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Methods
2012 Jun 01;572:179-86. doi: 10.1016/j.ymeth.2012.03.033.
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Single-molecule analysis of DNA replication in Xenopus egg extracts.
Yardimci H
,
Loveland AB
,
van Oijen AM
,
Walter JC
.
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The recent advent in single-molecule imaging and manipulation methods has made a significant impact on the understanding of molecular mechanisms underlying many essential cellular processes. Single-molecule techniques such as electron microscopy and DNA fiber assays have been employed to study the duplication of genome in eukaryotes. Here, we describe a single-molecule assay that allows replication of DNA attached to the functionalized surface of a microfluidic flow cell in a soluble Xenopus leavis egg extract replication system and subsequent visualization of replication products via fluorescence microscopy. We also explain a method for detection of replication proteins, through fluorescently labeled antibodies, on partially replicated DNA immobilized at both ends to the surface.
Arias,
Replication-dependent destruction of Cdt1 limits DNA replication to a single round per cell cycle in Xenopus egg extracts.
2005, Pubmed,
Xenbase
Arias,
Replication-dependent destruction of Cdt1 limits DNA replication to a single round per cell cycle in Xenopus egg extracts.
2005,
Pubmed
,
Xenbase
Bailis,
Minichromosome maintenance proteins interact with checkpoint and recombination proteins to promote s-phase genome stability.
2008,
Pubmed
Blow,
Initiation of DNA replication in nuclei and purified DNA by a cell-free extract of Xenopus eggs.
1986,
Pubmed
,
Xenbase
Blow,
Replication origins in Xenopus egg extract Are 5-15 kilobases apart and are activated in clusters that fire at different times.
2001,
Pubmed
,
Xenbase
Bravo,
Existence of two populations of cyclin/proliferating cell nuclear antigen during the cell cycle: association with DNA replication sites.
1987,
Pubmed
Christian,
Single-molecule measurements of synthesis by DNA polymerase with base-pair resolution.
2009,
Pubmed
COHEN,
SPECTROPHOTOMETRIC STUDIES OF THE INTERACTION OF CHLOROQUINE WITH DEOXYRIBONUCLEIC ACID.
1965,
Pubmed
Edwards,
MCM2-7 complexes bind chromatin in a distributed pattern surrounding the origin recognition complex in Xenopus egg extracts.
2002,
Pubmed
,
Xenbase
Funderud,
DNA replication in Physarum polycephalum: electron microscopic and autoradiographic analysis of replicating DNA from defined stages of the S-period.
1979,
Pubmed
Hamdan,
Dynamics of DNA replication loops reveal temporal control of lagging-strand synthesis.
2009,
Pubmed
Herrick,
Replication fork density increases during DNA synthesis in X. laevis egg extracts.
2000,
Pubmed
,
Xenbase
Huberman,
On the mechanism of DNA replication in mammalian chromosomes.
1968,
Pubmed
Jackson,
Replicon clusters are stable units of chromosome structure: evidence that nuclear organization contributes to the efficient activation and propagation of S phase in human cells.
1998,
Pubmed
Joo,
Advances in single-molecule fluorescence methods for molecular biology.
2008,
Pubmed
Kochaniak,
Proliferating cell nuclear antigen uses two distinct modes to move along DNA.
2009,
Pubmed
,
Xenbase
Lebofsky,
DNA is a co-factor for its own replication in Xenopus egg extracts.
2011,
Pubmed
,
Xenbase
Lebofsky,
DNA replication origin interference increases the spacing between initiation events in human cells.
2006,
Pubmed
Lebofsky,
DNA replication in nucleus-free Xenopus egg extracts.
2009,
Pubmed
,
Xenbase
Lengronne,
Monitoring S phase progression globally and locally using BrdU incorporation in TK(+) yeast strains.
2001,
Pubmed
Maier,
Replication by a single DNA polymerase of a stretched single-stranded DNA.
2000,
Pubmed
Marheineke,
Aphidicolin triggers a block to replication origin firing in Xenopus egg extracts.
2001,
Pubmed
,
Xenbase
Neuman,
Single-molecule force spectroscopy: optical tweezers, magnetic tweezers and atomic force microscopy.
2008,
Pubmed
Newlon,
Replication of yeast chromosomal DNA.
1974,
Pubmed
Norio,
Visualization of DNA replication on individual Epstein-Barr virus episomes.
2001,
Pubmed
Pacek,
A requirement for MCM7 and Cdc45 in chromosome unwinding during eukaryotic DNA replication.
2004,
Pubmed
,
Xenbase
Pandey,
Coordinating DNA replication by means of priming loop and differential synthesis rate.
2009,
Pubmed
Pasero,
Single-molecule analysis reveals clustering and epigenetic regulation of replication origins at the yeast rDNA locus.
2002,
Pubmed
Sclafani,
Two heads are better than one: regulation of DNA replication by hexameric helicases.
2004,
Pubmed
Stanojcic,
In Xenopus egg extracts, DNA replication initiates preferentially at or near asymmetric AT sequences.
2008,
Pubmed
,
Xenbase
Takahashi,
Pumps, paradoxes and ploughshares: mechanism of the MCM2-7 DNA helicase.
2005,
Pubmed
Tanner,
Single-molecule studies of fork dynamics in Escherichia coli DNA replication.
2008,
Pubmed
Toprak,
Super-accuracy and super-resolution getting around the diffraction limit.
2010,
Pubmed
Truett,
The replication of ribosomal DNA in the macronucleus of Tetrahymena.
1977,
Pubmed
van Oijen,
Honey, I shrunk the DNA: DNA length as a probe for nucleic-acid enzyme activity.
2007,
Pubmed
van Oijen,
Single-molecule approaches to characterizing kinetics of biomolecular interactions.
2011,
Pubmed
Walter,
Regulated chromosomal DNA replication in the absence of a nucleus.
1998,
Pubmed
,
Xenbase
Walter,
Initiation of eukaryotic DNA replication: origin unwinding and sequential chromatin association of Cdc45, RPA, and DNA polymerase alpha.
2000,
Pubmed
,
Xenbase
Wuite,
Single-molecule studies of the effect of template tension on T7 DNA polymerase activity.
2000,
Pubmed
Yao,
Single-molecule analysis reveals that the lagging strand increases replisome processivity but slows replication fork progression.
2009,
Pubmed
Yardimci,
Uncoupling of sister replisomes during eukaryotic DNA replication.
2010,
Pubmed
,
Xenbase
