Quasi-species evolution in subdivided populations favours maximally deleterious mutations

Proceedings of the Royal Society B: Biological Sciences

Volumn 274, Issue 1629, 2007, Pages 3159-3164

  O'Fallon, Brendan D ^a   Adler, Frederick R ^a   Proulx, Stephen R ^b  

^a UNIVERSITY OF UTAH   (United States)

^b IOWA STATE UNIVERSITY   (United States)

Author keywords

Population structure; Quasispecies; Robustness

Indexed keywords

DNA;

EMPIRICAL ANALYSIS; EVOLUTION; GENOME; GENOTYPE; MUTATION; POPULATION GENETICS; POPULATION STRUCTURE; RNA; VIRUS;

ARTICLE; COMPARATIVE STUDY; EMPIRICISM; GENETICS; GENOME; GENOTYPE; HOST; MICROORGANISM; MODEL; MOLECULAR EVOLUTION; MUTATION; POPULATION; PREDICTION; PRIORITY JOURNAL; RNA VIRUS; SPECIES; TIME; VIRION; VIRUS INFECTION;

RNA VIRUSES;

EID: 36849030923     PISSN: 09628452     EISSN: 14712970     Source Type: Journal    
DOI: 10.1098/rspb.2007.1228     Document Type: Article

References (40)

1. Bornberg-Bauer, E. & Chan, H. S. 1999 Modeling evolutionary landscapes: mutational stability, topology, and super-funnels in sequence space. Proc. Natl Acad. Sci. USA 96, 10 689-10 694. (doi:10.1073/pnas. 96.19.10689)
2. Bull, J. J., Meyers, L. A. & Lachmann, M. 2005 Quasispecies made simple. PLOS Comput. Biol. 1, e61. (doi:10.1371/ journal.pcbi.0010061)
3. Burch, C., Guyader, S., Samarov, D. & Shen, H. 2007 Experimental estimate of the abundance and effects of nearly neutral mutations in the RNA virus φ6. Genetics 176, 467-476. (doi:10.1534/genetics.106. 067199)
4. Cherry, J. L. 2003 Selection, subdivision, extinction, and recolonization. Genetics 166, 1105-1114. (doi:10.1534/ genetics.166.2.1105)
5. Codoner, F. M., Daros, J. A., Sole, R. V. & Elena, S. F. 2006 The fittest versus the flattest: experimental confirmation of the quasispecies effect with subviral pathogens. PLoS Pathog. 2, e136. (doi:10.1371/joumal.ppat.0020136)
6. Crotty, S., Cameron, C. E. & Andino, R. 2001 RNA virus error catastrophe: direct molecular test by using ribavirin. Proc. Natl Acad. Sci. USA 98, 6895-6900. (doi:10.1073/ pnas.111085598)
7. Cuevas, J. M., Moya, A. & Elena, S. F. 2003 Evolution of RNA virus in spatially structured heterogeneous environments. J. Evol. Biol. 16, 456-466. (doi:10.1046/j.1420-9101.2003.00547.x)
8. de Visser, J. A. G. M. et al. 2003 Perspective: evolution and detection of genetic robustness. Evolution 57, 1959-1972.
9. Domingo, E. 2006 Quasispecies: concepts and implications for virology. Berlin, Germany: Springer.
10. Drake, J. W. & Holland, J. J. 1999 Mutation rates among RNA virsus. Proc. Natl Acad. Sci. USA 24, 13 910-13 913. (doi:10.1073/pnas.96. 24.13910)
11. Eigen, M. 1971 Self-organization of matter and the evolution of biological macromolecules. Naturwissenschaften 58, 465-523. (doi:10.1007/BF00623322)
12. Elena, S. F., Carrasco, P., Daros, J.-A. & Sanjuan, R. 2006 Mechanisms of genetic robustness in RNA viruses. EMBO Rep. 7, 168-173. (doi:10.1038/sj.embor.7400636)
13. Elena, S. F., Wilke, C. O., Ofria, C. & Lenski, R. 2007 Effects of population size and mutation rate of the evolution of mutational robustness. Evolution 61, 666-674. (doi:10. 1111/j.1558-5646.2007.00064.x)
14. Graci, J. D. & Cameron, C. E. 2002 Quasispecies, error catastrophe, and the antiviral activity of ribavirin. Virology 298, 175-180. (doi:10.1006/viro.2002.1487)
15. Hadany, L., Beker, T., Eshel, I. & Feldman, M. W. 2006 Why is stress so deadly? An evolutionary perspective. Proc. R. Soc. B 273, 881-885. (doi:10.1098/rspb.2005.3384)
16. Hansen, T. F. 2006 The evolution of genetic architecture. Annu. Rev. Ecol. Evol. Syst. 37, 123-157. (doi:10.1146/ annurev.ecolsys.37. 091305.110224)
17. Hansen, T. F., Alvarez-Castro, J. M., Carter, A. J. R., Hermisson, J. & Wagner, G. P. 2006 Evolution of genetic architecture under direction selection. Evolution 60, 1523-1536.
18. Holmes, E. 2003 Error thresholds and the constraints to RNA virus evolution. Trends Microbiol. 11, 543-546. (doi:10.1016/j.tim.2003. 10.006)
19. Kitano, H. 2004 Biological robustness. Nat. Rev. Genet. 5, 826-838. (doi:10.1038/nrg1471)
20. Krakauer, D. C. & Plotkin, J. B. 2002 Redundancy, antiredundancy, and the robustness of genomes. Proc. Natl Acad. Sci. USA 99, 1405-1409. (doi:10.1073/pnas. 032668599)
21. Liberman, U. & Feldman, M. W. 2006 Evolutionary theory for modifiers of epistasis using a general symmetric model. Proc. Natl Acad. Sci. USA 103, 19 402-19 406. (doi:10. 1073/pnas.0608569103)
22. Miralles, R., Moya, A. & Elena, S. F. 1999 Effect of population patchiness and migration rates on the adaptation and divergence of vesicular stomatitis virus quasispecies populations. J. Gen. Virol. 80, 2051-2059.
23. Mullins, J. I. & Jensen, M. A. 2006 Evolutionary dynamics of HIV-1 and the control of AIDS. In Quasispecies: concepts and implications for virology (ed. E. Domingo), pp. 171-192. Berlin, Germany: Springer.
24. Rice, S. R. 1998 The evolution of canalization and the breaking of Von Baer's laws: modeling the evolution of development with epistasis. Evolution 52, 647-656. (doi:10.2307/2411260)
25. Sanjuan, R., Moya, A. & Elena, S. F. 2004a The distribution of fitness effects caused by single-nucleotide substitutions in an RNA virus. Proc. Natl Acad. Sci. USA 101, 8396-8401. (doi:10.1073/pnas. 0400146101)
26. Sanjuan, R., Moya, A. & Elena, S. F. 2004b The contribution of epistasis to the architecture of fitness in an RNA virus. Proc. Natl Acad. Sci. USA 101, 15 376-15 379. (doi:10. 1073/pnas.0404125101)
27. Schuster, P. & Swetina, J. 1988 Stationary mutant distributions and evolutionary optimization. Bull. Math. Biol. 50, 635-660.
28. van Nimwgen, E., Crutchfield, J. P. & Huynen, M. 1999 Neutral evolution of mutational robustness. Proc. Natl Acad. Sci. USA 96, 9716-9720. (doi:10.1073/pnas.96.17.9716)
29. Vignuzzi, M., Stone, J. K., Arnold, J. J., Cameron, C. E. & Andino, R. 2006 Quasispecies diversity determines pathogenesis through cooperative interactions within a viral population. Nature 439, 344-348. (doi:10.1038/ nature04388)
30. Wagner, A. 2000 Robustness against mutations in genetic networks of yeast. Nat. Genet. 24, 355-361. (doi:10.1038/74174)
31. Wagner, A. 2005 Robustness and evolvability in living systems. Princeton, NJ: Princeton University Press.
32. Wagner, G. P., Booth, G. & Bagheri-Chaichian, H. 1997 Population genetic theory of canalization. Evolution 51, 329-347. (doi:10.2307/2411105)
33. Whitlock, M. C. 2002 Selection, load and inbreeding depression in a large metapopulation. Genetics 160, 1191-1202.
34. Whitlock, M. C. 2003 Fixation probability and time in subdivided populations. Genetics 164, 767-779.
35. Wilke, C. O. 2001 Selection for fitness versus selection for robustness in RNA secondary structure folding. Evolution 55, 2412-2420.
36. Wilke, C. O. & Adami, C. 2001 Interaction between directional epistasis and average mutational effects. Proc. R. Soc. B 268, 1469-1474. (doi:10.1098/rspb.2001.1690)
37. Wilke, C. O. & Adami, C. 2003 Evolution of mutational robustness. Mutat. Res. 522, 3-11.
38. Wilke, C. O., Wang, J. L., Ofria, C., Lenski, R. E. & Adami, C. 2001 Evolution of digital organisms at high mutation rates leads to survival of the fattest. Nature 412, 331-333. (doi:10.1038/35085569)
39. Wilson, D. S. 1980 The natural selection of populations and communities. Menlo Park, CA: Bejamin/Cummings.
40. Wright, S. 1931 Evolution in Mendelian populations. Genetics 16, 97-159.