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Volumn 50, Issue 4, 2000, Pages 366-380

Phylogenetic depth of the bacterial genera Aquifex and Thermotoga inferred from analysis of ribosomal protein, elongation factor, and RNA polymerase subunit sequences

Author keywords

Bacterial rooting; Elongation factors; Hyperthermophily; Mycoplasmatales; Ribosomal proteins; RNA polymerase; rpoBC operon; S10 operon; Streptomycin operon

Indexed keywords

ELONGATION FACTOR; RIBOSOME PROTEIN; RNA POLYMERASE;

EID: 0033948149     PISSN: 00222844     EISSN: None     Source Type: Journal    
DOI: 10.1007/s002399910040     Document Type: Article
Times cited : (70)

References (42)
  • 2
    • 0004253599 scopus 로고
    • MOLPHY: Programs for molecular phylogenetics, I: PROTML: Maximum-likelihood inference of protein phylogeny
    • Institute of Statistical Mathematics, Tokyo
    • Adachi J, Hasegawa M (1992) MOLPHY: Programs for molecular phylogenetics, I: PROTML: Maximum-likelihood inference of protein phylogeny. Computer Science Monographs, No. 27. Institute of Statistical Mathematics, Tokyo, Vol 1
    • (1992) Computer Science Monographs, No. 27 , vol.1
    • Adachi, J.1    Hasegawa, M.2
  • 3
    • 0029563262 scopus 로고
    • Structure based sequence alignment of elongation factors Tu and G with related GTPases involved in translation
    • Ævarsson A (1995) Structure based sequence alignment of elongation factors Tu and G with related GTPases involved in translation. J Mol Evol 41:1096-1104
    • (1995) J Mol Evol , vol.41 , pp. 1096-1104
    • Ævarsson, A.1
  • 6
    • 0029819318 scopus 로고    scopus 로고
    • The root of the universal tree and the origin of eucaryotes based on the elongation factor phylogeny
    • Baldauf SL, Palmer JD, Doolittle WF (1996) The root of the universal tree and the origin of eucaryotes based on the elongation factor phylogeny. Proc Natl Acad Sci USA 93:7749-7754
    • (1996) Proc Natl Acad Sci USA , vol.93 , pp. 7749-7754
    • Baldauf, S.L.1    Palmer, J.D.2    Doolittle, W.F.3
  • 7
    • 0029832927 scopus 로고    scopus 로고
    • Perspectives on archaeal diversity, thermophily and monophyly from environmental rRNA sequences
    • Barns SM, Delwiche CF, Palmer JD, Pace NR (1996) Perspectives on archaeal diversity, thermophily and monophyly from environmental rRNA sequences. Proc Natl Acad Sci USA 93:9188-9183
    • (1996) Proc Natl Acad Sci USA , vol.93 , pp. 9188-19183
    • Barns, S.M.1    Delwiche, C.F.2    Palmer, J.D.3    Pace, N.R.4
  • 8
    • 0029587036 scopus 로고
    • Arrangement and nucleotide sequence of the gene fus encoding elongation factor G (EF-G) from the hyperthermophilic bacterium Aquifex pyrophilus: Phylogenetic depth of hyperthermophilic bacteria inferred from analysis of EF-G/fus sequences
    • Bocchetta M, Ceccarelli E, Creti R, Sanangelantoni AM, Tiboni O, Cammarano P (1995) Arrangement and nucleotide sequence of the gene fus encoding elongation factor G (EF-G) from the hyperthermophilic bacterium Aquifex pyrophilus: Phylogenetic depth of hyperthermophilic bacteria inferred from analysis of EF-G/fus sequences. J Mol Evol 41:803-812
    • (1995) J Mol Evol , vol.41 , pp. 803-812
    • Bocchetta, M.1    Ceccarelli, E.2    Creti, R.3    Sanangelantoni, A.M.4    Tiboni, O.5    Cammarano, P.6
  • 9
    • 0028308478 scopus 로고
    • Evolutionary relationships of bacterial and archaeal glutamine synthetase genes
    • Brown JR, Masuchi FT, Robb F, Doolittle WF (1994) Evolutionary relationships of bacterial and archaeal glutamine synthetase genes. J Mol Evol 38:566-576
    • (1994) J Mol Evol , vol.38 , pp. 566-576
    • Brown, J.R.1    Masuchi, F.T.2    Robb, F.3    Doolittle, W.F.4
  • 10
    • 0031928773 scopus 로고    scopus 로고
    • New insights into the phylogeny of eukaryotes based on ciliate Hsp70 sequences
    • Budin K, Phylippe H (1998) New insights into the phylogeny of eukaryotes based on ciliate Hsp70 sequences. Mol Biol Evol 15:943-956
    • (1998) Mol Biol Evol , vol.15 , pp. 943-956
    • Budin, K.1    Phylippe, H.2
  • 12
    • 0032852966 scopus 로고    scopus 로고
    • The Archaea-monophily issue. A phylogeny of translational elongation factor G(2) sequences inferred from an optimized selection of alignment positions
    • Cammarano P, Creti R, Sanangelantoni AM, Palm P (1999) The Archaea-monophily issue. A phylogeny of translational elongation factor G(2) sequences inferred from an optimized selection of alignment positions. J Mol Evol 49:524-537
    • (1999) J Mol Evol , vol.49 , pp. 524-537
    • Cammarano, P.1    Creti, R.2    Sanangelantoni, A.M.3    Palm, P.4
  • 13
    • 0024297354 scopus 로고
    • Multiple sequence alignment with hierarchical clustering
    • Corpet F (1988) Multiple sequence alignment with hierarchical clustering. Nucleic Acids Res 16:10881-10890
    • (1988) Nucleic Acids Res , vol.16 , pp. 10881-10890
    • Corpet, F.1
  • 15
    • 0021760092 scopus 로고
    • A comprehensive set of sequence analysis program for the VAX
    • Deveraux J, Haeberli P, Smithies O (1984) A comprehensive set of sequence analysis program for the VAX. Nucleic Acids Res 12: 387-395
    • (1984) Nucleic Acids Res , vol.12 , pp. 387-395
    • Deveraux, J.1    Haeberli, P.2    Smithies, O.3
  • 16
    • 0001165539 scopus 로고
    • Cases in which parsimony or compatibility methods will be positively misleading
    • Felsenstein J (1978) Cases in which parsimony or compatibility methods will be positively misleading. Syst Zool 27:403-410
    • (1978) Syst Zool , vol.27 , pp. 403-410
    • Felsenstein, J.1
  • 18
    • 0033004743 scopus 로고    scopus 로고
    • Compositional bias may affect both DNA based and protein based phylogenetic reconstructions
    • Foster PG, Hickey DA (1999) Compositional bias may affect both DNA based and protein based phylogenetic reconstructions. J Mol Evol 48:284-290
    • (1999) J Mol Evol , vol.48 , pp. 284-290
    • Foster, P.G.1    Hickey, D.A.2
  • 19
    • 0033534584 scopus 로고    scopus 로고
    • A nonhyperthermophilic common ancestor to extant life forms
    • Galtier N, Tourasse N, Gouy M (1999) A nonhyperthermophilic common ancestor to extant life forms. Science 283:220-221
    • (1999) Science , vol.283 , pp. 220-221
    • Galtier, N.1    Tourasse, N.2    Gouy, M.3
  • 20
    • 0032956536 scopus 로고    scopus 로고
    • Discontinuous occurrence of the Hsp70(dnaK) gene among Archaea and sequence features of HSP70 suggest a novel outlook on phylogenies inferred from this protein
    • Gribaldo S, Lumia V, Creti R, Conway de Macario E, Sanangelantoni A, Cammarano P (1999) Discontinuous occurrence of the Hsp70(dnaK) gene among Archaea and sequence features of HSP70 suggest a novel outlook on phylogenies inferred from this protein. J Bacteriol 181:434-443
    • (1999) J Bacteriol , vol.181 , pp. 434-443
    • Gribaldo, S.1    Lumia, V.2    Creti, R.3    De Conway Macario, E.4    Sanangelantoni, A.5    Cammarano, P.6
  • 21
    • 0031794743 scopus 로고    scopus 로고
    • Protein phylogenies and signature sequences: A reappraisal of evolutionary relationships among Archaebacteria, Eubacteria and Eukaryotes
    • Gupta RS (1998) Protein phylogenies and signature sequences: A reappraisal of evolutionary relationships among Archaebacteria, Eubacteria and Eukaryotes: Microbiol Mol Biol Rev 62:1435-1491
    • (1998) Microbiol Mol Biol Rev , vol.62 , pp. 1435-1491
    • Gupta, R.S.1
  • 22
    • 0031022823 scopus 로고    scopus 로고
    • Sequencing of heat shock protein 70 (DnaK) homologs from Deinococcus proteolyticus and Thermomicrobium roseum and their integration in a protein-based phylogeny of prokaryotes
    • Gupta RS, Bustard K, Falah M, Singh D (1997) Sequencing of heat shock protein 70 (DnaK) homologs from Deinococcus proteolyticus and Thermomicrobium roseum and their integration in a protein-based phylogeny of prokaryotes. J Bacteriol 179:345-357
    • (1997) J Bacteriol , vol.179 , pp. 345-357
    • Gupta, R.S.1    Bustard, K.2    Falah, M.3    Singh, D.4
  • 23
    • 0029976676 scopus 로고    scopus 로고
    • Origin and early evolution of eucaryotes inferred from the aminoacid sequences of translation elongation factors 1α/Tu and 2/G
    • Hashimoto T, Hasegawa M (1996) Origin and early evolution of eucaryotes inferred from the aminoacid sequences of translation elongation factors 1α/Tu and 2/G. Adv Biophys 32:73-120
    • (1996) Adv Biophys , vol.32 , pp. 73-120
    • Hashimoto, T.1    Hasegawa, M.2
  • 24
    • 0032499785 scopus 로고    scopus 로고
    • Secondary absence of mitochondria in Giardia lamblia and Trichomonas vaginalis revealed by valyl-tRNA synthetase phylogeny
    • Hashimoto T, Sanchez LB, Shirakura T, Müller M, Hasegawa M (1998) Secondary absence of mitochondria in Giardia lamblia and Trichomonas vaginalis revealed by valyl-tRNA synthetase phylogeny. Proc Natl Acad Sci USA 95:6860-6865
    • (1998) Proc Natl Acad Sci USA , vol.95 , pp. 6860-6865
    • Hashimoto, T.1    Sanchez, L.B.2    Shirakura, T.3    Müller, M.4    Hasegawa, M.5
  • 25
    • 0024307824 scopus 로고
    • Evaluation of the maximum-likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in Hominoidea
    • Kishino H, Hasegawa M (1989) Evaluation of the maximum-likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in Hominoidea. J Mol Evol 29:170-179
    • (1989) J Mol Evol , vol.29 , pp. 170-179
    • Kishino, H.1    Hasegawa, M.2
  • 26
    • 0025181359 scopus 로고
    • Maximum-likelihood inference of protein phylogeny and the origin of chloroplasts
    • Kishino H, Myiata T, Hasegawa M (1990) Maximum-likelihood inference of protein phylogeny and the origin of chloroplasts. J Mol Evol 30:151-160
    • (1990) J Mol Evol , vol.30 , pp. 151-160
    • Kishino, H.1    Myiata, T.2    Hasegawa, M.3
  • 27
    • 0032955637 scopus 로고    scopus 로고
    • RNA polymerase of Aquifex pyrophilus: Implications for the evolution of the bacterial rpoBC operon and extremely thermophilic Bacteria
    • Klenk H-P, Meier T-D, Durovic P, Schwass V, Lottspeich F, Dennis P, Zillig W (1999) RNA Polymerase of Aquifex pyrophilus: Implications for the evolution of the bacterial rpoBC operon and extremely thermophilic Bacteria. J Mol Evol 48:528-541
    • (1999) J Mol Evol , vol.48 , pp. 528-541
    • Klenk, H.-P.1    Meier, T.-D.2    Durovic, P.3    Schwass, V.4    Lottspeich, F.5    Dennis, P.6    Zillig, W.7
  • 28
    • 0028203243 scopus 로고
    • Was the nucleus the first endosymbiont?
    • Lake JA, Rivera MC (1994) Was the nucleus the first endosymbiont? Proc Natl Acad Sci USA 91:1455-1459
    • (1994) Proc Natl Acad Sci USA , vol.91 , pp. 1455-1459
    • Lake, J.A.1    Rivera, M.C.2
  • 29
    • 0029905462 scopus 로고    scopus 로고
    • The origin and early evolution of life: Prebiotic chemistry, the pre-RNA world, and time
    • Lazcano A, Miller S (1996) The origin and early evolution of life: Prebiotic chemistry, the pre-RNA world, and time. Cell 85:793-798
    • (1996) Cell , vol.85 , pp. 793-798
    • Lazcano, A.1    Miller, S.2
  • 30
    • 0028891511 scopus 로고
    • Use of spectral analysis to test hypotheses on the origin of pinnipeds
    • Lento GM, Hickson FE, Chambers GK, Penny D (1995) Use of spectral analysis to test hypotheses on the origin of pinnipeds. Mol Biol Evol 12:28-52
    • (1995) Mol Biol Evol , vol.12 , pp. 28-52
    • Lento, G.M.1    Hickson, F.E.2    Chambers, G.K.3    Penny, D.4
  • 31
    • 0029935637 scopus 로고    scopus 로고
    • Evolution of chlorophyll and bacteriochlorophyll: The problem of invariant sites in sequence analysis
    • Lockhart PJ, Larkum AWD, Steel MA, Waddel PJ, Penny D (1996) Evolution of chlorophyll and bacteriochlorophyll: The problem of invariant sites in sequence analysis. Proc Natl Acad Sci USA 93: 1930-1934
    • (1996) Proc Natl Acad Sci USA , vol.93 , pp. 1930-1934
    • Lockhart, P.J.1    Larkum, A.W.D.2    Steel, M.A.3    Waddel, P.J.4    Penny, D.5
  • 32
    • 0025787885 scopus 로고
    • A dnaK homolog in the archaebacterium Methanosarcina mazei S-6
    • Macario AJL, Dugan CB, Conway de Macario E (1991) A dnaK homolog in the archaebacterium Methanosarcina mazei S-6. Gene 108:133-137
    • (1991) Gene , vol.108 , pp. 133-137
    • Macario, A.J.L.1    Dugan, C.B.2    De Conway Macario, E.3
  • 33
    • 0023989064 scopus 로고
    • Improved tools for biological sequence comparisons
    • Pearson WR, Lipman DJ (1988) Improved tools for biological sequence comparisons. Proc Natl Acad Sci USA 85:2444-2448
    • (1988) Proc Natl Acad Sci USA , vol.85 , pp. 2444-2448
    • Pearson, W.R.1    Lipman, D.J.2
  • 34
  • 35
    • 0027992761 scopus 로고
    • Phylogenetic depth of S10 and spc operons: Cloning and sequencing of a ribosomal protein gene cluster from the extremely thermophilic bacterium Thermotoga maritima
    • Sanangelantoni AM, Bocchetta M, Cammarano P, Tiboni O (1994) Phylogenetic depth of S10 and spc operons: Cloning and sequencing of a ribosomal protein gene cluster from the extremely thermophilic bacterium Thermotoga maritima. J Bacteriol 176:7703-7710
    • (1994) J Bacteriol , vol.176 , pp. 7703-7710
    • Sanangelantoni, A.M.1    Bocchetta, M.2    Cammarano, P.3    Tiboni, O.4
  • 36
    • 0029836454 scopus 로고    scopus 로고
    • Quartet puzzling: A quartet maximum-likelihood method for reconstructing tree topologies
    • Strimmer K, von Haeseler A (1996) Quartet puzzling: A quartet maximum-likelihood method for reconstructing tree topologies. Mol Biol Evol 13:964-969
    • (1996) Mol Biol Evol , vol.13 , pp. 964-969
    • Strimmer, K.1    Von Haeseler, A.2
  • 37
    • 0031002417 scopus 로고    scopus 로고
    • Likelihood mapping. A Simple Method to Visualize the Phylogenetic Content of a Sequence Alignment
    • Strimmer K, von Haeseler A (1997) Likelihood mapping. A simple method to visualize the phylogenetic content of a sequence alignment. Proc Natl Acad Sci USA 94:6815-6819
    • (1997) Proc Natl Acad Sci USA , vol.94 , pp. 6815-6819
    • Strimmer, K.1    Von Haeseler, A.2
  • 38
    • 0027968068 scopus 로고
    • CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight-matrix choice
    • Thompson JD, Higgins DG, Gibson TJ (1994) CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight-matrix choice. Nucleic Acids Res 22:4673-4680
    • (1994) Nucleic Acids Res , vol.22 , pp. 4673-4680
    • Thompson, J.D.1    Higgins, D.G.2    Gibson, T.J.3
  • 39
    • 0027263638 scopus 로고
    • Cloning and sequencing of the gene encoding glutamine synthetase 1 from the archaeum Pyrococcus woesei: Anomalous phylogenies inferred from analysis of archaeal and bacterial glutamine synthetase 1 sequences
    • Tiboni O, Cammarano P, Sanangelantoni AM (1993) Cloning and sequencing of the gene encoding glutamine synthetase 1 from the archaeum Pyrococcus woesei: Anomalous phylogenies inferred from analysis of archaeal and bacterial glutamine synthetase 1 sequences. J Bacteriol 175:2961-2969
    • (1993) J Bacteriol , vol.175 , pp. 2961-2969
    • Tiboni, O.1    Cammarano, P.2    Sanangelantoni, A.M.3
  • 41
    • 0023184331 scopus 로고
    • Bacterial evolution
    • Woese CR (1987) Bacterial evolution. Microbiol Rev 51:221-271
    • (1987) Microbiol Rev , vol.51 , pp. 221-271
    • Woese, C.R.1


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