Literature DB >> 3158882

Macromolecular crowding accelerates the cohesion of DNA fragments with complementary termini.

S B Zimmerman, B Harrison.   

Abstract

Macromolecular crowding increases the rate of nonenzymatic cohesion of the complementary ends of lambda DNA. Both lambda DNA and DNA fragments bearing the cohesive ends of lambda DNA are similarly affected. High concentrations of plasma albumin or Ficoll 70 increase the rate of cohesion by ca. 100-fold whereas high concentrations of polyethylene glycol 8000 cause greater than 2000-fold stimulation in this rate. These results have implications for the mechanism of polymer-stimulated enzymatic ligation of DNA or RNA. In addition, these crowding effects may help to explain the rapid cohesion of lambda DNA observed in vivo. An improved procedure for the recovery of DNA fragments separated by agarose gel electrophoresis is also described.

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Year:  1985        PMID： 3158882      PMCID： PMC341152          DOI： 10.1093/nar/13.7.2241

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN： 0305-1048            Impact factor:   16.971


  17 in total

1.  COMPLEMENTARY STRUCTURE OF INTERACTING SITES AT THE ENDS OF LAMBDA DNA MOLECULES.

Authors:  A D HERSHEY; E BURGI
Journal:  Proc Natl Acad Sci U S A       Date:  1965-02       Impact factor: 11.205

2.  COHESION OF DNA MOLECULES ISOLATED FROM PHAGE LAMBDA.

Authors:  A D Hershey; E Burgi; L Ingraham
Journal:  Proc Natl Acad Sci U S A       Date:  1963-05       Impact factor: 11.205

3.  Effects of microscopic and macroscopic viscosity on the rate of renaturation of DNA.

Authors:  C T Chang; T C Hain; J R Hutton; J G Wetmur
Journal:  Biopolymers       Date:  1974       Impact factor: 2.505

4.  Cyclization of phage DNAs.

Authors:  J C Wang; N Davidson
Journal:  Cold Spring Harb Symp Quant Biol       Date:  1968

5.  Changes in the structure and activity of lambda DNA in a superinfected immune bacterium.

Authors:  V C Bode; A D Kaiser
Journal:  J Mol Biol       Date:  1965-12       Impact factor: 5.469

6.  The effect of volume occupancy upon the thermodynamic activity of proteins: some biochemical consequences.

Authors:  A P Minton
Journal:  Mol Cell Biochem       Date:  1983       Impact factor: 3.396

7.  Conformation of double-stranded DNA during agarose gel electrophoresis: fractionation of linear and circular molecules with molecular weights between 3 X 10(6) and 26 X 10(6).

Authors:  P Serwer; J L Allen
Journal:  Biochemistry       Date:  1984-02-28       Impact factor: 3.162

Review 8.  How crowded is the cytoplasm?

Authors:  A B Fulton
Journal:  Cell       Date:  1982-09       Impact factor: 41.582

9.  On the probability of ring closure of lambda DNA.

Authors:  J C Wang; N Davidson
Journal:  J Mol Biol       Date:  1966-08       Impact factor: 5.469

10.  Polymer-stimulated ligation: enhanced blunt- or cohesive-end ligation of DNA or deoxyribooligonucleotides by T4 DNA ligase in polymer solutions.

Authors:  B H Pheiffer; S B Zimmerman
Journal:  Nucleic Acids Res       Date:  1983-11-25       Impact factor: 16.971
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  11 in total

1.  Separating chemical and excluded volume interactions of polyethylene glycols with native proteins: Comparison with PEG effects on DNA helix formation.

Authors:  Irina A Shkel; D B Knowles; M Thomas Record
Journal:  Biopolymers       Date:  2015-09       Impact factor: 2.505

2.  Separation of preferential interaction and excluded volume effects on DNA duplex and hairpin stability.

Authors:  D B Knowles; Andrew S LaCroix; Nickolas F Deines; Irina Shkel; M Thomas Record
Journal:  Proc Natl Acad Sci U S A       Date:  2011-07-08       Impact factor: 11.205

3.  Ultrasonic ligation for rapid high-efficiency subcloning in plasmid vectors.

Authors:  J B Cooper; D L Halverson; C Coldren
Journal:  Nucleic Acids Res       Date:  1993-04-11       Impact factor: 16.971

4.  Cloning and expression of Mycobacterium bovis BCG DNA in "Streptomyces lividans".

Authors:  T Kieser; M T Moss; J W Dale; D A Hopwood
Journal:  J Bacteriol       Date:  1986-10       Impact factor: 3.490

5.  Chemical Interactions of Polyethylene Glycols (PEGs) and Glycerol with Protein Functional Groups: Applications to Effects of PEG and Glycerol on Protein Processes.

Authors:  D B Knowles; Irina A Shkel; Noel M Phan; Matt Sternke; Emily Lingeman; Xian Cheng; Lixue Cheng; Kevin O'Connor; M Thomas Record
Journal:  Biochemistry       Date:  2015-05-22       Impact factor: 3.162

6.  Measurement of thyroid stimulating immunoglobulins using a novel thyroid stimulating hormone receptor-guanine nucleotide-binding protein, (GNAS) fusion bioassay.

Authors:  M Pierce; R Sandrock; G Gillespie; A W Meikle
Journal:  Clin Exp Immunol       Date:  2012-11       Impact factor: 4.330

7.  Macromolecular crowding increases binding of DNA polymerase to DNA: an adaptive effect.

Authors:  S B Zimmerman; B Harrison
Journal:  Proc Natl Acad Sci U S A       Date:  1987-04       Impact factor: 11.205

8.  Effects of temperature on excluded volume-promoted cyclization and concatemerization of cohesive-ended DNA longer than 0.04 Mb.

Authors:  D Louie; P Serwer
Journal:  Nucleic Acids Res       Date:  1991-06-11       Impact factor: 16.971

Review 9.  What macromolecular crowding can do to a protein.

Authors:  Irina M Kuznetsova; Konstantin K Turoverov; Vladimir N Uversky
Journal:  Int J Mol Sci       Date:  2014-12-12       Impact factor: 5.923

10.  Active macromolecules of honey form colloidal particles essential for honey antibacterial activity and hydrogen peroxide production.

Authors:  Katrina Brudzynski; Danielle Miotto; Linda Kim; Calvin Sjaarda; Liset Maldonado-Alvarez; Henryk Fukś
Journal:  Sci Rep       Date:  2017-08-09       Impact factor: 4.379
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