Structural analysis of the plasmid pTA1 isolated from the thermoacidophilic archaeon Thermoplasma acidophilum

Extremophiles

Volumn 10, Issue 4, 2006, Pages 327-335

  Yamashiro, Kan ^a   Yokobori, Shin Ichi ^a   Oshima, Tairo ^a   Yamagishi, Akihiko ^a  

^a TOKYO UNIVERSITY OF PHARMACY AND LIFE SCIENCES   (Japan)

Author keywords

Archaea; Cdc6; Cell division protein 6; Phylogenetic tree; Plasmid; pTA1; Thermoplasma acidophilum

Indexed keywords

ARCHAEAL PROTEIN;

AMINO ACID SEQUENCE; ARTICLE; CHEMISTRY; GENE EXPRESSION REGULATION; GENETICS; METABOLISM; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYLOGENY; PLASMID; THERMOPLASMA;

AMINO ACID SEQUENCE; ARCHAEAL PROTEINS; BASE SEQUENCE; GENE EXPRESSION REGULATION, ARCHAEAL; MOLECULAR SEQUENCE DATA; PHYLOGENY; PLASMIDS; THERMOPLASMA;

ARCHAEA; EUKARYOTA; THERMOPLASMA; THERMOPLASMA ACIDOPHILUM; THERMOPLASMA VOLCANIUM;

EID: 33748306186     PISSN: 14310651     EISSN: 14334909     Source Type: Journal    
DOI: 10.1007/s00792-005-0502-z     Document Type: Article

References (25)

1. Brown JR, Doolittle WF (1997) Archaea and the prokaryote-to-eukaryote transition. Microbiol Mol Biol Rev 61:456-502
2. Brown JW, Daniels CJ, Reeve JN (1989) Gene structure, organization, and expression in archaebacteria. Crit Rev Microbiol 16:287-338
3. Capaldi SA, Berger JM (2004) Biochemical characterization of Cdc6/Orc1 binding to the replication origin of the euryarchaeon Methanothermobacter thermoautotrophicus. Nucleic Acids Res 32:4821-4832
4. Darland G, Brock TD, Samsonoff W, Conti SF (1970) A thermophilic, acidophilic mycoplasma isolated from a coal refuse pile. Science 170:1416-1418
5. Erauso G, Marsin S, Benbouzid-Rollet N, Baucher MF, Barbeyron T, Zivanovic Y, Prieur D, Forterre P (1996) Sequence of plasmid pGT5 from the archaeon Pyrococcus abyssi: evidence for rolling-circle replication in a hyperthermophile. J Bacteriol 178:3232-3237
6. Felsenstein J (1989) PHYLIP-Phylogeny Inference Package (Version 3.2). Cladistics 5:164-166
7. Giraldo R (2003) Common domains in the initiators of DNA replication in Bacteria, Archaea and Eukarya: combined structural, functional and phylogenetic perspectives. FEMS Microbiol Rev 26:533-554
8. Jones DT, Taylor WR, Thornton JM (1992) The rapid generation of mutation data matrices from protein sequences. Comput Appl Biosci 8:275-282
9. Kues U, Stahl U (1989) Replication of plasmids in gram-negative bacteria. Microbiol Rev 53:491-516
10. Liu J, Smith CL, DeRyckere D, DeAngelis K, Martin GS, Berger JM (2000) Structure and function of Cdc6/Cdc18: implications for origin recognition and checkpoint control. Mol Cell 6:637-648
11. Lopez P, Philippe H, Myllykallio H, Forterre P (1999) Identification of putative chromosomal origins of replication in Archaea. Mol Microbiol 32:883-886
12. Matsunaga F, Norais C, Forterre P, Myllykallio H (2003) Identification of short 'eukaryotic' Okazaki fragments synthesized from a prokaryotic replication origin. EMBO Rep 4:154-158
13. Mojica FJ, Ferrer C, Juez G, Rodriguez-Valera F (1995) Long stretches of short tandem repeats are present in the largest replicons of the Archaea Haloferax mediterranei and Haloferax volcanii and could be involved in replicon partitioning. Mol Microbiol 17:85-93
14. Ng WL, DasSarma S (1993) Minimal replication origin of the 200-kilobase Halobacterium plasmid pNRC100. J Bacteriol 175:4584-4596
15. Ree HK, Cao KM, Thurlow DL, Zimmermann RA (1989) The structure and organization of the 16S ribosomal RNA gene from the archaebacterium Thermoplasma acidophilum. Can J Microbiol 35:124-133
16. Reiter WD, Palm P, Zillig W (1988) Analysis of transcription in the archaebacterium Sulfolobus indicates that archaebacterial promoters are homologous to eukaryotic pol II promoters. Nucleic Acids Res 16:1-19
17. Robinson NP, Dionne I, Lundgren M, Marsh VL, Bernander R, Bell SD (2004) Identification of two origins of replication in the single chromosome of the archaeon Sulfolobus solfataricus. Cell 116:25-38
18. Ruepp A, Graml W, Santos-Martinez ML, Koretke KK, Volker C, Mewes HW, Frishman D, Stocker S, Lupas AN, Baumeister W (2000) The genome sequence of the thermoacidophilic scavenger Thermoplasma acidophilum. Nature 407:508-513
19. Sambrook J, Fritsch EF, Messing J (1989) Molecular cloning: a laboratory manual. Cold Spring Harbor Laboratory, Cold Spring Harbor
20. Schmidt HA, Strimmer K, Vingron M, von Haeseler A (2002) TREE-PUZZLE: maximum likelihood phylogenetic analysis using quartets and parallel computing. Bioinformatics 18:502-504
21. Searcy DG, Stein DB, Searcy KB (1981) A mycoplasma-like archaebacterium possibly related to the nucleus and cytoplasms of eukaryotic cells. Ann N Y Acad Sci 361:312-324
22. Singleton MR, Morales R, Grainge I, Cook N, Isupov MN, Wigley DB (2004) Conformational changes induced by nucleotide binding in Cdc6/ORC from Aeropyrum pernix. J Mol Biol 343:547-557
23. Thompson JD, Gibson TJ, Plewniak F, Jeanmougin F, Higgins DG (1997) The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25:4876-4882
24. Woese CR, Kandler O, Wheelis ML (1990) Towards a natural system of organisms: proposal for the domains Archaea, Bacteria, and Eucarya. Proc Natl Acad Sci USA 87:4576-4579
25. Yasuda M, Yamagishi A, Oshima T (1995) The plasmids found in isolates of the acidothermophilic archaebacterium Thermoplasma acidophilum. FEMS Microbiol Lett 128:157-162