-
1
-
-
84879721026
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
16
-
-
20044383583
-
Resurrecting ancestral alcohol dehydrogenases from yeast
-
DOI 10.1038/ng1553
-
Thomson JM, et al. (2005) Resurrecting ancestral alcohol dehydrogenases from yeast. Nat Genet 37(6):630-635. (Pubitemid 40770419)
-
(2005)
Nature Genetics
, vol.37
, Issue.6
, pp. 630-635
-
-
Thomson, J.M.1
Gaucher, E.A.2
Burgan, M.F.3
De Kee, D.W.4
Li, T.5
Aris, J.P.6
Benner, S.A.7
-
17
-
-
33645691679
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
32
-
-
0032437592
-
Semirational design of active tumor suppressor p53 DNA binding domain with enhanced stability
-
DOI 10.1073/pnas.95.25.14675
-
Nikolova PV, Henckel J, Lane DP, Fersht AR (1998) Semirational design of active tumor suppressor p53 DNA binding domain with enhanced stability. Proc Natl Acad Sci USA 95(25):14675-14680. (Pubitemid 29003689)
-
(1998)
Proceedings of the National Academy of Sciences of the United States of America
, vol.95
, Issue.25
, pp. 14675-14680
-
-
Nikolova, P.V.1
Henckel, J.2
Lane, D.P.3
Fersht, A.R.4
-
33
-
-
84862203724
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
-
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
-
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
-
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
-
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
-
45
-
-
0029894585
-
Thermal stability of hexameric and tetrameric nucleoside diphosphate kinases. Effect of subunit interaction
-
DOI 10.1074/jbc.271.30.17845
-
Giartosio A, et al. (1996) Thermal stability of hexameric and tetrameric nucleoside diphosphate kinases. Effect of subunit interaction. J Biol Chem 271(30):17845-17851. (Pubitemid 26250762)
-
(1996)
Journal of Biological Chemistry
, vol.271
, Issue.30
, pp. 17845-17851
-
-
Giartosio, A.1
Erent, M.2
Cervoni, L.3
Morera, S.4
Janin, J.5
Konrad, M.6
Lascu, L.7
|