Relevant bibliographies by topics / Eukaryotic replication

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Academic literature on the topic 'Eukaryotic replication'

Author: Grafiati
Published: 4 June 2021
Last updated: 11 February 2022

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Journal articles on the topic "Eukaryotic replication"

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Villarreal, Luis P., and Victor R. DeFilippis. "A Hypothesis for DNA Viruses as the Origin of Eukaryotic Replication Proteins." Journal of Virology 74, no. 15 (August 1, 2000): 7079–84. http://dx.doi.org/10.1128/jvi.74.15.7079-7084.2000.

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ABSTRACT The eukaryotic replicative DNA polymerases are similar to those of large DNA viruses of eukaryotic and bacterial T4 phages but not to those of eubacteria. We develop and examine the hypothesis that DNA virus replication proteins gave rise to those of eukaryotes during evolution. We chose the DNA polymerase from phycodnavirus (which infects microalgae) as the basis of this analysis, as it represents a virus of a primitive eukaryote. We show that it has significant similarity with replicative DNA polymerases of eukaryotes and certain of their large DNA viruses. Sequence alignment confirms this similarity and establishes the presence of highly conserved domains in the polymerase amino terminus. Subsequent reconstruction of a phylogenetic tree indicates that these algal viral DNA polymerases are near the root of the clade containing all eukaryotic DNA polymerase delta members but that this clade does not contain the polymerases of other DNA viruses. We consider arguments for the polarity of this relationship and present the hypothesis that the replication genes of DNA viruses gave rise to those of eukaryotes and not the reverse direction.
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So, Antero G., and Kathleen M. Downey. "Eukaryotic DNA Replication." Critical Reviews in Biochemistry and Molecular Biology 27, no. 1-2 (January 1992): 129–55. http://dx.doi.org/10.3109/10409239209082561.

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Held, Paul G., and Nicholas H. Heintz. "Eukaryotic replication origins." Biochimica et Biophysica Acta (BBA) - Gene Structure and Expression 1130, no. 3 (April 1992): 235–46. http://dx.doi.org/10.1016/0167-4781(92)90435-3.

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Campbell, J. L. "Eukaryotic DNA Replication." Annual Review of Biochemistry 55, no. 1 (June 1986): 733–71. http://dx.doi.org/10.1146/annurev.bi.55.070186.003505.

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Zannis-Hadjopoulos, Maria, and Gerald B. Price. "Eukaryotic DNA replication." Journal of Cellular Biochemistry 75, S32 (1999): 1–14. http://dx.doi.org/10.1002/(sici)1097-4644(1999)75:32+<1::aid-jcb2>3.0.co;2-j.

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Diffley, John F. X. "Eukaryotic DNA replication." Current Opinion in Cell Biology 6, no. 3 (June 1994): 368–72. http://dx.doi.org/10.1016/0955-0674(94)90028-0.

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Wang, Thomas A., and Joachim J. Li. "Eukaryotic DNA replication." Current Opinion in Cell Biology 7, no. 3 (January 1995): 414–20. http://dx.doi.org/10.1016/0955-0674(95)80098-0.

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Denhardt, David T., and Emanuel A. Faust. "Eukaryotic DNA replication." BioEssays 2, no. 4 (April 1985): 148–54. http://dx.doi.org/10.1002/bies.950020403.

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DePamphilis, Melvin L. "Eukaryotic DNA Replication Origins." Cell 114, no. 3 (August 2003): 274–75. http://dx.doi.org/10.1016/s0092-8674(03)00604-4.

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Burgers, Peter M. J., and Thomas A. Kunkel. "Eukaryotic DNA Replication Fork." Annual Review of Biochemistry 86, no. 1 (June 20, 2017): 417–38. http://dx.doi.org/10.1146/annurev-biochem-061516-044709.

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Dissertations / Theses on the topic "Eukaryotic replication"

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Blow, J. J. "The control of eukaryotic DNA replication." Thesis, University of Cambridge, 1987. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.233674.

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One of the major limitations on research into the control of eukaryotic DNA replication has been the lack of any cell-free system that initiates DNA replication in vitro. The first part of the disseration describes the establishment of a eukaryotic system, derived from the activated eggs of the South African clawed toad, Xenopus laevis, that efficiently initiates and completes DNA replication in vitro. Using a variety of biochemical techniques I show that DNA added to the extract in the form of sperm nuclei is efficiently replicated over a period of 4 - 6 hours. Replication of nuclear DNA represents a single round of semiconservative, semidiscon-tinuous replication. The extract will also replicate naked DNA incubated in it, regardless of sequence, though less efficiently than nuclear templates. This is probably related to the unusual ability of the egg extract to assemble apparently normal interphase nuclei from any DNA molecule incubated in it Evidence is presented that initiation, rather than chain elongation, is the rate-limiting step for replication in vitro. In this and in other ways the cell-free system behaves as though it were an early embryo blocked in a single cell cycle. The second part of the dissertation describes experiments that examine the control of DNA replication in the extract The first set of experiments suggest that on replication, DNA is marked in some way so that it can no longer act as a substrate for further initiation. This provides a mechanism by which the template DNA is replicated precisely once per incubation in vitro (or per cell cycle in vivo). The second set of experiments investigate the relationship between nuclear assembly and the initiation of DNA replication in vitro. A novel method for quantifying DNA replication in intact nuclei using the nucleotide analogue biotin-11-dUTP is described. This technique reveals that although they are in the common cytoplasm of the egg extract, different nuclei start to replicate at different times. Entry into S-phase is characterised by a burst of many synchronous or near-synchronous initiations within individual nuclei. This means that nuclei act as independent and integrated units of replication in the cell-free system, and suggests a fundamental role for nuclear assembly in controlling DNA replication in vitro.
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Loveland, Anna Barbara. "Single-Molecule Studies of Eukaryotic DNA Replication." Thesis, Harvard University, 2012. http://dissertations.umi.com/gsas.harvard:10076.

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DNA replication is a fundamental cellular process. However, the structure and dynamics of the eukaryotic DNA replication machinery remain poorly understood. A soluble extract system prepared from Xenopus eggs recapitulates eukaryotic DNA replication outside of a cell on a variety of DNA templates. This system has been used to reveal many aspects of DNA replication using a variety of ensemble biochemical techniques. Single-molecule fluorescence imaging is a powerful tool to dissect biochemical mechanisms. By immobilizing or confining a substrate, its interaction with individual, soluble, fluorescently-labeled reactants can be imaged over time and without the need for synchrony. These molecular movies reveal binding parameters of the reactant and any population heterogeneity. Moreover, if the experiments are imaged in wide-field format, the location or motion of the labeled species along the substrate can be followed with nanometer accuracy. This dissertation describes the use and development of novel single-molecule fluorescence imaging techniques to study eukaryotic DNA replication. A biophysical characterization of a replication fork protein, PCNA, revealed both helical and non-helical sliding modes along DNA. Previous experiments demonstrate that the egg extracts efficiently replicate surface-immobilized linear DNA. This finding suggested replication of DNA could be followed as motion of the replication fork along the extended DNA. However, individual proteins bound at the replication fork could not be visualized in the wide-field due to the background from the high concentration of the fluorescent protein needed to compete with the extract’s endogenous protein. To overcome this concentration barrier, I have developed a wide-field technique that enables sensitive detection of single molecules at micromolar concentrations of the labeled protein of interest. The acronym for this method, PhADE, denotes three essential steps: (1) Localized PhotoActivation of fluorescence at the immobilized substrate, (2) Diffusion of unbound fluorescent molecules to reduce the background and (3) Excitation and imaging of the substrate-bound molecules. PhADE imaging of flap endonuclease I (Fen1) during replication revealed the time-evolved pattern of replication initiation, elongation and termination and the kinetics of Fen1 exchange during Okazaki fragment maturation. In the future, PhADE will enable the elucidation of the dynamic events at the eukaryotic DNA replication fork. PhADE will also be broadly applicable to the investigation of other complex biochemical process and low affinity interactions. It will be especially useful to those researchers wishing to correlate motion with binding events.
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Bermudez, Vladimir Paredes. "Role of transcription factors in eukaryotic DNA replication /." free to MU campus, to others for purchase, 1998. http://wwwlib.umi.com/cr/mo/fullcit?p9924864.

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Mamun, Mohammed Al. "Probabilistic modelling of replication fidelity in eukaryotic genomes." Thesis, University of Dundee, 2016. https://discovery.dundee.ac.uk/en/studentTheses/cd8bf41c-51cb-411d-816e-40783d8adc89.

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Eukaryotic DNA replication is composed of a complex array of molecular biological activities compounded by the pressure for faithful replication in order to maintain genetic and genomic integrity. The constraints governing DNA replication biology is of fundamental importance to understand the degree of replication error and strategies employed by organisms to tackle the threats to replication fidelity from such errors. We apply a simple conceptual model, formalized by the use of probability theory and statistics, to discern fundamental pressures and constraints that optimise complete DNA replication in genomes of different size scales (10 Megabases to 10 Gigabases), spanning the whole eukaryota. We show in yeasts (genome size ~10 Megabases) that the replication origins (sites on DNA where replication can be initiated) are biased towards equal spacing on the genome and the largest gap between adjacent origins is limited compared to that is expected by chance, as well as origins are placed very close to the telomeric ends in order to minimize the replication errors arising from occasional irreversible failures of replication forks. Replication origin mapping data from five different yeasts confirm to all of these predictions. We derive an estimate of ~5.8×10-8 for the fork stalling rate per nucleotide, the one unknown parameter in our theory, which conforms to previous experimental estimates. We show in higher eukaryotes (genome size 100 Megabases to 10 Gigabases) that the bias for equal origin spacing is absent, larger origin gaps contribute more to the errors while the permissible origin separations are restricted by the rate of fork stalling per nucleotide, and in the larger genomes ( > 100 Megabases) errors become increasingly inevitable, yet with low net number of events, that follows a Poisson with small mean. We show, in very large genomes e.g. human genome, that larger gaps contributing most to the error are distributed as a power law to spread the risk of damage from the error, and post-replicative error-correction mechanisms are necessary for containment of the inevitable errors. Replication origin mapping data from yeast, Arabidopsis, Drosophila and human cell lines as well as experimental observations of post replicative error markers validate these predictions. We show that replication errors can be quantified from the nucleosome scale minimum inter-origin distance permissible under the known DNA structure and we propose a universal replication constant maintained across all eukaryotes independent of their architectural complexity. We show this molecular biological constant relates the genome length and developmental robustness of organisms and this is confirmed by early embryonic mortality rates from different organisms. Good agreement of the biologically obtained data to the model predictions in all cases suggests our model efficiently captures the biological complexity involved in containing errors in the DNA replication process. Conceptually, the model thus portrays how simple ideas can help complex biology to elevate our understanding of the continuously increasing knowledge of biological details.
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Kipling, D. G. "Studies on replication origins in Saccharomyces cerevisiae." Thesis, University of Oxford, 1989. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.253151.

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Yull, Fiona Elizabeth. "Replication and regulation of the 2 micron plasmid of yeast." Thesis, University of Oxford, 1989. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.253479.

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Datta, Shibani. "Isolation and genetic dissection of an eukaryotic replicon that supports autonomous DNA replication." Texas A&M University, 2005. http://hdl.handle.net/1969.1/4666.

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Maintenance of genome integrity requires that chromosomes be accurately and faithfully replicated. We are using Tetrahymena thermophila as a model system for studying the initiation and regulation of eukaryotic DNA replication. This organism contains a diploid micronucleus and polyploid macronucleus. During macronuclear development, the five diploid chromosomes of the micronucleus are fragmented into 280 macronuclear minichromosomes that are subsequently replicated to ~45 copies. In stark contrast, the 21 kb ribosomal DNA minichromosome (rDNA) is amplified from 2 to 10,000 copies in the same nucleus. Previous characterization of the rDNA replicon has led to the localization of its origin and the cis-acting regulatory determinants to the 1.9 kb 5'non-transcribed spacer region. The objective of this study was to identify and characterize non-rDNA origins of replication in Tetrahymena. This will help determine the underlying basis for differential regulation of rDNA and non-rDNA origins during development, as well as provide a better understanding of the organization of eukaryotic replicons. To this effect, I developed a DNA transformation assay that I used to isolate new Tetrahymena replication origins. A 6.7 kb non-rDNA fragment, designated TtARS1, was shown to support stable autonomous replication of circular plasmids in Tetrahymena. Genetic dissection revealed that TtARS1 contains two independent replicons, TtARS1-A and TtARS1-B. Full TtARS1-A function requires a minimal sequence of 700 bp, and two small regions in this fragment have been shown to be essential for origin function. TtARS1-B replicon function was localized to a 1.2 kb intergenic segment that contains little sequence similarity to TtARS1-A. Both non-rDNA replicons lack sequence similarity to the rDNA 5' NTS, suggesting that each replicon interact with a different set of regulatory proteins. This study indicates that the rDNA and the non-rDNA replicons have a modular organization, containing discrete, cis-acting replication determinants.
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Rindler, Paul Michael. "Eukaryotic replication, cis-acting elements, and instability of trinucleotide repeats." Oklahoma City : [s.n.], 2009.

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Maiorano, Domenico. "Role of cdc21+ and related genes in eukaryotic chromosome replication." Thesis, University of Oxford, 1995. http://ora.ox.ac.uk/objects/uuid:e4813692-f9c5-4f81-9fb8-2a13413c04bb.

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The Schizosaccharomyces pombe cdc21+ gene product is related to the Mcm2-3-5 family of replication proteins. By phylogeny analysis of their protein sequences and screening for cdc21+-related sequences using molecular probes I have suggested that at least six types of cdc21+-related genes may be present in the yeast genome. The isolation of interaction suppressors of the cdc21ts mutant was attempted by overexpression of an S. pombe cDNA library. Two cDNAs were isolated, ts11+ and dom1+, whose overexpression specifically affected the viability of cdc21ts cells under certain conditions. The predicted dom1 protein is 60% identical to the budding yeast HMG-like Nhp2 protein. I have studied the phenotype of S. pombe cells overexpressing the cdc21+ gene and amino-terminal truncations of it. Overexpression of the cdc21+ gene caused cell elongation but cells were not significantly affected in growth rate. Cells overexpressing the carboxyl-terminal part of cdc21+ arrested in S phase and also entered mitosis in the absence of nuclear division. The possibility that chromosomes in cdc21ts arrested cells may be damaged was investigated by pulsed field gel electrophoresis. No differences could be found compared to wild-type chromosomes. I have also studied the arrest phenotype of cdc21 rad1 and cdc21 cdc2.3w double mutants. Both strains entered mitosis at the restrictive temperature indicating that cdc21ts cells arrest in S phase and may contain DNA damage. I have generated two new mutant alleles of cdc21+. The first allele was made by deleting most of the cdc21+ open reading frame (ORF). The second allele was constructed by placing the cdc21+ ORF under control a regulatable promoter. The resulting construct was used to complement the cdc21 deletion. Both mutants were inviable under appropriate conditions arresting in S phase as elongated cells, although a proportion of them (15-20%) entered mitosis in the absence of nuclear division.
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Gonzalez, Michael Angelo. "Control of eukaryotic DNA replication and its potential clinical exploitation." Thesis, University of Cambridge, 2005. http://ethos.bl.uk/OrderDetails.do?uin=uk.bl.ethos.615039.

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Books on the topic "Eukaryotic replication"

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Concepts in eukaryotic DNA replication. Cold Spring Harbor, N.Y: Cold Spring Harbor Laboratory Press, 1999.

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Kaplan, Daniel L., ed. The Initiation of DNA Replication in Eukaryotes. Cham: Springer International Publishing, 2016. http://dx.doi.org/10.1007/978-3-319-24696-3.

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Julian, Blow J., ed. Eukaryotic DNA replication. Oxford: IRL Press, 1996.

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1941-, Kelly Thomas J., and Stillman Bruce, eds. Eukaryotic DNA replication. Cold Spring Harbor, N.Y: Cold Spring Harbor Laboratory, 1988.

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L, DePamphilis Melvin, ed. DNA replication in eukaryotic cells. [Plainview, New York]: Cold Spring Harbor Laboratory Press, 1996.

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Recondo, A. De. New Approaches in Eukaryotic Dna Replication. Springer, 2012.

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Eukaryotic DNA replication: A practical approach. Oxford: Oxford University Press, 1999.

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S, Cox Lynne, ed. Molecular themes in DNA replication. Cambridge, UK: RSC Publishing, 2009.

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A, Bryant J., and Francis D, eds. The eukaryotic cell cycle. New York: Taylor & Francis, 2008.

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The eukaryotic cell cycle. New York: Taylor & Francis, 2008.

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Book chapters on the topic "Eukaryotic replication"

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Thömmes, Pia, and Ulrich Hübscher. "Review Eukaryotic DNA Replication." In EJB Reviews 1990, 261–74. Berlin, Heidelberg: Springer Berlin Heidelberg, 1990. http://dx.doi.org/10.1007/978-3-642-76168-3_19.

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DePamphilis, M. L., W. C. Burhans, L. T. Vassilev, and Z. S. Guo. "Eukaryotic Origins of DNA Replication." In DNA Replication and the Cell Cycle, 93–112. Berlin, Heidelberg: Springer Berlin Heidelberg, 1993. http://dx.doi.org/10.1007/978-3-642-77040-1_8.

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Gambus, Agnieszka. "Termination of Eukaryotic Replication Forks." In Advances in Experimental Medicine and Biology, 163–87. Singapore: Springer Singapore, 2017. http://dx.doi.org/10.1007/978-981-10-6955-0_8.

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Dhingra, Nalini, and Daniel L. Kaplan. "Introduction to Eukaryotic DNA Replication Initiation." In The Initiation of DNA Replication in Eukaryotes, 1–21. Cham: Springer International Publishing, 2016. http://dx.doi.org/10.1007/978-3-319-24696-3_1.

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Taylor, J. H. "Replication of DNA in Eukaryotic Chromosomes." In Results and Problems in Cell Differentiation, 173–97. Berlin, Heidelberg: Springer Berlin Heidelberg, 1987. http://dx.doi.org/10.1007/978-3-540-47783-9_11.

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Kelly, Thomas. "Historical Perspective of Eukaryotic DNA Replication." In Advances in Experimental Medicine and Biology, 1–41. Singapore: Springer Singapore, 2017. http://dx.doi.org/10.1007/978-981-10-6955-0_1.

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Hayano, Motoshi, Seiji Matsumoto, and Hisao Masai. "DNA Replication Timing: Temporal and Spatial Regulation of Eukaryotic DNA Replication." In DNA Replication, Recombination, and Repair, 53–69. Tokyo: Springer Japan, 2016. http://dx.doi.org/10.1007/978-4-431-55873-6_3.

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Aves, Stephen J., Yuan Liu, and Thomas A. Richards. "Evolutionary Diversification of Eukaryotic DNA Replication Machinery." In Subcellular Biochemistry, 19–35. Dordrecht: Springer Netherlands, 2012. http://dx.doi.org/10.1007/978-94-007-4572-8_2.

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Pospiech, Helmut, Frank Grosse, and Francesca M. Pisani. "The Initiation Step of Eukaryotic DNA Replication." In Subcellular Biochemistry, 79–104. Dordrecht: Springer Netherlands, 2009. http://dx.doi.org/10.1007/978-90-481-3471-7_5.

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Klein, Kyle N., and David M. Gilbert. "Epigenetic vs. Sequence-Dependent Control of Eukaryotic Replication Timing." In The Initiation of DNA Replication in Eukaryotes, 39–63. Cham: Springer International Publishing, 2016. http://dx.doi.org/10.1007/978-3-319-24696-3_3.

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