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Dynamics of alternative modes of RNA replication for positive-sense RNA viruses

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Dynamics of alternative modes of RNA replication for positive-sense RNA viruses

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Sardanyes Cayuela, J.; Martinez, F.; Daros Arnau, JA.; Elena Fito, SF. (2012). Dynamics of alternative modes of RNA replication for positive-sense RNA viruses. Journal of the Royal Society. Interface. 9(69):768-776. https://doi.org/10.1098/rsif.2011.0471

Por favor, use este identificador para citar o enlazar este ítem: http://hdl.handle.net/10251/66167

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Title: Dynamics of alternative modes of RNA replication for positive-sense RNA viruses
Author: Sardanyes Cayuela, Jose Martinez, Fernando Daros Arnau, Jose Antonio Elena Fito, Santiago Fco
UPV Unit: Universitat Politècnica de València. Instituto Universitario Mixto de Biología Molecular y Celular de Plantas - Institut Universitari Mixt de Biologia Molecular i Cel·lular de Plantes
Issued date:
Abstract:
[EN] We propose and study nonlinear mathematical models describing the intracellular time dynamics of viral RNA accumulation for positive-sense single-stranded RNA viruses. Our models consider different replication modes ...[+]
Subjects: Complex systems , Intracellular viral dynamics , Nonlinear dynamics , Replication mode , RNA viruses , Systems biology
Copyrigths: Reserva de todos los derechos
Source:
Journal of the Royal Society. Interface. (issn: 1742-5689 ) (eissn: 1742-5662 )
DOI: 10.1098/rsif.2011.0471
Publisher:
Royal Society, The
Publisher version: https://dx.doi.org/10.1098/rsif.2011.0471
Project ID:
info:eu-repo/grantAgreement/HFSP//RGP0012%2F2008/
info:eu-repo/grantAgreement/NSF//0551164/US/Kavli Institute for Theoretical Physics/
info:eu-repo/grantAgreement/MICINN//BIO2008-01986/ES/INTERACCIONES RNA-PROTEINA EN EL CICLO INFECCIOSO DE PATOGENOS DE RNA DE PLANTAS/
info:eu-repo/grantAgreement/MICINN//BFU2009-06993/ES/Biologia Evolutiva Y De Sistemas De La Emergencia De Fitovirus De Rna/
Thanks:
This work was funded by the Human Frontier Science Program Organization grant RGP12/2008, by the Spanish Ministerio de Ciencia e Innovacion grants BIO2008-01986 (J.A.D.) and BFU2009-06993 (S.F.E.) and by the Santa Fe ...[+]
Type: Artículo

References

Endy, D., Kong, D., & Yin, J. (1997). Intracellular kinetics of a growing virus: A genetically structured simulation for bacteriophage T7. Biotechnology and Bioengineering, 55(2), 375-389. doi:10.1002/(sici)1097-0290(19970720)55:2<375::aid-bit15>3.0.co;2-g

You, L., Suthers, P. F., & Yin, J. (2002). Effects of Escherichia coli Physiology on Growth of Phage T7 In Vivo and In Silico. Journal of Bacteriology, 184(7), 1888-1894. doi:10.1128/jb.184.7.1888-1894.2002

Reddy, B., & Yin, J. (1999). Quantitative Intracellular Kinetics of HIV Type 1. AIDS Research and Human Retroviruses, 15(3), 273-283. doi:10.1089/088922299311457 [+]
Endy, D., Kong, D., & Yin, J. (1997). Intracellular kinetics of a growing virus: A genetically structured simulation for bacteriophage T7. Biotechnology and Bioengineering, 55(2), 375-389. doi:10.1002/(sici)1097-0290(19970720)55:2<375::aid-bit15>3.0.co;2-g

You, L., Suthers, P. F., & Yin, J. (2002). Effects of Escherichia coli Physiology on Growth of Phage T7 In Vivo and In Silico. Journal of Bacteriology, 184(7), 1888-1894. doi:10.1128/jb.184.7.1888-1894.2002

Reddy, B., & Yin, J. (1999). Quantitative Intracellular Kinetics of HIV Type 1. AIDS Research and Human Retroviruses, 15(3), 273-283. doi:10.1089/088922299311457

Dahari, H., Ribeiro, R. M., Rice, C. M., & Perelson, A. S. (2006). Mathematical Modeling of Subgenomic Hepatitis C Virus Replication in Huh-7 Cells. Journal of Virology, 81(2), 750-760. doi:10.1128/jvi.01304-06

Sidorenko, Y., & Reichl, U. (2004). Structured model of influenza virus replication in MDCK cells. Biotechnology and Bioengineering, 88(1), 1-14. doi:10.1002/bit.20096

Lim, K., Lang, T., Lam, V., & Yin, J. (2006). Model-Based Design of Growth-Attenuated Viruses. PLoS Computational Biology, 2(9), e116. doi:10.1371/journal.pcbi.0020116

Eigen, M., McCaskill, J., & Schuster, P. (2007). The Molecular Quasi-Species. Advances in Chemical Physics, 149-263. doi:10.1002/9780470141243.ch4

Krakauer, D. C., & Komarova, N. L. (2003). Levels of selection in positive-strand virus dynamics. Journal of Evolutionary Biology, 16(1), 64-73. doi:10.1046/j.1420-9101.2003.00481.x

SRIVASTAVA, R., YOU, L., SUMMERS, J., & YIN, J. (2002). Stochastic vs. Deterministic Modeling of Intracellular Viral Kinetics. Journal of Theoretical Biology, 218(3), 309-321. doi:10.1006/jtbi.2002.3078

Zhdanov, V. P. (2004). Bifurcation in a generic model of intracellular viral kinetics. Journal of Physics A: Mathematical and General, 37(5), L63-L66. doi:10.1088/0305-4470/37/5/l03

Domingo, E., Sabo, D., Taniguchi, T., & Weissmann, C. (1978). Nucleotide sequence heterogeneity of an RNA phage population. Cell, 13(4), 735-744. doi:10.1016/0092-8674(78)90223-4

Sanjuan, R., Nebot, M. R., Chirico, N., Mansky, L. M., & Belshaw, R. (2010). Viral Mutation Rates. Journal of Virology, 84(19), 9733-9748. doi:10.1128/jvi.00694-10

MANRUBIA, S., & LAZARO, E. (2006). Viral evolution. Physics of Life Reviews, 3(2), 65-92. doi:10.1016/j.plrev.2005.11.002

Sardanyes, J., Sole, R. V., & Elena, S. F. (2009). Replication Mode and Landscape Topology Differentially Affect RNA Virus Mutational Load and Robustness. Journal of Virology, 83(23), 12579-12589. doi:10.1128/jvi.00767-09

Thébaud, G., Chadœuf, J., Morelli, M. J., McCauley, J. W., & Haydon, D. T. (2009). The relationship between mutation frequency and replication strategy in positive-sense single-stranded RNA viruses. Proceedings of the Royal Society B: Biological Sciences, 277(1682), 809-817. doi:10.1098/rspb.2009.1247

Martínez, F., Sardanyés, J., Elena, S. F., & Daròs, J.-A. (2011). Dynamics of a Plant RNA Virus Intracellular Accumulation: Stamping Machine vs. Geometric Replication. Genetics, 188(3), 637-646. doi:10.1534/genetics.111.129114

Denhardt, D. T., & Silver, R. B. (1966). An analysis of the clone size distribution of ΦX174 mutants and recombinants. Virology, 30(1), 10-19. doi:10.1016/s0042-6822(66)81004-8

Luria, S. E. (1951). THE FREQUENCY DISTRIBUTION OF SPONTANEOUS BACTERIOPHAGE MUTANTS AS EVIDENCE FOR THE EXPONENTIAL RATE OF PHAGE REPRODUCTION. Cold Spring Harbor Symposia on Quantitative Biology, 16(0), 463-470. doi:10.1101/sqb.1951.016.01.033

Chao, L., Rang, C. U., & Wong, L. E. (2002). Distribution of Spontaneous Mutants and Inferences about the Replication Mode of the RNA Bacteriophage  6. Journal of Virology, 76(7), 3276-3281. doi:10.1128/jvi.76.7.3276-3281.2002

Marro, J., & Dickman, R. (1999). Nonequilibrium Phase Transitions in Lattice Models. doi:10.1017/cbo9780511524288

Elena, S. F., Carrasco, P., Daròs, J.-A., & Sanjuán, R. (2006). Mechanisms of genetic robustness in RNA viruses. EMBO reports, 7(2), 168-173. doi:10.1038/sj.embor.7400636

Jockusch, H., Wiegand, C., Mersch, B., & Rajes, D. (2001). Mutants ofTobacco mosaic viruswith Temperature-Sensitive Coat Proteins Induce Heat Shock Response in Tobacco Leaves. Molecular Plant-Microbe Interactions, 14(7), 914-917. doi:10.1094/mpmi.2001.14.7.914

Tarazona, P. (1992). Error thresholds for molecular quasispecies as phase transitions: From simple landscapes to spin-glass models. Physical Review A, 45(8), 6038-6050. doi:10.1103/physreva.45.6038

Saakian, D. B., Biebricher, C. K., & Hu, C.-K. (2009). Phase diagram for the Eigen quasispecies theory with a truncated fitness landscape. Physical Review E, 79(4). doi:10.1103/physreve.79.041905

Sardanyés, J., & Elena, S. F. (2010). Error threshold in RNA quasispecies models with complementation. Journal of Theoretical Biology, 265(3), 278-286. doi:10.1016/j.jtbi.2010.05.018

Rodrigo, G., Carrera, J., Jaramillo, A., & Elena, S. F. (2010). Optimal viral strategies for bypassing RNA silencing. Journal of The Royal Society Interface, 8(55), 257-268. doi:10.1098/rsif.2010.0264

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