-
1
-
-
0036899934
-
Extremely low levels of genetic polymorphism in endosymbionts (Buchnera) of aphids (Pemphigus)
-
Abbot, P. and Moran, N.A. 2002. Extremely low levels of genetic polymorphism in endosymbionts (Buchnera) of aphids (Pemphigus). Mol. Ecol. 11: 2649-2660.
-
(2002)
Mol. Ecol.
, vol.11
, pp. 2649-2660
-
-
Abbot, P.1
Moran, N.A.2
-
2
-
-
0037133671
-
Metabolic efficiency and amino acid composition in the proteomes of Escherichia coli and Bacillus subtilis
-
Akashi, H. and Gojobori, T. 2002. Metabolic efficiency and amino acid composition in the proteomes of Escherichia coli and Bacillus subtilis. Proc. Natl. Acad. Sci. 99: 3695-3700.
-
(2002)
Proc. Natl. Acad. Sci.
, vol.99
, pp. 3695-3700
-
-
Akashi, H.1
Gojobori, T.2
-
3
-
-
0029786075
-
Dynamics of plant mitochondrial genome: Model of a three-level selection process
-
Albert, B., Godelle, B., Atlan, A., De Paepe, R., and Gouyon, P.-H. 1996. Dynamics of plant mitochondrial genome: Model of a three-level selection process. Genetics 144: 369-382.
-
(1996)
Genetics
, vol.144
, pp. 369-382
-
-
Albert, B.1
Godelle, B.2
Atlan, A.3
De Paepe, R.4
Gouyon, P.-H.5
-
4
-
-
0032512051
-
The genome sequence of Rickettsia prowazekii and the origin of mitochondria
-
Andersson, S.G.E., Zomorodipour, A., Andersson, J.O., Sicheritz-Pontén, T., Alsmark, U.C., Podowski, R.M., Näslund, A.K., Eriksson, A.-S., Winkler, H.H., and Kurland, C.G. 1998. The genome sequence of Rickettsia prowazekii and the origin of mitochondria. Nature 396: 133-143.
-
(1998)
Nature
, vol.396
, pp. 133-143
-
-
Andersson, S.G.E.1
Zomorodipour, A.2
Andersson, J.O.3
Sicheritz-Pontén, T.4
Alsmark, U.C.5
Podowski, R.M.6
Näslund, A.K.7
Eriksson, A.-S.8
Winkler, H.H.9
Kurland, C.G.10
-
5
-
-
0027931274
-
Growth kinetics of the endosymbiont Buchnera aphidicola in the aphid Schizaphis graminum
-
Baumann, L. and Baumann, P. 1994. Growth kinetics of the endosymbiont Buchnera aphidicola in the aphid Schizaphis graminum. Appl. Environ. Microbial. 60: 3440-3443.
-
(1994)
Appl. Environ. Microbial.
, vol.60
, pp. 3440-3443
-
-
Baumann, L.1
Baumann, P.2
-
6
-
-
15444350252
-
The complete genome sequence of Escherichia coli K-12
-
Blattner, F.R., Plunkett III, G., Bloch, C.A., Perna, N.T., Burland, V., Riley, M., Collado-Vides, J., Glasner, J., Rode, C.K., Mayhew, G.F., et al. 1997. The complete genome sequence of Escherichia coli K-12. Science 277: 1453-1462.
-
(1997)
Science
, vol.277
, pp. 1453-1462
-
-
Blattner, F.R.1
Plunkett III, G.2
Bloch, C.A.3
Perna, N.T.4
Burland, V.5
Riley, M.6
Collado-Vides, J.7
Glasner, J.8
Rode, C.K.9
Mayhew, G.F.10
-
7
-
-
0025941139
-
The selection-mutation-drift theory of synonymous codon usage
-
Bulmer, M. 1991. The selection-mutation-drift theory of synonymous codon usage. Genetics 129: 897-907.
-
(1991)
Genetics
, vol.129
, pp. 897-907
-
-
Bulmer, M.1
-
8
-
-
0344653653
-
Codon usage and gene function are related in sequences of Arabidopsis thaliana
-
Chiapello, H., Lisacek, F., Caboche, M., and Henaut, A. 1998. Codon usage and gene function are related in sequences of Arabidopsis thaliana. Gene 209: GC1-GC38.
-
(1998)
Gene
, vol.209
-
-
Chiapello, H.1
Lisacek, F.2
Caboche, M.3
Henaut, A.4
-
9
-
-
0032731436
-
Sequence evolution in bacterial endosymbionts having extreme base compositions
-
Clark M.A., Moran, N.A., and Baumann, P. 1999. Sequence evolution in bacterial endosymbionts having extreme base compositions. Mol. Biol. Evol. 16: 1586-1598.
-
(1999)
Mol. Biol. Evol.
, vol.16
, pp. 1586-1598
-
-
Clark, M.A.1
Moran, N.A.2
Baumann, P.3
-
10
-
-
0034104890
-
Cospeciation between bacterial endosymbionts (Buchnera) and a recent radiation of aphids (Uroleucon) and pitfalls of testing for phylogenetic congruence
-
Clark M.A., Moran, N.A., Baumann, P., and Wernegreen, J.J. 2000. Cospeciation between bacterial endosymbionts (Buchnera) and a recent radiation of aphids (Uroleucon) and pitfalls of testing for phylogenetic congruence. Evolution 54: 517-525.
-
(2000)
Evolution
, vol.54
, pp. 517-525
-
-
Clark, M.A.1
Moran, N.A.2
Baumann, P.3
Wernegreen, J.J.4
-
11
-
-
0033921447
-
Gene expression, amino acid conservation, and hydrophobicity are the main factors shaping codon preferences in Mycobaterium tuberculosis and Mycobaterium leprae
-
de Miranda, A.B., Alvarez-Valin, F., Jabbari, K., Degrave, W.M., and Bernardi, G. 2000. Gene expression, amino acid conservation, and hydrophobicity are the main factors shaping codon preferences in Mycobaterium tuberculosis and Mycobaterium leprae. J. Mol. Evol. 50: 45-55.
-
(2000)
J. Mol. Evol.
, vol.50
, pp. 45-55
-
-
de Miranda, A.B.1
Alvarez-Valin, F.2
Jabbari, K.3
Degrave, W.M.4
Bernardi, G.5
-
12
-
-
0035150079
-
Synonymous codon usage in bacteria
-
Ermolaeva, M.D. 2001. Synonymous codon usage in bacteria. Curr. Issues Mol. Biol. 3: 91-97.
-
(2001)
Curr. Issues Mol. Biol.
, vol.3
, pp. 91-97
-
-
Ermolaeva, M.D.1
-
13
-
-
0037161813
-
GroEL buffers against deleterious mutations
-
Fares, M.A., Ruiz-González, M.X., Moya, A., Elena, S.F., and Barrio, E. 2002a. GroEL buffers against deleterious mutations. Nature 417: 398.
-
(2002)
Nature
, vol.417
, pp. 398
-
-
Fares, M.A.1
Ruiz-González, M.X.2
Moya, A.3
Elena, S.F.4
Barrio, E.5
-
14
-
-
0036632266
-
The evolution of the heat-shock protein GroEL from Buchnera, the primary endosymbiont of aphids, is governed by positive selection
-
Fares, M.A., Barrio, E., Sabater-Muñoz, B., and Moya, A. 2002b. The evolution of the heat-shock protein GroEL from Buchnera, the primary endosymbiont of aphids, is governed by positive selection. Mol. Biol. Evol. 19: 1162-1170.
-
(2002)
Mol. Biol. Evol.
, vol.19
, pp. 1162-1170
-
-
Fares, M.A.1
Barrio, E.2
Sabater-Muñoz, B.3
Moya, A.4
-
15
-
-
0032860238
-
Asymmetric substitution patterns: A review of possible underlying mutational or selective mechanisms
-
Frank, A.C. and Lobry, J.R., 1999. Asymmetric substitution patterns: A review of possible underlying mutational or selective mechanisms. Gene 238: 65-77.
-
(1999)
Gene
, vol.238
, pp. 65-77
-
-
Frank, A.C.1
Lobry, J.R.2
-
16
-
-
0035107978
-
Intraspecific variation in symbiont genomes: Bottlenecks and the aphid-Buchnera association
-
Funk, D.J., Wernegreen, J.J., and Moran, N.A. 2001. Intraspecific variation in symbiont genomes: Bottlenecks and the aphid-Buchnera association. Genetics 157: 477-489.
-
(2001)
Genetics
, vol.157
, pp. 477-489
-
-
Funk, D.J.1
Wernegreen, J.J.2
Moran, N.A.3
-
17
-
-
0041422250
-
The genome sequence of Blochmannia floridanus: Comparative analysis of reduced genomes
-
Gil, R., Silva, F.J., Zientz, E., Delmotte, F., González-Candelas, F., Latorre, A., Rausell, C., Kamerbeek, J., Gadau, J., Hölldobler, B., et al. 2003. The genome sequence of Blochmannia floridanus: Comparative analysis of reduced genomes Proc. Natl. Acad. Sci. 100: 9388-9393.
-
(2003)
Proc. Natl. Acad. Sci.
, vol.100
, pp. 9388-9393
-
-
Gil, R.1
Silva, F.J.2
Zientz, E.3
Delmotte, F.4
González-Candelas, F.5
Latorre, A.6
Rausell, C.7
Kamerbeek, J.8
Gadau, J.9
Hölldobler, B.10
-
18
-
-
0003706632
-
-
2nd ed., chapter 4. Sinauer, Sunderland
-
Graur, D. and Li, W.-H., 2000. Fundamentals of molecular evolution, 2nd ed., chapter 4. Sinauer, Sunderland.
-
(2000)
Fundamentals of Molecular Evolution
-
-
Graur, D.1
Li, W.-H.2
-
19
-
-
0030574072
-
Compensatory nearly neutral mutations: Selection without adaptation
-
Hartl, D.L. and Taubes, C.H. 1996. Compensatory nearly neutral mutations: selection without adaptation. J. Theor. Biol. 182: 303-309.
-
(1996)
J. Theor. Biol.
, vol.182
, pp. 303-309
-
-
Hartl, D.L.1
Taubes, C.H.2
-
20
-
-
0019474499
-
Correlation between the abundance of Escherichia coli transfer RNAs and the occurrence of the respective codons in its protein genes
-
Ikemura, T. 1981. Correlation between the abundance of Escherichia coli transfer RNAs and the occurrence of the respective codons in its protein genes. J. Mol. Biol. 146: 1-21.
-
(1981)
J. Mol. Biol.
, vol.146
, pp. 1-21
-
-
Ikemura, T.1
-
21
-
-
0001202521
-
Characterization of the protein species synthesised in vivo and in vitro by an aphid endosymbiont
-
Ishikawa, H. 1984. Characterization of the protein species synthesised in vivo and in vitro by an aphid endosymbiont. Insect Biochem. 14: 417-425.
-
(1984)
Insect Biochem.
, vol.14
, pp. 417-425
-
-
Ishikawa, H.1
-
22
-
-
0036791017
-
Acceleration of genomic evolution caused by enhanced mutation rate in endocellular symbionts
-
Itoh, T., Martin, W., and Nei, M. 2002. Acceleration of genomic evolution caused by enhanced mutation rate in endocellular symbionts. Proc. Natl. Acad. Sci. 99: 12944-12948.
-
(2002)
Proc. Natl. Acad. Sci.
, vol.99
, pp. 12944-12948
-
-
Itoh, T.1
Martin, W.2
Nei, M.3
-
23
-
-
0032882170
-
Studies of codon usage and tRNA genes of 18 unicellular organisms and quantification of Bacillus subtilis tRNAs: Gene expression level and species-specific diversity of codon usage based on multivariate analysis
-
Kanaya, S., Yamada, Y., Kudo, Y., and Ikemura, T. 1999. Studies of codon usage and tRNA genes of 18 unicellular organisms and quantification of Bacillus subtilis tRNAs: Gene expression level and species-specific diversity of codon usage based on multivariate analysis. Gene 238: 143-155.
-
(1999)
Gene
, vol.238
, pp. 143-155
-
-
Kanaya, S.1
Yamada, Y.2
Kudo, Y.3
Ikemura, T.4
-
24
-
-
0036078078
-
Essential genes are more evolutionarily conserved than are nonessential genes in bacteria
-
King Jordan, I., Rogozin, I.B., Wolf, Y.T., and Koonin, E.V. 2002. Essential genes are more evolutionarily conserved than are nonessential genes in bacteria. Genome Res. 12: 962-968.
-
(2002)
Genome Res.
, vol.12
, pp. 962-968
-
-
King Jordan, I.1
Rogozin, I.B.2
Wolf, Y.T.3
Koonin, E.V.4
-
25
-
-
0020475449
-
A simple method for displaying the hydropathic character of a protein
-
Kyte, J. and Doolittle, R.F. 1982. A simple method for displaying the hydropathic character of a protein. J. Mol. Biol. 157: 105-132.
-
(1982)
J. Mol. Biol.
, vol.157
, pp. 105-132
-
-
Kyte, J.1
Doolittle, R.F.2
-
26
-
-
0032515984
-
Deleterious mutations destabilize ribosomal RNA in endosymbioytic bacteria
-
Lambert, J.D. and Moran, N.A. 1998. Deleterious mutations destabilize ribosomal RNA in endosymbioytic bacteria. Proc. Natl. Acad. Sci. 95: 4458-4462.
-
(1998)
Proc. Natl. Acad. Sci.
, vol.95
, pp. 4458-4462
-
-
Lambert, J.D.1
Moran, N.A.2
-
27
-
-
0032169578
-
Replicational and transcriptional selection on codon usage in Borrelia burgdorferi
-
McInerney, J.O. 1998. Replicational and transcriptional selection on codon usage in Borrelia burgdorferi. Proc. Natl. Acad. Sci. 95: 10698-10703.
-
(1998)
Proc. Natl. Acad. Sci.
, vol.95
, pp. 10698-10703
-
-
McInerney, J.O.1
-
28
-
-
0032417093
-
Base composition skews, replication orientation, and gene orientation in 12 prokaryote genomes
-
McLean, M.J., Wolfe, K.H., and Devine, K.M., 1998. Base composition skews, replication orientation, and gene orientation in 12 prokaryote genomes. J. Mol Evol. 47: 691-696.
-
(1998)
J. Mol. Evol.
, vol.47
, pp. 691-696
-
-
McLean, M.J.1
Wolfe, K.H.2
Devine, K.M.3
-
29
-
-
0026332291
-
Evidence for horizontal gene transfer in Escherichia coli speciation
-
Médigue, C., Rouxel, T., Vigier, P., Hénaut, A., and Danchin, A. 1991. Evidence for horizontal gene transfer in Escherichia coli speciation. J. Mol. Evol. 222: 851-856.
-
(1991)
J. Mol. Evol.
, vol.222
, pp. 851-856
-
-
Médigue, C.1
Rouxel, T.2
Vigier, P.3
Hénaut, A.4
Danchin, A.5
-
30
-
-
0035479142
-
Deletional bias and the evolution of bacterial genomes
-
Mira, A., Ochman, H., and Moran, N.A. 2001. Deletional bias and the evolution of bacterial genomes. Trends Genet. 10: 589-596.
-
(2001)
Trends Genet.
, vol.10
, pp. 589-596
-
-
Mira, A.1
Ochman, H.2
Moran, N.A.3
-
31
-
-
0029866448
-
Accelerated evolution and Muller's ratchet in endosymbiotic bacteria
-
Moran, N.A. 1996. Accelerated evolution and Muller's ratchet in endosymbiotic bacteria. Proc. Natl. Acad. Sci. 93: 2873-2878.
-
(1996)
Proc. Natl. Acad. Sci.
, vol.93
, pp. 2873-2878
-
-
Moran, N.A.1
-
32
-
-
0027976068
-
Phylogenetics of cytoplasmically inherited microorganisms of arthropods
-
Moran, N.A. and Baumann, P. 1994. Phylogenetics of cytoplasmically inherited microorganisms of arthropods. Trends Ecol. Evol. 9: 15-20.
-
(1994)
Trends Ecol. Evol.
, vol.9
, pp. 15-20
-
-
Moran, N.A.1
Baumann, P.2
-
33
-
-
0036308386
-
Comparative molecular evolution of primary (Buchnera) and secondary symbionts of aphids based on two protein-coding genes
-
Moya, A., Latorre, A., Sabater-Muñoz, B., and Silva, F.J. 2002. Comparative molecular evolution of primary (Buchnera) and secondary symbionts of aphids based on two protein-coding genes. J. Mol. Evol. 55: 125-137.
-
(2002)
J. Mol. Evol.
, vol.55
, pp. 125-137
-
-
Moya, A.1
Latorre, A.2
Sabater-Muñoz, B.3
Silva, F.J.4
-
34
-
-
0035843908
-
Genes lost and genes found: Evolution of bacterial pathogenesis and symbiosis
-
Ochman, H. and Moran, N.A. 2001. Genes lost and genes found: Evolution of bacterial pathogenesis and symbiosis. Science 292: 1096-1098.
-
(2001)
Science
, vol.292
, pp. 1096-1098
-
-
Ochman, H.1
Moran, N.A.2
-
35
-
-
0027020232
-
The nearly neutral theory of molecular evolution
-
Ohta, T. 1992. The nearly neutral theory of molecular evolution. Annu. Rev. Ecol. Syst. 23: 263-286.
-
(1992)
Annu. Rev. Ecol. Syst.
, vol.23
, pp. 263-286
-
-
Ohta, T.1
-
36
-
-
0036730186
-
A strong effect of AT mutational bias on amino acid usage in Buchnera is mitigated at high-expression genes
-
Palacios, C. and Wernegreen, J.J. 2002. A strong effect of AT mutational bias on amino acid usage in Buchnera is mitigated at high-expression genes. Mol. Biol. Evol. 19: 1575-1584.
-
(2002)
Mol. Biol. Evol.
, vol.19
, pp. 1575-1584
-
-
Palacios, C.1
Wernegreen, J.J.2
-
37
-
-
0033804199
-
Accumulation of deleterious mutations in endosymbionts: Muller's ratchet with two levels of selection
-
Rispe, C. and Moran, N.A. 2000. Accumulation of deleterious mutations in endosymbionts: Muller's ratchet with two levels of selection. Am. Nat. 156: 425-441.
-
(2000)
Am. Nat.
, vol.156
, pp. 425-441
-
-
Rispe, C.1
Moran, N.A.2
-
38
-
-
0347235330
-
-
SAS Institute Inc. SAS/STAT User's guide, Release 6.03 Edition. Sas Institute Inc., Cary, NC
-
SAS Institute Inc. 1988. SAS/STAT User's guide, Release 6.03 Edition. Sas Institute Inc., Cary, NC.
-
(1988)
-
-
-
39
-
-
0023650543
-
The codon adaptation index-A measure of directional synonymous codon usage bias, and its potential applications
-
Sharp, P.M. and Li, W.H. 1987. The codon adaptation index-A measure of directional synonymous codon usage bias, and its potential applications. Nucleic Acids Res. 15: 1281-1295.
-
(1987)
Nucleic Acids Res.
, vol.15
, pp. 1281-1295
-
-
Sharp, P.M.1
Li, W.H.2
-
40
-
-
0034618559
-
Genome sequence of the endocellular bacterial symbionts of aphids Buchnera sp. APS
-
Shigenobu, S., Watanabe, H., Hattori, M., Sakaki, Y., and Ishikawa, H. 2000. Genome sequence of the endocellular bacterial symbionts of aphids Buchnera sp. APS. Nature 407: 81-86.
-
(2000)
Nature
, vol.407
, pp. 81-86
-
-
Shigenobu, S.1
Watanabe, H.2
Hattori, M.3
Sakaki, Y.4
Ishikawa, H.5
-
41
-
-
0035500843
-
Genome size reduction through multiple events of gene disintegration in Buchnera APS
-
Silva, F.J., Latorre, A., and Moya, A. 2001. Genome size reduction through multiple events of gene disintegration in Buchnera APS. Trends Genet. 17: 615-618.
-
(2001)
Trends Genet.
, vol.17
, pp. 615-618
-
-
Silva, F.J.1
Latorre, A.2
Moya, A.3
-
43
-
-
0037189373
-
Fifty million years of genomic stasis in endosymbiotic bacteria
-
Tamas, I., Klasson, L., Canbäck, B., Näslund, A.K., Eriksson, A.-S., Wernegreen, J.J., Sandström, J., Moran, N.A., and Andersson, S.G.E. 2002. Fifty million years of genomic stasis in endosymbiotic bacteria. Science 296: 2376-2379.
-
(2002)
Science
, vol.296
, pp. 2376-2379
-
-
Tamas, I.1
Klasson, L.2
Canbäck, B.3
Näslund, A.K.4
Eriksson, A.-S.5
Wernegreen, J.J.6
Sandström, J.7
Moran, N.A.8
Andersson, S.G.E.9
-
44
-
-
0037457901
-
Reductive genome evolution in Buchnera aphidicola
-
Van Ham, R.C.H.J., Kamerbeek, J., Palacios, C., Rausell, C., Abascal, F., Bastolla, U., Fernández, J.M., Jiménez, L., Postigo, M., Silva, F.J., et al. 2002. Reductive genome evolution in Buchnera aphidicola. Proc. Natl. Acad. Sci. 100: 581-586.
-
(2002)
Proc. Natl. Acad. Sci.
, vol.100
, pp. 581-586
-
-
Van Ham, R.C.H.J.1
Kamerbeek, J.2
Palacios, C.3
Rausell, C.4
Abascal, F.5
Bastolla, U.6
Fernández, J.M.7
Jiménez, L.8
Postigo, M.9
Silva, F.J.10
-
45
-
-
0036847064
-
Genome evolution in bacterial endosymbionts of insects
-
Wernegreen, J.J. 2002. Genome evolution in bacterial endosymbionts of insects. Nat. Rev. Genet. 3: 850-861.
-
(2002)
Nat. Rev. Genet.
, vol.3
, pp. 850-861
-
-
Wernegreen, J.J.1
-
46
-
-
0032948901
-
Evidence for genetic drift in endosymbionts (Buchnera): Analyses of protein-coding genes
-
Wernegreen, J.J. and Moran, N.A. 1999. Evidence for genetic drift in endosymbionts (Buchnera): Analyses of protein-coding genes. Mol. Biol. Evol. 16: 83-97.
-
(1999)
Mol. Biol. Evol.
, vol.16
, pp. 83-97
-
-
Wernegreen, J.J.1
Moran, N.A.2
|