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Volumn 9, Issue 3, 2013, Pages

The Population and Evolutionary Dynamics of Phage and Bacteria with CRISPR-Mediated Immunity

Author keywords

[No Author keywords available]

Indexed keywords

ADAPTIVE IMMUNITY; ARTICLE; BACTERIAL SURVIVAL; BACTERIOPHAGE; BACTERIUM MUTANT; CAS GENE; CLUSTERED REGULARLY INTERSPACED SHORT PALINDROMIC REPEAT; CONTROLLED STUDY; DNA SEQUENCE; GENE; GENE STRUCTURE; MATHEMATICAL MODEL; MOLECULAR EVOLUTION; NONHUMAN; PHENOTYPE; POPULATION DYNAMICS; PREDICTION; STREPTOCOCCUS THERMOPHILUS; VIRUS CELL INTERACTION; VIRUS MUTANT; VIRUS VIRULENCE; WILD TYPE;

EID: 84876001507     PISSN: 15537390     EISSN: 15537404     Source Type: Journal    
DOI: 10.1371/journal.pgen.1003312     Document Type: Article
Times cited : (145)

References (44)
  • 1
    • 34047118522 scopus 로고    scopus 로고
    • CRISPR provides acquired resistance against viruses in prokaryotes
    • Barrangou R, Fremaux C, Deveau H, Richards M, Boyaval P, et al. (2007) CRISPR provides acquired resistance against viruses in prokaryotes. Science 315: 1709-1712.
    • (2007) Science , vol.315 , pp. 1709-1712
    • Barrangou, R.1    Fremaux, C.2    Deveau, H.3    Richards, M.4    Boyaval, P.5
  • 2
    • 57849137502 scopus 로고    scopus 로고
    • CRISPR interference limits horizontal gene transfer in staphylococci by targeting DNA
    • Marraffini LA, Sontheimer EJ, (2008) CRISPR interference limits horizontal gene transfer in staphylococci by targeting DNA. Science 322: 1843-1845.
    • (2008) Science , vol.322 , pp. 1843-1845
    • Marraffini, L.A.1    Sontheimer, E.J.2
  • 3
    • 77957935381 scopus 로고    scopus 로고
    • CRISPR/Cas system and its role in phage-bacteria interactions
    • Deveau H, Garneau JE, Moineau S, (2010) CRISPR/Cas system and its role in phage-bacteria interactions. Annu Rev Microbiol 64: 475-493.
    • (2010) Annu Rev Microbiol , vol.64 , pp. 475-493
    • Deveau, H.1    Garneau, J.E.2    Moineau, S.3
  • 4
    • 70449753811 scopus 로고    scopus 로고
    • RNA-guided RNA cleavage by a CRISPR RNA-Cas protein complex
    • Hale CR, Zhao P, Olson S, Duff MO, Graveley BR, et al. (2009) RNA-guided RNA cleavage by a CRISPR RNA-Cas protein complex. Cell 139: 945-956.
    • (2009) Cell , vol.139 , pp. 945-956
    • Hale, C.R.1    Zhao, P.2    Olson, S.3    Duff, M.O.4    Graveley, B.R.5
  • 6
    • 79953250082 scopus 로고    scopus 로고
    • CRISPR RNA maturation by trans-encoded small RNA and host factor RNase III
    • Deltcheva E, Chylinski K, Sharma CM, Gonzales K, Chao Y, et al. (2011) CRISPR RNA maturation by trans-encoded small RNA and host factor RNase III. Nature 471: 602-607.
    • (2011) Nature , vol.471 , pp. 602-607
    • Deltcheva, E.1    Chylinski, K.2    Sharma, C.M.3    Gonzales, K.4    Chao, Y.5
  • 7
    • 38949123143 scopus 로고    scopus 로고
    • Phage response to CRISPR-encoded resistance in Streptococcus thermophilus
    • Deveau H, Barrangou R, Garneau JE, Labonte J, Fremaux C, et al. (2008) Phage response to CRISPR-encoded resistance in Streptococcus thermophilus. J Bacteriol 190: 1390-1400.
    • (2008) J Bacteriol , vol.190 , pp. 1390-1400
    • Deveau, H.1    Barrangou, R.2    Garneau, J.E.3    Labonte, J.4    Fremaux, C.5
  • 8
    • 78149261827 scopus 로고    scopus 로고
    • The CRISPR/Cas bacterial immune system cleaves bacteriophage and plasmid DNA
    • Garneau JE, Dupuis ME, Villion M, Romero DA, Barrangou R, et al. (2010) The CRISPR/Cas bacterial immune system cleaves bacteriophage and plasmid DNA. Nature 468: 67-71.
    • (2010) Nature , vol.468 , pp. 67-71
    • Garneau, J.E.1    Dupuis, M.E.2    Villion, M.3    Romero, D.A.4    Barrangou, R.5
  • 9
    • 80755145195 scopus 로고    scopus 로고
    • The Streptococcus thermophilus CRISPR/Cas system provides immunity in Escherichia coli
    • Sapranauskas R, Gasiunas G, Fremaux C, Barrangou R, Horvath P, et al. (2011) The Streptococcus thermophilus CRISPR/Cas system provides immunity in Escherichia coli. Nucleic Acids Res 39: 9275-9282.
    • (2011) Nucleic Acids Res , vol.39 , pp. 9275-9282
    • Sapranauskas, R.1    Gasiunas, G.2    Fremaux, C.3    Barrangou, R.4    Horvath, P.5
  • 10
    • 44449133775 scopus 로고    scopus 로고
    • Virus population dynamics and acquired virus resistance in natural microbial communities
    • Andersson AF, Banfield JF, (2008) Virus population dynamics and acquired virus resistance in natural microbial communities. Science 320: 1047-1050.
    • (2008) Science , vol.320 , pp. 1047-1050
    • Andersson, A.F.1    Banfield, J.F.2
  • 11
    • 38149061877 scopus 로고    scopus 로고
    • Rapidly evolving CRISPRs implicated in acquired resistance of microorganisms to viruses
    • Tyson GW, Banfield JF, (2008) Rapidly evolving CRISPRs implicated in acquired resistance of microorganisms to viruses. Environ Microbiol 10: 200-207.
    • (2008) Environ Microbiol , vol.10 , pp. 200-207
    • Tyson, G.W.1    Banfield, J.F.2
  • 12
    • 78149449833 scopus 로고    scopus 로고
    • Use of cellular CRISPR (clusters of regularly interspaced short palindromic repeats) spacer-based microarrays for detection of viruses in environmental samples
    • Snyder JC, Bateson MM, Lavin M, Young MJ, (2009) Use of cellular CRISPR (clusters of regularly interspaced short palindromic repeats) spacer-based microarrays for detection of viruses in environmental samples. Appl Environ Microbiol 76: 7251-7258.
    • (2009) Appl Environ Microbiol , vol.76 , pp. 7251-7258
    • Snyder, J.C.1    Bateson, M.M.2    Lavin, M.3    Young, M.J.4
  • 13
    • 33646227714 scopus 로고    scopus 로고
    • Mycobacterium tuberculosis complex genetic diversity: mining the fourth international spoligotyping database (SpolDB4) for classification, population genetics and epidemiology
    • Brudey K, Driscoll JR, Rigouts L, Prodinger WM, Gori A, et al. (2006) Mycobacterium tuberculosis complex genetic diversity: mining the fourth international spoligotyping database (SpolDB4) for classification, population genetics and epidemiology. BMC Microbiol 6: 23.
    • (2006) BMC Microbiol , vol.6 , pp. 23
    • Brudey, K.1    Driscoll, J.R.2    Rigouts, L.3    Prodinger, W.M.4    Gori, A.5
  • 14
    • 50349083723 scopus 로고    scopus 로고
    • Insight into microevolution of Yersinia pestis by clustered regularly interspaced short palindromic repeats
    • doi:10.1371/journal.pone.0002652
    • Cui Y, Li Y, Gorge O, Platonov ME, Yan Y, et al. (2008) Insight into microevolution of Yersinia pestis by clustered regularly interspaced short palindromic repeats. PLoS ONE 3: e2652 doi:10.1371/journal.pone.0002652.
    • (2008) PLoS ONE , vol.3
    • Cui, Y.1    Li, Y.2    Gorge, O.3    Platonov, M.E.4    Yan, Y.5
  • 15
    • 15844390228 scopus 로고    scopus 로고
    • CRISPR elements in Yersinia pestis acquire new repeats by preferential uptake of bacteriophage DNA, and provide additional tools for evolutionary studies
    • Pourcel C, Salvignol G, Vergnaud G, (2005) CRISPR elements in Yersinia pestis acquire new repeats by preferential uptake of bacteriophage DNA, and provide additional tools for evolutionary studies. Microbiology 151: 653-663.
    • (2005) Microbiology , vol.151 , pp. 653-663
    • Pourcel, C.1    Salvignol, G.2    Vergnaud, G.3
  • 16
    • 84934438514 scopus 로고    scopus 로고
    • Analysis of the three Yersinia pestis CRISPR loci provides new tools for phylogenetic studies and possibly for the investigation of ancient DNA
    • Vergnaud G, Li Y, Gorge O, Cui Y, Song Y, et al. (2007) Analysis of the three Yersinia pestis CRISPR loci provides new tools for phylogenetic studies and possibly for the investigation of ancient DNA. Adv Exp Med Biol 603: 327-338.
    • (2007) Adv Exp Med Biol , vol.603 , pp. 327-338
    • Vergnaud, G.1    Li, Y.2    Gorge, O.3    Cui, Y.4    Song, Y.5
  • 17
    • 79953205601 scopus 로고    scopus 로고
    • Novel virulence gene and clustered regularly interspaced short palindromic repeat (CRISPR) multilocus sequence typing scheme for subtyping of the major serovars of Salmonella enterica subsp. enterica
    • Liu F, Barrangou R, Gerner-Smidt P, Ribot EM, Knabel SJ, et al. (2011) Novel virulence gene and clustered regularly interspaced short palindromic repeat (CRISPR) multilocus sequence typing scheme for subtyping of the major serovars of Salmonella enterica subsp. enterica. Appl Environ Microbiol 77: 1946-1956.
    • (2011) Appl Environ Microbiol , vol.77 , pp. 1946-1956
    • Liu, F.1    Barrangou, R.2    Gerner-Smidt, P.3    Ribot, E.M.4    Knabel, S.J.5
  • 18
    • 84862657238 scopus 로고    scopus 로고
    • CRISPR: New Horizons in Phage Resistance and Strain Identification
    • Barrangou R, Horvath P, (2012) CRISPR: New Horizons in Phage Resistance and Strain Identification. Annu Rev Food Sci Technol 3: 143-162.
    • (2012) Annu Rev Food Sci Technol , vol.3 , pp. 143-162
    • Barrangou, R.1    Horvath, P.2
  • 19
    • 79952168979 scopus 로고    scopus 로고
    • Multidrug-resistant enterococci lack CRISPR-cas
    • doi:10.1128/mBio.00227-10
    • Palmer KL, Gilmore MS, (2010) Multidrug-resistant enterococci lack CRISPR-cas. MBio 1: e00227-10 doi:10.1128/mBio.00227-10.
    • (2010) MBio , vol.1
    • Palmer, K.L.1    Gilmore, M.S.2
  • 20
    • 23844505202 scopus 로고    scopus 로고
    • Clustered regularly interspaced short palindrome repeats (CRISPRs) have spacers of extrachromosomal origin
    • Bolotin A, Quinquis B, Sorokin A, Ehrlich SD, (2005) Clustered regularly interspaced short palindrome repeats (CRISPRs) have spacers of extrachromosomal origin. Microbiology 151: 2551-2561.
    • (2005) Microbiology , vol.151 , pp. 2551-2561
    • Bolotin, A.1    Quinquis, B.2    Sorokin, A.3    Ehrlich, S.D.4
  • 21
    • 16444385662 scopus 로고    scopus 로고
    • Intervening sequences of regularly spaced prokaryotic repeats derive from foreign genetic elements
    • Mojica FJ, Diez-Villasenor C, Garcia-Martinez J, Soria E, (2005) Intervening sequences of regularly spaced prokaryotic repeats derive from foreign genetic elements. J Mol Evol 60: 174-182.
    • (2005) J Mol Evol , vol.60 , pp. 174-182
    • Mojica, F.J.1    Diez-Villasenor, C.2    Garcia-Martinez, J.3    Soria, E.4
  • 22
    • 79958754524 scopus 로고    scopus 로고
    • Structural and functional characterization of an archaeal clustered regularly interspaced short palindromic repeat (CRISPR)-associated complex for antiviral defense (CASCADE)
    • Lintner NG, Kerou M, Brumfield SK, Graham S, Liu H, et al. Structural and functional characterization of an archaeal clustered regularly interspaced short palindromic repeat (CRISPR)-associated complex for antiviral defense (CASCADE). J Biol Chem 286: 21643-21656.
    • J Biol Chem , vol.286 , pp. 21643-21656
    • Lintner, N.G.1    Kerou, M.2    Brumfield, S.K.3    Graham, S.4    Liu, H.5
  • 23
    • 84864042533 scopus 로고    scopus 로고
    • Diverse CRISPRs evolving in human microbiomes
    • doi:10.1371/journal.pgen.1002441
    • Rho M, Wu YW, Tang H, Doak TG, Ye Y, (2012) Diverse CRISPRs evolving in human microbiomes. PLoS Genet 8: e1002441 doi:10.1371/journal.pgen.1002441.
    • (2012) PLoS Genet , vol.8
    • Rho, M.1    Wu, Y.W.2    Tang, H.3    Doak, T.G.4    Ye, Y.5
  • 24
    • 78449240715 scopus 로고    scopus 로고
    • Nasty viruses, costly plasmids, population dynamics, and the conditions for establishing and maintaining CRISPR-mediated adaptive immunity in bacteria
    • doi:10.1371/journal.pgen.1001171
    • Levin BR, (2010) Nasty viruses, costly plasmids, population dynamics, and the conditions for establishing and maintaining CRISPR-mediated adaptive immunity in bacteria. PLoS Genet 6: e1001171 doi:10.1371/journal.pgen.1001171.
    • (2010) PLoS Genet , vol.6
    • Levin, B.R.1
  • 25
    • 84863491748 scopus 로고    scopus 로고
    • Mult-scale model of CRISRP-induced coevolutionary dynamics: Diversification at the inteface of Lamarck and Darwin
    • doi:10.1111/j.1558-5646.2012.01595.x
    • Childs L, Heild N, Young MJ, Whitaker RJ, Weitz JS, (2012) Mult-scale model of CRISRP-induced coevolutionary dynamics: Diversification at the inteface of Lamarck and Darwin. Evolution doi:10.1111/j.1558-5646.2012.01595.x.
    • (2012) Evolution
    • Childs, L.1    Heild, N.2    Young, M.J.3    Whitaker, R.J.4    Weitz, J.S.5
  • 26
    • 84861117236 scopus 로고    scopus 로고
    • Persisting Viral Sequences Shape Microbial CRISPR-based Immunity
    • doi:10.1371/journal.pcbi.1002475
    • Weinberger A, Sun C, Pluciński M, Dene V, Thomas B, et al. (2012) Persisting Viral Sequences Shape Microbial CRISPR-based Immunity. PLoS Comput Biol 8: e1002475 doi:10.1371/journal.pcbi.1002475.
    • (2012) PLoS Comput Biol , vol.8
    • Weinberger, A.1    Sun, C.2    Pluciński, M.3    Dene, V.4    Thomas, B.5
  • 27
    • 77955342938 scopus 로고    scopus 로고
    • CRISPR-mediated phage resistance and the ghost of coevolution past
    • doi:10.1098/rspb.2010.0055
    • Vale PF, Little TJ, (2010) CRISPR-mediated phage resistance and the ghost of coevolution past. Proc Biol Sci doi:10.1098/rspb.2010.0055.
    • (2010) Proc Biol Sci
    • Vale, P.F.1    Little, T.J.2
  • 28
    • 0004078614 scopus 로고
    • New York: Wiley-Interscience
    • Adams MH (1959) Bacteriophages. New York: Wiley-Interscience.
    • (1959) Bacteriophages
    • Adams, M.H.1
  • 29
    • 0001639179 scopus 로고
    • The growth of bacterial cultures
    • Monod J, (1949) The growth of bacterial cultures. Annual Review of Microbiology 3: 371-394.
    • (1949) Annual Review of Microbiology , vol.3 , pp. 371-394
    • Monod, J.1
  • 30
    • 0000324665 scopus 로고
    • Resource partitioning and the outcome of interspecific competition: a model and some general considerations
    • Stewart FM, Levin BR, (1973) Resource partitioning and the outcome of interspecific competition: a model and some general considerations. American Naturalist 107: 171-198.
    • (1973) American Naturalist , vol.107 , pp. 171-198
    • Stewart, F.M.1    Levin, B.R.2
  • 31
    • 0000313246 scopus 로고
    • Resource-Limited Growth, Competition, and Predation - a Model and Experimental Studies with Bacteria and Bacteriophage
    • Levin BR, Stewart FM, Chao L, (1977) Resource-Limited Growth, Competition, and Predation- a Model and Experimental Studies with Bacteria and Bacteriophage. American Naturalist 111: 3-24.
    • (1977) American Naturalist , vol.111 , pp. 3-24
    • Levin, B.R.1    Stewart, F.M.2    Chao, L.3
  • 32
    • 24944442522 scopus 로고    scopus 로고
    • Global gene expression analysis of two Streptococcus thermophilus bacteriophages using DNA microarray
    • Duplessis M, Russell WM, Romero DA, Moineau S, (2005) Global gene expression analysis of two Streptococcus thermophilus bacteriophages using DNA microarray. Virology 340: 192-208.
    • (2005) Virology , vol.340 , pp. 192-208
    • Duplessis, M.1    Russell, W.M.2    Romero, D.A.3    Moineau, S.4
  • 33
    • 0036729747 scopus 로고    scopus 로고
    • Effect of exopolysaccharides on phage-host interactions in Lactococcus lactis
    • Deveau H, Van Calsteren MR, Moineau S, (2002) Effect of exopolysaccharides on phage-host interactions in Lactococcus lactis. Appl Environ Microbiol 68: 4364-4369.
    • (2002) Appl Environ Microbiol , vol.68 , pp. 4364-4369
    • Deveau, H.1    Van Calsteren, M.R.2    Moineau, S.3
  • 34
    • 22144436672 scopus 로고    scopus 로고
    • Genomic organization and molecular analysis of virulent bacteriophage 2972 infecting an exopolysaccharide-producing Streptococcus thermophilus strain
    • Levesque C, Duplessis M, Labonte J, Labrie S, Fremaux C, et al. (2005) Genomic organization and molecular analysis of virulent bacteriophage 2972 infecting an exopolysaccharide-producing Streptococcus thermophilus strain. Appl Environ Microbiol 71: 4057-4068.
    • (2005) Appl Environ Microbiol , vol.71 , pp. 4057-4068
    • Levesque, C.1    Duplessis, M.2    Labonte, J.3    Labrie, S.4    Fremaux, C.5
  • 35
    • 34047118522 scopus 로고    scopus 로고
    • CRISPR provides acquired resistance against viruses in prokaryotes
    • Barrangou R, Fremaux C, Deveau H, Richards M, Boyaval P, et al. (2007) CRISPR provides acquired resistance against viruses in prokaryotes. Science 315: 1709-1712.
    • (2007) Science , vol.315 , pp. 1709-1712
    • Barrangou, R.1    Fremaux, C.2    Deveau, H.3    Richards, M.4    Boyaval, P.5
  • 36
    • 38949214103 scopus 로고    scopus 로고
    • Diversity, activity, and evolution of CRISPR loci in Streptococcus thermophilus
    • Horvath P, Romero DA, Coute-Monvoisin AC, Richards M, Deveau H, et al. (2008) Diversity, activity, and evolution of CRISPR loci in Streptococcus thermophilus. J Bacteriol 190: 1401-1412.
    • (2008) J Bacteriol , vol.190 , pp. 1401-1412
    • Horvath, P.1    Romero, D.A.2    Coute-Monvoisin, A.C.3    Richards, M.4    Deveau, H.5
  • 37
    • 50349141358 scopus 로고
    • Treatment of staphylococcal infections with penicillin - By intermittent sterilisation
    • Bigger JW, (1944) Treatment of staphylococcal infections with penicillin- By intermittent sterilisation. Lancet 2: 497-500.
    • (1944) Lancet , vol.2 , pp. 497-500
    • Bigger, J.W.1
  • 38
    • 0038442954 scopus 로고
    • Phenotypic alterations associated with the bacteriophage carrier state of Shigella dysenteriae
    • Li K, Barksdale L, Garmise L, (1961) Phenotypic alterations associated with the bacteriophage carrier state of Shigella dysenteriae. J Gen Microbiol 24: 355-367.
    • (1961) J Gen Microbiol , vol.24 , pp. 355-367
    • Li, K.1    Barksdale, L.2    Garmise, L.3
  • 39
    • 0016381709 scopus 로고
    • Persisting bacteriophage infections, lysogeny, and phage conversions
    • Barksdale L, Arden SB, (1974) Persisting bacteriophage infections, lysogeny, and phage conversions. Annu Rev Microbiol 28: 265-299.
    • (1974) Annu Rev Microbiol , vol.28 , pp. 265-299
    • Barksdale, L.1    Arden, S.B.2
  • 40
    • 0017652638 scopus 로고
    • The population biology of bacterial plasmids: a priori conditions for the existence of conjugationally transmitted factors
    • Stewart FM, Levin BR, (1977) The population biology of bacterial plasmids: a priori conditions for the existence of conjugationally transmitted factors. Genetics 87: 209-228.
    • (1977) Genetics , vol.87 , pp. 209-228
    • Stewart, F.M.1    Levin, B.R.2
  • 41
    • 84873129118 scopus 로고    scopus 로고
    • Phage mutations in response to CRISPR diversification in a bacterial population
    • doi:10.1111/j.1462-2920.2012.02879.x
    • Sun CL, Barrangou R, Thomas BC, Horvath P, Fremaux C, et al. (2012) Phage mutations in response to CRISPR diversification in a bacterial population. Environ Microbiol 15 (2) (): 463-70 doi:10.1111/j.1462-2920.2012.02879.x.
    • (2012) Environ Microbiol , vol.15 , Issue.2 , pp. 463-470
    • Sun, C.L.1    Barrangou, R.2    Thomas, B.C.3    Horvath, P.4    Fremaux, C.5
  • 42
    • 0022216068 scopus 로고
    • Constraints on the Coevolution of Bacteria and Virulent Phage - a Model, Some Experiments, and Predictions for Natural Communities
    • Lenski RE, Levin BR, (1985) Constraints on the Coevolution of Bacteria and Virulent Phage- a Model, Some Experiments, and Predictions for Natural Communities. American Naturalist 125: 585-602.
    • (1985) American Naturalist , vol.125 , pp. 585-602
    • Lenski, R.E.1    Levin, B.R.2
  • 43
    • 84863393863 scopus 로고    scopus 로고
    • Repeatability and contingency in the evolution of a key innovation in phage lambda
    • Meyer JR, Dobias DT, Weitz JS, Barrick JE, Quick RT, et al. (2012) Repeatability and contingency in the evolution of a key innovation in phage lambda. Science 335: 428-432.
    • (2012) Science , vol.335 , pp. 428-432
    • Meyer, J.R.1    Dobias, D.T.2    Weitz, J.S.3    Barrick, J.E.4    Quick, R.T.5
  • 44
    • 0033102123 scopus 로고    scopus 로고
    • Complete genomic sequence of the lytic bacteriophage DT1 of Streptococcus thermophilus
    • Tremblay DM, Moineau S, (1999) Complete genomic sequence of the lytic bacteriophage DT1 of Streptococcus thermophilus. Virology 255: 63-76.
    • (1999) Virology , vol.255 , pp. 63-76
    • Tremblay, D.M.1    Moineau, S.2


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