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mBio
Volumn 6, Issue 5, 2015, Pages
Selective sweeps and parallel pathoadaptation drive pseudomonas aeruginosa evolution in the cystic fibrosis lung
Author keywords

[No Author keywords available]
Indexed keywords

AZITHROMYCIN; AZTREONAM; CEFTAZIDIME; CHLORAMPHENICOL; CIPROFLOXACIN; COLISTIN; GENTAMICIN; METRONIDAZOLE; PIPERACILLIN PLUS TAZOBACTAM; TOBRAMYCIN; BACTERIAL DNA;
EID: 84946595400     PISSN: 21612129     EISSN: 21507511     Source Type: Journal    
DOI: 10.1128/mBio.00981-15     Document Type: Article
Times cited : (109)
References (101)
  • 2
    • 77950682572 scopus 로고    scopus 로고
    • The changing microbial epidemiology in cystic fibrosis
    • Lipuma JJ. 2010. The changing microbial epidemiology in cystic fibrosis. Clin Microbiol Rev 23:299-323. http://dx.doi.org/10.1128/CMR.00068-09.
    • (2010) Clin Microbiol Rev , vol.23 , pp. 299-323
    • Lipuma, J.J.1
  • 3
    • 1942469578 scopus 로고    scopus 로고
    • Increased morbidity associated with chronic infection by an epidemic Pseudomonas aeruginosa strain in CF patients
    • Al-Aloul M, Crawley J, Winstanley C, Hart CA, Ledson MJ, Walshaw MJ. 2004. Increased morbidity associated with chronic infection by an epidemic Pseudomonas aeruginosa strain in CF patients. Thorax 59: 334-336. http://dx.doi.org/10.1136/thx.2003.014258.
    • (2004) Thorax , vol.59 , pp. 334-336
    • Al-Aloul, M.1    Crawley, J.2    Winstanley, C.3    Hart, C.A.4    Ledson, M.J.5    Walshaw, M.J.6
  • 4
    • 84878113691 scopus 로고    scopus 로고
    • Respiratory bacterial infections in cystic fibrosis
    • Ciofu O, Hansen CR, Høiby N. 2013. Respiratory bacterial infections in cystic fibrosis. Curr Opin Pulm Med 19:251-258. http://dx.doi.org/10.1097/MCP.0b013e32835f1afc.
    • (2013) Curr Opin Pulm Med , vol.19 , pp. 251-258
    • Ciofu, O.1    Hansen, C.R.2    Høiby, N.3
  • 5
    • 79959325084 scopus 로고    scopus 로고
    • Use of culture and molecular analysis to determine the effect of antibiotic treatment on microbial community diversity and abundance during exacerbation in patients with cystic fibrosis
    • Tunney MM, Klem ER, Fodor AA, Gilpin DF, Moriarty TF, McGrath SJ, Muhlebach MS, Boucher RC, Cardwell C, Doering G, Elborn JS, Wolfgang MC. 2011. Use of culture and molecular analysis to determine the effect of antibiotic treatment on microbial community diversity and abundance during exacerbation in patients with cystic fibrosis. Thorax 66:579-584. http://dx.doi.org/10.1136/thx.2010.137281.
    • (2011) Thorax , vol.66 , pp. 579-584
    • Tunney, M.M.1    Klem, E.R.2    Fodor, A.A.3    Gilpin, D.F.4    Moriarty, T.F.5    McGrath, S.J.6    Muhlebach, M.S.7    Boucher, R.C.8    Cardwell, C.9    Doering, G.10    Elborn, J.S.11    Wolfgang, M.C.12
  • 6
    • 84866841728 scopus 로고    scopus 로고
    • The adult cystic fibrosis airway microbiota is stable over time and infection type, and highly resilient to antibiotic treatment of exacerbations
    • Fodor AA, Klem ER, Gilpin DF, Elborn JS, Boucher RC, Tunney MM, Wolfgang MC. 2012. The adult cystic fibrosis airway microbiota is stable over time and infection type, and highly resilient to antibiotic treatment of exacerbations. PLoS One 7:e45001. http://dx.doi.org/10.1371/journal.pone.0045001.
    • (2012) Plos One , vol.7
    • Fodor, A.A.1    Klem, E.R.2    Gilpin, D.F.3    Elborn, J.S.4    Boucher, R.C.5    Tunney, M.M.6    Wolfgang, M.C.7
  • 7
    • 22544455625 scopus 로고    scopus 로고
    • Cystic fibrosis sputum supports growth and cues key aspects of Pseudomonas aeruginosa physiology
    • Palmer KL, Mashburn LM, Singh PK, Whiteley M. 2005. Cystic fibrosis sputum supports growth and cues key aspects of Pseudomonas aeruginosa physiology. J Bacteriol 187:5267-5277. http://dx.doi.org/10.1128/JB.187.15.5267-5277.2005.
    • (2005) J Bacteriol , vol.187 , pp. 5267-5277
    • Palmer, K.L.1    Mashburn, L.M.2    Singh, P.K.3    Whiteley, M.4
  • 9
    • 84919475713 scopus 로고    scopus 로고
    • Analysis of changes in diversity and abundance of the microbial community in a cystic fibrosis patient over a multiyear period
    • Stokell JR, Gharaibeh RZ, Hamp TJ, Zapata MJ, Fodor AA, Steck TR. 2015. Analysis of changes in diversity and abundance of the microbial community in a cystic fibrosis patient over a multiyear period. J Clin Microbiol 53:237-247. http://dx.doi.org/10.1128/JCM.02555-14.
    • (2015) J Clin Microbiol , vol.53 , pp. 237-247
    • Stokell, J.R.1    Gharaibeh, R.Z.2    Hamp, T.J.3    Zapata, M.J.4    Fodor, A.A.5    Steck, T.R.6
  • 10
    • 84891351800 scopus 로고    scopus 로고
    • Genetic variation of a bacterial pathogen within individuals with cystic fibrosis provides a record of selective pressures
    • Lieberman TD, Flett KB, Yelin I, Martin TR, McAdam AJ, Priebe GP, Kishony R. 2014. Genetic variation of a bacterial pathogen within individuals with cystic fibrosis provides a record of selective pressures. Nat Genet 46:82-87. http://dx.doi.org/10.1038/ng.2848.
    • (2014) Nat Genet , vol.46 , pp. 82-87
    • Lieberman, T.D.1    Flett, K.B.2    Yelin, I.3    Martin, T.R.4    McAdam, A.J.5    Priebe, G.P.6    Kishony, R.7
  • 11
    • 0042887591 scopus 로고    scopus 로고
    • Antibiotic treatment of multidrug-resistant organisms in cystic fibrosis
    • Conway SP, Brownlee KG, Denton M, Peckham DG. 2003. Antibiotic treatment of multidrug-resistant organisms in cystic fibrosis. Am J Respir Med 2:321-332. http://dx.doi.org/10.1007/BF03256660.
    • (2003) Am J Respir Med , vol.2 , pp. 321-332
    • Conway, S.P.1    Brownlee, K.G.2    Denton, M.3    Peckham, D.G.4
  • 12
    • 33845442495 scopus 로고    scopus 로고
    • Multidrug-resistant organisms in cystic fibrosis: Management and infection-control issues
    • Waters V, Ratjen F. 2006. Multidrug-resistant organisms in cystic fibrosis: management and infection-control issues. Expert Rev Anti Infect Ther 4:807-819. http://dx.doi.org/10.1586/14787210.4.5.807.
    • (2006) Expert Rev Anti Infect Ther , vol.4 , pp. 807-819
    • Waters, V.1    Ratjen, F.2
  • 15
    • 67650685860 scopus 로고    scopus 로고
    • Dynamics of adaptive microevolution of hypermutable Pseudomonas aeruginosa during chronic pulmonary infection in patients with cystic fibrosis
    • Hoboth C, Hoffmann R, Eichner A, Henke C, Schmoldt S, Imhof A, Heesemann J, Hogardt M. 2009. Dynamics of adaptive microevolution of hypermutable Pseudomonas aeruginosa during chronic pulmonary infection in patients with cystic fibrosis. J Infect Dis 200:118-130. http://dx.doi.org/10.1086/599360.
    • (2009) J Infect Dis , vol.200 , pp. 118-130
    • Hoboth, C.1    Hoffmann, R.2    Eichner, A.3    Henke, C.4    Schmoldt, S.5    Imhof, A.6    Heesemann, J.7    Hogardt, M.8
  • 16
    • 78751522378 scopus 로고    scopus 로고
    • Parallel evolution in Pseudomonas aeruginosa over 39,000 generations in vivo
    • Huse HK, Kwon T, Zlosnik JE, Speert DP, Marcotte EM, Whiteley M. 2010. Parallel evolution in Pseudomonas aeruginosa over 39,000 generations in vivo. mBio 1(4):e00199-10. http://dx.doi.org/10.1128/mBio.00199-10.
    • (2010) Mbio , vol.1 , Issue.4
    • Huse, H.K.1    Kwon, T.2    Zlosnik, J.E.3    Speert, D.P.4    Marcotte, E.M.5    Whiteley, M.6
  • 17
    • 77954645140 scopus 로고    scopus 로고
    • Early adaptive developments of Pseudomonas aeruginosa after the transition from life in the environment to persistent colonization in the airways of human cystic fibrosis hosts
    • Rau MH, Hansen SK, Johansen HK, Thomsen LE, Workman CT, Nielsen KF, Jelsbak L, Høiby N, Yang L, Molin S. 2010. Early adaptive developments of Pseudomonas aeruginosa after the transition from life in the environment to persistent colonization in the airways of human cystic fibrosis hosts. Environ Microbiol 12:1643-1658. http://dx.doi.org/10.1111/j.1462-2920.2010.02211.x.
    • (2010) Environ Microbiol , vol.12 , pp. 1643-1658
    • Rau, M.H.1    Hansen, S.K.2    Johansen, H.K.3    Thomsen, L.E.4    Workman, C.T.5    Nielsen, K.F.6    Jelsbak, L.7    Høiby, N.8    Yang, L.9    Molin, S.10
  • 18
    • 79959841531 scopus 로고    scopus 로고
    • Microevolution of the major common Pseudomonas aeruginosa clones C and PA14 in cystic fibrosis lungs
    • Cramer N, Klockgether J, Wrasman K, Schmidt M, Davenport CF, Tümmler B. 2011. Microevolution of the major common Pseudomonas aeruginosa clones C and PA14 in cystic fibrosis lungs. Environ Microbiol 13:1690-1704. http://dx.doi.org/10.1111/j.1462-2920.2011.02483.x.
    • (2011) Environ Microbiol , vol.13 , pp. 1690-1704
    • Cramer, N.1    Klockgether, J.2    Wrasman, K.3    Schmidt, M.4    Davenport, C.F.5    Tümmler, B.6
  • 20
    • 84866380002 scopus 로고    scopus 로고
    • Genomic variation among contemporary Pseudomonas aeruginosa isolates from chronically infected cystic fibrosis patients
    • Chung JC, Becq J, Fraser L, Schulz-Trieglaff O, Bond NJ, Foweraker J, Bruce KD, Smith GP, Welch M. 2012. Genomic variation among contemporary Pseudomonas aeruginosa isolates from chronically infected cystic fibrosis patients. J Bacteriol 194:4857-4866. http://dx.doi.org/10.1128/JB.01050-12.
    • (2012) J Bacteriol , vol.194 , pp. 4857-4866
    • Chung, J.C.1    Becq, J.2    Fraser, L.3    Schulz-Trieglaff, O.4    Bond, N.J.5    Foweraker, J.6    Bruce, K.D.7    Smith, G.P.8    Welch, M.9
  • 21
    • 84864390974 scopus 로고    scopus 로고
    • Deletion and acquisition of genomic content during early stage adaptation of Pseudomonas aeruginosa to a human host environment
    • Rau MH, Marvig RL, Ehrlich GD, Molin S, Jelsbak L. 2012. Deletion and acquisition of genomic content during early stage adaptation of Pseudomonas aeruginosa to a human host environment. Environ Microbiol 14:2200-2211.http://dx.doi.org/10.1111/j.1462-2920.2012.02795.x.
    • (2012) Environ Microbiol , vol.14 , pp. 2200-2211
    • Rau, M.H.1    Marvig, R.L.2    Ehrlich, G.D.3    Molin, S.4    Jelsbak, L.5
  • 22
    • 84891362153 scopus 로고    scopus 로고
    • Evolutionary genomics of epidemic and nonepidemic strains of Pseudomonas aeruginosa
    • Dettman JR, Rodrigue N, Aaron SD, Kassen R. 2013. Evolutionary genomics of epidemic and nonepidemic strains of Pseudomonas aeruginosa. Proc Natl Acad Sci U S A 110:21065-21070. http://dx.doi.org/10.1073/pnas.1307862110.
    • (2013) Proc Natl Acad Sci U S A , vol.110 , pp. 21065-21070
    • Dettman, J.R.1    Rodrigue, N.2    Aaron, S.D.3    Kassen, R.4
  • 23
    • 84880156720 scopus 로고    scopus 로고
    • Microevolution of Pseudomonas aeruginosa to a chronic pathogen of the cystic fibrosis lung
    • Hogardt M, Heesemann J. 2013. Microevolution of Pseudomonas aeruginosa to a chronic pathogen of the cystic fibrosis lung. Curr Top Microbiol Immunol 358:91-118. http://dx.doi.org/10.1007/82_2011 _199.
    • (2013) Curr Top Microbiol Immunol , vol.358 , pp. 91-118
    • Hogardt, M.1    Heesemann, J.2
  • 24
    • 84884679783 scopus 로고    scopus 로고
    • Genome analysis of a transmissible lineage of Pseudomonas aeruginosa reveals pathoadaptive mutations and distinct evolutionary paths of hypermutators
    • Marvig RL, Johansen HK, Molin S, Jelsbak L. 2013. Genome analysis of a transmissible lineage of Pseudomonas aeruginosa reveals pathoadaptive mutations and distinct evolutionary paths of hypermutators. PLoS Genet 9:e1003741. http://dx.doi.org/10.1371/journal.pgen.1003741.
    • (2013) Plos Genet , vol.9
    • Marvig, R.L.1    Johansen, H.K.2    Molin, S.3    Jelsbak, L.4
  • 26
    • 84908338190 scopus 로고    scopus 로고
    • Coexistence and within-host evolution of diversified lineages of hypermutable Pseudomonas aeruginosa in long-term cystic fibrosis infections
    • Feliziani S, Marvig RL, Luján AM, Moyano AJ, Di Rienzo JA, Krogh Johansen H, Molin S, Smania AM. 2014. Coexistence and within-host evolution of diversified lineages of hypermutable Pseudomonas aeruginosa in long-term cystic fibrosis infections. PLoS Genet 10:e1004651. http://dx.doi.org/10.1371/journal.pgen.1004651.
    • (2014) Plos Genet , vol.10
    • Feliziani, S.1    Marvig, R.L.2    Luján, A.M.3    Moyano, A.J.4    Di Rienzo, J.A.5    Krogh Johansen, H.6    Molin, S.7    Smania, A.M.8
  • 28
    • 85028139131 scopus 로고    scopus 로고
    • Convergent evolution and adaptation of Pseudomonas aeruginosa within patients with cystic fibrosis
    • Marvig RL, Sommer LM, Molin S, Johansen HK. 2015. Convergent evolution and adaptation of Pseudomonas aeruginosa within patients with cystic fibrosis. Nat Genet 47:57-64. http://dx.doi.org/10.1038/ ng.3148.
    • (2015) Nat Genet , vol.47 , pp. 57-64
    • Marvig, R.L.1    Sommer, L.M.2    Molin, S.3    Johansen, H.K.4
  • 30
    • 0034063849 scopus 로고    scopus 로고
    • Multiple combination bactericidal antibiotic testing for patients with cystic fibrosis infected with Burkholderia cepacia
    • Aaron SD, Ferris W, Henry DA, Speert DP, Macdonald NE. 2000. Multiple combination bactericidal antibiotic testing for patients with cystic fibrosis infected with Burkholderia cepacia. Am J Respir Crit Care Med 161:1206-1212. http://dx.doi.org/10.1164/ajrccm.161.4.9907147.
    • (2000) Am J Respir Crit Care Med , vol.161 , pp. 1206-1212
    • Aaron, S.D.1    Ferris, W.2    Henry, D.A.3    Speert, D.P.4    MacDonald, N.E.5
  • 31
    • 0016220238 scopus 로고
    • The hitch-hiking effect of a favourable gene
    • Smith M, Haigh J. 1974. The hitch-hiking effect of a favourable gene. Genet Res 23:23-35. http://dx.doi.org/10.1017/S0016672300014634.
    • (1974) Genet Res , vol.23 , pp. 23-35
    • Smith, M.1    Haigh, J.2
  • 32
    • 0030017289 scopus 로고    scopus 로고
    • Punctuated evolution caused by selection of rare beneficial mutations
    • Elena SF, Cooper VS, Lenski RE. 1996. Punctuated evolution caused by selection of rare beneficial mutations. Science 272:1802-1804. http://dx.doi.org/10.1126/science.272.5269.1802.
    • (1996) Science , vol.272 , pp. 1802-1804
    • Elena, S.F.1    Cooper, V.S.2    Lenski, R.E.3
  • 33
    • 0034532082 scopus 로고    scopus 로고
    • Experimental analysis of molecular events during mutational periodic selections in bacterial evolution
    • Notley-McRobb L, Ferenci T. 2000. Experimental analysis of molecular events during mutational periodic selections in bacterial evolution. Genetics 156:1493-1501.
    • (2000) Genetics , vol.156 , pp. 1493-1501
    • Notley-McRobb, L.1    Ferenci, T.2
  • 34
    • 13744257634 scopus 로고    scopus 로고
    • Variation after a selective sweep in a subdivided population
    • Santiago E, Caballero A. 2005. Variation after a selective sweep in a subdivided population. Genetics 169:475-483. http://dx.doi.org/10.1534/genetics.104.032813.
    • (2005) Genetics , vol.169 , pp. 475-483
    • Santiago, E.1    Caballero, A.2
  • 37
    • 84869219279 scopus 로고    scopus 로고
    • Adaptation of Pseudomonas aeruginosa to the cystic fibrosis airway: An evolutionary perspective
    • Folkesson A, Jelsbak L, Yang L, Johansen HK, Ciofu O, Høiby N, Molin S. 2012. Adaptation of Pseudomonas aeruginosa to the cystic fibrosis airway: an evolutionary perspective. Nat Rev Microbiol 10:841-851. http://dx.doi.org/10.1038/nrmicro2907.
    • (2012) Nat Rev Microbiol , vol.10 , pp. 841-851
    • Folkesson, A.1    Jelsbak, L.2    Yang, L.3    Johansen, H.K.4    Ciofu, O.5    Høiby, N.6    Molin, S.7
  • 39
    • 84870020971 scopus 로고    scopus 로고
    • Classification of metagenomic sequences: Methods and challenges
    • Mande SS, Mohammed MH, Ghosh TS. 2012. Classification of metagenomic sequences: methods and challenges. Brief Bioinform 13: 669-681. http://dx.doi.org/10.1093/bib/bbs054.
    • (2012) Brief Bioinform , vol.13 , pp. 669-681
    • Mande, S.S.1    Mohammed, M.H.2    Ghosh, T.S.3
  • 41
    • 0022211482 scopus 로고
    • Statistical properties of the number of recombination events in the history of a sample of DNA sequences
    • Hudson RR, Kaplan NL. 1985. Statistical properties of the number of recombination events in the history of a sample of DNA sequences. Genetics 111:147-164.
    • (1985) Genetics , vol.111 , pp. 147-164
    • Hudson, R.R.1    Kaplan, N.L.2
  • 42
    • 34249005874 scopus 로고    scopus 로고
    • The structure of linkage disequilibrium around a selective sweep
    • McVean G. 2007. The structure of linkage disequilibrium around a selective sweep. Genetics 175:1395-1406. http://dx.doi.org/10.1534/genetics.106.062828.
    • (2007) Genetics , vol.175 , pp. 1395-1406
    • McVean, G.1
  • 43
    • 38649110663 scopus 로고    scopus 로고
    • BEAST: Bayesian evolutionary analysis by sampling trees
    • Drummond AJ, Rambaut A. 2007. BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evol Biol 7:214. http://dx.doi.org/10.1186/1471-2148-7-214.
    • (2007) BMC Evol Biol , vol.7 , pp. 214
    • Drummond, A.J.1    Rambaut, A.2
  • 44
    • 84864530626 scopus 로고    scopus 로고
    • Bayesian phylogenetics with BEAUti and the BEAST 1.7
    • Drummond AJ, Suchard MA, Xie D, Rambaut A. 2012. Bayesian phylogenetics with BEAUti and the BEAST 1.7. Mol Biol Evol 29: 1969-1973. http://dx.doi.org/10.1093/molbev/mss075.
    • (2012) Mol Biol Evol , vol.29 , pp. 1969-1973
    • Drummond, A.J.1    Suchard, M.A.2    Xie, D.3    Rambaut, A.4
  • 45
    • 21844437832 scopus 로고    scopus 로고
    • A cystic fibrosis epidemic strain of Pseudomonas aeruginosa displays enhanced virulence and antimicrobial resistance
    • Salunkhe P, Smart CH, Morgan JA, Panagea S, Walshaw MJ, Hart CA, Geffers R, Tümmler B, Winstanley C. 2005. A cystic fibrosis epidemic strain of Pseudomonas aeruginosa displays enhanced virulence and antimicrobial resistance. J Bacteriol 187:4908-4920. http://dx.doi.org/10.1128/JB.187.14.4908-4920.2005.
    • (2005) J Bacteriol , vol.187 , pp. 4908-4920
    • Salunkhe, P.1    Smart, C.H.2    Morgan, J.A.3    Panagea, S.4    Walshaw, M.J.5    Hart, C.A.6    Geffers, R.7    Tümmler, B.8    Winstanley, C.9
  • 47
    • 0001085724 scopus 로고
    • On the genealogy of nested subsamples from a haploid population
    • Saunders IW, Tavaré S, Watterson GA, Tavare S. 1984. On the genealogy of nested subsamples from a haploid population. Adv Appl Probab 16:471-491. http://dx.doi.org/10.2307/1427285.
    • (1984) Adv Appl Probab , vol.16 , pp. 471-491
    • Saunders, I.W.1    Tavaré, S.2    Watterson, G.A.3    Tavare, S.4
  • 48
    • 0024313579 scopus 로고
    • Statistical methods for testing the neutral mutation hypothesis by DNA polymorphism
    • Tajima F. 1989. Statistical methods for testing the neutral mutation hypothesis by DNA polymorphism. Genetics 123:585-595.
    • (1989) Genetics , vol.123 , pp. 585-595
    • Tajima, F.1
  • 49
    • 0027453041 scopus 로고
    • Statistical tests of neutrality of mutations
    • Fu YX, Li WH. 1993. Statistical tests of neutrality of mutations. Genetics 133:693-709.
    • (1993) Genetics , vol.133 , pp. 693-709
    • Fu, Y.X.1    Li, W.H.2
  • 50
    • 16344387924 scopus 로고    scopus 로고
    • Parallel genotypic adaptation: When evolution repeats itself
    • Wood TE, Burke JM, Rieseberg LH. 2005. Parallel genotypic adaptation: when evolution repeats itself. Genetica 123:157-170. http://dx.doi.org/10.1007/s10709-003-2738-9.
    • (2005) Genetica , vol.123 , pp. 157-170
    • Wood, T.E.1    Burke, J.M.2    Rieseberg, L.H.3
  • 51
    • 37549017103 scopus 로고    scopus 로고
    • Convergence and parallelism reconsidered: What have we learned about the genetics of adaptation?
    • Arendt J, Reznick D. 2008. Convergence and parallelism reconsidered: what have we learned about the genetics of adaptation? Trends Ecol Evol 23:26-32. http://dx.doi.org/10.1016/j.tree.2007.09.011.
    • (2008) Trends Ecol Evol , vol.23 , pp. 26-32
    • Arendt, J.1    Reznick, D.2
  • 52
    • 84930691045 scopus 로고    scopus 로고
    • The effect of selection environment on the probability of parallel evolution
    • Bailey SF, Rodrigue N, Kassen R. 2015. The effect of selection environment on the probability of parallel evolution. Mol Biol Evol 32: 1436-1448. http://dx.doi.org/10.1093/molbev/msv033.
    • (2015) Mol Biol Evol , vol.32 , pp. 1436-1448
    • Bailey, S.F.1    Rodrigue, N.2    Kassen, R.3
  • 53
    • 84887413806 scopus 로고    scopus 로고
    • Identification of novel genes responsible for overexpression of ampC in Pseudomonas aeruginosa PAO
    • Tsutsumi Y, Tomita H, Tanimoto K. 2013. Identification of novel genes responsible for overexpression of ampC in Pseudomonas aeruginosa PAO. Antimicrob Agents Chemother 57:5987-5993. http://dx.doi.org/10.1128/AAC.01291-13.
    • (2013) Antimicrob Agents Chemother , vol.57 , pp. 5987-5993
    • Tsutsumi, Y.1    Tomita, H.2    Tanimoto, K.3
  • 54
    • 42049110124 scopus 로고    scopus 로고
    • Affinity of doripenem and comparators to penicillin-binding proteins in Escherichia coli and Pseudomonas aeruginosa
    • Davies TA, Shang W, Bush K, Flamm RK. 2008. Affinity of doripenem and comparators to penicillin-binding proteins in Escherichia coli and Pseudomonas aeruginosa. Antimicrob Agents Chemother 52:1510-1512. http://dx.doi.org/10.1128/AAC.01529-07.
    • (2008) Antimicrob Agents Chemother , vol.52 , pp. 1510-1512
    • Davies, T.A.1    Shang, W.2    Bush, K.3    Flamm, R.K.4
  • 55
    • 0025284661 scopus 로고
    • Resistance of Pseudomonas aeruginosa to cefsulodin: Modification of penicillin-binding protein 3 and mapping of its chromosomal gene
    • Gotoh N, Nunomura K, Nishino T. 1990. Resistance of Pseudomonas aeruginosa to cefsulodin: modification of penicillin-binding protein 3 and mapping of its chromosomal gene. J Antimicrob Chemother 25: 513-523. http://dx.doi.org/10.1093/jac/25.4.513.
    • (1990) J Antimicrob Chemother , vol.25 , pp. 513-523
    • Gotoh, N.1    Nunomura, K.2    Nishino, T.3
  • 56
    • 18844439645 scopus 로고    scopus 로고
    • Soft sweeps: Molecular population genetics of adaptation from standing genetic variation
    • Hermisson J, Pennings PS. 2005. Soft sweeps: molecular population genetics of adaptation from standing genetic variation. Genetics 169: 2335-2352. http://dx.doi.org/10.1534/genetics.104.036947.
    • (2005) Genetics , vol.169 , pp. 2335-2352
    • Hermisson, J.1    Pennings, P.S.2
  • 58
    • 33646245175 scopus 로고    scopus 로고
    • A map of recent positive selection in the human genome
    • Voight BF, Kudaravalli S, Wen X, Pritchard JK. 2006. A map of recent positive selection in the human genome. PLoS Biol 4:e72. http://dx.doi.org/10.1371/journal.pbio.0040072.
    • (2006) Plos Biol , vol.4
    • Voight, B.F.1    Kudaravalli, S.2    Wen, X.3    Pritchard, J.K.4
  • 59
    • 44449112781 scopus 로고    scopus 로고
    • Environmental heterogeneity enhances clonal interference
    • Campos PR, Neto PS, de Oliveira VM, Gordo I. 2008. Environmental heterogeneity enhances clonal interference. Evolution 62:1390-1399. http://dx.doi.org/10.1111/j.1558-5646.2008.00380.x.
    • (2008) Evolution , vol.62 , pp. 1390-1399
    • Campos, P.R.1    Neto, P.S.2    De Oliveira, V.M.3    Gordo, I.4
  • 62
    • 79957958115 scopus 로고    scopus 로고
    • Diminishing returns epistasis among beneficial mutations decelerates adaptation
    • Chou HH, Chiu HC, Delaney NF, Segrè D, Marx CJ. 2011. Diminishing returns epistasis among beneficial mutations decelerates adaptation. Science 332:1190-1192. http://dx.doi.org/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
  • 63
    • 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. http://dx.doi.org/10.1126/science.1203801.
    • (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
  • 64
    • 84869131230 scopus 로고    scopus 로고
    • How does adaptation sweep through the genome? Insights from long-term selection experiments
    • Burke MK. 2012. How does adaptation sweep through the genome? Insights from long-term selection experiments. Proc Biol Sci 279: 5029-5038. http://dx.doi.org/10.1098/rspb.2012.0799.
    • (2012) Proc Biol Sci , vol.279 , pp. 5029-5038
    • Burke, M.K.1
  • 65
    • 84867574655 scopus 로고    scopus 로고
    • Adaptation of Drosophila to a novel laboratory environment reveals temporally heterogeneous trajectories of selected alleles
    • Orozco-terWengel P, Kapun M, Nolte V, Kofler R, Flatt T, Schlötterer C. 2012. Adaptation of Drosophila to a novel laboratory environment reveals temporally heterogeneous trajectories of selected alleles. Mol Ecol 21:4931-4941. http://dx.doi.org/10.1111/j.1365-294X.2012.05673.x.
    • (2012) Mol Ecol , vol.21 , pp. 4931-4941
    • Orozco-Terwengel, P.1    Kapun, M.2    Nolte, V.3    Kofler, R.4    Flatt, T.5    Schlötterer, C.6
  • 66
    • 84867152138 scopus 로고    scopus 로고
    • Clonal interference in the evolution of influenza
    • Strelkowa N, Lässig M. 2012. Clonal interference in the evolution of influenza. Genetics 192:671-682. http://dx.doi.org/10.1534/genetics.112.143396.
    • (2012) Genetics , vol.192 , pp. 671-682
    • Strelkowa, N.1    Lässig, M.2
  • 67
    • 84888001845 scopus 로고    scopus 로고
    • Genome dynamics during experimental evolution
    • Barrick JE, Lenski RE. 2013. Genome dynamics during experimental evolution. Nat Rev Genet 14:827-839. http://dx.doi.org/10.1038/nrg3564.
    • (2013) Nat Rev Genet , vol.14 , pp. 827-839
    • Barrick, J.E.1    Lenski, R.E.2
  • 68
    • 84876437630 scopus 로고    scopus 로고
    • Synchronous waves of failed soft sweeps in the laboratory: Remarkably rampant clonal interference of alleles at a single locus
    • Lee MC, 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. http://dx.doi.org/10.1534/ genetics.112.148502.
    • (2013) Genetics , vol.193 , pp. 943-952
    • Lee, M.C.1    Marx, C.J.2
  • 69
    • 84885911072 scopus 로고    scopus 로고
    • Population genomics of rapid adaptation by soft selective sweeps
    • Messer PW, Petrov DA. 2013. Population genomics of rapid adaptation by soft selective sweeps. Trends Ecol Evol 28:659-669. http://dx.doi.org/10.1016/j.tree.2013.08.003.
    • (2013) Trends Ecol Evol , vol.28 , pp. 659-669
    • Messer, P.W.1    Petrov, D.A.2
  • 70
    • 0033543602 scopus 로고    scopus 로고
    • Clonal interference and the evolution of RNA viruses
    • Miralles R, Gerrish PJ, Moya A, Elena SF. 1999. Clonal interference and the evolution of RNA viruses. Science 285:1745-1747. http://dx.doi.org/10.1126/science.285.5434.1745.
    • (1999) Science , vol.285 , pp. 1745-1747
    • Miralles, R.1    Gerrish, P.J.2    Moya, A.3    Elena, S.F.4
  • 71
    • 0344803077 scopus 로고
    • Potential for selection among nearly neutral allozymes of 6-phosphogluconate dehydrogenase in Escherichia coli
    • Hartl DL, Dykhuizen DE. 1981. Potential for selection among nearly neutral allozymes of 6-phosphogluconate dehydrogenase in Escherichia coli. Proc Natl Acad Sci U S A 78:6344-6348. http://dx.doi.org/10.1073/pnas.78.10.6344.
    • (1981) Proc Natl Acad Sci U S A , vol.78 , pp. 6344-6348
    • Hartl, D.L.1    Dykhuizen, D.E.2
  • 72
    • 58149168840 scopus 로고    scopus 로고
    • The population genetics of dN/dS
    • Kryazhimskiy S, Plotkin JB. 2008. The population genetics of dN/dS. PLoS Genet 4:e1000304.http://dx.doi.org/10.1371/journal.pgen.1000304.
    • (2008) Plos Genet , vol.4
    • Kryazhimskiy, S.1    Plotkin, J.B.2
  • 73
    • 0033134861 scopus 로고    scopus 로고
    • Pathoadaptive mutations: Gene loss and variation in bacterial pathogens
    • Sokurenko EV, Hasty DL, Dykhuizen DE. 1999. Pathoadaptive mutations: gene loss and variation in bacterial pathogens. Trends Microbiol 7:191-195. http://dx.doi.org/10.1016/S0966-842X(99)01493-6.
    • (1999) Trends Microbiol , vol.7 , pp. 191-195
    • Sokurenko, E.V.1    Hasty, D.L.2    Dykhuizen, D.E.3
  • 74
    • 84866054774 scopus 로고    scopus 로고
    • Long-term cultivation-independent microbial diversity analysis demonstrates that bacterial communities infecting the adult cystic fibrosis lung show stability and resilience
    • Stressmann FA, Rogers GB, van der Gast CJ, Marsh P, Vermeer LS, Carroll MP, Hoffman L, Daniels TW, Patel N, Forbes B, Bruce KD. 2012. Long-term cultivation-independent microbial diversity analysis demonstrates that bacterial communities infecting the adult cystic fibrosis lung show stability and resilience. Thorax 67:867-873. http://dx.doi.org/10.1136/thoraxjnl-2011-200932.
    • (2012) Thorax , vol.67 , pp. 867-873
    • Stressmann, F.A.1    Rogers, G.B.2    Van Der Gast, C.J.3    Marsh, P.4    Vermeer, L.S.5    Carroll, M.P.6    Hoffman, L.7    Daniels, T.W.8    Patel, N.9    Forbes, B.10    Bruce, K.D.11
  • 80
    • 77957244650 scopus 로고    scopus 로고
    • Search and clustering orders of magnitude faster than BLAST
    • Edgar RC. 2010. Search and clustering orders of magnitude faster than BLAST. Bioinformatics 26:2460-2461. http://dx.doi.org/10.1093/bioinformatics/btq461.
    • (2010) Bioinformatics , vol.26 , pp. 2460-2461
    • Edgar, R.C.1
  • 83
    • 0036146824 scopus 로고    scopus 로고
    • Determination of bacterial load by real-time PCR using a broad-range (Universal) probe and primers set
    • Nadkarni MA, Martin FE, Jacques NA, Hunter N. 2002. Determination of bacterial load by real-time PCR using a broad-range (universal) probe and primers set. Microbiology 148:257-266.
    • (2002) Microbiology , vol.148 , pp. 257-266
    • Nadkarni, M.A.1    Martin, F.E.2    Jacques, N.A.3    Hunter, N.4
  • 84
    • 78649358717 scopus 로고    scopus 로고
    • Quake: Quality-aware detection and correction of sequencing errors
    • Kelley DR, Schatz MC, Salzberg SL. 2010. Quake: quality-aware detection and correction of sequencing errors. Genome Biol 11:R116. http://dx.doi.org/10.1186/gb-2010-11-11-r116.
    • (2010) Genome Biol , vol.11 , pp. R116
    • Kelley, D.R.1    Schatz, M.C.2    Salzberg, S.L.3
  • 86
    • 67649884743 scopus 로고    scopus 로고
    • Fast and accurate short read alignment with Burrows-Wheeler transform
    • Li H, Durbin R. 2009. Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25:1754-1760. http://dx.doi.org/10.1093/bioinformatics/btp324.
    • (2009) Bioinformatics , vol.25 , pp. 1754-1760
    • Li, H.1    Durbin, R.2
  • 87
    • 84876249593 scopus 로고    scopus 로고
    • An approximate Bayesian approach for mapping paired-end DNA reads to a reference genome
    • Shrestha AM, Frith MC. 2013. An approximate Bayesian approach for mapping paired-end DNA reads to a reference genome. Bioinformatics 29:965-972. http://dx.doi.org/10.1093/bioinformatics/btt073.
    • (2013) Bioinformatics , vol.29 , pp. 965-972
    • Shrestha, A.M.1    Frith, M.C.2
  • 88
    • 68549104404 scopus 로고    scopus 로고
    • The Sequence Alignment/Map format and SAMtools
    • 1000 Genome Project Data Processing Subgroup
    • Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, Marth G, Abecasis G, Durbin R, 1000 Genome Project Data Processing Subgroup. 2009. The Sequence Alignment/Map format and SAMtools. Bioinformatics 25:2078-2079. http://dx.doi.org/10.1093/bioinformatics/btp352.
    • (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
  • 91
    • 84890330527 scopus 로고    scopus 로고
    • MEGA6: Molecular evolutionary genetics analysis version 6.0
    • Tamura K, Stecher G, Peterson D, Filipski A, Kumar S. 2013. MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol 30: 2725-2729. http://dx.doi.org/10.1093/molbev/mst197.
    • (2013) Mol Biol Evol , vol.30 , pp. 2725-2729
    • Tamura, K.1    Stecher, G.2    Peterson, D.3    Filipski, A.4    Kumar, S.5
  • 92
    • 0031678692 scopus 로고    scopus 로고
    • SplitsTree: Analyzing and visualizing evolutionary data
    • Huson DH. 1998. SplitsTree: analyzing and visualizing evolutionary data. Bioinformatics 14:68-73. http://dx.doi.org/10.1093/bioinformatics/14.1.68.
    • (1998) Bioinformatics , vol.14 , pp. 68-73
    • Huson, D.H.1
  • 93
    • 30744470609 scopus 로고    scopus 로고
    • Application of phylogenetic networks in evolutionary studies
    • Huson DH, Bryant D. 2006. Application of phylogenetic networks in evolutionary studies. Mol Biol Evol 23:254-267. http://dx.doi.org/10.1093/molbev/msj030.
    • (2006) Mol Biol Evol , vol.23 , pp. 254-267
    • Huson, D.H.1    Bryant, D.2
  • 94
    • 0031773680 scopus 로고    scopus 로고
    • ModelTest: Testing the model of DNA substitution
    • Posada D, Crandall KA. 1998. ModelTest: testing the model of DNA substitution. Bioinformatics 14:817-818. http://dx.doi.org/10.1093/bioinformatics/14.9.817.
    • (1998) Bioinformatics , vol.14 , pp. 817-818
    • Posada, D.1    Crandall, K.A.2
  • 95
    • 33344465800 scopus 로고    scopus 로고
    • Relaxed phylogenetics and dating with confidence
    • Drummond AJ, Ho SY, Phillips MJ, Rambaut A. 2006. Relaxed phylogenetics and dating with confidence. PLoS Biol 4:e88. http://dx.doi.org/10.1371/journal.pbio.0040088.
    • (2006) Plos Biol , vol.4
    • Drummond, A.J.1    Ho, S.Y.2    Phillips, M.J.3    Rambaut, A.4
  • 96
    • 65649117685 scopus 로고    scopus 로고
    • DnaSP V5: A software for comprehensive analysis of DNA polymorphism data
    • Librado P, Rozas J. 2009. DnaSP V5: a software for comprehensive analysis of DNA polymorphism data. Bioinformatics 25:1451-1452. http://dx.doi.org/10.1093/bioinformatics/btp187.
    • (2009) Bioinformatics , vol.25 , pp. 1451-1452
    • Librado, P.1    Rozas, J.2
  • 97
    • 58149197594 scopus 로고    scopus 로고
    • Pseudomonas Genome Database: Facilitating user-friendly, comprehensive comparisons of microbial genomes
    • Winsor GL, Van Rossum T, Lo R, Khaira B, Whiteside MD, Hancock RE, Brinkman FS. 2009. Pseudomonas Genome Database: facilitating user-friendly, comprehensive comparisons of microbial genomes. Nucleic Acids Res 37:D483-D488. http://dx.doi.org/10.1093/nar/gkn861.
    • (2009) Nucleic Acids Res , vol.37 , pp. D483-D488
    • Winsor, G.L.1    Van Rossum, T.2    Lo, R.3    Khaira, B.4    Whiteside, M.D.5    Hancock, R.E.6    Brinkman, F.S.7
  • 98
    • 79551599525 scopus 로고    scopus 로고
    • Mugsy: Fast multiple alignment of closely related whole genomes
    • Angiuoli SV, Salzberg SL. 2011. Mugsy: fast multiple alignment of closely related whole genomes. Bioinformatics 27:334-342. http://dx.doi.org/10.1093/bioinformatics/btq665.
    • (2011) Bioinformatics , vol.27 , pp. 334-342
    • Angiuoli, S.V.1    Salzberg, S.L.2
  • 100
    • 84855840425 scopus 로고    scopus 로고
    • Complete genome sequence of highly multidrug-resistant Pseudomonas aeruginosa NCGM2.S1, a representative strain of a cluster endemic to Japan
    • Miyoshi-Akiyama T, Kuwahara T, Tada T, Kitao T, Kirikae T. 2011. Complete genome sequence of highly multidrug-resistant Pseudomonas aeruginosa NCGM2.S1, a representative strain of a cluster endemic to Japan. J Bacteriol 193:7010. http://dx.doi.org/10.1128/JB.06312-11.
    • (2011) J Bacteriol , vol.193 , pp. 7010
    • Miyoshi-Akiyama, T.1    Kuwahara, T.2    Tada, T.3    Kitao, T.4    Kirikae, T.5
  • 101
    • 77954440480 scopus 로고    scopus 로고
    • Using time-structured data to estimate evolutionary rates of double-stranded DNA viruses
    • Firth C, Kitchen A, Shapiro B, Suchard MA, Holmes EC, Rambaut A. 2010. Using time-structured data to estimate evolutionary rates of double-stranded DNA viruses. Mol Biol Evol 27:2038-2051. http://dx.doi.org/10.1093/molbev/msq088.
    • (2010) Mol Biol Evol , vol.27 , pp. 2038-2051
    • Firth, C.1    Kitchen, A.2    Shapiro, B.3    Suchard, M.A.4    Holmes, E.C.5    Rambaut, A.6

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