-
1
-
-
33748143748
-
Structural determinants of the rate of protein evolution in yeast
-
Bloom JD, Drummond DA, Arnold FH, Wilke CO. 2006. Structural determinants of the rate of protein evolution in yeast. Mol Biol Evol. 23:1751-1761.
-
(2006)
Mol Biol Evol
, vol.23
, pp. 1751-1761
-
-
Bloom, J.D.1
Drummond, D.A.2
Arnold, F.H.3
Wilke, C.O.4
-
3
-
-
0033969946
-
Solvent accessibility and purifying selection within proteins of Escherichia coli and Salmonella enterica
-
Bustamante CD, Townsend JP, Hartl DL. 2000. Solvent accessibility and purifying selection within proteins of Escherichia coli and Salmonella enterica. Mol Biol Evol. 17:301-308.
-
(2000)
Mol Biol Evol
, vol.17
, pp. 301-308
-
-
Bustamante, C.D.1
Townsend, J.P.2
Hartl, D.L.3
-
4
-
-
31144465926
-
Hearing silence: Non-neutral evolution at synonymous sites in mammals
-
Chamary JV, Parmley JL, Hurst LD. 2006. Hearing silence: non-neutral evolution at synonymous sites in mammals. Nat Rev Genet. 7:98-108.
-
(2006)
Nat Rev Genet
, vol.7
, pp. 98-108
-
-
Chamary, J.V.1
Parmley, J.L.2
Hurst, L.D.3
-
5
-
-
69449100706
-
Neutral evolution on mammalian protein surfaces
-
Conant GC. 2009. Neutral evolution on mammalian protein surfaces. Trends Genet. 25:377-381.
-
(2009)
Trends Genet
, vol.25
, pp. 377-381
-
-
Conant, G.C.1
-
6
-
-
65349140199
-
Solvent exposure imparts similar selective pressures across a range of yeast proteins
-
Conant GC, Stadler PF. 2009. Solvent exposure imparts similar selective pressures across a range of yeast proteins. Mol Biol Evol. 26:1155-1161.
-
(2009)
Mol Biol Evol
, vol.26
, pp. 1155-1161
-
-
Conant, G.C.1
Stadler, P.F.2
-
7
-
-
26444621352
-
Why highly expressed proteins evolve slowly
-
Drummond DA, Bloom JD, Adami C, Wilke CO, Arnold FH. 2005. Why highly expressed proteins evolve slowly. Proc Natl Acad Sci\USA. 102:14338-14343.
-
(2005)
Proc Natl Acad Sci\USA
, vol.102
, pp. 14338-14343
-
-
Drummond, D.A.1
Bloom, J.D.2
Adami, C.3
Wilke, C.O.4
Arnold, F.H.5
-
8
-
-
30744441602
-
A single determinant dominates the rate of yeast protein evolution
-
Drummond DA, Raval A, Wilke CO. 2006. A single determinant dominates the rate of yeast protein evolution. Mol Biol Evol. 23:327-337.
-
(2006)
Mol Biol Evol
, vol.23
, pp. 327-337
-
-
Drummond, D.A.1
Raval, A.2
Wilke, C.O.3
-
9
-
-
0036632266
-
The evolution of the heat-shock protein GroEL from Buchnera, the primary endosymbiont of aphids, is governed by positive selection
-
Fares MA, Barrio E, Sabater-Munoz B, Moya A. 2002. 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-Munoz, B.3
Moya, A.4
-
10
-
-
4143121171
-
GroEL and the maintenance of bacterial endosymbiosis
-
Fares MA, Moya A, Barrio E. 2004. GroEL and the maintenance of bacterial endosymbiosis. Trends Genet. 20:413-416.
-
(2004)
Trends Genet
, vol.20
, pp. 413-416
-
-
Fares, M.A.1
Moya, A.2
Barrio, E.3
-
11
-
-
18544385194
-
Adaptive evolution in GroEL from distantly related endosymbiotic bacteria of insects
-
Fares MA, Moya A, Barrio E. 2005. Adaptive evolution in GroEL from distantly related endosymbiotic bacteria of insects. J Evol Biol. 18:651-660.
-
(2005)
J Evol Biol
, vol.18
, pp. 651-660
-
-
Fares, M.A.1
Moya, A.2
Barrio, E.3
-
12
-
-
0037161813
-
Endosymbiotic bacteria: Groel buffers against deleterious mutations
-
Fares MA, Ruiz-Gonzalez MX, Moya A, Elena SF, Barrio E. 2002. Endosymbiotic bacteria: groEL buffers against deleterious mutations. Nature 417:398.
-
(2002)
Nature
, vol.417
, pp. 398
-
-
Fares, M.A.1
Ruiz-Gonzalez, M.X.2
Moya, A.3
Elena, S.F.4
Barrio, E.5
-
13
-
-
16844363315
-
Modularity and evolutionary constraint on proteins
-
Fraser HB. 2005. Modularity and evolutionary constraint on proteins. Nat Genet. 37:351-352.
-
(2005)
Nat Genet
, vol.37
, pp. 351-352
-
-
Fraser, H.B.1
-
14
-
-
0037177560
-
Evolutionary rate in the protein interaction network
-
Fraser HB, Hirsh AE, Steinmetz LM, Scharfe C, Feldman MW. 2002. Evolutionary rate in the protein interaction network. Science 296:750-752.
-
(2002)
Science
, vol.296
, pp. 750-752
-
-
Fraser, H.B.1
Hirsh, A.E.2
Steinmetz, L.M.3
Scharfe, C.4
Feldman, M.W.5
-
15
-
-
0242284421
-
A simple dependence between protein evolution rate and the number of protein-protein interactions
-
Fraser HB, Wall DP, Hirsh AE. 2003. A simple dependence between protein evolution rate and the number of protein-protein interactions. BMC Evol Biol. 3:11.
-
(2003)
BMC Evol Biol
, vol.3
, pp. 11
-
-
Fraser, H.B.1
Wall, D.P.2
Hirsh, A.E.3
-
16
-
-
0035107978
-
Intraspecific variation in symbiont genomes: Bottlenecks and the aphid-buchnera association
-
Funk DJ, Wernegreen JJ, Moran NA. 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
-
-
0031805465
-
Assessing the impact of secondary structure and solvent accessibility on protein evolution
-
Goldman N, Thorne JL, Jones DT. 1998. Assessing the impact of secondary structure and solvent accessibility on protein evolution. Genetics 149:445-458.
-
(1998)
Genetics
, vol.149
, pp. 445-458
-
-
Goldman, N.1
Thorne, J.L.2
Jones, D.T.3
-
19
-
-
0346731276
-
A conservative test of genetic drift in the endosymbiotic bacterium Buchnera: Slightly deleterious mutations in the chaperonin groEL
-
Herbeck JT, Funk DJ, Degnan PH, Wernegreen JJ. 2003. A conservative test of genetic drift in the endosymbiotic bacterium Buchnera: slightly deleterious mutations in the chaperonin groEL. Genetics 165:1651-1660.
-
(2003)
Genetics
, vol.165
, pp. 1651-1660
-
-
Herbeck, J.T.1
Funk, D.J.2
Degnan, P.H.3
Wernegreen, J.J.4
-
20
-
-
65449187535
-
Evolutionary rates and centrality in the yeast gene regulatory network
-
Jovelin R, Phillips PC. 2009. Evolutionary rates and centrality in the yeast gene regulatory network. Genome Biol. 10:R35.
-
(2009)
Genome Biol
, vol.10
-
-
Jovelin, R.1
Phillips, P.C.2
-
21
-
-
0036734386
-
Structural requirements of the mRNA for intracistronic translation initiation of the enterobac-terial infB gene
-
Laursen BS, Steffensen SA, Hedegaard J, Moreno JM, Mortensen KK, Sperling-Petersen HU. 2002. Structural requirements of the mRNA for intracistronic translation initiation of the enterobac-terial infB gene. Genes Cells. 7:901-910.
-
(2002)
Genes Cells
, vol.7
, pp. 901-910
-
-
Laursen, B.S.1
Steffensen, S.A.2
Hedegaard, J.3
Moreno, J.M.4
Mortensen, K.K.5
Sperling-Petersen, H.U.6
-
22
-
-
0028246888
-
Escherichia coli single-stranded DNA-binding protein: Multiple DNA-binding modes and coopera-tivities
-
Lohman TM, Ferrari ME. 1994. Escherichia coli single-stranded DNA-binding protein: multiple DNA-binding modes and coopera-tivities. Annu Rev Biochem. 63:527-570.
-
(1994)
Annu Rev Biochem
, vol.63
, pp. 527-570
-
-
Lohman, T.M.1
Ferrari, M.E.2
-
23
-
-
0030802496
-
Mutation accumulation in nuclear, organelle, and prokaryotic transfer RNA genes
-
Lynch M. 1997. Mutation accumulation in nuclear, organelle, and prokaryotic transfer RNA genes. Mol Biol Evol. 14:914-925.
-
(1997)
Mol Biol Evol
, vol.14
, pp. 914-925
-
-
Lynch, M.1
-
24
-
-
0025682946
-
Mutation load and the survival of small populations
-
Lynch M, Gabriel W. 1990. Mutation load and the survival of small populations. Evolution 44:1725-1737.
-
(1990)
Evolution
, vol.44
, pp. 1725-1737
-
-
Lynch, M.1
Gabriel, W.2
-
25
-
-
34547844134
-
Towards realistic codon models: Among site variability and dependency of synonymous and non-synonymous rates
-
Mayrose I, Doron-Faigenboim A, Bacharach E, Pupko T. 2007. Towards realistic codon models: among site variability and dependency of synonymous and non-synonymous rates. Bioinformatics. 23:i319-i327.
-
(2007)
Bioinformatics
, vol.23
-
-
Mayrose, I.1
Doron-Faigenboim, A.2
Bacharach, E.3
Pupko, T.4
-
26
-
-
23344451687
-
Structure, function, and evolution of transient and obligate protein-protein interactions
-
Mintseris J, Weng Z. 2005. Structure, function, and evolution of transient and obligate protein-protein interactions. Proc Natl Acad Sci\USA. 102:10930-10935.
-
(2005)
Proc Natl Acad Sci\USA
, vol.102
, pp. 10930-10935
-
-
Mintseris, J.1
Weng, Z.2
-
27
-
-
0036690426
-
Estimating population size and transmission bottlenecks in maternally transmitted endosymbiotic bacteria
-
Mira A, Moran NA. 2002. Estimating population size and transmission bottlenecks in maternally transmitted endosymbiotic bacteria. Microb Ecol. 44:137-143.
-
(2002)
Microb Ecol
, vol.44
, pp. 137-143
-
-
Mira, A.1
Moran, N.A.2
-
28
-
-
0029866448
-
Accelerated evolution and Muller's rachet in endosymbiotic bacteria
-
Moran NA. 1996. Accelerated evolution and Muller's rachet in endosymbiotic bacteria. Proc Natl Acad Sci\USA. 93:2873-2878.
-
(1996)
Proc Natl Acad Sci\USA
, vol.93
, pp. 2873-2878
-
-
Moran, N.A.1
-
29
-
-
58449125407
-
Genomics and evolution of heritable bacterial symbionts
-
Moran NA, McCutcheon JP, Nakabachi A. 2008. Genomics and evolution of heritable bacterial symbionts. Annu Rev Genet. 42:165-190.
-
(2008)
Annu Rev Genet
, vol.42
, pp. 165-190
-
-
Moran, N.A.1
McCutcheon, J.P.2
Nakabachi, A.3
-
30
-
-
58449126084
-
The dynamics and time scale of ongoing genomic erosion in symbiotic bacteria
-
Moran NA, McLaughlin HJ, Sorek R. 2009. The dynamics and time scale of ongoing genomic erosion in symbiotic bacteria. Science 323:379-382.
-
(2009)
Science
, vol.323
, pp. 379-382
-
-
Moran, N.A.1
McLaughlin, H.J.2
Sorek, R.3
-
31
-
-
50549201557
-
The relation of recombination to mutational advance
-
Muller HJ. 1964. The relation of recombination to mutational advance. Mutat Res. 1:2-9.
-
(1964)
Mutat Res
, vol.1
, pp. 2-9
-
-
Muller, H.J.1
-
33
-
-
0347135951
-
Mutational and selective pressures on codon and amino acid usage in Buchnera, endosymbiotic bacteria of aphids
-
Rispe C, Delmotte F, van Ham RC, Moya A. 2004. Mutational and selective pressures on codon and amino acid usage in Buchnera, endosymbiotic bacteria of aphids. Genome Res. 14:44-53.
-
(2004)
Genome Res
, vol.14
, pp. 44-53
-
-
Rispe, C.1
Delmotte, F.2
Van Ham, R.C.3
Moya, A.4
-
34
-
-
0034618559
-
Genome sequence of the endocellular bacterial symbiont of aphids Buchnera sp APS
-
Shigenobu S, Watanabe H, Hattori M, Sakaki Y, Ishikawa H. 2000. Genome sequence of the endocellular bacterial symbiont 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
-
35
-
-
0035058359
-
Evolution of prokaryotic gene order: Genome rearrangements in closely related species
-
Suyama M, Bork P. 2001. Evolution of prokaryotic gene order: genome rearrangements in closely related species. Trends Genet. 17:10-13.
-
(2001)
Trends Genet
, vol.17
, pp. 10-13
-
-
Suyama, M.1
Bork, P.2
-
36
-
-
0037189373
-
50 million years of genomic stasis in endosymbiotic bacteria
-
Tamas I, Klasson L, Canback B, Naslund AK, Eriksson AS, Wernegreen JJ, Sandstrom JP, Moran NA, Andersson SG. 2002. 50 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
Canback, B.3
Naslund, A.K.4
Eriksson, A.S.5
Wernegreen, J.J.6
Sandstrom, J.P.7
Moran, N.A.8
Andersson, S.G.9
-
37
-
-
0027968068
-
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
-
38
-
-
0029985399
-
Combining protein evolution and secondary structure
-
Thorne JL, Goldman N, Jones DT. 1996. Combining protein evolution and secondary structure. Mol Biol Evol. 13:666-673.
-
(1996)
Mol Biol Evol
, vol.13
, pp. 666-673
-
-
Thorne, J.L.1
Goldman, N.2
Jones, D.T.3
-
39
-
-
62349086187
-
Selection for translational robustness in Buchnera aphidicola, endosymbiotic bacteria of aphids
-
Toft C, Fares MA. 2009. Selection for translational robustness in Buchnera aphidicola, endosymbiotic bacteria of aphids. Mol Biol Evol. 26:743-751.
-
(2009)
Mol Biol Evol
, vol.26
, pp. 743-751
-
-
Toft, C.1
Fares, M.A.2
-
40
-
-
65349109174
-
Genome-wide functional divergence after the symbiosis of proteobacteria with insects unraveled through a novel computational approach
-
Toft C, Williams TA, Fares MA. 2009. Genome-wide functional divergence after the symbiosis of proteobacteria with insects unraveled through a novel computational approach. PLoS Comput Biol. 5:e1000344.
-
(2009)
PLoS Comput Biol
, vol.5
-
-
Toft, C.1
Williams, T.A.2
Fares, M.A.3
-
41
-
-
0030908093
-
Replication protein A: A heterotrimeric, single-stranded DNA-binding protein required for eukaryotic DNA metabolism
-
Wold MS. 1997. Replication protein A: a heterotrimeric, single-stranded DNA-binding protein required for eukaryotic DNA metabolism. Annu Rev Biochem. 66:61-92.
-
(1997)
Annu Rev Biochem
, vol.66
, pp. 61-92
-
-
Wold, M.S.1
|