메뉴 건너뛰기




Volumn 110, Issue 27, 2013, Pages 11067-11072

Experimental evidence for the thermophilicity of ancestral life

Author keywords

Ancient protein; Crystal structure; Last universal common ancestor; Molecular resurrection; Phylogenetic analysis

Indexed keywords

NUCLEOSIDE DIPHOSPHATE KINASE;

EID: 84879704517     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1308215110     Document Type: Article
Times cited : (145)

References (45)
  • 1
    • 84879721026 scopus 로고    scopus 로고
    • Thermophiles: The keys to molecular evolution and the origin of life?
    • eds Wiegel J, Adams Taylor & Francis, London
    • Yamagishi A, Kon T, Takahashi G, Oshima T (1998) Thermophiles: The keys to molecular evolution and the origin of life? eds Wiegel J, Adams MWW (Taylor & Francis, London), pp 287-295.
    • (1998) MWW , pp. 287-295
    • Yamagishi, A.1    Kon, T.2    Takahashi, G.3    Oshima, T.4
  • 2
    • 0023184331 scopus 로고
    • Bacterial evolution
    • Woese CR (1987) Bacterial evolution. Microbiol Rev 51(2):221-271.
    • (1987) Microbiol Rev , vol.51 , Issue.2 , pp. 221-271
    • Woese, C.R.1
  • 3
    • 0025901140 scopus 로고
    • Origin of life - Facing up to the physical setting
    • Pace NR (1991) Origin of life - facing up to the physical setting. Cell 65(4):531-533.
    • (1991) Cell , vol.65 , Issue.4 , pp. 531-533
    • Pace, N.R.1
  • 4
    • 33750040585 scopus 로고    scopus 로고
    • Hyperthermophiles in the history of life
    • discussion 1842-1843
    • Stetter KO (2006) Hyperthermophiles in the history of life. Philos Trans R Soc Lond B Biol Sci 361(1474):1837-1842, discussion 1842-1843.
    • (2006) Philos Trans R Soc Lond B Biol Sci , vol.361 , Issue.1474 , pp. 1837-1842
    • Stetter, K.O.1
  • 5
    • 0034615794 scopus 로고    scopus 로고
    • The universal ancestor lived in a thermophilic or hyperthermophilic environment
    • Di Giulio M (2000) The universal ancestor lived in a thermophilic or hyperthermophilic environment. J Theor Biol 203(3):203-213.
    • (2000) J Theor Biol , vol.203 , Issue.3 , pp. 203-213
    • Di Giulio, M.1
  • 6
    • 0037424668 scopus 로고    scopus 로고
    • The universal ancestor was a thermophile or a hyperthermophile: Tests and further evidence
    • Di Giulio M (2003) The universal ancestor was a thermophile or a hyperthermophile: Tests and further evidence. J Theor Biol 221(3):425-436.
    • (2003) J Theor Biol , vol.221 , Issue.3 , pp. 425-436
    • Di Giulio, M.1
  • 7
    • 5044244494 scopus 로고    scopus 로고
    • A novel method for estimating ancestral amino acid composition and its application to proteins of the Last Universal Ancestor
    • DOI 10.1093/bioinformatics/bth235
    • Brooks DJ, Fresco JR, Singh M (2004) A novel method for estimating ancestral amino acid composition and its application to proteins of the Last Universal Ancestor. Bioinformatics 20(14):2251-2257. (Pubitemid 39341614)
    • (2004) Bioinformatics , vol.20 , Issue.14 , pp. 2251-2257
    • Brooks, D.J.1    Fresco, J.R.2    Singh, M.3
  • 8
    • 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(5399):220-221.
    • (1999) Science , vol.283 , Issue.5399 , pp. 220-221
    • Galtier, N.1    Tourasse, N.2    Gouy, M.3
  • 9
    • 35248875651 scopus 로고    scopus 로고
    • Protein disulfide oxidoreductases and the evolution of thermophily: Was the last common ancestor a heat-loving microbe?
    • DOI 10.1007/s00239-007-9005-0
    • Becerra A, Delaye L, Lazcano A, Orgel LE (2007) Protein disulfide oxidoreductases and the evolution of thermophily: Was the last common ancestor a heat-loving microbe? J Mol Evol 65(3):296-303. (Pubitemid 47561684)
    • (2007) Journal of Molecular Evolution , vol.65 , Issue.3 , pp. 296-303
    • Becerra, A.1    Delaye, L.2    Lazcano, A.3    Orgel, L.E.4
  • 10
    • 57749185463 scopus 로고    scopus 로고
    • Parallel adaptations to high temperatures in the Archaean eon
    • Boussau B, Blanquart S, Necsulea A, Lartillot N, Gouy M (2008) Parallel adaptations to high temperatures in the Archaean eon. Nature 456(7224):942-945.
    • (2008) Nature , vol.456 , Issue.7224 , pp. 942-945
    • Boussau, B.1    Blanquart, S.2    Necsulea, A.3    Lartillot, N.4    Gouy, M.5
  • 11
    • 0031033277 scopus 로고    scopus 로고
    • Episodic adaptive evolution of primate lysozymes
    • DOI 10.1038/385151a0
    • Messier W, Stewart CB (1997) Episodic adaptive evolution of primate lysozymes. Nature 385(6612):151-154. (Pubitemid 27034214)
    • (1997) Nature , vol.385 , Issue.6612 , pp. 151-154
    • Messier, W.1    Stewart, C.-B.2
  • 12
    • 1942531303 scopus 로고    scopus 로고
    • Resurrecting ancient genes: Experimental analysis of extinct molecules
    • Thornton JW (2004) Resurrecting ancient genes: Experimental analysis of extinct molecules. Nat Rev Genet 5(5):366-375.
    • (2004) Nat Rev Genet , vol.5 , Issue.5 , pp. 366-375
    • Thornton, J.W.1
  • 13
    • 77952303485 scopus 로고    scopus 로고
    • Computational and experimental evidence for the evolution of a (β α)8-barrel protein from an ancestral quarter-barrel stabilised by disulfide bonds
    • Richter M, et al. (2010) Computational and experimental evidence for the evolution of a (β α)8-barrel protein from an ancestral quarter-barrel stabilised by disulfide bonds. J Mol Biol 398(5):763-773.
    • (2010) J Mol Biol , vol.398 , Issue.5 , pp. 763-773
    • Richter, M.1
  • 14
    • 79955640296 scopus 로고    scopus 로고
    • Single-molecule paleoenzymology probes the chemistry of resurrected enzymes
    • Perez-Jimenez R, et al. (2011) Single-molecule paleoenzymology probes the chemistry of resurrected enzymes. Nat Struct Mol Biol 18(5):592-596.
    • (2011) Nat Struct Mol Biol , vol.18 , Issue.5 , pp. 592-596
    • Perez-Jimenez, R.1
  • 15
    • 0141828152 scopus 로고    scopus 로고
    • Inferring the palaeoenvironment of ancient bacteria on the basis of resurrected proteins
    • DOI 10.1038/nature01977
    • Gaucher EA, Thomson JM, Burgan MF, Benner SA (2003) Inferring the palaeoenvironment of ancient bacteria on the basis of resurrected proteins. Nature 425(6955):285-288. (Pubitemid 37158402)
    • (2003) Nature , vol.425 , Issue.6955 , pp. 285-288
    • Gaucher, E.A.1    Thomson, J.M.2    Burgan, M.F.3    Benner, S.A.4
  • 17
    • 33645691679 scopus 로고    scopus 로고
    • Evolution of hormone-receptor complexity by molecular exploitation
    • Bridgham JT, Carroll SM, Thornton JW (2006) Evolution of hormone-receptor complexity by molecular exploitation. Science 312(5770):97-101.
    • (2006) Science , vol.312 , Issue.5770 , pp. 97-101
    • Bridgham, J.T.1    Carroll, S.M.2    Thornton, J.W.3
  • 18
    • 34548040966 scopus 로고    scopus 로고
    • Crystal structure of an ancient protein: Evolution by conformational epistasis
    • DOI 10.1126/science.1142819
    • Ortlund EA, Bridgham JT, Redinbo MR, Thornton JW (2007) Crystal structure of an ancient protein: Evolution by conformational epistasis. Science 317(5844):1544-1548. (Pubitemid 47417432)
    • (2007) Science , vol.317 , Issue.5844 , pp. 1544-1548
    • Ortlund, E.A.1    Bridgham, J.T.2    Redinbo, M.R.3    Thornton, J.W.4
  • 19
    • 38949093003 scopus 로고    scopus 로고
    • Palaeotemperature trend for Precambrian life inferred from resurrected proteins
    • DOI 10.1038/nature06510, PII NATURE06510
    • Gaucher EA, Govindarajan S, Ganesh OK (2008) Palaeotemperature trend for Precambrian life inferred from resurrected proteins. Nature 451(7179):704-707. (Pubitemid 351220563)
    • (2008) Nature , vol.451 , Issue.7179 , pp. 704-707
    • Gaucher, E.A.1    Govindarajan, S.2    Ganesh, O.K.3
  • 20
    • 70349464621 scopus 로고    scopus 로고
    • An epistatic ratchet constrains the direction of glucocorticoid receptor evolution
    • Bridgham JT, Ortlund EA, Thornton JW (2009) An epistatic ratchet constrains the direction of glucocorticoid receptor evolution. Nature 461(7263):515-519.
    • (2009) Nature , vol.461 , Issue.7263 , pp. 515-519
    • Bridgham, J.T.1    Ortlund, E.A.2    Thornton, J.W.3
  • 22
    • 84856022796 scopus 로고    scopus 로고
    • Evolution of increased complexity in a molecular machine
    • Finnigan GC, Hanson-Smith V, Stevens TH, Thornton JW (2012) Evolution of increased complexity in a molecular machine. Nature 481(7381):360-364.
    • (2012) Nature , vol.481 , Issue.7381 , pp. 360-364
    • Finnigan, G.C.1    Hanson-Smith, V.2    Stevens, T.H.3    Thornton, J.W.4
  • 23
    • 84856210672 scopus 로고    scopus 로고
    • What genomes have to say about the evolution of the Earth
    • Boussau B, Gouy M (2012) What genomes have to say about the evolution of the Earth. Gondwana Res 21(2-3):483-494.
    • (2012) Gondwana Res , vol.21 , Issue.2-3 , pp. 483-494
    • Boussau, B.1    Gouy, M.2
  • 25
    • 0028820333 scopus 로고
    • A new method of inference of ancestral nucleotide and amino acid sequences
    • Yang Z, Kumar S, Nei M (1995) A new method of inference of ancestral nucleotide and amino acid sequences. Genetics 141(4):1641-1650.
    • (1995) Genetics , vol.141 , Issue.4 , pp. 1641-1650
    • Yang, Z.1    Kumar, S.2    Nei, M.3
  • 26
    • 0030749810 scopus 로고    scopus 로고
    • Bayesian phylogenetic inference using DNA sequences: A Markov Chain Monte Carlo method
    • Yang Z, Rannala B (1997) Bayesian phylogenetic inference using DNA sequences: A Markov Chain Monte Carlo Method. Mol Biol Evol 14(7):717-724. (Pubitemid 27287292)
    • (1997) Molecular Biology and Evolution , vol.14 , Issue.7 , pp. 717-724
    • Yang, Z.1    Rannala, B.2
  • 27
    • 0030683599 scopus 로고    scopus 로고
    • PAML: A program package for phylogenetic analysis by maximum likelihood
    • Yang Z (1997) PAML: A program package for phylogenetic analysis by maximum likelihood. Comput Appl Biosci 13(5):555-556.
    • (1997) Comput Appl Biosci , vol.13 , Issue.5 , pp. 555-556
    • Yang, Z.1
  • 28
    • 47249122561 scopus 로고    scopus 로고
    • A site-and time-heterogeneous model of amino acid replacement
    • Blanquart S, Lartillot N (2008) A site-and time-heterogeneous model of amino acid replacement. Mol Biol Evol 25(5):842-858.
    • (2008) Mol Biol Evol , vol.25 , Issue.5 , pp. 842-858
    • Blanquart, S.1    Lartillot, N.2
  • 30
    • 77955975654 scopus 로고    scopus 로고
    • Robustness of ancestral sequence reconstruction to phylogenetic uncertainty
    • Hanson-Smith V, Kolaczkowski B, Thornton JW (2010) Robustness of ancestral sequence reconstruction to phylogenetic uncertainty. Mol Biol Evol 27(9):1988-1999.
    • (2010) Mol Biol Evol , vol.27 , Issue.9 , pp. 1988-1999
    • Hanson-Smith, V.1    Kolaczkowski, B.2    Thornton, J.W.3
  • 31
    • 4043142209 scopus 로고    scopus 로고
    • Consensus-based engineering of protein stability: From intrabodies to thermostable enzymes
    • Steipe B (2004) Consensus-based engineering of protein stability: From intrabodies to thermostable enzymes. Methods Enzymol 388:176-186.
    • (2004) Methods Enzymol , vol.388 , pp. 176-186
    • Steipe, B.1
  • 33
    • 84862203724 scopus 로고    scopus 로고
    • Stabilizing proteins from sequence statistics: The interplay of conservation and correlation in triosephosphate isomerase stability
    • Sullivan BJ, et al. (2012) Stabilizing proteins from sequence statistics: The interplay of conservation and correlation in triosephosphate isomerase stability. J Mol Biol 420(4-5):384-399.
    • (2012) J Mol Biol , vol.420 , Issue.4-5 , pp. 384-399
    • Sullivan, B.J.1
  • 34
    • 0032715527 scopus 로고    scopus 로고
    • Important amino acid properties for enhanced thermostability from mesophilic to thermophilic proteins
    • DOI 10.1016/S0301-4622(99)00103-9, PII S0301462299001039
    • Gromiha MM, Oobatake M, Sarai A (1999) Important amino acid properties for enhanced thermostability from mesophilic to thermophilic proteins. Biophys Chem 82(1):51-67. (Pubitemid 29512387)
    • (1999) Biophysical Chemistry , vol.82 , Issue.1 , pp. 51-67
    • Gromiha, M.M.1    Oobatake, M.2    Sarai, A.3
  • 36
    • 65549084298 scopus 로고    scopus 로고
    • Potential role of phenotypic mutations in the evolution of protein expression and stability
    • Goldsmith M, Tawfik DS (2009) Potential role of phenotypic mutations in the evolution of protein expression and stability. Proc Natl Acad Sci USA 106(15):6197-6202.
    • (2009) Proc Natl Acad Sci USA , vol.106 , Issue.15 , pp. 6197-6202
    • Goldsmith, M.1    Tawfik, D.S.2
  • 37
    • 80052024237 scopus 로고    scopus 로고
    • Phylogeny-based design of a B-subunit of DNA gyrase and its ATPase domain using a small set of homologous amino acid sequences
    • Akanuma S, et al. (2011) Phylogeny-based design of a B-subunit of DNA gyrase and its ATPase domain using a small set of homologous amino acid sequences. J Mol Biol 412(2):212-225.
    • (2011) J Mol Biol , vol.412 , Issue.2 , pp. 212-225
    • Akanuma, S.1
  • 38
    • 0031574072 scopus 로고    scopus 로고
    • The CLUSTAL X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools
    • DOI 10.1093/nar/25.24.4876
    • 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(24):4876-4882. (Pubitemid 28022245)
    • (1997) Nucleic Acids Research , vol.25 , Issue.24 , pp. 4876-4882
    • Thompson, J.D.1    Gibson, T.J.2    Plewniak, F.3    Jeanmougin, F.4    Higgins, D.G.5
  • 39
    • 0034043778 scopus 로고    scopus 로고
    • Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis
    • Castresana J (2000) Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Mol Biol Evol 17(4):540-552.
    • (2000) Mol Biol Evol , vol.17 , Issue.4 , pp. 540-552
    • Castresana, J.1
  • 40
    • 13444259388 scopus 로고    scopus 로고
    • TREEFINDER: A powerful graphical analysis environment for molecular phylogenetics
    • Jobb G, von Haeseler A, Strimmer K (2004) TREEFINDER: A powerful graphical analysis environment for molecular phylogenetics. BMC Evol Biol 4:18.
    • (2004) BMC Evol Biol , vol.4 , pp. 18
    • Jobb, G.1    Von Haeseler, A.2    Strimmer, K.3
  • 41
    • 0004253597 scopus 로고    scopus 로고
    • Tokyo Institute of Statistical Mathematics, Tokyo
    • Adachi J, Hasegawa M (1996) MOLPHY (Tokyo Institute of Statistical Mathematics, Tokyo).
    • (1996) MOLPHY
    • Adachi, J.1    Hasegawa, M.2
  • 42
    • 13244278007 scopus 로고    scopus 로고
    • GASP: Gapped Ancestral Sequence Prediction for proteins
    • Edwards RJ, Shields DC (2004) GASP: Gapped Ancestral Sequence Prediction for proteins. BMC Bioinformatics 5:123.
    • (2004) BMC Bioinformatics , vol.5 , pp. 123
    • Edwards, R.J.1    Shields, D.C.2
  • 43
    • 0028871804 scopus 로고
    • How to measure and predict the molar absorption coefficient of a protein
    • Pace CN, Vajdos F, Fee L, Grimsley G, Gray T (1995) How to measure and predict the molar absorption coefficient of a protein. Protein Sci 4(11):2411-2423.
    • (1995) Protein Sci , vol.4 , Issue.11 , pp. 2411-2423
    • Pace, C.N.1    Vajdos, F.2    Fee, L.3    Grimsley, G.4    Gray, T.5
  • 44
    • 0024448151 scopus 로고
    • Calculation of protein extinction coefficients from amino acid sequence data
    • Gill SC, von Hippel PH (1989) Calculation of protein extinction coefficients from amino acid sequence data. Anal Biochem 182(2):319-326. (Pubitemid 19277112)
    • (1989) Analytical Biochemistry , vol.182 , Issue.2 , pp. 319-326
    • Gill, S.C.1    Von Hippel, P.H.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.