메뉴 건너뛰기




Volumn 46, Issue 3, 2014, Pages 305-309

Dense genomic sampling identifies highways of pneumococcal recombination

Author keywords

[No Author keywords available]

Indexed keywords

ANTIBIOTIC AGENT; BETA LACTAM ANTIBIOTIC; COTRIMOXAZOLE; DNA FRAGMENT; PNEUMOCOCCUS VACCINE;

EID: 84895858474     PISSN: 10614036     EISSN: 15461718     Source Type: Journal    
DOI: 10.1038/ng.2895     Document Type: Article
Times cited : (302)

References (44)
  • 1
    • 0037314257 scopus 로고    scopus 로고
    • Report from a who working group: Standard method for detecting upper respiratory carriage of streptococcus pneumoniae
    • O'Brien, K.L. & Nohynek, H. Report from a WHO Working Group: Standard method for detecting upper respiratory carriage of Streptococcus pneumoniae. Pediatr. Infect. Dis. J. 22, e1-e11 (2003
    • (2003) Pediatr. Infect. Dis. J. , vol.22
    • O'Brien, K.L.1    Nohynek, H.2
  • 2
    • 84856158775 scopus 로고    scopus 로고
    • Pre-vaccination nasopharyngeal pneumococcal carriage in a Nigerian population: Epidemiology and population biology
    • Adetifa, I.M. et al. Pre-vaccination nasopharyngeal pneumococcal carriage in a Nigerian population: Epidemiology and population biology. PLoS ONE 7, e30548 (2012
    • (2012) PLoS ONE , vol.7
    • Adetifa, I.M.1
  • 3
    • 77953614428 scopus 로고    scopus 로고
    • Evidence that pneumococcal serotype replacement in Massachusetts following conjugate vaccination is now complete
    • Hanage, W.P. et al. Evidence that pneumococcal serotype replacement in Massachusetts following conjugate vaccination is now complete. Epidemics 2, 80-84 (2010
    • (2010) Epidemics , vol.2 , pp. 80-84
    • Hanage, W.P.1
  • 4
    • 79251544864 scopus 로고    scopus 로고
    • Rapid pneumococcal evolution in response to clinical interventions
    • Croucher, N.J. et al. Rapid pneumococcal evolution in response to clinical interventions. Science 331, 430-434 (2011
    • (2011) Science , vol.331 , pp. 430-434
    • Croucher, N.J.1
  • 5
    • 84878735463 scopus 로고    scopus 로고
    • Population genomics of post-vaccine changes in pneumococcal epidemiology
    • Croucher, N.J. et al. Population genomics of post-vaccine changes in pneumococcal epidemiology. Nat. Genet. 45, 656-663 (2013
    • (2013) Nat. Genet , vol.45 , pp. 656-663
    • Croucher, N.J.1
  • 6
    • 0037188501 scopus 로고    scopus 로고
    • Induction of natural competence in Streptococcus pneumoniae triggers lysis and DNA release from a subfraction of the cell population
    • Steinmoen, H., Knutsen, E. & Havarstein, L.S. Induction of natural competence in Streptococcus pneumoniae triggers lysis and DNA release from a subfraction of the cell population. Proc. Natl. Acad. Sci. USA 99, 7681-7686 (2002
    • (2002) Proc. Natl. Acad. Sci. USA , vol.99 , pp. 7681-7686
    • Steinmoen, H.1    Knutsen, E.2    Havarstein, L.S.3
  • 7
    • 67149119196 scopus 로고    scopus 로고
    • Hyper-recombination diversity, and antibiotic resistance in pneumococcus
    • Hanage, W.P., Fraser, C., Tang, J., Connor, T.R. & Corander, J. Hyper-recombination, diversity, and antibiotic resistance in pneumococcus. Science 324, 1454-1457 (2009
    • (2009) Science , vol.324 , pp. 1454-1457
    • Hanage, W.P.1    Fraser, C.2    Tang, J.3    Connor, T.R.4    Corander, J.5
  • 8
    • 78149306108 scopus 로고    scopus 로고
    • Generation of genic diversity among Streptococcus pneumoniae strains via horizontal gene transfer during a chronic polyclonal pediatric infection
    • Hiller, N.L. et al. Generation of genic diversity among Streptococcus pneumoniae strains via horizontal gene transfer during a chronic polyclonal pediatric infection. PLoS Pathog. 6, e1001108 (2010
    • (2010) PLoS Pathog , vol.6
    • Hiller, N.L.1
  • 9
    • 69949170096 scopus 로고    scopus 로고
    • Fratricide in streptococcus pneumoniae: Contributions and role of the cell wall hydrolases cbpd lyta and lytc
    • Eldholm, V., Johnsborg, O., Haugen, K., Ohnstad, H.S. & Havarstein, L.S. Fratricide in Streptococcus pneumoniae: Contributions and role of the cell wall hydrolases CbpD, LytA and LytC. Microbiology 155, 2223-2234 (2009
    • (2009) Microbiology , vol.155 , pp. 2223-2234
    • Eldholm, V.1    Johnsborg, O.2    Haugen, K.3    Ohnstad, H.S.4    Havarstein, L.S.5
  • 10
    • 84866166944 scopus 로고    scopus 로고
    • Fratricide is essential for efficient gene transfer between pneumococci in biofilms
    • Wei, H. & Havarstein, L.S. Fratricide is essential for efficient gene transfer between pneumococci in biofilms. Appl. Environ. Microbiol. 78, 5897-5905 (2012
    • (2012) Appl. Environ. Microbiol , vol.78 , pp. 5897-5905
    • Wei, H.1    Havarstein, L.S.2
  • 11
    • 84855187831 scopus 로고    scopus 로고
    • High levels of recombination among Streptococcus pneumoniae isolates from the Gambia
    • Donkor, E.S. et al. High levels of recombination among Streptococcus pneumoniae isolates from the Gambia. mBio 2, e00040-11 (2011
    • (2011) MBio , vol.2
    • Donkor, E.S.1
  • 12
    • 84861691079 scopus 로고    scopus 로고
    • A longitudinal study of streptococcus pneumoniae carriage in a cohort of infants and their mothers on the thailand-myanmar border
    • Turner, P. et al. A longitudinal study of Streptococcus pneumoniae carriage in a cohort of infants and their mothers on the Thailand-Myanmar border. PLoS ONE 7, e38271 (2012
    • (2012) PLoS ONE , vol.7
    • Turner, P.1
  • 13
    • 84872182774 scopus 로고    scopus 로고
    • High rates of pneumonia in children under two years of age in a south east asian refugee population
    • Turner, C. et al. High rates of pneumonia in children under two years of age in a South East Asian refugee population. PLoS ONE 8, e54026 (2013
    • (2013) PLoS ONE , vol.8
    • Turner, C.1
  • 14
    • 84876526192 scopus 로고    scopus 로고
    • Hierarchical and spatially explicit clustering of dna sequences with baps software
    • Cheng, L., Connor, T.R., Siren, J., Aanensen, D.M. & Corander, J. Hierarchical and spatially explicit clustering of DNA sequences with BAPS Software. Mol. Biol. Evol. 30, 1224-1228 (2013
    • (2013) Mol. Biol. Evol , vol.30 , pp. 1224-1228
    • Cheng, L.1    Connor, T.R.2    Siren, J.3    Aanensen, D.M.4    Corander, J.5
  • 15
    • 62349132559 scopus 로고    scopus 로고
    • Enhanced bayesian modelling in baps software for learning genetic structures of populations
    • Corander, J., Marttinen, P., Siren, J. & Tang, J. Enhanced Bayesian modelling in BAPS software for learning genetic structures of populations. BMC Bioinformatics 9, 539 (2008
    • (2008) BMC Bioinformatics , vol.9 , pp. 539
    • Corander, J.1    Marttinen, P.2    Siren, J.3    Tang, J.4
  • 16
    • 84861849213 scopus 로고    scopus 로고
    • Variation at the capsule locus, cps, of mistyped and non-Typable Streptococcus pneumoniae isolates
    • Salter, S.J. et al. Variation at the capsule locus, cps, of mistyped and non-Typable Streptococcus pneumoniae isolates. Microbiology 158, 1560-1569 (2012
    • (2012) Microbiology , vol.158 , pp. 1560-1569
    • Salter, S.J.1
  • 17
    • 33750571854 scopus 로고    scopus 로고
    • Serotype competence and penicillin resistance in streptococcus pneumoniae
    • Hsieh, Y.C. et al. Serotype competence and penicillin resistance in Streptococcus pneumoniae. Emerg. Infect. Dis. 12, 1709-1714 (2006
    • (2006) Emerg. Infect. Dis , vol.12 , pp. 1709-1714
    • Hsieh, Y.C.1
  • 18
    • 39149104344 scopus 로고    scopus 로고
    • Penicillin-binding proteins and β-lactam resistance
    • Zapun, A., Contreras-Martel, C. & Vernet, T. Penicillin-binding proteins and β-lactam resistance. FEMS Microbiol. Rev. 32, 361-385 (2008
    • (2008) FEMS Microbiol. Rev , vol.32 , pp. 361-385
    • Zapun, A.1    Contreras-Martel, C.2    Vernet, T.3
  • 19
    • 0030711594 scopus 로고    scopus 로고
    • Mutations in the dihydrofolate reductase gene of trimethoprim-resistant isolates of Streptococcus pneumoniae
    • Adrian, P.V. & Klugman, K.P. Mutations in the dihydrofolate reductase gene of trimethoprim-resistant isolates of Streptococcus pneumoniae. Antimicrob. Agents Chemother. 41, 2406-2413 (1997
    • (1997) Antimicrob. Agents Chemother , vol.41 , pp. 2406-2413
    • Adrian, P.V.1    Klugman, K.P.2
  • 20
    • 0032825651 scopus 로고    scopus 로고
    • Novel expansions of the gene encoding dihydropteroate synthase in trimethoprim-sulfamethoxazole-resistant Streptococcus pneumoniae
    • Padayachee, T. & Klugman, K.P. Novel expansions of the gene encoding dihydropteroate synthase in trimethoprim-sulfamethoxazole-resistant Streptococcus pneumoniae. Antimicrob. Agents Chemother. 43, 2225-2230 (1999
    • (1999) Antimicrob. Agents Chemother , vol.43 , pp. 2225-2230
    • Padayachee, T.1    Klugman, K.P.2
  • 21
    • 33845894155 scopus 로고    scopus 로고
    • Multi-Targeting by monotherapeutic antibacterials
    • Silver, L.L. Multi-Targeting by monotherapeutic antibacterials. Nat. Rev. Drug Discov. 6, 41-55 (2007
    • (2007) Nat. Rev. Drug Discov , vol.6 , pp. 41-55
    • Silver, L.L.1
  • 22
    • 0031882666 scopus 로고    scopus 로고
    • Trends in antibiotic resistance among diarrheal pathogens isolated in thailand over 15 years
    • Hoge, C.W., Gambel, J.M., Srijan, A., Pitarangsi, C. & Echeverria, P. Trends in antibiotic resistance among diarrheal pathogens isolated in Thailand over 15 years. Clin. Infect. Dis. 26, 341-345 (1998
    • (1998) Clin. Infect. Dis , vol.26 , pp. 341-345
    • Hoge, C.W.1    Gambel, J.M.2    Srijan, A.3    Pitarangsi, C.4    Echeverria, P.5
  • 23
    • 0037314257 scopus 로고    scopus 로고
    • Report from a who working group: Standard method for detecting upper respiratory carriage of streptococcus pneumoniae
    • O'Brien, K.L. & Nohynek, H. Report from a WHO working group: Standard method for detecting upper respiratory carriage of Streptococcus pneumoniae. Pediatr. Infect. Dis. J. 22, 133-140 (2003
    • (2003) Pediatr. Infect. Dis. J. , vol.22 , pp. 133-140
    • O'Brien, K.L.1    Nohynek, H.2
  • 24
    • 43149115851 scopus 로고    scopus 로고
    • Velvet: Algorithms for de novo short read assembly using de bruijn graphs
    • Zerbino, D.R. & Birney, E. Velvet: Algorithms for de novo short read assembly using de Bruijn graphs. Genome Res. 18, 821-829 (2008
    • (2008) Genome Res , vol.18 , pp. 821-829
    • Zerbino, D.R.1    Birney, E.2
  • 26
    • 84862591603 scopus 로고    scopus 로고
    • Toward almost closed genomes with gapfiller
    • Boetzer, M. & Pirovano, W. Toward almost closed genomes with GapFiller. Genome Biol. 13, R56 (2012
    • (2012) Genome Biol , vol.13
    • Boetzer, M.1    Pirovano, W.2
  • 27
    • 67649884743 scopus 로고    scopus 로고
    • Fast and accurate short read alignment with burrows-wheeler transform
    • Li, H. & Durbin, R. Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25, 1754-1760 (2009
    • (2009) Bioinformatics , vol.25 , pp. 1754-1760
    • Li, H.1    Durbin, R.2
  • 28
    • 62349130698 scopus 로고    scopus 로고
    • Ultrafast and memory-efficient alignment of short dna sequences to the human genome
    • Langmead, B., Trapnell, C., Pop, M. & Salzberg, S.L. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol. 10, R25 (2009
    • (2009) Genome Biol , vol.10
    • Langmead, B.1    Trapnell, C.2    Pop, M.3    Salzberg, S.L.4
  • 29
    • 62649124308 scopus 로고    scopus 로고
    • Role of conjugative elements in the evolution of the multidrug-resistant pandemic clone Streptococcus pneumoniaeSpain23F ST81
    • Croucher, N.J. et al. Role of conjugative elements in the evolution of the multidrug-resistant pandemic clone Streptococcus pneumoniaeSpain23F ST81. J. Bacteriol. 191, 1480-1489 (2009
    • (2009) J Bacteriol , vol.191 , pp. 1480-1489
    • Croucher, N.J.1
  • 30
    • 75649084906 scopus 로고    scopus 로고
    • Evolution of MRSA during hospital transmission and intercontinental spread
    • Harris, S.R. et al. Evolution of MRSA during hospital transmission and intercontinental spread. Science 327, 469-474 (2010
    • (2010) Science , vol.327 , pp. 469-474
    • Harris, S.R.1
  • 31
    • 0037274702 scopus 로고    scopus 로고
    • Bayesian analysis of genetic differentiation between populations
    • Corander, J., Waldmann, P. & Sillanpaa, M.J. Bayesian analysis of genetic differentiation between populations. Genetics 163, 367-374 (2003
    • (2003) Genetics , vol.163 , pp. 367-374
    • Corander, J.1    Waldmann, P.2    Sillanpaa, M.J.3
  • 32
    • 33845227584 scopus 로고    scopus 로고
    • Bayesian analysis of population structure based on linked molecular information
    • Corander, J. & Tang, J. Bayesian analysis of population structure based on linked molecular information. Math. Biosci. 205, 19-31 (2007
    • (2007) Math. Biosci , vol.205 , pp. 19-31
    • Corander, J.1    Tang, J.2
  • 33
    • 70049114381 scopus 로고    scopus 로고
    • Identifying currents in the gene pool for bacterial populations using an integrative approach
    • Tang, J., Hanage, W.P., Fraser, C. & Corander, J. Identifying currents in the gene pool for bacterial populations using an integrative approach. PLoS Comput. Biol. 5, e1000455 (2009
    • (2009) PLoS Comput. Biol , vol.5
    • Tang, J.1    Hanage, W.P.2    Fraser, C.3    Corander, J.4
  • 34
    • 84863596741 scopus 로고    scopus 로고
    • Population structure in the Neisseria, and the biological significance of fuzzy species
    • Corander, J., Connor, T.R., O'Dwyer, C.A., Kroll, J.S. & Hanage, W.P. Population structure in the Neisseria, and the biological significance of fuzzy species. J. R. Soc. Interface 9, 1208-1215 (2011
    • (2011) J. R. Soc. Interface , vol.9 , pp. 1208-1215
    • Corander, J.1    Connor, T.R.2    O'Dwyer, C.A.3    Kroll, J.S.4    Hanage, W.P.5
  • 35
    • 80053133499 scopus 로고    scopus 로고
    • Evidence for several waves of global transmission in the seventh cholera pandemic
    • Mutreja, A. et al. Evidence for several waves of global transmission in the seventh cholera pandemic. Nature 477, 462-465 (2011
    • (2011) Nature , vol.477 , pp. 462-465
    • Mutreja, A.1
  • 36
    • 84876526192 scopus 로고    scopus 로고
    • Hierarchical and spatially explicit clustering of dna sequences with baps software
    • Cheng, L., Connor, T.R., Siren, J., Aanensen, D.M. & Corander, J. Hierarchical and spatially explicit clustering of DNA sequences with BAPS software. Mol. Biol. Evol. 30, 1224-1228 (2013
    • (2013) Mol. Biol. Evol , vol.30 , pp. 1224-1228
    • Cheng, L.1    Connor, T.R.2    Siren, J.3    Aanensen, D.M.4    Corander, J.5
  • 37
    • 84865798417 scopus 로고    scopus 로고
    • Restricted gene flow among hospital subpopulations of Enterococcus faecium
    • Willems, R.J. et al. Restricted gene flow among hospital subpopulations of Enterococcus faecium. mBio 3, e00151-12 (2012
    • (2012) MBio , vol.3
    • Willems, R.J.1
  • 38
    • 77949718257 scopus 로고    scopus 로고
    • FastTree 2-Approximately maximum-likelihood trees for large alignments
    • Price, M.N., Dehal, P.S. & Arkin, A.P. FastTree 2-Approximately maximum-likelihood trees for large alignments. PLoS ONE 5, e9490 (2010
    • (2010) PLoS ONE , vol.5
    • Price, M.N.1    Dehal, P.S.2    Arkin, A.P.3
  • 39
    • 38649110663 scopus 로고    scopus 로고
    • Beast: Bayesian evolutionary analysis by sampling trees
    • Drummond, A.J. & Rambaut, A. BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evol. Biol. 7, 214 (2007
    • (2007) BMC Evol. Biol , vol.7 , pp. 214
    • Drummond, A.J.1    Rambaut, A.2
  • 40
    • 0032733829 scopus 로고    scopus 로고
    • The relative contributions of recombination and mutation to the divergence of clones of Neisseria meningitidis
    • Feil, E.J., Maiden, M.C., Achtman, M. & Spratt, B.G. The relative contributions of recombination and mutation to the divergence of clones of Neisseria meningitidis. Mol. Biol. Evol. 16, 1496-1502 (1999
    • (1999) Mol. Biol. Evol , vol.16 , pp. 1496-1502
    • Feil, E.J.1    Maiden, M.C.2    Achtman, M.3    Spratt, B.G.4
  • 41
    • 33750403801 scopus 로고    scopus 로고
    • Raxml-vi-hpc: Maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
    • Stamatakis, A. RAxML-VI-HPC: Maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22, 2688-2690 (2006
    • (2006) Bioinformatics , vol.22 , pp. 2688-2690
    • Stamatakis, A.1
  • 42
    • 0034912376 scopus 로고    scopus 로고
    • Alterations in murm, a cell wall muropeptide branching enzyme, increase high-level penicillin and cephalosporin resistance in streptococcus pneumoniae
    • Smith, A.M. & Klugman, K.P. Alterations in MurM, a cell wall muropeptide branching enzyme, increase high-level penicillin and cephalosporin resistance in Streptococcus pneumoniae. Antimicrob. Agents Chemother. 45, 2393-2396 (2001
    • (2001) Antimicrob. Agents Chemother , vol.45 , pp. 2393-2396
    • Smith, A.M.1    Klugman, K.P.2
  • 43
    • 79960004119 scopus 로고    scopus 로고
    • Interactive tree of life v2: Online annotation and display of phylogenetic trees made easy
    • Letunic, I. & Bork, P. Interactive Tree Of Life v2: Online annotation and display of phylogenetic trees made easy. Nucleic Acids Res. 39, W475-W478 (2011
    • (2011) Nucleic Acids Res , vol.39
    • Letunic, I.1    Bork, P.2
  • 44
    • 69649109364 scopus 로고    scopus 로고
    • Circos: An information aesthetic for comparative genomics
    • Krzywinski, M. et al. Circos: An information aesthetic for comparative genomics. Genome Res. 19, 1639-1645 (2009.
    • (2009) Genome Res , vol.19 , pp. 1639-1645
    • Krzywinski, M.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.