-
1
-
-
33646926129
-
14-3-3 proteins: a historic overview
-
Aitken, A. 2006. 14-3-3 proteins: a historic overview. Semin. Cancer Biol. 16:162-172.
-
(2006)
Semin. Cancer Biol.
, vol.16
, pp. 162-172
-
-
Aitken, A.1
-
2
-
-
79955576936
-
Population size drives industrial Saccharomyces cerevisiae alcoholic fermentation and is under genetic control
-
Albertin, W., P. Marullo, M. Aigle, C. Dillmann, D. de Vienne, M. Bely, and D. Sicard. 2011. Population size drives industrial Saccharomyces cerevisiae alcoholic fermentation and is under genetic control. Appl. Environ. Microbiol. 77:2772-2784.
-
(2011)
Appl. Environ. Microbiol.
, vol.77
, pp. 2772-2784
-
-
Albertin, W.1
Marullo, P.2
Aigle, M.3
Dillmann, C.4
de Vienne, D.5
Bely, M.6
Sicard, D.7
-
3
-
-
77949551578
-
Whole-genome sequencing of a laboratory-evolved yeast strain
-
Araya, C., C. Payen, M. Dunham, and S. Fields. 2010. Whole-genome sequencing of a laboratory-evolved yeast strain. BMC Genomics 11:88.
-
(2010)
BMC Genomics
, vol.11
, pp. 88
-
-
Araya, C.1
Payen, C.2
Dunham, M.3
Fields, S.4
-
4
-
-
37549017103
-
Convergence and parallelism reconsidered: what have we learned about the genetics of adaptation?
-
Arendt, J., and D. Reznick. 2008. Convergence and parallelism reconsidered: what have we learned about the genetics of adaptation? Trends Ecol. Evol. 23:26-32.
-
(2008)
Trends Ecol. Evol.
, vol.23
, pp. 26-32
-
-
Arendt, J.1
Reznick, D.2
-
5
-
-
0035706455
-
The adaptive landscape as a conceptual bridge between micro- and macroevolution
-
Arnold, S. J., M. E. Pfrender, and A. G. Jones. 2001. The adaptive landscape as a conceptual bridge between micro- and macroevolution. Genetica 112:9-32.
-
(2001)
Genetica
, vol.112
, pp. 9-32
-
-
Arnold, S.J.1
Pfrender, M.E.2
Jones, A.G.3
-
6
-
-
69549083476
-
Genome-wide identification of genes involved in tolerance to various environmental stresses in Saccharomyces cerevisiae
-
Auesukaree, C., A. Damnernsawad, M. Kruatrachue, P. Pokethitiyook, C. Boonchird, Y. Kaneko, and S. Harashima. 2009. Genome-wide identification of genes involved in tolerance to various environmental stresses in Saccharomyces cerevisiae. J. Appl. Genet. 50:301-310.
-
(2009)
J. Appl. Genet.
, vol.50
, pp. 301-310
-
-
Auesukaree, C.1
Damnernsawad, A.2
Kruatrachue, M.3
Pokethitiyook, P.4
Boonchird, C.5
Kaneko, Y.6
Harashima, S.7
-
7
-
-
84862843329
-
Multihost experimental evolution of a plant RNA virus reveals local adaptation and host-specific mutations
-
Bedhomme, S., G. Lafforgue, and S. F. Elena. 2012. Multihost experimental evolution of a plant RNA virus reveals local adaptation and host-specific mutations. Mol. Biol. Evol. 29:1481-1492.
-
(2012)
Mol. Biol. Evol.
, vol.29
, pp. 1481-1492
-
-
Bedhomme, S.1
Lafforgue, G.2
Elena, S.F.3
-
8
-
-
84873977937
-
Genotypic but not phenotypic historical contingency revealed by viral experimental evolution
-
Bedhomme, S., G. Lafforgue, and S. F. Elena. 2013. Genotypic but not phenotypic historical contingency revealed by viral experimental evolution. BMC Evol. Biol. 13:1-13.
-
(2013)
BMC Evol. Biol.
, vol.13
, pp. 1-13
-
-
Bedhomme, S.1
Lafforgue, G.2
Elena, S.F.3
-
9
-
-
0001677717
-
Controlling the false discovery rate-a practical and powerful approach
-
Benjamini, Y., and Y. Hochberg. 1995. Controlling the false discovery rate-a practical and powerful approach. J. R. Stat. Soc. Ser. B 57:289-300.
-
(1995)
J. R. Stat. Soc. Ser. B
, vol.57
, pp. 289-300
-
-
Benjamini, Y.1
Hochberg, Y.2
-
10
-
-
0032548058
-
The 14-3-3 proteins positively regulate rapamycin-sensitive signaling
-
Bertram, P. G., C. Zeng, J. Thorson, A. S. Shaw, and X. F. Zheng. 1998. The 14-3-3 proteins positively regulate rapamycin-sensitive signaling. Curr. Biol. 8:1259-1267.
-
(1998)
Curr. Biol.
, vol.8
, pp. 1259-1267
-
-
Bertram, P.G.1
Zeng, C.2
Thorson, J.3
Shaw, A.S.4
Zheng, X.F.5
-
11
-
-
45849093668
-
Historical contingency and the evolution of a key innovation in an experimental population of Escherichia coli
-
Blount, Z. D., C. Z. Borland, and R. E. Lenski. 2008. Historical contingency and the evolution of a key innovation in an experimental population of Escherichia coli. Proc. Natl. Acad. Sci. USA 105:7899-7906.
-
(2008)
Proc. Natl. Acad. Sci. USA
, vol.105
, pp. 7899-7906
-
-
Blount, Z.D.1
Borland, C.Z.2
Lenski, R.E.3
-
12
-
-
12344269924
-
GO::TermFinder-open source software for accessing Gene Ontology information and finding significantly enriched Gene Ontology terms associated with a list of genes
-
Boyle, E. I., S. Weng, J. Gollub, H. Jin, D. Botstein, J. M. Cherry, and G. Sherlock. 2004. GO::TermFinder-open source software for accessing Gene Ontology information and finding significantly enriched Gene Ontology terms associated with a list of genes. Bioinformatics 20:3710-3715.
-
(2004)
Bioinformatics
, vol.20
, pp. 3710-3715
-
-
Boyle, E.I.1
Weng, S.2
Gollub, J.3
Jin, H.4
Botstein, D.5
Cherry, J.M.6
Sherlock, G.7
-
13
-
-
0023652371
-
The S. cerevisiae CDC25 gene product regulates the RAS/adenylate cyclase pathway
-
Broek, D., T. Toda, T. Michaeli, L. Levin, C. Birchmeier, M. Zoller, S. Powers, and M. Wigler. 1987. The S. cerevisiae CDC25 gene product regulates the RAS/adenylate cyclase pathway. Cell 48:789-799.
-
(1987)
Cell
, vol.48
, pp. 789-799
-
-
Broek, D.1
Toda, T.2
Michaeli, T.3
Levin, L.4
Birchmeier, C.5
Zoller, M.6
Powers, S.7
Wigler, M.8
-
14
-
-
34249296250
-
Post-transcriptional control of the Saccharomyces cerevisiae proteome by 14-3-3 proteins
-
Bruckmann, A., P. J. Hensbergen, C. I. A. Balog, A. M. Deelder, H. Y. Steensma, and G. P. H. van Heusden. 2007. Post-transcriptional control of the Saccharomyces cerevisiae proteome by 14-3-3 proteins. J. Proteome Res. 6:1689-1699.
-
(2007)
J. Proteome Res.
, vol.6
, pp. 1689-1699
-
-
Bruckmann, A.1
Hensbergen, P.J.2
Balog, C.I.A.3
Deelder, A.M.4
Steensma, H.Y.5
van Heusden, G.P.H.6
-
15
-
-
0030823001
-
Exceptional convergent evolution in a virus
-
Bull, J. J., M. R. Badgett, H. A. Wichman, J. P. Huelsenbeck, D. M. Hillis, A. Gulati, C. Ho, and I. J. Molineux. 1997. Exceptional convergent evolution in a virus. Genetics 147:1497-1507.
-
(1997)
Genetics
, vol.147
, pp. 1497-1507
-
-
Bull, J.J.1
Badgett, M.R.2
Wichman, H.A.3
Huelsenbeck, J.P.4
Hillis, D.M.5
Gulati, A.6
Ho, C.7
Molineux, I.J.8
-
16
-
-
0029240512
-
14-3-3 proteins: hot numbers in signal transduction
-
Burbelo, P. D., and A. Hall. 1995. 14-3-3 proteins: hot numbers in signal transduction. Curr. Biol. 5:95-96.
-
(1995)
Curr. Biol.
, vol.5
, pp. 95-96
-
-
Burbelo, P.D.1
Hall, A.2
-
17
-
-
77955842436
-
Fisher's model and the genomics of adaptation: restricted pleiotropy, heterogenous mutation, and parallel evolution
-
Chevin, L.-M., G. Martin, and T. Lenormand. 2010. Fisher's model and the genomics of adaptation: restricted pleiotropy, heterogenous mutation, and parallel evolution. Evolution 64:3213-3231.
-
(2010)
Evolution
, vol.64
, pp. 3213-3231
-
-
Chevin, L.-M.1
Martin, G.2
Lenormand, T.3
-
18
-
-
84861135633
-
Optimization of gene expression through divergent mutational paths
-
Chou, H.-H., and C. J. Marx. 2012. Optimization of gene expression through divergent mutational paths. Cell Rep. 1:133-140.
-
(2012)
Cell Rep.
, vol.1
, pp. 133-140
-
-
Chou, H.-H.1
Marx, C.J.2
-
19
-
-
34447337260
-
C4 photosynthesis evolved in grasses via parallel adaptive genetic changes
-
Christin, P.-A., N. Salamin, V. Savolainen, M. R. Duvall, and G. Besnard. 2007. C4 photosynthesis evolved in grasses via parallel adaptive genetic changes. Curr. Biol. 17:1241-1247.
-
(2007)
Curr. Biol.
, vol.17
, pp. 1241-1247
-
-
Christin, P.-A.1
Salamin, N.2
Savolainen, V.3
Duvall, M.R.4
Besnard, G.5
-
20
-
-
84864885457
-
14-3-3 protects against stress-induced apoptosis
-
Clapp, C., L. Portt, C. Khoury, S. Sheibani, G. Norman, P. Ebner, R. Eid, H. Vali, C. A. Mandato, F. Madeo et al. 2012. 14-3-3 protects against stress-induced apoptosis. Cell Death Dis. 3:e348.
-
(2012)
Cell Death Dis.
, vol.3
-
-
Clapp, C.1
Portt, L.2
Khoury, C.3
Sheibani, S.4
Norman, G.5
Ebner, P.6
Eid, R.7
Vali, H.8
Mandato, C.A.9
Madeo, F.10
-
21
-
-
0030636538
-
Parallel molecular evolution of deletions and nonsense mutations in bacteriophage T7
-
Cunningham, C. W., K. Jeng, J. Husti, M. Badgett, I. J. Molineux, D. M. Hillis, and J. J. Bull. 1997. Parallel molecular evolution of deletions and nonsense mutations in bacteriophage T7. Mol. Biol. Evol. 14:113-116.
-
(1997)
Mol. Biol. Evol.
, vol.14
, pp. 113-116
-
-
Cunningham, C.W.1
Jeng, K.2
Husti, J.3
Badgett, M.4
Molineux, I.J.5
Hillis, D.M.6
Bull, J.J.7
-
22
-
-
84879401473
-
Multiple genomic changes associated with reorganization of gene regulation and adaptation in yeast
-
David, L., Y. Ben-Harosh, E. Stolovicki, L. S. Moore, M. Nguyen, R. Tamse, J. Dean, E. Mancera, L. M. Steinmetz, and E. Braun. 2013. Multiple genomic changes associated with reorganization of gene regulation and adaptation in yeast. Mol. Biol. Evol. 30:1514-1526.
-
(2013)
Mol. Biol. Evol.
, vol.30
, pp. 1514-1526
-
-
David, L.1
Ben-Harosh, Y.2
Stolovicki, E.3
Moore, L.S.4
Nguyen, M.5
Tamse, R.6
Dean, J.7
Mancera, E.8
Steinmetz, L.M.9
Braun, E.10
-
23
-
-
23944490117
-
Missense meanderings in sequence space: a biophysical view of protein evolution
-
DePristo, M. A., D. M. Weinreich, and D. L. Hartl. 2005. Missense meanderings in sequence space: a biophysical view of protein evolution. Nat. Rev. Genet. 6:678-687.
-
(2005)
Nat. Rev. Genet.
, vol.6
, pp. 678-687
-
-
DePristo, M.A.1
Weinreich, D.M.2
Hartl, D.L.3
-
24
-
-
84860591356
-
Analysis of the Saccharomyces cerevisiae pan-genome reveals a pool of copy number variants distributed in diverse yeast strains from differing industrial environments
-
Dunn, B., C. Richter, D. J. Kvitek, T. Pugh, and G. Sherlock. 2012. Analysis of the Saccharomyces cerevisiae pan-genome reveals a pool of copy number variants distributed in diverse yeast strains from differing industrial environments. Genome Res. 22:908-924.
-
(2012)
Genome Res.
, vol.22
, pp. 908-924
-
-
Dunn, B.1
Richter, C.2
Kvitek, D.J.3
Pugh, T.4
Sherlock, G.5
-
25
-
-
84855269223
-
Divergence and convergence in enzyme evolution: parallel evolution of paraoxonases from quorum-quenching lactonases
-
Elias, M., and D. S. Tawfik. 2012. Divergence and convergence in enzyme evolution: parallel evolution of paraoxonases from quorum-quenching lactonases. J. Biol. Chem. 287:11-20.
-
(2012)
J. Biol. Chem.
, vol.287
, pp. 11-20
-
-
Elias, M.1
Tawfik, D.S.2
-
26
-
-
79956051868
-
Adaptation in the age of ecological genomics: insights from parallelism and convergence
-
Elmer, K. R., and A. Meyer. 2011. Adaptation in the age of ecological genomics: insights from parallelism and convergence. Trends Ecol. Evol. 26:298-306.
-
(2011)
Trends Ecol. Evol.
, vol.26
, pp. 298-306
-
-
Elmer, K.R.1
Meyer, A.2
-
27
-
-
84858631162
-
From the cover: constraint shapes convergence in tetrodotoxin-resistant sodium channels of snakes
-
Feldman, C. R., E. D. Brodie, E. D. Brodie, and M. E. Pfrender. 2012. From the cover: constraint shapes convergence in tetrodotoxin-resistant sodium channels of snakes. Proc. Natl. Acad. Sci. USA 109:4556-4561.
-
(2012)
Proc. Natl. Acad. Sci. USA
, vol.109
, pp. 4556-4561
-
-
Feldman, C.R.1
Brodie, E.D.2
Brodie, E.D.3
Pfrender, M.E.4
-
28
-
-
25844495901
-
Parallel adaptive evolution cultures of Escherichia coli lead to convergent growth phenotypes with different gene expression states
-
Fong, S. S., A. R. Joyce, and B. Ø. Palsson. 2005. Parallel adaptive evolution cultures of Escherichia coli lead to convergent growth phenotypes with different gene expression states. Genome Res. 15:1365-1372.
-
(2005)
Genome Res.
, vol.15
, pp. 1365-1372
-
-
Fong, S.S.1
Joyce, A.R.2
Palsson, B.O.3
-
29
-
-
83055173235
-
Cryptic fitness advantage: diploids invade haploid populations despite lacking any apparent advantage as measured by standard fitness assays
-
Gerstein, A. C., and S. P. Otto. 2011. Cryptic fitness advantage: diploids invade haploid populations despite lacking any apparent advantage as measured by standard fitness assays. PLoS One 6:e26599.
-
(2011)
PLoS One
, vol.6
-
-
Gerstein, A.C.1
Otto, S.P.2
-
30
-
-
67649873296
-
The causes of repeated genetic evolution
-
Gompel, N., and B. Prud'homme. 2009. The causes of repeated genetic evolution. Dev. Biol. 332:36-47.
-
(2009)
Dev. Biol.
, vol.332
, pp. 36-47
-
-
Gompel, N.1
Prud'homme, B.2
-
31
-
-
82555169765
-
Pleiotropic signaling pathways orchestrate yeast development
-
Granek, J. A., Ö. Kayikçi, and P. M. Magwene. 2011. Pleiotropic signaling pathways orchestrate yeast development. Curr. Opin. Microbiol. 14:676-681.
-
(2011)
Curr. Opin. Microbiol.
, vol.14
, pp. 676-681
-
-
Granek, J.A.1
Kayikçi, O.2
Magwene, P.M.3
-
32
-
-
58149166731
-
The repertoire and dynamics of evolutionary adaptations to controlled nutrient-limited environments in yeast
-
Gresham, D., M. M. Desai, C. M. Tucker, H. T. Jenq, D. A. Pai, A. Ward, C. G. DeSevo, D. Botstein, and M. J. Dunham. 2008. The repertoire and dynamics of evolutionary adaptations to controlled nutrient-limited environments in yeast. PLoS Genet. 4:e1000303.
-
(2008)
PLoS Genet.
, vol.4
-
-
Gresham, D.1
Desai, M.M.2
Tucker, C.M.3
Jenq, H.T.4
Pai, D.A.5
Ward, A.6
DeSevo, C.G.7
Botstein, D.8
Dunham, M.J.9
-
33
-
-
84874535714
-
Parallel evolutionary dynamics of adaptive diversification in Escherichia coli
-
Herron, M. D., and M. Doebeli. 2013. Parallel evolutionary dynamics of adaptive diversification in Escherichia coli. PLoS Biol. 11:e1001490.
-
(2013)
PLoS Biol.
, vol.11
-
-
Herron, M.D.1
Doebeli, M.2
-
34
-
-
34247217272
-
Real-time quantitative PCR as an alternative to Southern blot or fluorescence in situ hybridization for detection of gene copy number changes
-
Hoebeeck, J., F. Speleman, and J. Vandesompele. 2007. Real-time quantitative PCR as an alternative to Southern blot or fluorescence in situ hybridization for detection of gene copy number changes. Methods Mol. Biol. 353:205-226.
-
(2007)
Methods Mol. Biol.
, vol.353
, pp. 205-226
-
-
Hoebeeck, J.1
Speleman, F.2
Vandesompele, J.3
-
35
-
-
0037135134
-
Systematic identification of pathways that couple cell growth and division in yeast
-
Jorgensen, P. 2002. Systematic identification of pathways that couple cell growth and division in yeast. Science 297:395-400.
-
(2002)
Science
, vol.297
, pp. 395-400
-
-
Jorgensen, P.1
-
36
-
-
0347917208
-
The contribution of ancestry, chance, and past and ongoing selection to adaptive evolution
-
Joshi, A., R. B. Castillo, and L. D. Mueller. 2003. The contribution of ancestry, chance, and past and ongoing selection to adaptive evolution. J. Genet. 82:147-162.
-
(2003)
J. Genet.
, vol.82
, pp. 147-162
-
-
Joshi, A.1
Castillo, R.B.2
Mueller, L.D.3
-
37
-
-
34347357650
-
Proteomic analysis of in vivo 14-3-3 interactions in the yeast Saccharomyces cerevisiae†
-
Kakiuchi, K., Y. Yamauchi, M. Taoka, M. Iwago, T. Fujita, T. Ito, S.-Y. Song, A. Sakai, T. Isobe, and T. Ichimura. 2007. Proteomic analysis of in vivo 14-3-3 interactions in the yeast Saccharomyces cerevisiae†. Biochemistry 46:7781-7792.
-
(2007)
Biochemistry
, vol.46
, pp. 7781-7792
-
-
Kakiuchi, K.1
Yamauchi, Y.2
Taoka, M.3
Iwago, M.4
Fujita, T.5
Ito, T.6
Song, S.-Y.7
Sakai, A.8
Isobe, T.9
Ichimura, T.10
-
38
-
-
56749107039
-
Molecular characterization of clonal interference during adaptive evolution in asexual populations of Saccharomyces cerevisiae
-
Kao, K. C., and G. Sherlock. 2008. Molecular characterization of clonal interference during adaptive evolution in asexual populations of Saccharomyces cerevisiae. Nat. Genet. 40:1499-1504.
-
(2008)
Nat. Genet.
, vol.40
, pp. 1499-1504
-
-
Kao, K.C.1
Sherlock, G.2
-
39
-
-
82755189551
-
Convergent evolution of phenotypic integration and its alignment with morphological diversification in Caribbean anolis ectomorphs
-
Kolbe, J. J., L. J. Revell, B. Szekely, E. D. Brodie III, and J. B. Losos. 2011. Convergent evolution of phenotypic integration and its alignment with morphological diversification in Caribbean anolis ectomorphs. Evolution 65:3608-3624.
-
(2011)
Evolution
, vol.65
, pp. 3608-3624
-
-
Kolbe, J.J.1
Revell, L.J.2
Szekely, B.3
Brodie III, E.D.4
Losos, J.B.5
-
40
-
-
68149165614
-
Predicting the effects of coding non-synonymous variants on protein function using the SIFT algorithm
-
Kumar, P., S. Henikoff, and P. C. Ng. 2009. Predicting the effects of coding non-synonymous variants on protein function using the SIFT algorithm. Nat. Protoc. 4:1073-1081.
-
(2009)
Nat. Protoc.
, vol.4
, pp. 1073-1081
-
-
Kumar, P.1
Henikoff, S.2
Ng, P.C.3
-
41
-
-
79955590028
-
Reciprocal sign epistasis between frequently experimentally evolved adaptive mutations causes a rugged fitness landscape
-
Kvitek, D. J., and G. Sherlock. 2011. Reciprocal sign epistasis between frequently experimentally evolved adaptive mutations causes a rugged fitness landscape. PLoS Genet. 7:e1002056.
-
(2011)
PLoS Genet.
, vol.7
-
-
Kvitek, D.J.1
Sherlock, G.2
-
42
-
-
84883132678
-
Pervasive genetic hitchhiking and clonal interference in forty evolving yeast populations
-
Lang, G. I., D. P. Rice, M. J. Hickman, E. Sodergren, G. M. Weinstock, D. Botstein, and M. M. Desai. 2013. Pervasive genetic hitchhiking and clonal interference in forty evolving yeast populations. Nature 500:571-574.
-
(2013)
Nature
, vol.500
, pp. 571-574
-
-
Lang, G.I.1
Rice, D.P.2
Hickman, M.J.3
Sodergren, E.4
Weinstock, G.M.5
Botstein, D.6
Desai, M.M.7
-
43
-
-
77949587649
-
Fast and accurate long-read alignment with Burrows-Wheeler transform
-
Li, H., and R. Durbin. 2009. Fast and accurate long-read alignment with Burrows-Wheeler transform. Bioinformatics 26:589-595.
-
(2009)
Bioinformatics
, vol.26
, pp. 589-595
-
-
Li, H.1
Durbin, R.2
-
44
-
-
68549104404
-
The Sequence Alignment/Map format and SAMtools
-
1000 Genome Project Data Processing Subgroup
-
Li, H., B. Handsaker, A. Wysoker, T. Fennell, J. Ruan, N. Homer, G. Marth, G. Abecasis, R. Durbin, and 1000 Genome Project Data Processing Subgroup. 2009. The Sequence Alignment/Map format and SAMtools. Bioinformatics 25:2078-2079.
-
(2009)
Bioinformatics
, vol.25
, pp. 2078-2079
-
-
Li, H.1
Handsaker, B.2
Wysoker, A.3
Fennell, T.4
Ruan, J.5
Homer, N.6
Marth, G.7
Abecasis, G.8
Durbin, R.9
-
45
-
-
62649089109
-
Population genomics of domestic and wild yeasts
-
Liti, G., D. M. Carter, A. M. Moses, J. Warringer, L. Parts, S. A. James, R. P. Davey, I. N. Roberts, A. Burt, V. Koufopanou et al. 2009. Population genomics of domestic and wild yeasts. Nature 458:337-341.
-
(2009)
Nature
, vol.458
, pp. 337-341
-
-
Liti, G.1
Carter, D.M.2
Moses, A.M.3
Warringer, J.4
Parts, L.5
James, S.A.6
Davey, R.P.7
Roberts, I.N.8
Burt, A.9
Koufopanou, V.10
-
46
-
-
67749098058
-
Stepwise acquisition of pyrimethamine resistance in the malaria parasite
-
Lozovsky, E. R., T. Chookajorn, K. M. Brown, M. Imwong, P. J. Shaw, S. Kamchonwongpaisan, D. E. Neafsey, D. M. Weinreich, and D. L. Hartl. 2009. Stepwise acquisition of pyrimethamine resistance in the malaria parasite. Proc. Natl. Acad. Sci. USA 106:12025-12030.
-
(2009)
Proc. Natl. Acad. Sci. USA
, vol.106
, pp. 12025-12030
-
-
Lozovsky, E.R.1
Chookajorn, T.2
Brown, K.M.3
Imwong, M.4
Shaw, P.J.5
Kamchonwongpaisan, S.6
Neafsey, D.E.7
Weinreich, D.M.8
Hartl, D.L.9
-
47
-
-
79952129813
-
Outcrossing, mitotic recombination, and life-history trade-offs shape genome evolution in Saccharomyces cerevisiae
-
Magwene, P. M., O. Kayikci, J. A. Granek, J. M. Reininga, Z. Scholl, and D. Murray. 2011. Outcrossing, mitotic recombination, and life-history trade-offs shape genome evolution in Saccharomyces cerevisiae. Proc. Natl. Acad. Sci. USA 108:1987-1992.
-
(2011)
Proc. Natl. Acad. Sci. USA
, vol.108
, pp. 1987-1992
-
-
Magwene, P.M.1
Kayikci, O.2
Granek, J.A.3
Reininga, J.M.4
Scholl, Z.5
Murray, D.6
-
48
-
-
77956477299
-
Convergence in pigmentation at multiple levels: mutations, genes and function
-
Manceau, M., V. S. Domingues, C. R. Linnen, E. B. Rosenblum, and H. E. Hoekstra. 2010. Convergence in pigmentation at multiple levels: mutations, genes and function. Philos. Trans. R. Soc. Lond. B 365:2439-2450.
-
(2010)
Philos. Trans. R. Soc. Lond. B
, vol.365
, pp. 2439-2450
-
-
Manceau, M.1
Domingues, V.S.2
Linnen, C.R.3
Rosenblum, E.B.4
Hoekstra, H.E.5
-
49
-
-
12944335238
-
Antiretroviral resistance during successful therapy of HIV type 1 infection
-
Martinez-Picado, J., M. P. DePasquale, N. Kartsonis, G. J. Hanna, J. Wong, D. Finzi, E. Rosenberg, H. F. Gunthard, L. Sutton, A. Savara et al. 2000. Antiretroviral resistance during successful therapy of HIV type 1 infection. Proc. Natl. Acad. Sci. USA 97:10948-10953.
-
(2000)
Proc. Natl. Acad. Sci. USA
, vol.97
, pp. 10948-10953
-
-
Martinez-Picado, J.1
DePasquale, M.P.2
Kartsonis, N.3
Hanna, G.J.4
Wong, J.5
Finzi, D.6
Rosenberg, E.7
Gunthard, H.F.8
Sutton, L.9
Savara, A.10
-
50
-
-
77956295988
-
The Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data
-
McKenna, A., M. Hanna, E. Banks, A. Sivachenko, K. Cibulskis, A. Kernytsky, K. Garimella, D. Altshuler, S. Gabriel, M. Daly et al. 2010. The Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data. Genome Res. 20:1297-1303.
-
(2010)
Genome Res.
, vol.20
, pp. 1297-1303
-
-
McKenna, A.1
Hanna, M.2
Banks, E.3
Sivachenko, A.4
Cibulskis, K.5
Kernytsky, A.6
Garimella, K.7
Altshuler, D.8
Gabriel, S.9
Daly, M.10
-
51
-
-
84856269684
-
Multiple genetic pathways to similar fitness limits during viral adaptation to a new host
-
Nguyen, A. H., I. J. Molineux, R. Springman, and J. J. Bull. 2012. Multiple genetic pathways to similar fitness limits during viral adaptation to a new host. Evolution 66:363-374.
-
(2012)
Evolution
, vol.66
, pp. 363-374
-
-
Nguyen, A.H.1
Molineux, I.J.2
Springman, R.3
Bull, J.J.4
-
52
-
-
67651119869
-
Fitness and its role in evolutionary genetics
-
Orr, H. A. 2009. Fitness and its role in evolutionary genetics. Nat. Rev. Genet. 10:531-539.
-
(2009)
Nat. Rev. Genet.
, vol.10
, pp. 531-539
-
-
Orr, H.A.1
-
53
-
-
37349107011
-
The genetic basis of parallel and divergent phenotypic responses in evolving populations of Escherichia coli
-
Ostrowski, E. A., R. J. Woods, and R. E. Lenski. 2008. The genetic basis of parallel and divergent phenotypic responses in evolving populations of Escherichia coli. Proc. R. Soc. Lond. B 275:277-284.
-
(2008)
Proc. R. Soc. Lond. B
, vol.275
, pp. 277-284
-
-
Ostrowski, E.A.1
Woods, R.J.2
Lenski, R.E.3
-
54
-
-
84885574505
-
Genome-wide signatures of convergent evolution in echolocating mammals
-
Parker, J., G. Tsagkogeorga, J. A. Cotton, Y. Liu, P. Provero, E. Stupka, and S. J. Rossiter. 2013. Genome-wide signatures of convergent evolution in echolocating mammals. Nature. 502:228-231.
-
(2013)
Nature
, vol.502
, pp. 228-231
-
-
Parker, J.1
Tsagkogeorga, G.2
Cotton, J.A.3
Liu, Y.4
Provero, P.5
Stupka, E.6
Rossiter, S.J.7
-
55
-
-
79958827857
-
Parallel evolution and phenotypic divergence in lichenized fungi: a case study in the lichen-forming fungal family Graphidaceae (Ascomycota: Lecanoromycetes: Ostropales)
-
Plata, E. R., and H. T. Lumbsch. 2011. Parallel evolution and phenotypic divergence in lichenized fungi: a case study in the lichen-forming fungal family Graphidaceae (Ascomycota: Lecanoromycetes: Ostropales). Mol. Phylogenet. Evol. 61:45-63.
-
(2011)
Mol. Phylogenet. Evol.
, vol.61
, pp. 45-63
-
-
Plata, E.R.1
Lumbsch, H.T.2
-
56
-
-
44649151205
-
Evolutionary genomics of host adaptation in vesicular stomatitis virus
-
Remold, S. K., A. Rambaut, and P. E. Turner. 2008. Evolutionary genomics of host adaptation in vesicular stomatitis virus. Mol. Biol. Evol. 25:1138-1147.
-
(2008)
Mol. Biol. Evol.
, vol.25
, pp. 1138-1147
-
-
Remold, S.K.1
Rambaut, A.2
Turner, P.E.3
-
59
-
-
76649130556
-
From the cover: molecular and functional basis of phenotypic convergence in white lizards at White Sands
-
Rosenblum, E. B., H. Rompler, T. Schoneberg, and H. E. Hoekstra. 2010. From the cover: molecular and functional basis of phenotypic convergence in white lizards at White Sands. Proc. Natl. Acad. Sci. USA 107:2113-2117.
-
(2010)
Proc. Natl. Acad. Sci. USA
, vol.107
, pp. 2113-2117
-
-
Rosenblum, E.B.1
Rompler, H.2
Schoneberg, T.3
Hoekstra, H.E.4
-
60
-
-
79955879462
-
Parallel evolution of the make-accumulate-consume strategy in Saccharomyces and Dekkera yeasts
-
Rozpedowska, E., L. Hellborg, O. P. Ishchuk, F. Orhan, S. Galafassi, A. Merico, M. Woolfit, C. Compagno, and J. Piškur. 2011. Parallel evolution of the make-accumulate-consume strategy in Saccharomyces and Dekkera yeasts. Nat. Commun. 2:302.
-
(2011)
Nat. Commun.
, vol.2
, pp. 302
-
-
Rozpedowska, E.1
Hellborg, L.2
Ishchuk, O.P.3
Orhan, F.4
Galafassi, S.5
Merico, A.6
Woolfit, M.7
Compagno, C.8
Piškur, J.9
-
61
-
-
0029838036
-
Adaptive radiation along genetic lines of least resistance
-
Schluter, D. 1996. Adaptive radiation along genetic lines of least resistance. Evolution 50:1766-1774.
-
(1996)
Evolution
, vol.50
, pp. 1766-1774
-
-
Schluter, D.1
-
62
-
-
45349092077
-
Ant" and "Grasshopper" life-history strategies in Saccharomyces cerevisiae
-
Spor, A., S. Wang, C. Dillmann, D. de Vienne, and D. Sicard. 2008. "Ant" and "Grasshopper" life-history strategies in Saccharomyces cerevisiae. PLoS One 3:e1579.
-
(2008)
PLoS One
, vol.3
-
-
Spor, A.1
Wang, S.2
Dillmann, C.3
de Vienne, D.4
Sicard, D.5
-
63
-
-
74049104785
-
Niche-driven evolution of metabolic and life-history strategies in natural and domesticated populations of Saccharomyces cerevisiae
-
Spor, A., T. Nidelet, J. Simon, A. Bourgais, D.deVienne, and D. Sicard. 2009. Niche-driven evolution of metabolic and life-history strategies in natural and domesticated populations of Saccharomyces cerevisiae. BMC Evol. Biol. 9:296.
-
(2009)
BMC Evol. Biol.
, vol.9
, pp. 296
-
-
Spor, A.1
Nidelet, T.2
Simon, J.3
Bourgais, A.4
deVienne, D.5
Sicard, D.6
-
64
-
-
84860796165
-
Evidence for evolutionary convergence at MHC in two broadly distributed mesocarnivores
-
Srithayakumar, V., S. Castillo, J. Mainguy, and C. J. Kyle. 2011. Evidence for evolutionary convergence at MHC in two broadly distributed mesocarnivores. Immunogenetics 64:289-301.
-
(2011)
Immunogenetics
, vol.64
, pp. 289-301
-
-
Srithayakumar, V.1
Castillo, S.2
Mainguy, J.3
Kyle, C.J.4
-
65
-
-
57749199108
-
The genetic basis of phenotypic convergence in beach mice: similar pigment patterns but different genes
-
Steiner, C. C., H. Rompler, L. M. Boettger, T. Schoneberg, and H. E. Hoekstra. 2009. The genetic basis of phenotypic convergence in beach mice: similar pigment patterns but different genes. Mol. Biol. Evol. 26:35-45.
-
(2009)
Mol. Biol. Evol.
, vol.26
, pp. 35-45
-
-
Steiner, C.C.1
Rompler, H.2
Boettger, L.M.3
Schoneberg, T.4
Hoekstra, H.E.5
-
66
-
-
84856258903
-
The molecular diversity of adaptive convergence
-
Tenaillon, O., A. Rodriguez-Verdugo, R. L. Gaut, P. McDonald, A. F. Bennett, A. D. Long, and B. S. Gaut. 2012. The molecular diversity of adaptive convergence. Science 335:457-461.
-
(2012)
Science
, vol.335
, pp. 457-461
-
-
Tenaillon, O.1
Rodriguez-Verdugo, A.2
Gaut, R.L.3
McDonald, P.4
Bennett, A.F.5
Long, A.D.6
Gaut, B.S.7
-
67
-
-
59149100147
-
Experimental evolution reveals natural selection on standing genetic variation
-
Teotónio, H., I. M. Chelo, M. Bradić, M. R. Rose, and A. D. Long. 2009. Experimental evolution reveals natural selection on standing genetic variation. Nat. Genet. 41:251-257.
-
(2009)
Nat. Genet.
, vol.41
, pp. 251-257
-
-
Teotónio, H.1
Chelo, I.M.2
Bradić, M.3
Rose, M.R.4
Long, A.D.5
-
68
-
-
0028977087
-
Experimental tests of the roles of adaptation, chance, and history in evolution
-
Travisano, M., J. A. Mongold, A. F. Bennett, and R. E. Lenski. 2005. Experimental tests of the roles of adaptation, chance, and history in evolution. Science 267:87-90.
-
(2005)
Science
, vol.267
, pp. 87-90
-
-
Travisano, M.1
Mongold, J.A.2
Bennett, A.F.3
Lenski, R.E.4
-
69
-
-
0004265596
-
-
Treco. In F. M. Ausubel, R. Brent, R. E. Kingston, D.D. Moore, J. G. Seidman, J. A. Smith, and K. Struhl, eds. John Wiley, NY.
-
Treco. 1987. Current protocols in molecular biology. In F. M. Ausubel, R. Brent, R. E. Kingston, D.D. Moore, J. G. Seidman, J. A. Smith, and K. Struhl, eds. John Wiley, NY.
-
(1987)
Current protocols in molecular biology
-
-
-
70
-
-
0035051264
-
Developmental system drift and flexibility in evolutionary trajectories
-
True, J. R., and E. S. Haag. 2001. Developmental system drift and flexibility in evolutionary trajectories. Evol. Dev. 3:109-119.
-
(2001)
Evol. Dev.
, vol.3
, pp. 109-119
-
-
True, J.R.1
Haag, E.S.2
-
71
-
-
70349820126
-
14-3-3 proteins: insights from genome-wide studies in yeast
-
Van Heusden, G. P. H. 2009. 14-3-3 proteins: insights from genome-wide studies in yeast. Genomics 94:287-293.
-
(2009)
Genomics
, vol.94
, pp. 287-293
-
-
Van Heusden, G.P.H.1
-
73
-
-
0026646041
-
Inactivation of the protein phosphatase 2A regulatory subunit A results in morphological and transcriptional defects in Saccharomyces cerevisiae
-
Van Zyl, W., W. Huang, A. A. Sneddon, M. Stark, S. Camier, M. Werner, C. Marck, A. Sentenac, and J. R. Broach. 1992. Inactivation of the protein phosphatase 2A regulatory subunit A results in morphological and transcriptional defects in Saccharomyces cerevisiae. Mol. Cell. Biol. 12:4946-4959.
-
(1992)
Mol. Cell. Biol.
, vol.12
, pp. 4946-4959
-
-
Van Zyl, W.1
Huang, W.2
Sneddon, A.A.3
Stark, M.4
Camier, S.5
Werner, M.6
Marck, C.7
Sentenac, A.8
Broach, J.R.9
-
74
-
-
84860186414
-
Role of individual phosphorylation sites for the 14-3-3-protein-dependent activation of yeast neutral trehalase Nth1
-
Veisova, D., E. Macakova, L. Rezabkova, M. Sulc, P. Vacha, H. Sychrova, T. Obsil, and V. Obsilova. 2012. Role of individual phosphorylation sites for the 14-3-3-protein-dependent activation of yeast neutral trehalase Nth1. Biochem. J. 443:663-670.
-
(2012)
Biochem. J.
, vol.443
, pp. 663-670
-
-
Veisova, D.1
Macakova, E.2
Rezabkova, L.3
Sulc, M.4
Vacha, P.5
Sychrova, H.6
Obsil, T.7
Obsilova, V.8
-
75
-
-
34147104969
-
A faster circular binary segmentation algorithm for the analysis of array CGH data
-
Venkatraman, E. S., and A. B. Olshen. 2007. A faster circular binary segmentation algorithm for the analysis of array CGH data. Bioinformatics 23:657-663.
-
(2007)
Bioinformatics
, vol.23
, pp. 657-663
-
-
Venkatraman, E.S.1
Olshen, A.B.2
-
76
-
-
71549119492
-
Deleting the 14-3-3 protein BMH1 extends life span in Saccharomyces cerevisiae by increasing stress response
-
Wang, C., C. Skinner, E. Easlon, and S.-J. Lin. 2009. Deleting the 14-3-3 protein BMH1 extends life span in Saccharomyces cerevisiae by increasing stress response. Genetics 183:1373-1384.
-
(2009)
Genetics
, vol.183
, pp. 1373-1384
-
-
Wang, C.1
Skinner, C.2
Easlon, E.3
Lin, S.-J.4
-
77
-
-
79551488286
-
Switch between life history strategies due to changes in glycolytic enzyme gene dosage in Saccharomyces cerevisiae
-
Wang, S., A. Spor, T. Nidelet, P. Montalent, C. Dillmann, D. de Vienne, and D. Sicard. 2011. Switch between life history strategies due to changes in glycolytic enzyme gene dosage in Saccharomyces cerevisiae. Appl. Environ. Microbiol. 77:452-459.
-
(2011)
Appl. Environ. Microbiol.
, vol.77
, pp. 452-459
-
-
Wang, S.1
Spor, A.2
Nidelet, T.3
Montalent, P.4
Dillmann, C.5
de Vienne, D.6
Sicard, D.7
-
78
-
-
33645666942
-
Darwinian evolution can follow only very few mutational paths to fitter proteins
-
Weinreich, D. M. 2006. Darwinian evolution can follow only very few mutational paths to fitter proteins. Science 312:111-114.
-
(2006)
Science
, vol.312
, pp. 111-114
-
-
Weinreich, D.M.1
-
79
-
-
80052324811
-
Hunger artists: yeast adapted to carbon limitation show trade-offs under carbon sufficiency
-
Wenger, J. W., J. Piotrowski, S. Nagarajan, K. Chiotti, G. Sherlock, and F. Rosenzweig. 2011. Hunger artists: yeast adapted to carbon limitation show trade-offs under carbon sufficiency. PLoS Genet. 7:e1002202.
-
(2011)
PLoS Genet.
, vol.7
-
-
Wenger, J.W.1
Piotrowski, J.2
Nagarajan, S.3
Chiotti, K.4
Sherlock, G.5
Rosenzweig, F.6
-
80
-
-
0033575348
-
Different trajectories of parallel evolution during viral adaptation
-
Wichman, H. A. 1999. Different trajectories of parallel evolution during viral adaptation. Science 285:422-424.
-
(1999)
Science
, vol.285
, pp. 422-424
-
-
Wichman, H.A.1
-
81
-
-
20444382446
-
Adaptive molecular evolution for 13,000 phage generations: a possible arms race
-
Wichman, H. A., J. Wichman, and J. J. Bull. 2005. Adaptive molecular evolution for 13, 000 phage generations: a possible arms race. Genetics 170:19-31.
-
(2005)
Genetics
, vol.170
, pp. 19-31
-
-
Wichman, H.A.1
Wichman, J.2
Bull, J.J.3
-
82
-
-
84866893020
-
Genomics of adaptation during experimental evolution of the opportunistic pathogen Pseudomonas aeruginosa
-
Wong, A., N. Rodrigue, and R. Kassen. 2012. Genomics of adaptation during experimental evolution of the opportunistic pathogen Pseudomonas aeruginosa. PLoS Genet 8:e1002928.
-
(2012)
PLoS Genet
, vol.8
-
-
Wong, A.1
Rodrigue, N.2
Kassen, R.3
-
83
-
-
16344387924
-
Parallel genotypic adaptation: when evolution repeats itself
-
Wood, T. E., J. M. Burke, and L. H. Rieseberg. 2005. Parallel genotypic adaptation: when evolution repeats itself. Genetica 123:157-170.
-
(2005)
Genetica
, vol.123
, pp. 157-170
-
-
Wood, T.E.1
Burke, J.M.2
Rieseberg, L.H.3
-
84
-
-
33751248527
-
Structural basis for protein-protein interactions in the 14-3-3 protein family
-
Yang, X., W. H. Lee, F. Sobott, E. Papagrigoriou, C. Robinson, G. J. Grossmann, M. Sundström, D. Doyle, and J. Elkin. 2006. Structural basis for protein-protein interactions in the 14-3-3 protein family. Proc. Natl. Acad. Sci. USA 103:17237-17242.
-
(2006)
Proc. Natl. Acad. Sci. USA
, vol.103
, pp. 17237-17242
-
-
Yang, X.1
Lee, W.H.2
Sobott, F.3
Papagrigoriou, E.4
Robinson, C.5
Grossmann, G.J.6
Sundström, M.7
Doyle, D.8
Elkin, J.9
-
85
-
-
0030957216
-
Detection of convergent and parallel evolution at the amino acid sequence level
-
Zhang, J., and S. Kumar. 1997. Detection of convergent and parallel evolution at the amino acid sequence level. Mol. Biol. Evol. 14:527-536.
-
(1997)
Mol. Biol. Evol.
, vol.14
, pp. 527-536
-
-
Zhang, J.1
Kumar, S.2
|