 |
Carpenter CD, Simon AE. Analysis of sequences and predicted structures required for viral satellite RNA accumulation by in vivo genetic selection. Nucleic Acids Research. 26: 2426-32. PMID 9580696 DOI: 10.1093/Nar/26.10.2426 |
0.645 |
|
| 1998 |
Nagy PD, Zhang C, Simon AE. Dissecting RNA recombination in vitro: role of RNA sequences and the viral replicase. The Embo Journal. 17: 2392-403. PMID 9545250 DOI: 10.1093/Emboj/17.8.2392 |
0.641 |
|
| 1998 |
Stupina V, Simon AE. Analysis in vivo of turnip crinkle virus satellite RNA C variants with mutations in the 3'-terminal minus-strand promoter. Virology. 238: 470-7. PMID 9400619 DOI: 10.1006/Viro.1997.8850 |
0.617 |
|
| 1997 |
Kong Q, Wang J, Simon AE. Satellite RNA-mediated resistance to turnip crinkle virus in Arabidopsis involves a reduction in virus movement Plant Cell. 9: 2051-2063. PMID 9401127 DOI: 10.1105/Tpc.9.11.2051 |
0.608 |
|
| 1997 |
Kong Q, Oh JW, Carpenter CD, Simon AE. The coat protein of turnip crinkle virus is involved in subviral RNA- mediated symptom modulation and accumulation Virology. 238: 478-485. PMID 9400620 DOI: 10.1006/Viro.1997.8853 |
0.596 |
|
| 1997 |
Nagy PD, Simon AE. New insights into the mechanisms of RNA recombination. Virology. 235: 1-9. PMID 9300032 DOI: 10.1006/Viro.1997.8681 |
0.606 |
|
| 1997 |
Wang J, Simon AE. Analysis of the two subgenomic RNA promoters for turnip crinkle virus in vivo and in vitro. Virology. 232: 174-86. PMID 9185601 DOI: 10.1006/Viro.1997.8550 |
0.65 |
|
| 1997 |
Kreps JA, Simon AE. Environmental and genetic effects on circadian clock-regulated gene expression in Arabidopsis. The Plant Cell. 9: 297-304. PMID 9090876 DOI: 10.1105/Tpc.9.3.297 |
0.416 |
|
| 1997 |
Nagy PD, Carpenter CD, Simon AE. A novel 3'-end repair mechanism in an RNA virus. Proceedings of the National Academy of Sciences of the United States of America. 94: 1113-8. PMID 9037015 DOI: 10.1073/Pnas.94.4.1113 |
0.636 |
|
| 1997 |
Carpenter CD, Simon AE. In vivo repair of 3'-end deletions in a TCV satellite RNA may involve two abortive synthesis and priming events. Virology. 226: 153-60. PMID 8955033 DOI: 10.1006/Viro.1996.0641 |
0.637 |
|
| 1996 |
Carpenter CD, Simon AE. Changes in locations of crossover sites over time in de novo generated RNA recombinants. Virology. 223: 165-73. PMID 8806550 DOI: 10.1006/Viro.1996.0465 |
0.596 |
|
| 1996 |
Oh JW, Kong Q, Song C, Carpenter CD, Simon AE. Open reading frames of turnip crinkle virus involved in satellite symptom expression and incompatibility with Arabidopsis thaliana ecotype Dijon. Molecular Plant-Microbe Interactions : Mpmi. 8: 979-87. PMID 8664506 DOI: 10.1094/MPMI-8-0979 |
0.397 |
|
| 1996 |
Carpenter CD, Simon AE. 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. 70: 478-86. PMID 8523561 DOI: 10.1128/JVI.70.1.478-486.1996 |
0.569 |
|
| 1996 |
Simon AE, Nagy PD. RNA recombination in turnip crinkle virus: its role in formation of chimeric RNAs, multimers, and in 3′-end repair Seminars in Virology. 7: 373-379. DOI: 10.1006/Smvy.1996.0045 |
0.631 |
|
| 1995 |
Kong Q, Oh JW, Simon AE. Symptom attenuation by a normally virulent satellite RNA of turnip crinkle virus is associated with the coat protein open reading frame Plant Cell. 7: 1625-1634. PMID 9750054 DOI: 10.1105/Tpc.7.10.1625 |
0.599 |
|
| 1995 |
Carpenter CD, Oh JW, Zhang C, Simon AE. Involvement of a stem-loop structure in the location of junction sites in viral RNA recombination. Journal of Molecular Biology. 245: 608-22. PMID 7844830 DOI: 10.1006/Jmbi.1994.0050 |
0.661 |
|
| 1995 |
Song C, Simon AE. Synthesis of novel products in vitro by an RNA-dependent RNA polymerase. Journal of Virology. 69: 4020-8. PMID 7539504 DOI: 10.1128/Jvi.69.7.4020-4028.1995 |
0.627 |
|
| 1995 |
Song C, Simon AE. Requirement of a 3'-terminal stem-loop in in vitro transcription by an RNA-dependent RNA polymerase. Journal of Molecular Biology. 254: 6-14. PMID 7473759 DOI: 10.1006/Jmbi.1995.0594 |
0.656 |
|
| 1994 |
Carpenter CD, Simon AE. Recombination between plus and minus strands of turnip crinkle virus. Virology. 201: 419-23. PMID 8184554 DOI: 10.1006/Viro.1994.1312 |
0.63 |
|
| 1994 |
Song C, Simon AE. 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. 91: 8792-6. PMID 8090725 DOI: 10.1073/Pnas.91.19.8792 |
0.646 |
|
| 1994 |
Zhang C, Simon AE. Effect of template size on accumulation of defective interfering RNAs in protoplasts. Journal of Virology. 68: 8466-9. PMID 7966644 DOI: 10.1128/JVI.68.12.8466-8469.1994 |
0.536 |
|
| 1994 |
Carpenter CD, Kreps JA, Simon AE. Genes encoding glycine-rich Arabidopsis thaliana proteins with RNA-binding motifs are influenced by cold treatment and an endogenous circadian rhythm. Plant Physiology. 104: 1015-25. PMID 7513083 DOI: 10.1104/Pp.104.3.1015 |
0.41 |
|
| 1993 |
Cascone PJ, Haydar TF, Simon AE. Sequences and structures required for recombination between virus-associated RNAs. Science (New York, N.Y.). 260: 801-5. PMID 8484119 DOI: 10.1126/Science.8484119 |
0.599 |
|
| 1991 |
Roux L, Simon AE, Holland JJ. Effects of defective interfering viruses on virus replication and pathogenesis in vitro and in vivo. Advances in Virus Research. 40: 181-211. PMID 1957718 DOI: 10.1016/S0065-3527(08)60279-1 |
0.362 |
|
| 1991 |
Li XH, Simon AE. In vivo accumulation of a turnip crinkle virus defective interfering RNA is affected by alterations in size and sequence. Journal of Virology. 65: 4582-90. PMID 1870188 DOI: 10.1128/JVI.65.9.4582-4590.1991 |
0.592 |
|
| 1991 |
Zhang CX, Cascone PJ, Simon AE. Recombination between satellite and genomic RNAs of turnip crinkle virus. Virology. 184: 791-4. PMID 1716029 DOI: 10.1016/0042-6822(91)90454-J |
0.635 |
|
| 1991 |
Carpenter CD, Cascone PJ, Simon AE. Mutations in a satellite RNA of turnip crinkle virus result in addition of poly(U) in vivo. Virology. 183: 595-601. PMID 1713000 DOI: 10.1016/0042-6822(91)90988-N |
0.656 |
|
| 1991 |
Carpenter CD, Cascone PJ, Simon AE. Formation of multimers of linear satellite RNAs. Virology. 183: 586-94. PMID 1712999 DOI: 10.1016/0042-6822(91)90987-M |
0.648 |
|
| 1990 |
Cascone P, Carpenter C, Li X, Simon A. Recombination between satellite RNAs of turnip crinkle virus. The Embo Journal. 9: 1709-1715. DOI: 10.1002/J.1460-2075.1990.Tb08294.X |
0.627 |
|
| 1989 |
Li XH, Heaton LA, Morris TJ, Simon AE. 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. 86: 9173-7. PMID 2594759 DOI: 10.1073/Pnas.86.23.9173 |
0.652 |
|
| 1988 |
Simon AE. Satellite RNAs of plant viruses Plant Molecular Biology Reporter. 6: 240-252. DOI: 10.1007/Bf02670384 |
0.565 |
|
| 1988 |
Simon AE, Engel H, Johnson RP, Howell SH. Identification of regions affecting virulence, RNA processing and infectivity in the virulent satellite of turnip crinkle virus. The Embo Journal. 7: 2645-2651. DOI: 10.1002/J.1460-2075.1988.Tb03117.X |
0.73 |
|
| 1987 |
Simon AE, Howell SH. Synthesis in vitro of infectious RNA copies of the virulent satellite of turnip crinkle virus. Virology. 156: 146-52. PMID 3811230 DOI: 10.1016/0042-6822(87)90445-4 |
0.756 |
|
| 1986 |
Simon AE, Howell SH. 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. 5: 3423-3428. DOI: 10.1002/J.1460-2075.1986.Tb04664.X |
0.76 |
|
| 1985 |
Simon AE, Tenbarge KM, Scofield SR, Finkelstein RR, Crouch ML. Nucleotide sequence of a cDNA clone of Brassica napus 12S storage protein shows homology with legumin from Pisum sativum. Plant Molecular Biology. 5: 191-201. PMID 24306655 DOI: 10.1007/Bf00015683 |
0.369 |
|
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