Effects of salt concentrations and bending energy on the extent of ejection of phage genomes

Biophysical Journal

Volumn 94, Issue 3, 2008, Pages 1110-1120

  Evilevitch, Alex ^a   Li, Tai Fang ^b   Yoffe, Aron M ^b   Castelnovo, Martin ^c   Rau, Donald C ^d   Parsegian, V Adrian ^d   Gelbart, William M ^b   Knobler, Charles M ^b  

^a LUND UNIVERSITY   (Sweden)

^b UNIVERSITY OF CALIFORNIA   (United States)

^c Laboratoire Joliot Curie   (France)

^d EUNICE KENNEDY SHRIVER NATIONAL INSTITUTE OF CHILD HEALTH AND HUMAN DEVELOPMENT   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CAPSID PROTEIN; CATION; SODIUM CHLORIDE; SPERMINE;

ARTICLE; BACTERIOPHAGE; BACTERIOPHAGE LAMBDA; CHICKEN; CRYOELECTRON MICROSCOPY; CYTOPLASM; DNA DETERMINATION; DNA PACKAGING; ENERGY; GENOME; HEART EJECTION FRACTION; NONHUMAN; OSMOTIC PRESSURE; OSMOTIC STRESS; PRESSURE; PROTEIN INTERACTION; X RAY DIFFRACTION;

BACTERIA (MICROORGANISMS); ENTEROBACTERIA PHAGE LAMBDA; MIRIDAE;

EID: 38549093508     PISSN: 00063495     EISSN: None     Source Type: Journal    
DOI: 10.1529/biophysj.107.115345     Document Type: Article

References (35)

1. Bloomfield, V. A. 1997. DNA condensation by multivalent cations. Biopolymers. 44:269-282.
2. Gosule, L. C., and J. A. Schellman. 1976. Compact form of DNA induced by spermidine. Nature. 259:333-335.
3. Raspaud, E., M. O. de la Cruz, J. L. Sikorav, and F. Livolant. 1998. Precipitation of DNA by polyamines: a polyelectrolyte behavior. Biophys. J. 74:381-393.
4. Raspaud, E., D. Durand, and F. Livolant. 2005. Interhelical spacing in liquid crystalline spermine and spermidine-DNA precipitates. Biophys. J. 88:392-403.
5. Zribi, O. V., H. Kyung, R. Golestanian, T. B. Liverpool, and G. C. L. Wong. 2007. Multivalent ion driven condensation of DNA-actin polyelectrolyte mixtures. Europhys. Lett. In press.
6. Evilevitch, A., L. Lavelle, C. M. Knobler, E. Raspaud, and W. M. Gelbart. 2003. Osmotic pressure inhibition of DNA ejection from phage. Proc. Natl. Acad. Sci. USA. 100:9292-9295.
7. Tzlil, S., J. T. Kindt, W. M. Gelbart, and A. Ben-Shaul. 2003. Forces and pressures in DNA packaging and release from viral capsids. Biophys. J. 84:1616-1627.
8. Purohit, P. K., J. Kondev, and R. Phillips. 2003. Mechanics of DNA packaging in viruses. Proc. Natl. Acad. Sci. USA. 100:3173-3178.
9. Fuller, D. N., D. Raymer, J. P. Rickgauer, R. M. Robertson, C. E. Catalano, D. L. Anderson, S. Grimes, and D. E. Smith. 2007. Measurements of single DNA molecule packaging dynamics in bacteriophage λ reveal high forces, high motor processivity, and capsid transformations. J. Mol. Biol. 373:1113-1122.
10. Grayson, P., A. Evilevitch, M. M. Inamdar, P. K. Purohit, W. M. Gelbart, C. M. Knobler, and R. Phillips. 2006. The effect of genome length on ejection forces in bacteriophage lambda. Virology. 348:430-436.
11. de Frutos, M., S. Brasiles, P. Tavares, and E. Raspaud. 2005. Effect of spermine and DNase on DNA release from bacteriophage T5. Eur. Phys. J. E. 17:429-434.
12. Parsegian, V. A., R. P. Rand, N. L. Fuller, and D. C. Rau. 1986. Osmotic-stress for the direct measurement of intermolecular forces. Methods Enzymol. 127:400-416.
13. Podgornik, R., D. C. Rau, and V. A. Parsegian. 1994. Parametrization of direct and soft steric-undulatory forces between DNA double-helical polyelectrolytes in solutions of several different anions and cations. Biophys. J. 66:297a. (Abstr.)
14. Odijk, T. 1998. Hexagonally packed DNA within bacteriophage T7 stabilized by curvature stress. Biophys. J. 75:1223-1227.
15. Serwer, P., W. E. Masker, and J. L. Allen. 1983. Stability and in vitro DNA packaging of bacteriophages - effects of dextrans, sugars, and polyols. J. Virol. 45:665-671.
16. Selinger, R. L. B., Z. G. Wang, W. M. Gelbart, and A. Ben-Shaul. 1991. Statistical-thermodynamic approach to fracture. Phys. Rev. A. 43:4396-4400.
17. Ivanovska, I., G. Wuite, B. Jönsson, and A. Evilevitch. 2007. Internal DNA pressure modifies stability of WT phage. Proc. Natl. Acad. Sci. USA. 104:9603-9608.
18. Forrey, C., and M. Muthukumar. 2006. Langevin dynamics simulations of genome packing in bacteriophage. Biophys. J. 91:25-41.
19. Klug, W. S., and M. Ortiz. 2003. A director-field model of DNA packaging in viral capsids. J. Mech. Phys. Solids. 51:1815-1847.
20. Spakowitz, A. J., and Z. G. Wang. 2005. DNA packaging in bacteriophage: is twist important? Biophys. J. 88:3912-3923.
21. Petrov, A. S., and S. C. Harvey. 2007. Structural and thermodynamic principles of viral packaging. Structure. 15:21-27.
22. Evilevitch, A. 2006. Effects of condensing agent and nuclease on the extent of ejection from phage lambda. J. Phys. Chem. B. 110:22261-22265.
23. Graff, A., M. Sauer, P. Van Gelder, and W. Meier. 2002. Virus-assisted loading of polymer nanocontainer. Proc. Natl. Acad. Sci. USA. 99:5064-5068.
24. Roa, M., and D. Scandella. 1976. Multiple steps during interaction between coliphage-lambda and its receptor protein in vitro. Virology. 72:182-194.
25. Randallh, L., and M. Schwartz. 1973. Isolation of bacteriophage-lambda receptor from Escherichia coli. J. Bacteriol. 116:1436-1446.
26. Roa, M. 1981. receptor-triggered ejection of DNA and protein in phage-lambda. FEMS Microbiol. Lett. 11:257-262.
27. Podgornik, R., H. H. Strey, K. Gawrisch, D. C. Rau, A. Rupprecht, and V. A. Parsegian. 1996. Bond orientational order, molecular motion, and free energy of high-density DNA mesophases. Proc. Natl. Acad. Sci. USA. 93:4261-4266.
28. Mudd, C. P., H. Tipton, A. V. Parsegian, and D. Rau. 1987. Temperature-controlled vacuum chamber for x-ray diffraction studies. Rev. Sci. Instrum. 58:2110-2114.
29. Earnshaw, W. C., and S. C. Harrison. 1977. DNA arrangement in isometric phage heads. Nature. 268:598-602.
30. Robinson, R. A., and R. H. Stokes. 1970. Electrolyte Solutions. Butterworths, London, UK.
31. Fuller, D. N., J. P. Rickgauer, S. Grimes, P. J. Jardine, D. L. Anderson, and D. E. Smith. 2007. Ionic effects on viral DNA packaging and portal motor function in bacteriophage Φ29. Proc. Natl. Acad. Sci. USA. 104:11245-11250.
32. Yang, J., and D. C. Rau. 2005. Incomplete ion dissociation underlies the weakened attraction between DNA helices at high spermidine concentrations. J. Am. Chem. Soc. 127:2184-2190.
33. Lee, K. C., I. Borukhov, W. M. Gelbart, A. J. Liu, and M. J. Stevens. 2004. Effect of mono- and multivalent salts on angle-dependent attractions between charged rods. Phys. Rev. Lett. 93:128101-128105.
34. Nguyen, T. T., I. Rouzina, and B. I. Shklovskii. 2000. Reentrant condensation of DNA induced by multivalent counterions. J. Chem. Phys. 112:2562-2568.
35. Castelnovo, M., and A. Evilevitch. 2006. Binding effects in multivalent Gibbs-Donnan equilibrium. Europhys. Lett. 73:635-641.