Literature DB >> 17189857

Mapping yeast origins of replication via single-stranded DNA detection.

Wenyi Feng1, M K Raghuraman, Bonita J Brewer.   

Abstract

Studies in th Saccharomyces cerevisiae have provided a framework for understanding how eukaryotic cells replicate their chromosomal DNA to ensure faithful transmission of genetic information to their daughter cells. In particular, S. cerevisiae is the first eukaryote to have its origins of replication mapped on a genomic scale, by three independent groups using three different microarray-based approaches. Here we describe a new technique of origin mapping via detection of single-stranded DNA in yeast. This method not only identified the majority of previously discovered origins, but also detected new ones. We have also shown that this technique can identify origins in Schizosaccharomyces pombe, illustrating the utility of this method for origin mapping in other eukaryotes.

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Year:  2007        PMID: 17189857      PMCID: PMC1994921          DOI: 10.1016/j.ymeth.2006.07.023

Source DB:  PubMed          Journal:  Methods        ISSN: 1046-2023            Impact factor:   3.608


  9 in total

1.  Mapping of early firing origins on a replication profile of budding yeast.

Authors:  Nami Yabuki; Hiromichi Terashima; Kunio Kitada
Journal:  Genes Cells       Date:  2002-08       Impact factor: 1.891

2.  The in vivo replication origin of the yeast 2 microns plasmid.

Authors:  J A Huberman; L D Spotila; K A Nawotka; S M el-Assouli; L R Davis
Journal:  Cell       Date:  1987-11-06       Impact factor: 41.582

3.  Genome-wide distribution of ORC and MCM proteins in S. cerevisiae: high-resolution mapping of replication origins.

Authors:  J J Wyrick; J G Aparicio; T Chen; J D Barnett; E G Jennings; R A Young; S P Bell; O M Aparicio
Journal:  Science       Date:  2001-12-14       Impact factor: 47.728

4.  Regulation of DNA replication fork progression through damaged DNA by the Mec1/Rad53 checkpoint.

Authors:  J A Tercero; J F Diffley
Journal:  Nature       Date:  2001-08-02       Impact factor: 49.962

5.  Replication dynamics of the yeast genome.

Authors:  M K Raghuraman; E A Winzeler; D Collingwood; S Hunt; L Wodicka; A Conway; D J Lockhart; R W Davis; B J Brewer; W L Fangman
Journal:  Science       Date:  2001-10-05       Impact factor: 47.728

6.  Fork reversal and ssDNA accumulation at stalled replication forks owing to checkpoint defects.

Authors:  José M Sogo; Massimo Lopes; Marco Foiani
Journal:  Science       Date:  2002-07-26       Impact factor: 47.728

7.  Single-stranded DNA arising at telomeres in cdc13 mutants may constitute a specific signal for the RAD9 checkpoint.

Authors:  B Garvik; M Carson; L Hartwell
Journal:  Mol Cell Biol       Date:  1995-11       Impact factor: 4.272

8.  Genomic mapping of single-stranded DNA in hydroxyurea-challenged yeasts identifies origins of replication.

Authors:  Wenyi Feng; David Collingwood; Max E Boeck; Lindsay A Fox; Gina M Alvino; Walton L Fangman; Mosur K Raghuraman; Bonita J Brewer
Journal:  Nat Cell Biol       Date:  2006-01-22       Impact factor: 28.824

9.  The DNA replication checkpoint response stabilizes stalled replication forks.

Authors:  M Lopes; C Cotta-Ramusino; A Pellicioli; G Liberi; P Plevani; M Muzi-Falconi; C S Newlon; M Foiani
Journal:  Nature       Date:  2001-08-02       Impact factor: 49.962

  9 in total
  9 in total

1.  Defining replication origin efficiency using DNA fiber assays.

Authors:  Sandie Tuduri; Hélène Tourrière; Philippe Pasero
Journal:  Chromosome Res       Date:  2010-01       Impact factor: 5.239

2.  Molecular analysis of the replication program in unicellular model organisms.

Authors:  M K Raghuraman; Bonita J Brewer
Journal:  Chromosome Res       Date:  2010-01       Impact factor: 5.239

3.  Centromere replication timing determines different forms of genomic instability in Saccharomyces cerevisiae checkpoint mutants during replication stress.

Authors:  Wenyi Feng; Jeff Bachant; David Collingwood; M K Raghuraman; Bonita J Brewer
Journal:  Genetics       Date:  2009-10-05       Impact factor: 4.562

4.  Multiple mechanisms contribute to Schizosaccharomyces pombe origin recognition complex-DNA interactions.

Authors:  Christopher R Houchens; Wenyan Lu; Ray-Yuan Chuang; Mark G Frattini; Alex Fuller; Pam Simancek; Thomas J Kelly
Journal:  J Biol Chem       Date:  2008-08-22       Impact factor: 5.157

5.  Maintaining replication origins in the face of genomic change.

Authors:  Sara C Di Rienzi; Kimberly C Lindstrom; Tobias Mann; William S Noble; M K Raghuraman; Bonita J Brewer
Journal:  Genome Res       Date:  2012-06-04       Impact factor: 9.043

6.  Hpz1 modulates the G1-S transition in fission yeast.

Authors:  Cathrine A Bøe; Jon Halvor J Knutsen; Erik Boye; Beáta Grallert
Journal:  PLoS One       Date:  2012-09-06       Impact factor: 3.240

7.  The yeast Dbf4 Zn2+ finger domain suppresses single-stranded DNA at replication forks initiated from a subset of origins.

Authors:  Jeff Bachant; Elizabeth A Hoffman; Chris Caridi; Constance I Nugent; Wenyi Feng
Journal:  Curr Genet       Date:  2022-02-11       Impact factor: 2.695

8.  Fungal genes in context: genome architecture reflects regulatory complexity and function.

Authors:  Luke M Noble; Alex Andrianopoulos
Journal:  Genome Biol Evol       Date:  2013       Impact factor: 3.416

9.  Inhibition of spindle extension through the yeast S phase checkpoint is coupled to replication fork stability and the integrity of centromeric DNA.

Authors:  Jeff Julius; Jie Peng; Andrew McCulley; Chris Caridi; Remigiusz Arnak; Colby See; Constance I Nugent; Wenyi Feng; Jeff Bachant
Journal:  Mol Biol Cell       Date:  2019-09-11       Impact factor: 4.138

  9 in total

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