Literature DB >> 9795124

A computer model for the analysis of DNA replication intermediates by two-dimensional agarose gel electrophoresis.

E Viguera1, A Rodríguez, P Hernández, D B Krimer, O Trellez, J B Schvartzman.   

Abstract

We present a computer model to predict the patterns expected for the replication intermediates (RIs) of DNA fragments analyzed by neutral/neutral two-dimensional (2D) agarose gel electrophoresis. The model relies on the mode of replication (uni- or bi-directional), the electrophoretic mobility of linear DNA fragments and the retardation caused by the three-dimensional shape of non-linear molecules. The utility of this model is demonstrated with two examples: replication analysis of the plasmids pBR322 and pHH5.8 in Escherichia coli after digestions with EcoRI and HindIII, respectively.

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Year:  1998        PMID： 9795124     DOI： 10.1016/s0378-1119(98)00375-8

Source DB:  PubMed          Journal:  Gene        ISSN： 0378-1119            Impact factor:   3.688


  9 in total

1.  Supercoiling, knotting and replication fork reversal in partially replicated plasmids.

Authors:  L Olavarrieta; M L Martínez-Robles; J M Sogo; A Stasiak; P Hernández; D B Krimer; J B Schvartzman
Journal:  Nucleic Acids Res       Date:  2002-02-01       Impact factor: 16.971

2.  Directionality of lambda plasmid DNA replication carried out by the heritable replication complex.

Authors:  Sylwia Barańska; Grazyna Konopa; Grzegorz Wegrzyn
Journal:  Nucleic Acids Res       Date:  2002-03-01       Impact factor: 16.971

3.  Bi-directional replication and random termination.

Authors:  D Santamaría; E Viguera; M L Martínez-Robles; O Hyrien; P Hernández; D B Krimer; J B Schvartzman
Journal:  Nucleic Acids Res       Date:  2000-05-15       Impact factor: 16.971

4.  Switch from theta to sigma replication of bacteriophage lambda DNA: factors involved in the process and a model for its regulation.

Authors:  Magdalena Narajczyk; Sylwia Barańska; Alicja Wegrzyn; Grzegorz Wegrzyn
Journal:  Mol Genet Genomics       Date:  2007-03-22       Impact factor: 2.980

5.  A dual promoter system regulating λ DNA replication initiation.

Authors:  Paweł Olszewski; Anna Szambowska; Sylwia Barałska; Magdalena Narajczyk; Grzegorz Węgrzyn; Monika Glinkowska
Journal:  Nucleic Acids Res       Date:  2014-02-05       Impact factor: 16.971

6.  Topoisomerase 2 is dispensable for the replication and segregation of small yeast artificial chromosomes (YACs).

Authors:  Jorge Cebrián; Estefanía Monturus; María-Luisa Martínez-Robles; Pablo Hernández; Dora B Krimer; Jorge B Schvartzman
Journal:  PLoS One       Date:  2014-08-12       Impact factor: 3.240

7.  The helicases DinG, Rep and UvrD cooperate to promote replication across transcription units in vivo.

Authors:  Hasna Boubakri; Anne Langlois de Septenville; Enrique Viguera; Bénédicte Michel
Journal:  EMBO J       Date:  2009-10-22       Impact factor: 11.598

8.  Expression of catalytic mutants of the mtDNA helicase Twinkle and polymerase POLG causes distinct replication stalling phenotypes.

Authors:  Sjoerd Wanrooij; Steffi Goffart; Jaakko L O Pohjoismäki; Takehiro Yasukawa; Johannes N Spelbrink
Journal:  Nucleic Acids Res       Date:  2007-04-22       Impact factor: 16.971

9.  The abundance of Fob1 modulates the efficiency of rRFBs to stall replication forks.

Authors:  Alicia Castán; Pablo Hernández; Dora B Krimer; Jorge B Schvartzman
Journal:  Nucleic Acids Res       Date:  2017-09-29       Impact factor: 16.971
  9 in total

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