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Volumn 10, Issue 2, 2014, Pages

Mapping the Fitness Landscape of Gene Expression Uncovers the Cause of Antagonism and Sign Epistasis between Adaptive Mutations

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; BACTERIAL GENE; BACTERIAL GROWTH; BACTERIAL METABOLISM; BACTERIAL MUTATION; BACTERIAL STRAIN; CATALYSIS; CONTROLLED STUDY; EPISTASIS; GENE INTERACTION; GENE MAPPING; GENE MUTATION; GENETIC LINE; GENETIC VARIABILITY; METHYLOBACTERIUM EXTORQUENS; MOLECULAR EVOLUTION; NONHUMAN; PROTEIN EXPRESSION; ADAPTATION; GENE EXPRESSION REGULATION; GENETIC SELECTION; GENETICS; GROWTH, DEVELOPMENT AND AGING; MUTATION; PHENOTYPE; REPRODUCTIVE FITNESS;

EID: 84901742626     PISSN: 15537390     EISSN: 15537404     Source Type: Journal    
DOI: 10.1371/journal.pgen.1004149     Document Type: Article
Times cited : (63)

References (69)
  • 1
    • 0000907353 scopus 로고
    • The roles of mutation, inbreeding, crossbreeding, and selection in evolution
    • Wright S, (1932) The roles of mutation, inbreeding, crossbreeding, and selection in evolution. Proc VIth Int Congress of Genetics 1: 356-366.
    • (1932) Proc VIth Int Congress of Genetics , vol.1 , pp. 356-366
    • Wright, S.1
  • 2
    • 54149088214 scopus 로고    scopus 로고
    • Epistasis - the essential role of gene interactions in the structure and evolution of genetic systems
    • Phillips PC, (2008) Epistasis - the essential role of gene interactions in the structure and evolution of genetic systems. Nat Rev Genet 9: 855-867.
    • (2008) Nat Rev Genet , vol.9 , pp. 855-867
    • Phillips, P.C.1
  • 5
    • 73249126286 scopus 로고    scopus 로고
    • The dynamics of adaptation on correlated fitness landscapes
    • doi: 10.1073/pnas.0905497106
    • Kryazhimskiy S, Tkacik G, Plotkin JB, (2009) The dynamics of adaptation on correlated fitness landscapes. Proc Natl Acad Sci USA 106: 18638-18643 doi:10.1073/pnas.0905497106.
    • (2009) Proc Natl Acad Sci USA , vol.106 , pp. 18638-18643
    • Kryazhimskiy, S.1    Tkacik, G.2    Plotkin, J.B.3
  • 6
    • 79955377903 scopus 로고    scopus 로고
    • Epistasis increases the rate of conditionally neutral substitution in an adapting population
    • doi: 10.1534/genetics.110.125997
    • Draghi JA, Parsons TL, Plotkin JB, (2011) Epistasis increases the rate of conditionally neutral substitution in an adapting population. Genetics 187: 1139-1152 doi:10.1534/genetics.110.125997.
    • (2011) Genetics , vol.187 , pp. 1139-1152
    • Draghi, J.A.1    Parsons, T.L.2    Plotkin, J.B.3
  • 7
    • 84872198240 scopus 로고    scopus 로고
    • Predictability of evolution depends nonmonotonically on population size
    • doi: 10.1073/pnas.1213613110
    • Szendro IG, Franke J, de Visser JAGM, Krug J, (2013) Predictability of evolution depends nonmonotonically on population size. Proc Natl Acad Sci USA 110: 571-576 doi:10.1073/pnas.1213613110.
    • (2013) Proc Natl Acad Sci USA , vol.110 , pp. 571-576
    • Szendro, I.G.1    Franke, J.2    de Visser, J.A.G.M.3    Krug, J.4
  • 8
    • 68549127130 scopus 로고    scopus 로고
    • Exploring the effect of sex on empirical fitness landscapes
    • doi: 10.1086/599081
    • deVisser JAGM, Park SC, Krug J, (2009) Exploring the effect of sex on empirical fitness landscapes. Am Nat 174: S15-30 doi:10.1086/599081.
    • (2009) Am Nat , vol.174
    • deVisser, J.A.G.M.1    Park, S.C.2    Krug, J.3
  • 9
    • 7444221704 scopus 로고    scopus 로고
    • The contribution of epistasis to the architecture of fitness in an RNA virus
    • Sanjuán R, Moya A, Elena SF, (2004) The contribution of epistasis to the architecture of fitness in an RNA virus. Proc Natl Acad Sci USA 101: 15376-15379.
    • (2004) Proc Natl Acad Sci USA , vol.101 , pp. 15376-15379
    • Sanjuán, R.1    Moya, A.2    Elena, S.F.3
  • 10
    • 79957958115 scopus 로고    scopus 로고
    • Diminishing returns epistasis among beneficial mutations decelerates adaptation
    • doi: 10.1126/science.1203799
    • Chou H-H, Chiu H-C, Delaney NF, Segrè D, Marx CJ, (2011) Diminishing returns epistasis among beneficial mutations decelerates adaptation. Science 332: 1190-1192 doi:10.1126/science.1203799.
    • (2011) Science , vol.332 , pp. 1190-1192
    • Chou, H.-H.1    Chiu, H.-C.2    Delaney, N.F.3    Segrè, D.4    Marx, C.J.5
  • 11
    • 79957948242 scopus 로고    scopus 로고
    • Negative epistasis between beneficial mutations in an evolving bacterial population
    • Khan AI, Dinh DM, Schneider D, Lenski RE, Cooper TF, (2011) Negative epistasis between beneficial mutations in an evolving bacterial population. Science 332: 1193-1196.
    • (2011) Science , vol.332 , pp. 1193-1196
    • Khan, A.I.1    Dinh, D.M.2    Schneider, D.3    Lenski, R.E.4    Cooper, T.F.5
  • 12
    • 79959826609 scopus 로고    scopus 로고
    • Epistasis between beneficial mutations and the phenotype-to-fitness map for a ssDNA virus
    • doi: 10.1371/journal.pgen.1002075
    • Rokyta DR, Joyce P, Caudle SB, Miller C, Beisel CJ, et al. (2011) Epistasis between beneficial mutations and the phenotype-to-fitness map for a ssDNA virus. PLoS Genet 7: e1002075 doi:10.1371/journal.pgen.1002075.
    • (2011) PLoS Genet , vol.7
    • Rokyta, D.R.1    Joyce, P.2    Caudle, S.B.3    Miller, C.4    Beisel, C.J.5
  • 13
    • 84883555097 scopus 로고    scopus 로고
    • Epistatic interactions determine the mutational pathways and coexistence of lineages in clonal Escherichia coli populations
    • doi: 10.1111/evo.12137
    • Maharjan RP, Ferenci T, (2013) Epistatic interactions determine the mutational pathways and coexistence of lineages in clonal Escherichia coli populations. Evolution 67: 2762-2768 doi:10.1111/evo.12137.
    • (2013) Evolution , vol.67 , pp. 2762-2768
    • Maharjan, R.P.1    Ferenci, T.2
  • 14
    • 70349690200 scopus 로고    scopus 로고
    • Fast growth increases the selective advantage of a mutation arising recurrently during evolution under metal limitation
    • doi: 10.1371/journal.pgen.1000652
    • Chou H-H, Berthet J, Marx CJ, (2009) Fast growth increases the selective advantage of a mutation arising recurrently during evolution under metal limitation. PLoS Genet 5: e1000652 doi:10.1371/journal.pgen.1000652.
    • (2009) PLoS Genet , vol.5
    • Chou, H.-H.1    Berthet, J.2    Marx, C.J.3
  • 15
    • 79955590028 scopus 로고    scopus 로고
    • Reciprocal sign epistasis between frequently experimentally evolved adaptive mutations causes a rugged fitness landscape
    • doi: 10.1371/journal.pgen.1002056
    • Kvitek DJ, Sherlock G, (2011) Reciprocal sign epistasis between frequently experimentally evolved adaptive mutations causes a rugged fitness landscape. PLoS Genet 7: e1002056 doi:10.1371/journal.pgen.1002056.
    • (2011) PLoS Genet , vol.7
    • Kvitek, D.J.1    Sherlock, G.2
  • 16
    • 21044435697 scopus 로고    scopus 로고
    • Perspective: Sign epistasis and genetic constraint on evolutionary trajectories
    • Weinreich DM, Watson RA, Chao L, (2005) Perspective: Sign epistasis and genetic constraint on evolutionary trajectories. Evolution 59: 1165-1174.
    • (2005) Evolution , vol.59 , pp. 1165-1174
    • Weinreich, D.M.1    Watson, R.A.2    Chao, L.3
  • 17
    • 84887613917 scopus 로고    scopus 로고
    • Patterns of epistasis between beneficial mutations in an antibiotic resistance gene
    • doi: 10.1093/molbev/mst096
    • Schenk MF, Szendro IG, Salverda ML, Krug J, de Visser JAGM, (2013) Patterns of epistasis between beneficial mutations in an antibiotic resistance gene. Mol Biol Evol 30: 1779-1787 doi:10.1093/molbev/mst096.
    • (2013) Mol Biol Evol , vol.30 , pp. 1779-1787
    • Schenk, M.F.1    Szendro, I.G.2    Salverda, M.L.3    Krug, J.4    de Visser, J.A.G.M.5
  • 19
    • 34047099379 scopus 로고    scopus 로고
    • Distributions of epistasis in microbes fit predictions from a fitness landscape model
    • Martin G, Elena SF, Lenormand T, (2007) Distributions of epistasis in microbes fit predictions from a fitness landscape model. 39: 555-560.
    • (2007) , vol.39 , pp. 555-560
    • Martin, G.1    Elena, S.F.2    Lenormand, T.3
  • 22
    • 0034500083 scopus 로고    scopus 로고
    • Molecular-functional studies of adaptive genetic variation in prokaryotes and eukaryotes
    • Watt WB, Dean AM, (2000) Molecular-functional studies of adaptive genetic variation in prokaryotes and eukaryotes. Annu Rev Genet 34: 593-622.
    • (2000) Annu Rev Genet , vol.34 , pp. 593-622
    • Watt, W.B.1    Dean, A.M.2
  • 23
    • 0027463626 scopus 로고
    • Do deleterious mutations act synergistically? Metabolic control theory provides a partial answer
    • Szathmary E, (1993) Do deleterious mutations act synergistically? Metabolic control theory provides a partial answer. Genetics 133: 127-132.
    • (1993) Genetics , vol.133 , pp. 127-132
    • Szathmary, E.1
  • 24
    • 0030574102 scopus 로고    scopus 로고
    • Metabolic models of selection response
    • Keightley PD, (1996) Metabolic models of selection response. J Theor Biol 182: 311-316.
    • (1996) J Theor Biol , vol.182 , pp. 311-316
    • Keightley, P.D.1
  • 25
    • 45149128433 scopus 로고    scopus 로고
    • The cost of expression of Escherichia coli lac operon proteins in in the process, not in the products
    • doi: 10.1534/genetics.107.085399
    • Stoebel DM, Dean AM, Dykhuizen DE, (2008) The cost of expression of Escherichia coli lac operon proteins in in the process, not in the products. Genetics 178: 1653-1660 doi:10.1534/genetics.107.085399.
    • (2008) Genetics , vol.178 , pp. 1653-1660
    • Stoebel, D.M.1    Dean, A.M.2    Dykhuizen, D.E.3
  • 26
    • 23144432213 scopus 로고    scopus 로고
    • Optimality and evolutionary tuning of the expression level of a protein
    • doi: 10.1038/nature03842
    • Dekel E, Alon U, (2005) Optimality and evolutionary tuning of the expression level of a protein. Nature 436: 588-592 doi:10.1038/nature03842.
    • (2005) Nature , vol.436 , pp. 588-592
    • Dekel, E.1    Alon, U.2
  • 27
    • 84878966835 scopus 로고    scopus 로고
    • Glycolytic strategy as a tradeoff between energy yield and protein cost
    • doi: 10.1073/pnas.1215283110
    • Flamholz A, Noor E, Bar-Even A, Liebermeister W, Milo R, (2013) Glycolytic strategy as a tradeoff between energy yield and protein cost. Proc Natl Acad Sci USA 110: 10039-10044 doi:10.1073/pnas.1215283110.
    • (2013) Proc Natl Acad Sci USA , vol.110 , pp. 10039-10044
    • Flamholz, A.1    Noor, E.2    Bar-Even, A.3    Liebermeister, W.4    Milo, R.5
  • 28
    • 0032479058 scopus 로고    scopus 로고
    • C1 transfer enzymes and coenzymes linking methylotrophic bacteria and methanogenic Archaea
    • Chistoserdova L, Vorholt JA, Thauer RK, Lidstrom ME, (1998) C1 transfer enzymes and coenzymes linking methylotrophic bacteria and methanogenic Archaea. Science 281: 99-102.
    • (1998) Science , vol.281 , pp. 99-102
    • Chistoserdova, L.1    Vorholt, J.A.2    Thauer, R.K.3    Lidstrom, M.E.4
  • 29
    • 0345097575 scopus 로고    scopus 로고
    • Formaldehyde-detoxifying role of the tetrahydromethanopterin-linked pathway in Methylobacterium extorquens AM1
    • Marx CJ, Chistoserdova L, Lidstrom ME, (2003) Formaldehyde-detoxifying role of the tetrahydromethanopterin-linked pathway in Methylobacterium extorquens AM1. J Bacteriol 185: 7160-7168.
    • (2003) J Bacteriol , vol.185 , pp. 7160-7168
    • Marx, C.J.1    Chistoserdova, L.2    Lidstrom, M.E.3
  • 30
    • 0344235395 scopus 로고    scopus 로고
    • Purification of the formate-tetrahydrofolate ligase from Methylobacterium extorquens AM1 and demonstration of its requirement for methylotrophic growth
    • Marx CJ, Laukel M, Vorholt JA, Lidstrom ME, (2003) Purification of the formate-tetrahydrofolate ligase from Methylobacterium extorquens AM1 and demonstration of its requirement for methylotrophic growth. J Bacteriol 185: 7169-7175.
    • (2003) J Bacteriol , vol.185 , pp. 7169-7175
    • Marx, C.J.1    Laukel, M.2    Vorholt, J.A.3    Lidstrom, M.E.4
  • 31
    • 14544294928 scopus 로고    scopus 로고
    • Flux analysis uncovers the key role of functional redundancy in formaldehyde metabolism
    • Marx CJ, Van Dien SJ, Lidstrom ME, (2005) Flux analysis uncovers the key role of functional redundancy in formaldehyde metabolism. PLoS Biol 3: e16.
    • (2005) PLoS Biol , vol.3
    • Marx, C.J.1    Van Dien, S.J.2    Lidstrom, M.E.3
  • 32
    • 47249109471 scopus 로고    scopus 로고
    • Formate as the main branch point for methylotrophic metabolism in Methylobacterium extorquens AM1
    • doi: 10.1128/JB.oo228-08
    • Crowther GJ, Kosály G, Lidstrom ME, (2008) Formate as the main branch point for methylotrophic metabolism in Methylobacterium extorquens AM1. J Bacteriol 190: 5057-5062 doi:10.1128/JB.oo228-08.
    • (2008) J Bacteriol , vol.190 , pp. 5057-5062
    • Crowther, G.J.1    Kosály, G.2    Lidstrom, M.E.3
  • 33
    • 84876437630 scopus 로고    scopus 로고
    • Synchronous waves of failed soft sweeps in the laboratory: remarkably rampant clonal interference of alleles at a single locus
    • 1534/genetics.112.148502
    • Lee M-C, Marx CJ, (2013) Synchronous waves of failed soft sweeps in the laboratory: remarkably rampant clonal interference of alleles at a single locus. Genetics 193: 943-952 doi:1534/genetics.112.148502.
    • (2013) Genetics , vol.193 , pp. 943-952
    • Lee, M.-C.1    Marx, C.J.2
  • 34
    • 84861135633 scopus 로고    scopus 로고
    • Optimization of gene expression through divergent mutational paths
    • doi: 10.1016/j.celrep.2011.12.003
    • Chou H-H, Marx CJ, (2012) Optimization of gene expression through divergent mutational paths. Cell Rep 1: 133-140 doi:10.1016/j.celrep.2011.12.003.
    • (2012) Cell Rep , vol.1 , pp. 133-140
    • Chou, H.-H.1    Marx, C.J.2
  • 35
    • 70349674312 scopus 로고    scopus 로고
    • Asymmetric, bimodal trade-offs during adaptation of Methylobacterium to distinct growth substrates
    • doi: 10.1111/j.1558-5646.2009.00757.x
    • Lee M-C, Chou H-H, Marx CJ, (2009) Asymmetric, bimodal trade-offs during adaptation of Methylobacterium to distinct growth substrates. Evolution 63: 2816-2830 doi:10.1111/j.1558-5646.2009.00757.x.
    • (2009) Evolution , vol.63 , pp. 2816-2830
    • Lee, M.-C.1    Chou, H.-H.2    Marx, C.J.3
  • 36
    • 0034919014 scopus 로고    scopus 로고
    • Interaction between directional epistasis and average mutational effects
    • Wilke CO, Adami C, (2001) Interaction between directional epistasis and average mutational effects. Proc Biol Sci 268: 1469-1474.
    • (2001) Proc Biol Sci , vol.268 , pp. 1469-1474
    • Wilke, C.O.1    Adami, C.2
  • 37
    • 67849092403 scopus 로고    scopus 로고
    • The evolution of epistasis and its links with genetic robustness, complexity and drift in a phenotypic model of adaptation
    • doi: 10.1534/genetics.108.099127
    • Gros PA, Le Nagard H, Tenaillon O, (2009) The evolution of epistasis and its links with genetic robustness, complexity and drift in a phenotypic model of adaptation. Genetics 182: 277-293 doi:10.1534/genetics.108.099127.
    • (2009) Genetics , vol.182 , pp. 277-293
    • Gros, P.A.1    Le Nagard, H.2    Tenaillon, O.3
  • 38
    • 33645666942 scopus 로고    scopus 로고
    • Darwinian evolution can follow only very few mutational paths to fitter proteins
    • Weinreich DM, Delaney NF, Depristo MA, Hartl DL, (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    Delaney, N.F.2    Depristo, M.A.3    Hartl, D.L.4
  • 39
    • 84886298744 scopus 로고    scopus 로고
    • Selection biases the prevalence and type of epistasis among beneficial substitutions
    • doi: 10.1111/evo.12192
    • Draghi JA, Plotkin J, (2013) Selection biases the prevalence and type of epistasis among beneficial substitutions. Evolution 67: 3120-3131 doi:10.1111/evo.12192.
    • (2013) Evolution , vol.67 , pp. 3120-3131
    • Draghi, J.A.1    Plotkin, J.2
  • 40
    • 0022410121 scopus 로고
    • Limits of adaptation: the evolution of selective neutrality
    • Hartl DL, Dykhuizen DE, Dean AM, (1985) Limits of adaptation: the evolution of selective neutrality. Genetics 111: 655-674.
    • (1985) Genetics , vol.111 , pp. 655-674
    • Hartl, D.L.1    Dykhuizen, D.E.2    Dean, A.M.3
  • 42
    • 0028907619 scopus 로고
    • Gratuitous overexpression of genes in Escherichia coli leads to growth inhibition and ribosome destruction
    • Dong H, Nilsson L, Kurland CG, (1995) Gratuitous overexpression of genes in Escherichia coli leads to growth inhibition and ribosome destruction. J Bacteriol 177: 1497-1504.
    • (1995) J Bacteriol , vol.177 , pp. 1497-1504
    • Dong, H.1    Nilsson, L.2    Kurland, C.G.3
  • 43
    • 27144538817 scopus 로고    scopus 로고
    • The biochemical architecture of an ancient adaptive landscape
    • Lunzer M, Miller SP, Felsheim R, Dean AM, (2005) The biochemical architecture of an ancient adaptive landscape. Science 310: 499-501.
    • (2005) Science , vol.310 , pp. 499-501
    • Lunzer, M.1    Miller, S.P.2    Felsheim, R.3    Dean, A.M.4
  • 44
    • 0032573217 scopus 로고    scopus 로고
    • Directed evolution of a thermostable esterase
    • doi: 10.1073/pnas.95.22.12809
    • Giver L, Gershenson A, Freskgard P-O, Arnold FH, (1998) Directed evolution of a thermostable esterase. Proc Natl Acad Sci USA 95: 12809-12813 doi:10.1073/pnas.95.22.12809.
    • (1998) Proc Natl Acad Sci USA , vol.95 , pp. 12809-12813
    • Giver, L.1    Gershenson, A.2    Freskgard, P.-O.3    Arnold, F.H.4
  • 45
    • 23944490117 scopus 로고    scopus 로고
    • Missense meanderings in sequence space: a biophysical view of protein evolution
    • DePristo MA, Weinreich DM, Hartl DL, (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
  • 46
    • 84866124155 scopus 로고    scopus 로고
    • Epistasis from functional dependence of fitness on underlying traits
    • doi: 10.1098/rspb.2012.1449
    • Chiu H-C, Marx CJ, Segrè D, (2012) Epistasis from functional dependence of fitness on underlying traits. Proc Biol Sci 279: 4156-4164 doi:10.1098/rspb.2012.1449.
    • (2012) Proc Biol Sci , vol.279 , pp. 4156-4164
    • Chiu, H.-C.1    Marx, C.J.2    Segrè, D.3
  • 47
    • 18144405733 scopus 로고    scopus 로고
    • The transcriptional consequences of mutation and natural selection in Caenorhabditis elegans
    • Denver DR, Morris K, Streelman JT, Kim SK, Lynch M, et al. (2005) The transcriptional consequences of mutation and natural selection in Caenorhabditis elegans. Nat Genet 37: 544-548.
    • (2005) Nat Genet , vol.37 , pp. 544-548
    • Denver, D.R.1    Morris, K.2    Streelman, J.T.3    Kim, S.K.4    Lynch, M.5
  • 48
    • 13244251285 scopus 로고    scopus 로고
    • Rates of divergence in gene expression profiles of primates, mice, and flies: stabilizing selection and variability among functional categories
    • Lemos B, Meiklejohn CD, Cáceres M, Hartl DL, (2005) Rates of divergence in gene expression profiles of primates, mice, and flies: stabilizing selection and variability among functional categories. Evolution 59: 126-137.
    • (2005) Evolution , vol.59 , pp. 126-137
    • Lemos, B.1    Meiklejohn, C.D.2    Cáceres, M.3    Hartl, D.L.4
  • 49
    • 19544389317 scopus 로고    scopus 로고
    • Energy constraints on the evolution of gene expression
    • Wagner A, (2005) Energy constraints on the evolution of gene expression. Mol Biol Evol 22: 1365-1374.
    • (2005) Mol Biol Evol , vol.22 , pp. 1365-1374
    • Wagner, A.1
  • 50
    • 59049088893 scopus 로고    scopus 로고
    • Optimization of gene expression by natural selection
    • doi: 10.1073/pnas.0812009106
    • Bedford T, Hartl DL, (2009) Optimization of gene expression by natural selection. Proc Natl Acad Sci USA 106: 1133-1138 doi:10.1073/pnas.0812009106.
    • (2009) Proc Natl Acad Sci USA , vol.106 , pp. 1133-1138
    • Bedford, T.1    Hartl, D.L.2
  • 51
    • 0001214721 scopus 로고
    • The measurement of selection on correlated characters
    • Lande R, Arnold SJ, (1983) The measurement of selection on correlated characters. Evolution 37: 1210-1226.
    • (1983) Evolution , vol.37 , pp. 1210-1226
    • Lande, R.1    Arnold, S.J.2
  • 52
    • 79961148205 scopus 로고    scopus 로고
    • Tradeoffs and optimality in the evolution of gene regulation
    • doi: 10.1016/j.cell.2011.06.035
    • Poelwijk FJ, de Vos MG, Tans SJ, (2011) Tradeoffs and optimality in the evolution of gene regulation. Cell 146: 462-470 doi:10.1016/j.cell.2011.06.035.
    • (2011) Cell , vol.146 , pp. 462-470
    • Poelwijk, F.J.1    de Vos, M.G.2    Tans, S.J.3
  • 53
    • 84868271227 scopus 로고    scopus 로고
    • FREQ-Seq: a rapid, cost-effective, sequencing-based method to determine allele frequencies directly from mixed populations
    • doi: 10.1371/journal.pone.0047959
    • Chubiz LM, Lee M-C, Delaney NF, Marx CJ, (2012) FREQ-Seq: a rapid, cost-effective, sequencing-based method to determine allele frequencies directly from mixed populations. PLoS One 7: e47959 doi:10.1371/journal.pone.0047959.
    • (2012) PLoS One , vol.7
    • Chubiz, L.M.1    Lee, M.-C.2    Delaney, N.F.3    Marx, C.J.4
  • 54
    • 84885774950 scopus 로고    scopus 로고
    • Bounded population sizes, fluctuating selection and the tempo and mode of coexistence
    • doi: 10.1073/pnas.1309830110
    • Yi X, Dean AM, (2013) Bounded population sizes, fluctuating selection and the tempo and mode of coexistence. Proc Natl Acad Sci USA 110: 16945-16950 doi:10.1073/pnas.1309830110.
    • (2013) Proc Natl Acad Sci USA , vol.110 , pp. 16945-16950
    • Yi, X.1    Dean, A.M.2
  • 55
    • 2542583245 scopus 로고    scopus 로고
    • The fate of competing beneficial mutations in an asexual population
    • Gerrish PJ, Lenski RE, (1998) The fate of competing beneficial mutations in an asexual population. Genetica 102-103: 127-144.
    • (1998) Genetica , vol.102-103 , pp. 127-144
    • Gerrish, P.J.1    Lenski, R.E.2
  • 56
    • 79952793415 scopus 로고    scopus 로고
    • Second-order selection for evolvability in a large Escherichia coli population
    • doi: 10.1126/science.1198914
    • Woods RJ, Barrick JE, Cooper TF, Shrestha U, Kauth MR, et al. (2011) Second-order selection for evolvability in a large Escherichia coli population. Science 331: 1433-1436 doi:10.1126/science.1198914.
    • (2011) Science , vol.331 , pp. 1433-1436
    • Woods, R.J.1    Barrick, J.E.2    Cooper, T.F.3    Shrestha, U.4    Kauth, M.R.5
  • 57
    • 79960137718 scopus 로고    scopus 로고
    • Genetic variation and the fate of beneficial mutations in asexual populations
    • doi: 10.1534/genetics.111.128942
    • Lang GI, Botstein D, Desai MM, (2011) Genetic variation and the fate of beneficial mutations in asexual populations. Genetics 188: 647-661 doi:10.1534/genetics.111.128942.
    • (2011) Genetics , vol.188 , pp. 647-661
    • Lang, G.I.1    Botstein, D.2    Desai, M.M.3
  • 58
    • 84883132678 scopus 로고    scopus 로고
    • Pervasive genetic hitchhiking and clonal interference in forty evolving yeast populations
    • doi: 10.1038/nature12344
    • Lang GI, Rice DP, Hickman MJ, Sodergren E, Weinstock GM, et al. (2013) Pervasive genetic hitchhiking and clonal interference in forty evolving yeast populations. Nature 500 (7464) (): 571-4 doi:10.1038/nature12344.
    • (2013) Nature , vol.500 , Issue.7464 , pp. 571-574
    • Lang, G.I.1    Rice, D.P.2    Hickman, M.J.3    Sodergren, E.4    Weinstock, G.M.5
  • 59
    • 84863668598 scopus 로고    scopus 로고
    • Repeated, selection-driven genome reduction of accessory genes in experimental populations
    • doi: 10.1371/journal.pgen.1002651
    • Lee M-C, Marx CJ, (2012) Repeated, selection-driven genome reduction of accessory genes in experimental populations. PLoS Genet 8: e1002651 doi:10.1371/journal.pgen.1002651.
    • (2012) PLoS Genet , vol.8
    • Lee, M.-C.1    Marx, C.J.2
  • 60
    • 84876838057 scopus 로고    scopus 로고
    • Evolution after introduction of a novel metabolic pathway consistently leads to restoration of wild-type physiology
    • doi: 10.1371/journal.pgen.1003427
    • Carroll SM, Marx CJ, (2013) Evolution after introduction of a novel metabolic pathway consistently leads to restoration of wild-type physiology. PLoS Genet 9: e1003427 doi:10.1371/journal.pgen.1003427.
    • (2013) PLoS Genet , vol.9
    • Carroll, S.M.1    Marx, C.J.2
  • 61
    • 58849089274 scopus 로고    scopus 로고
    • Development of a broad-host-range sacB-based vector for unmarked allelic exchange
    • doi: 10.1186/1756-0500-1-1
    • Marx CJ, (2008) Development of a broad-host-range sacB-based vector for unmarked allelic exchange. BMC Res Notes 1: 1 doi:10.1186/1756-0500-1-1.
    • (2008) BMC Res Notes , vol.1 , pp. 1
    • Marx, C.J.1
  • 62
    • 2142801122 scopus 로고    scopus 로고
    • Genetic characterization of the carotenoid biosynthetic pathway in Methylobacterium extorquens AM1 and isolation of a colorless mutant
    • Van Dien SJ, Marx CJ, O'Brien BN, Lidstrom ME, (2003) Genetic characterization of the carotenoid biosynthetic pathway in Methylobacterium extorquens AM1 and isolation of a colorless mutant. Appl Environ Microbiol 69: 7563-7566.
    • (2003) Appl Environ Microbiol , vol.69 , pp. 7563-7566
    • Van Dien, S.J.1    Marx, C.J.2    O'Brien, B.N.3    Lidstrom, M.E.4
  • 63
    • 1642555532 scopus 로고    scopus 로고
    • Development of an insertional expression vector system for Methylobacterium extorquens AM1 and generation of null mutants lacking mtdA and/or fch
    • Marx CJ, Lidstrom ME, (2004) Development of an insertional expression vector system for Methylobacterium extorquens AM1 and generation of null mutants lacking mtdA and/or fch. Microbiol 150: 9-19.
    • (2004) Microbiol , vol.150 , pp. 9-19
    • Marx, C.J.1    Lidstrom, M.E.2
  • 64
    • 0028216615 scopus 로고
    • Genetic organization of the mau gene cluster in Methylobacterium extorquens AM1: complete nucleotide sequence and generation and characteristics of mau mutants
    • Chistoserdov AY, Chistoserdova LV, McIntire WS, Lidstrom ME, (1994) Genetic organization of the mau gene cluster in Methylobacterium extorquens AM1: complete nucleotide sequence and generation and characteristics of mau mutants. J Bacteriol 176: 4052-4065.
    • (1994) J Bacteriol , vol.176 , pp. 4052-4065
    • Chistoserdov, A.Y.1    Chistoserdova, L.V.2    McIntire, W.S.3    Lidstrom, M.E.4
  • 65
    • 0034858690 scopus 로고    scopus 로고
    • Development of improved versatile broad-host-range vectors for use in methylotrophs and other Gram-negative bacteria
    • Marx CJ, Lidstrom ME, (2001) Development of improved versatile broad-host-range vectors for use in methylotrophs and other Gram-negative bacteria. Microbiol 147: 2065-2075.
    • (2001) Microbiol , vol.147 , pp. 2065-2075
    • Marx, C.J.1    Lidstrom, M.E.2
  • 66
    • 0028872476 scopus 로고
    • Isolation, sequencing, and mutagenesis of the gene encoding NAD- and glutathione-dependent formaldehyde dehydrogenase (GD-FALDH) from Paracoccus denitrificans, in which GD-FALDH is essential for methylotrophic growth
    • Ras J, Van Ophem PW, Reijnders WN, Van Spanning RJ, Duine JA, et al. (1995) Isolation, sequencing, and mutagenesis of the gene encoding NAD- and glutathione-dependent formaldehyde dehydrogenase (GD-FALDH) from Paracoccus denitrificans, in which GD-FALDH is essential for methylotrophic growth. J Bacteriol 177: 247-251.
    • (1995) J Bacteriol , vol.177 , pp. 247-251
    • Ras, J.1    Van Ophem, P.W.2    Reijnders, W.N.3    Van Spanning, R.J.4    Duine, J.A.5
  • 67
    • 0029967019 scopus 로고    scopus 로고
    • S-formylglutathione hydrolase of Paracoccus denitrificans is homologous to human esterase D: a universal pathway for formaldehyde detoxification
    • Harms N, Ras J, Reijnders WN, van Spanning RJ, Stouthamer AH, (1996) S-formylglutathione hydrolase of Paracoccus denitrificans is homologous to human esterase D: a universal pathway for formaldehyde detoxification? J Bacteriol 178: 6296-6299.
    • (1996) J Bacteriol , vol.178 , pp. 6296-6299
    • Harms, N.1    Ras, J.2    Reijnders, W.N.3    van Spanning, R.J.4    Stouthamer, A.H.5
  • 68
    • 0017184389 scopus 로고
    • Rapid and sensitive method for the quantification of microgram quantities of protein utilizing the principle of protein-dye binding
    • doi: 10.1016/0003-2697(76)90527-3
    • Bradford MM, (1976) Rapid and sensitive method for the quantification of microgram quantities of protein utilizing the principle of protein-dye binding. Anal Biochem 72: 248-254 doi:10.1016/0003-2697(76)90527-3.
    • (1976) Anal Biochem , vol.72 , pp. 248-254
    • Bradford, M.M.1
  • 69
    • 33646342766 scopus 로고    scopus 로고
    • Quantitative real-time polymerase chain reaction for determination of plasmid copy number in bacteria
    • Lee CL, Ow DS, Oh SK, (2006) Quantitative real-time polymerase chain reaction for determination of plasmid copy number in bacteria. J Microbiol Methods 65: 258-267.
    • (2006) J Microbiol Methods , vol.65 , pp. 258-267
    • Lee, C.L.1    Ow, D.S.2    Oh, S.K.3


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