Thermococcus kodakarensis DNA replication

2013 ◽  
Vol 41 (1) ◽  
pp. 332-338 ◽  
Author(s):  
Zhuo Li ◽  
Lori M. Kelman ◽  
Zvi Kelman
Keyword(s):  
Dna Replication ◽  
Essential Role ◽  
Life Forms ◽  
Structural Studies ◽  
Replication Machinery ◽  
Genetic Studies ◽  
Thermococcus Kodakarensis ◽  
Archaeal Species ◽  
Recent Developments ◽  
Archaeal Dna Replication

DNA replication plays an essential role in all life forms. Research on archaeal DNA replication began approximately 20 years ago. Progress was hindered, however, by the lack of genetic tools to supplement the biochemical and structural studies. This has changed, however, and genetic approaches are now available for several archaeal species. One of these organisms is the thermophilic euryarchaeon Thermococcus kodakarensis. In the present paper, the recent developments in the biochemical, structural and genetic studies on the replication machinery of T. kodakarensis are summarized.

scholarly journals DNA Replication in the Archaea

2006 ◽  
Vol 70 (4) ◽  
pp. 876-887 ◽  
Author(s):  
Elizabeth R. Barry ◽  
Stephen D. Bell
Keyword(s):  
Dna Replication ◽  
Higher Order ◽  
Striking Similarity ◽  
Replication Proteins ◽  
Replication Machinery ◽  
Replication Factors ◽  
Archaeal Dna Replication ◽  
Made In

SUMMARY The archaeal DNA replication machinery bears striking similarity to that of eukaryotes and is clearly distinct from the bacterial apparatus. In recent years, considerable advances have been made in understanding the biochemistry of the archaeal replication proteins. Furthermore, a number of structures have now been obtained for individual components and higher-order assemblies of archaeal replication factors, yielding important insights into the mechanisms of DNA replication in both archaea and eukaryotes.

scholarly journals The archaeal DNA replication machinery: past, present and future

2013 ◽  
Vol 88 (6) ◽  
pp. 315-319 ◽  
Author(s):  
Sonoko Ishino ◽  
Lori M. Kelman ◽  
Zvi Kelman ◽  
Yoshizumi Ishino
Keyword(s):  
Dna Replication ◽  
Replication Machinery ◽  
Archaeal Dna Replication

scholarly journals Affinity Purification of an Archaeal DNA Replication Protein Network

mBio ◽  
2010 ◽  
Vol 1 (5) ◽  
Author(s):  
Zhuo Li ◽  
Thomas J. Santangelo ◽  
Ľubomíra Čuboňová ◽  
John N. Reeve ◽  
Zvi Kelman
Keyword(s):  
Dna Replication ◽  
Affinity Purification ◽  
Replication Machinery ◽  
Content Type ◽  
Replication System ◽  
Replication Research ◽  
Bacterial Replication ◽  
Eukaryotic Organisms ◽  
Archaeal Dna Replication

ABSTRACTNineteenThermococcus kodakarensisstrains have been constructed, each of which synthesizes a different His6-tagged protein known or predicted to be a component of the archaeal DNA replication machinery. Using the His6-tagged proteins, stable complexes assembledin vivohave been isolated directly from clarified cell lysates and theT. kodakarensisproteins present have been identified by mass spectrometry. Based on the results obtained, a network of interactions among the archaeal replication proteins has been established that confirms previously documented and predicted interactions, provides experimental evidence for previously unrecognized interactions between proteins with known functions and with unknown functions, and establishes a firm experimental foundation for archaeal replication research. The proteins identified and their participation in archaeal DNA replication are discussed and related to their bacterial and eukaryotic counterparts.IMPORTANCEDNA replication is a central and essential event in all cell cycles. Historically, the biological world was divided into prokaryotes and eukaryotes, based on the absence or presence of a nuclear membrane, and many components of the DNA replication machinery have been identified and characterized as conserved or nonconserved in prokaryotic versus eukaryotic organisms. However, it is now known that there are two evolutionarily distinct prokaryotic domains,BacteriaandArchaea, and to date, most prokaryotic replication research has investigated bacterial replication. Here, we have taken advantage of recently developed genetic techniques to isolate and identify many proteins likely to be components of the archaeal DNA replication machinery. The results confirm and extend predictions from genome sequencing that the archaeal replication system is less complex but more closely related to a eukaryotic than to a bacterial replication system.

scholarly journals DNA replication machinery: Insights from in vitro single-molecule approaches

2021 ◽  
Vol 19 ◽  
pp. 2057-2069
Author(s):  
Rebeca Bocanegra ◽  
G.A. Ismael Plaza ◽  
Carlos R. Pulido ◽  
Borja Ibarra
Keyword(s):  
Dna Replication ◽  
Single Molecule ◽  
Replication Machinery

scholarly journals The replication machinery of LUCA: common origin of DNA replication and transcription

BMC Biology ◽  
2020 ◽  
Vol 18 (1) ◽  
Author(s):  
Eugene V. Koonin ◽  
Mart Krupovic ◽  
Sonoko Ishino ◽  
Yoshizumi Ishino
Keyword(s):  
Dna Replication ◽  
Common Origin ◽  
Replication Machinery ◽  
Origin Of Dna Replication

scholarly journals The TREX2 3′→ 5′ Exonuclease Physically Interacts with DNA Polymerase δ and Increases Its Accuracy

2002 ◽  
Vol 2 ◽  
pp. 275-281 ◽  
Author(s):  
Igor V. Shevelev ◽  
Kristijan Ramadan ◽  
Ulrich Hubscher
Keyword(s):  
Dna Replication ◽  
Dna Polymerase ◽  
Error Rates ◽  
High Fidelity ◽  
Replication Machinery ◽  
Dna Polymerase Δ ◽  
Pol I ◽  
Calf Thymus ◽  
Mutation Assay ◽  
Forward Mutation

Proofreading function by the 3′→ 5′ exonuclease of DNA polymerase δ (pol δ) is consistent with the observation that deficiency of the associated exonuclease can lead to a strong mutation phenotype, high error rates during DNA replication, and ultimately cancer. We have isolated pol δdfrom isotonic (pol δi) and detergent (pol δd) calf thymus extracts. Pol δdhad a 20-fold higher ratio of exonuclease to DNA polymerase than pol δi. This was due to the physical association of the TREX2 exonuclease to pol δd, which was missing from pol δi. Pol δdwas fivefold more accurate than pol δiunder error-prone conditions (1 μM dGTP and 20 dATP, dCTP, and dTTP) in a M13mp2 DNA forward mutation assay, and fourfold more accurate in an M13mp2T90 reversion assay. Under error-free conditions (20 μM each of the four dNTPs), however, both polymerases showed equal fidelity. Our data suggested that autonomous 3′→ 5′ exonucleases, such as TREX2, through its association with pol I can guarantee high fidelity under difficult conditions in the cell (e.g., imbalance of dNTPs) and can add to the accuracy of the DNA replication machinery, thus preventing mutagenesis.

scholarly journals Essential Role of Chromatin Assembly Factor-1–mediated Rapid Nucleosome Assembly for DNA Replication and Cell Division in Vertebrate Cells

2007 ◽  
Vol 18 (1) ◽  
pp. 129-141 ◽  
Author(s):  
Yasunari Takami ◽  
Tatsuya Ono ◽  
Tatsuo Fukagawa ◽  
Kei-ichi Shibahara ◽  
Tatsuo Nakayama
Keyword(s):  
Dna Replication ◽  
Essential Role ◽  
Chromatin Assembly ◽  
Nuclear Antigen ◽  
Nucleosome Assembly ◽  
Chromatin Assembly Factor ◽  
Assembly Factor

Chromatin assembly factor-1 (CAF-1), a complex consisting of p150, p60, and p48 subunits, is highly conserved from yeast to humans and facilitates nucleosome assembly of newly replicated DNA in vitro. To investigate roles of CAF-1 in vertebrates, we generated two conditional DT40 mutants, respectively, devoid of CAF-1p150 and p60. Depletion of each of these CAF-1 subunits led to delayed S-phase progression concomitant with slow DNA synthesis, followed by accumulation in late S/G2 phase and aberrant mitosis associated with extra centrosomes, and then the final consequence was cell death. We demonstrated that CAF-1 is necessary for rapid nucleosome formation during DNA replication in vivo as well as in vitro. Loss of CAF-1 was not associated with the apparent induction of phosphorylations of S-checkpoint kinases Chk1 and Chk2. To elucidate the precise role of domain(s) in CAF-1p150, functional dissection analyses including rescue assays were preformed. Results showed that the binding abilities of CAF-1p150 with CAF-1p60 and DNA polymerase sliding clamp proliferating cell nuclear antigen (PCNA) but not with heterochromatin protein HP1-γ are required for cell viability. These observations highlighted the essential role of CAF-1–dependent nucleosome assembly in DNA replication and cell proliferation through its interaction with PCNA.

scholarly journals An essential role for Orc6 in DNA replication through maintenance of pre-replicative complexes

2006 ◽  
Vol 25 (21) ◽  
pp. 5150-5158 ◽  
Author(s):  
Jeffrey W Semple ◽  
Lance F Da-Silva ◽  
Eric J Jervis ◽  
Jennifer Ah-Kee ◽  
Hyder Al-Attar ◽  
...  
Keyword(s):  
Dna Replication ◽  
Essential Role

The Role of the Arctic Council from an International Law Perspective: Past, Present and Future

2014 ◽  
Vol 6 (1) ◽  
pp. 349-374 ◽  
Author(s):  
Yoshinobu Takei
Keyword(s):  
International Law ◽  
Essential Role ◽  
The Arctic ◽  
Arctic Council ◽  
Treaty Negotiations ◽  
Recent Developments ◽  
Law Making

Established in 1996, the Arctic Council has played an essential role in promoting pan- Arctic cooperation on various issues concerning the Arctic. Increasingly, its activities have contributed to the development of international law relating to the Arctic in terms of law-making and implementation. Recent developments make it pertinent to investigate the possibilities and challenges faced by the Arctic Council in developing legally binding instruments and otherwise contributing to the development of international law relating to the Arctic. How has the Council been engaged in activities that contribute to the development of international law? What factors have affected these activities? This article describes the structure of the Arctic Council and its status under international law; analyzes important developments relating to this issue in the period before the 2009 Ministerial Meeting held in Tromsø, Norway; examines the processes in which two legally binding instruments were negotiated and eventually adopted as well as elements common to these agreements; and discusses Arctic Council processes relevant to the development of international law other than treaty negotiations under its auspices.

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