Literature DB >> 17890396

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

Alex Evilevitch1, Li Tai Fang, Aron M Yoffe, Martin Castelnovo, Donald C Rau, V Adrian Parsegian, William M Gelbart, Charles M Knobler.   

Abstract

Recent work has shown that pressures inside dsDNA phage capsids can be as high as many tens of atmospheres; it is this pressure that is responsible for initiation of the delivery of phage genomes to host cells. The forces driving ejection of the genome have been shown to decrease monotonically as ejection proceeds, and hence to be strongly dependent on the genome length. Here we investigate the effects of ambient salts on the pressures inside phage-lambda, for the cases of mono-, di-, and tetravalent cations, and measure how the extent of ejection against a fixed osmotic pressure (mimicking the bacterial cytoplasm) varies with cation concentration. We find, for example, that the ejection fraction is halved in 30 mM Mg(2+) and is decreased by a factor of 10 upon addition of 1 mM spermine. These effects are calculated from a simple model of genome packaging, using DNA-DNA repulsion energies as determined independently from x-ray diffraction measurements on bulk DNA solutions. By comparing the measured ejection fractions with values implied from the bulk DNA solution data, we predict that the bending energy makes the d-spacings inside the capsid larger than those for bulk DNA at the same osmotic pressure.

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Year:  2007        PMID: 17890396      PMCID: PMC2186240          DOI: 10.1529/biophysj.107.115345

Source DB:  PubMed          Journal:  Biophys J        ISSN: 0006-3495            Impact factor:   4.033


  29 in total

1.  Osmotic pressure inhibition of DNA ejection from phage.

Authors:  Alex Evilevitch; Laurence Lavelle; Charles M Knobler; Eric Raspaud; William M Gelbart
Journal:  Proc Natl Acad Sci U S A       Date:  2003-07-24       Impact factor: 11.205

2.  Effect of mono- and multivalent salts on angle-dependent attractions between charged rods.

Authors:  Kun-Chun Lee; Itamar Borukhov; William M Gelbart; Andrea J Liu; Mark J Stevens
Journal:  Phys Rev Lett       Date:  2004-09-13       Impact factor: 9.161

3.  Langevin dynamics simulations of genome packing in bacteriophage.

Authors:  Christopher Forrey; M Muthukumar
Journal:  Biophys J       Date:  2006-04-14       Impact factor: 4.033

4.  Condensation of DNA-actin polyelectrolyte mixtures driven by ions of different valences.

Authors:  Olena V Zribi; Hee Kyung; Ramin Golestanian; Tanniemola B Liverpool; Gerard C L Wong
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2006-03-14

5.  Internal DNA pressure modifies stability of WT phage.

Authors:  Irena Ivanovska; Gijs Wuite; Bengt Jönsson; Alex Evilevitch
Journal:  Proc Natl Acad Sci U S A       Date:  2007-05-29       Impact factor: 11.205

6.  Measurements of single DNA molecule packaging dynamics in bacteriophage lambda reveal high forces, high motor processivity, and capsid transformations.

Authors:  Derek N Fuller; Dorian M Raymer; John Peter Rickgauer; Rae M Robertson; Carlos E Catalano; Dwight L Anderson; Shelley Grimes; Douglas E Smith
Journal:  J Mol Biol       Date:  2007-09-11       Impact factor: 5.469

7.  Precipitation of DNA by polyamines: a polyelectrolyte behavior.

Authors:  E Raspaud; M Olvera de la Cruz; J L Sikorav; F Livolant
Journal:  Biophys J       Date:  1998-01       Impact factor: 4.033

8.  DNA arrangement in isometric phage heads.

Authors:  W C Earnshaw; S C Harrison
Journal:  Nature       Date:  1977-08-18       Impact factor: 49.962

9.  Incomplete ion dissociation underlies the weakened attraction between DNA helices at high spermidine concentrations.

Authors:  Jie Yang; Donald C Rau
Journal:  Biophys J       Date:  2005-06-24       Impact factor: 4.033

10.  Effect of spermine and DNase on DNA release from bacteriophage T5.

Authors:  M de Frutos; S Brasiles; P Tavares; E Raspaud
Journal:  Eur Phys J E Soft Matter       Date:  2005-08-03       Impact factor: 1.890

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  39 in total

1.  Ion-dependent dynamics of DNA ejections for bacteriophage lambda.

Authors:  David Wu; David Van Valen; Qicong Hu; Rob Phillips
Journal:  Biophys J       Date:  2010-08-09       Impact factor: 4.033

2.  Is the in vitro ejection of bacteriophage DNA quasistatic? A bulk to single virus study.

Authors:  N Chiaruttini; M de Frutos; E Augarde; P Boulanger; L Letellier; V Viasnoff
Journal:  Biophys J       Date:  2010-07-21       Impact factor: 4.033

3.  Role of DNA-DNA interactions on the structure and thermodynamics of bacteriophages Lambda and P4.

Authors:  Anton S Petrov; Stephen C Harvey
Journal:  J Struct Biol       Date:  2010-11-11       Impact factor: 2.867

Review 4.  Nucleic acid packaging in viruses.

Authors:  Jeffrey A Speir; John E Johnson
Journal:  Curr Opin Struct Biol       Date:  2012-01-23       Impact factor: 6.809

5.  Strongly correlated electrostatics of viral genome packaging.

Authors:  Toan T Nguyen
Journal:  J Biol Phys       Date:  2013-04-02       Impact factor: 1.365

6.  Polymorphism of DNA conformation inside the bacteriophage capsid.

Authors:  Amélie Leforestier
Journal:  J Biol Phys       Date:  2013-04-12       Impact factor: 1.365

7.  Physical evolution of pressure-driven viral infection.

Authors:  Alex Evilevitch
Journal:  Biophys J       Date:  2013-05-21       Impact factor: 4.033

8.  DNA like-charge attraction and overcharging by divalent counterions in the presence of divalent co-ions.

Authors:  Viet Duc Nguyen; Toan T Nguyen; Paolo Carloni
Journal:  J Biol Phys       Date:  2017-02-11       Impact factor: 1.365

9.  Local structure of DNA toroids reveals curvature-dependent intermolecular forces.

Authors:  Luca Barberi; Françoise Livolant; Amélie Leforestier; Martin Lenz
Journal:  Nucleic Acids Res       Date:  2021-04-19       Impact factor: 16.971

Review 10.  Mechanisms of DNA Packaging by Large Double-Stranded DNA Viruses.

Authors:  Venigalla B Rao; Michael Feiss
Journal:  Annu Rev Virol       Date:  2015-09-10       Impact factor: 10.431

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