Home LiteratureArticle Details
PMID: 19105819 Published · epublish English Journal Article Research Support, Non-U.S. Gov't

A DNA topoisomerase IB in Thaumarchaeota testifies for the presence of this enzyme in the last common ancestor of Archaea and Eucarya.

Biology direct ·Vol. 3 ·2008-12-23 ·Pages 54

Brochier-Armanet C, Gribaldo S, Forterre P

Abstract

DNA topoisomerase IB (TopoIB) was thought for a long time to be a eukaryotic specific enzyme. A shorter version was then found in viruses and later on in several bacteria, but not in archaea. Here, we show that a eukaryotic-like TopoIB is present in the recently sequenced genomes of two archaea of the newly proposed phylum Thaumarchaeota. Phylogenetic analyses suggest that a TopoIB was present in the last common ancestor of Archaea and Eucarya. This finding indicates that the last common ancestor of Archaea and Eucarya may have harboured a DNA genome.

MeSH Terms
Archaea/enzymology Bacteria/enzymology DNA Topoisomerases, Type I/chemistry,genetics Eukaryotic Cells/enzymology Likelihood Functions Phylogeny Protein Structure, Tertiary Sequence Alignment Viruses/enzymology
Chemicals
DNA Topoisomerases, Type I
Authors & Affiliations
3 authors, click to expand affiliations / ORCID
Brochier-Armanet Céline
Laboratoire de Chimie Bactérienne, Université de Provence, Aix-Marseille I, CNRS UPR9043, IFR88, Marseille, France. [email protected]
Gribaldo Simonetta
Forterre Patrick
References (30)
30 references, click to expand
  1. A poxvirus-like type IB topoisomerase family in bacteria.
    Proc Natl Acad Sci U S A. 2002 Feb 19;99(4):1853-8 PMID: 11830640
  2. An activity from mammalian cells that untwists superhelical DNA--a possible swivel for DNA replication (polyoma-ethidium bromide-mouse-embryo cells-dye binding assay).
    Proc Natl Acad Sci U S A. 1972 Jan;69(1):143-6 PMID: 4333036
  3. Three RNA cells for ribosomal lineages and three DNA viruses to replicate their genomes: a hypothesis for the origin of cellular domain.
    Proc Natl Acad Sci U S A. 2006 Mar 7;103(10):3669-74 PMID: 16505372
  4. DNA topoisomerase V: a new fold of mysterious origin.
    Trends Biotechnol. 2006 Jun;24(6):245-7 PMID: 16650908
  5. DNA topoisomerases: structure, function, and mechanism.
    Annu Rev Biochem. 2001;70:369-413 PMID: 11395412
  6. Isolation of an autotrophic ammonia-oxidizing marine archaeon.
    Nature. 2005 Sep 22;437(7058):543-6 PMID: 16177789
  7. Conservation of structure and mechanism between eukaryotic topoisomerase I and site-specific recombinases.
    Cell. 1998 Mar 20;92(6):841-50 PMID: 9529259
  8. Function of DNA topoisomerases as replication swivels in Saccharomyces cerevisiae.
    J Mol Biol. 1989 Jul 20;208(2):257-67 PMID: 2549254
  9. Topoisomerase function during replication-independent chromatin assembly in yeast.
    Mol Cell Biol. 1997 Jul;17(7):3520-6 PMID: 9199287
  10. DNA topoisomerases: harnessing and constraining energy to govern chromosome topology.
    Q Rev Biophys. 2008 Feb;41(1):41-101 PMID: 18755053
  11. Environmental genome shotgun sequencing of the Sargasso Sea.
    Science. 2004 Apr 2;304(5667):66-74 PMID: 15001713
  12. A DNA nicking-closing enzyme encapsidated in vaccinia virus: partial purification and properties.
    Proc Natl Acad Sci U S A. 1977 May;74(5):1841-5 PMID: 17115
  13. Genomic analysis of the uncultivated marine crenarchaeote Cenarchaeum symbiosum.
    Proc Natl Acad Sci U S A. 2006 Nov 28;103(48):18296-301 PMID: 17114289
  14. Cellular roles of DNA topoisomerases: a molecular perspective.
    Nat Rev Mol Cell Biol. 2002 Jun;3(6):430-40 PMID: 12042765
  15. Toprim--a conserved catalytic domain in type IA and II topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins.
    Nucleic Acids Res. 1998 Sep 15;26(18):4205-13 PMID: 9722641
  16. Structure, molecular mechanisms, and evolutionary relationships in DNA topoisomerases.
    Annu Rev Biophys Biomol Struct. 2004;33:95-118 PMID: 15139806
  17. Comparative analysis of ribosomal proteins in complete genomes: an example of reductive evolution at the domain scale.
    Nucleic Acids Res. 2002 Dec 15;30(24):5382-90 PMID: 12490706
  18. Mesophilic Crenarchaeota: proposal for a third archaeal phylum, the Thaumarchaeota.
    Nat Rev Microbiol. 2008 Mar;6(3):245-52 PMID: 18274537
  19. Catalytic mechanism of DNA topoisomerase IB.
    Mol Cell. 2000 Jun;5(6):1035-41 PMID: 10911997
  20. Phylogenomics of type II DNA topoisomerases.
    Bioessays. 2003 Mar;25(3):232-42 PMID: 12596227
  21. Need for DNA topoisomerase activity as a swivel for DNA replication for transcription of ribosomal RNA.
    Nature. 1987 Mar 26-Apr 1;326(6111):414-6 PMID: 2436053
  22. Characterization of mimivirus DNA topoisomerase IB suggests horizontal gene transfer between eukaryal viruses and bacteria.
    J Virol. 2006 Jan;80(1):314-21 PMID: 16352556
  23. Structure of the N-terminal fragment of topoisomerase V reveals a new family of topoisomerases.
    EMBO J. 2006 Jan 25;25(2):398-408 PMID: 16395333
  24. Vaccinia topoisomerase mutants illuminate roles for Phe59, Gly73, Gln69 and Phe215.
    Virology. 2007 Mar 15;359(2):466-76 PMID: 17059840
  25. Vaccinia virus DNA topoisomerase: a model eukaryotic type IB enzyme.
    Biochim Biophys Acta. 1998 Oct 1;1400(1-3):321-37 PMID: 9748643
  26. Origin and evolution of DNA topoisomerases.
    Biochimie. 2007 Apr;89(4):427-46 PMID: 17293019
  27. Early evolution of eukaryotic DNA-dependent RNA polymerases.
    Trends Genet. 2008 May;24(5):211-5 PMID: 18384908
  28. Unraveling the structure of the variola topoisomerase IB-DNA complex: a possible new twist on smallpox therapy.
    Mol Interv. 2006 Oct;6(5):245-8 PMID: 17035663
  29. Mechanism of action of camptothecin.
    Ann N Y Acad Sci. 2000;922:1-10 PMID: 11193884
  30. Clusters of orthologous genes for 41 archaeal genomes and implications for evolutionary genomics of archaea.
    Biol Direct. 2007 Nov 27;2:33 PMID: 18042280
Article Info
Journal
Biology direct
Abbr.
Biol Direct
ISSN
1745-6150
DOI
10.1186/1745-6150-3-54
Email
[email protected]
Published
2008-12-23
Epub
2008-00-23
Pages
54
Language
English
Region
England
NLM ID
101258412
PMCID
PMC2621148
Subset
IM
External Links
PubMed source DOI: 10.1186/1745-6150-3-54 PMC Full Text View journal details
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: [email protected]

Copyright © 2026.Genelibs Jinan Honghui Biotechnology Co., Ltd. 鲁ICP备20007159号-2