메뉴 건너뛰기




Volumn 80, Issue 2, 2014, Pages 430-439

CRISPRs: Molecular Signatures Used for Pathogen Subtyping

Author keywords

[No Author keywords available]

Indexed keywords

ADAPTIVE IMMUNE SYSTEMS; ERWINIA AMYLOVORA; GRAM-NEGATIVE BACTERIA; MOLECULAR SIGNATURES; MYCOBACTERIUM TUBERCULOSIS; SALMONELLA ENTERICA; SIGNATURE FUNCTION; STRAIN IDENTIFICATION;

EID: 84892453591     PISSN: 00992240     EISSN: 10985336     Source Type: Journal    
DOI: 10.1128/AEM.02790-13     Document Type: Short Survey
Times cited : (122)

References (96)
  • 1
    • 20544465875 scopus 로고    scopus 로고
    • Consensus guidelines for appropriate use and evaluation of microbial epidemiologic typing systems
    • Struelens MJ. 1996. Consensus guidelines for appropriate use and evaluation of microbial epidemiologic typing systems. Clin. Microbiol. Infect. 2:2-11. http://dx.doi.org/10.1111/j.1469-0691.1996.tb00193.x.
    • (1996) Clin. Microbiol. Infect. , vol.2 , pp. 2-11
    • Struelens, M.J.1
  • 2
    • 84873874372 scopus 로고    scopus 로고
    • Overview of molecular typing methods for outbreak detection and epidemiological surveillance
    • ESCMID Study Group of Epidemiological Markers (ESGEM).
    • Sabat A, Budimir A, Nashev D, Sá-Leão R, van Dijl J, Laurent F, Grundmann H, Friedrich AW; ESCMID Study Group of Epidemiological Markers (ESGEM). 2013. Overview of molecular typing methods for outbreak detection and epidemiological surveillance. Euro Surveill. 18: 20380.
    • (2013) Euro Surveill. , vol.18 , pp. 20380
    • Sabat, A.1    Budimir, A.2    Nashev, D.3    Sá-Leão, R.4    van Dijl, J.5    Laurent, F.6    Grundmann, H.7    Friedrich, A.W.8
  • 3
    • 0023600057 scopus 로고
    • Nucleotide sequence of the iap gene, responsible for alkaline phosphatase isozyme conversion in Escherichia coli, and identification of the gene product
    • Ishino Y, Shinagawa H, Makino K, Amemura M, Nakata A. 1987. Nucleotide sequence of the iap gene, responsible for alkaline phosphatase isozyme conversion in Escherichia coli, and identification of the gene product. J. Bacteriol. 169:5429-5433.
    • (1987) J. Bacteriol. , vol.169 , pp. 5429-5433
    • Ishino, Y.1    Shinagawa, H.2    Makino, K.3    Amemura, M.4    Nakata, A.5
  • 4
    • 0036408356 scopus 로고    scopus 로고
    • Identification of a novel family of sequence repeats among prokaryotes
    • Jansen R, van Embden JD, Gaastra W, Schouls LM. 2002. Identification of a novel family of sequence repeats among prokaryotes. OMICS 6:23-33. http://dx .doi.org/10.1089/15362310252780816.
    • (2002) OMICS , vol.6 , pp. 23-33
    • Jansen, R.1    van Embden, J.D.2    Gaastra, W.3    Schouls, L.M.4
  • 5
    • 0036267740 scopus 로고    scopus 로고
    • Identification of genes that are associated with DNA repeats in prokaryotes
    • Jansen R, van Embden JDA, Gaastra W, Schouls LM. 2002. Identification of genes that are associated with DNA repeats in prokaryotes. Mol. Microbiol. 43:1565-1575. http://dx.doi.org/10.1046/j.1365-2958 .2002.02839.x.
    • (2002) Mol. Microbiol. , vol.43 , pp. 1565-1575
    • Jansen, R.1    van Embden, J.D.A.2    Gaastra, W.3    Schouls, L.M.4
  • 6
    • 0034034401 scopus 로고    scopus 로고
    • Biological significance of a family of regularly spaced repeats in the genomes of Archaea, Bacteria and mitochondria
    • Mojica F, Díez-Villaseñor C, Soria E, Juez G. 2000. Biological significance of a family of regularly spaced repeats in the genomes of Archaea, Bacteria and mitochondria. Mol. Microbiol. 36:244-246. http://dx.doi .org/10.1046/j.1365-2958.2000.01838.x.
    • (2000) Mol. Microbiol. , vol.36 , pp. 244-246
    • Mojica, F.1    Díez-Villaseñor, C.2    Soria, E.3    Juez, G.4
  • 8
    • 23844505202 scopus 로고    scopus 로고
    • Clustered regularly interspaced short palindrome repeats (CRISPRs) have spacers of extrachromosomal origin
    • Bolotin A, Quinquis B, Sorokin A, Ehrlich S. 2005. Clustered regularly interspaced short palindrome repeats (CRISPRs) have spacers of extrachromosomal origin. Microbiology 151:2551-2561. http://dx.doi.org/10 .1099/mic.0.28048-0.
    • (2005) Microbiology , vol.151 , pp. 2551-2561
    • Bolotin, A.1    Quinquis, B.2    Sorokin, A.3    Ehrlich, S.4
  • 9
    • 16444385662 scopus 로고    scopus 로고
    • Intervening sequences of regularly spaced prokaryotic repeats derive from foreign genetic elements
    • Mojica FJ, Díez-Villaseñor C, García-Martínez J, Soria E. 2005. Intervening sequences of regularly spaced prokaryotic repeats derive from foreign genetic elements. J. Mol. Evol. 60:174-182. http://dx.doi.org/10.1007 /s00239-004-0046-3.
    • (2005) J. Mol. Evol. , vol.60 , pp. 174-182
    • Mojica, F.J.1    Díez-Villaseñor, C.2    García-Martínez, J.3    Soria, E.4
  • 10
    • 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. http://dx.doi.org/10.1099/mic.0.27437-0.
    • (2005) Microbiology , vol.151 , pp. 653-663
    • Pourcel, C.1    Salvignol, G.2    Vergnaud, G.3
  • 11
    • 84876440888 scopus 로고    scopus 로고
    • CRISPR-Cas systems and RNA-guided interference
    • Barrangou R. 2013. CRISPR-Cas systems and RNA-guided interference. Wiley Interdiscip. Rev. RNA 4:267-278. http://dx.doi.org/10.1002/wrna .1159.
    • (2013) Wiley Interdiscip. Rev. RNA , vol.4 , pp. 267-278
    • Barrangou, R.1
  • 12
    • 80755187812 scopus 로고    scopus 로고
    • CRISPR-Cas systems in Bacteria and Archaea: versatile small RNAs for adaptive defense and regulation
    • Bhaya D, Davison M, Barrangou R. 2011. CRISPR-Cas systems in Bacteria and Archaea: versatile small RNAs for adaptive defense and regulation. Annu. Rev. Genet. 45:273-297. http://dx.doi.org/10.1146/annurev -genet-110410-132430.
    • (2011) Annu. Rev. Genet. , vol.45 , pp. 273-297
    • Bhaya, D.1    Davison, M.2    Barrangou, R.3
  • 13
    • 84857097177 scopus 로고    scopus 로고
    • RNA-guided genetic silencing systems in bacteria and archaea
    • Wiedenheft B, Sternberg SH, Doudna JA. 2012. RNA-guided genetic silencing systems in bacteria and archaea. Nature 482:331-338. http://dx .doi.org/10.1038/nature10886.
    • (2012) Nature , vol.482 , pp. 331-338
    • Wiedenheft, B.1    Sternberg, S.H.2    Doudna, J.A.3
  • 14
    • 34250662138 scopus 로고    scopus 로고
    • The CRISPRdb database and tools to display CRISPRs and to generate dictionaries of spacers and repeats
    • Grissa I, Vergnaud G, Pourcel C. 2007. The CRISPRdb database and tools to display CRISPRs and to generate dictionaries of spacers and repeats. BMC Bioinformatics 8:172. http://dx.doi.org/10.1186/1471-2105-8 -172.
    • (2007) BMC Bioinformatics , vol.8 , pp. 172
    • Grissa, I.1    Vergnaud, G.2    Pourcel, C.3
  • 16
    • 77949398275 scopus 로고    scopus 로고
    • Identification and characterization of E coli CRISPR-cas promoters and their silencing by H-NS
    • Pul U, Wurm R, Arslan Z, Geissen R, Hofmann N, Wagner R. 2010. Identification and characterization of E. coli CRISPR-cas promoters and their silencing by H-NS. Mol. Microbiol. 75:1495-1512. http://dx.doi.org /10.1111/j.1365-2958.2010.07073.x.
    • (2010) Mol. Microbiol. , vol.75 , pp. 1495-1512
    • Pul, U.1    Wurm, R.2    Arslan, Z.3    Geissen, R.4    Hofmann, N.5    Wagner, R.6
  • 18
    • 57049149666 scopus 로고    scopus 로고
    • Prokaryotic silencing (psi) RNAs in Pyrococcus furiosus
    • Hale C, Kleppe K, Terns R, Terns M. 2008. Prokaryotic silencing (psi) RNAs in Pyrococcus furiosus. RNA 4:2572-2579.
    • (2008) RNA , vol.4 , pp. 2572-2579
    • Hale, C.1    Kleppe, K.2    Terns, R.3    Terns, M.4
  • 19
    • 70449753811 scopus 로고    scopus 로고
    • RNA-guided RNA cleavage by a CRISPR RNA-Cas protein complex
    • Hale C, Zhao P, Olson S, Duff M, Graveley B, Wells L, Terns R, Terns M. 2009. RNA-guided RNA cleavage by a CRISPR RNA-Cas protein complex. Cell 139:945-956. http://dx.doi.org/10.1016/j.cell.2009.07.040.
    • (2009) Cell , vol.139 , pp. 945-956
    • Hale, C.1    Zhao, P.2    Olson, S.3    Duff, M.4    Graveley, B.5    Wells, L.6    Terns, R.7    Terns, M.8
  • 20
    • 33748096466 scopus 로고    scopus 로고
    • A putative viral defence mechanism in archaeal cells
    • Lillestøl R, Redder P, Garrett R, Brügger K. 2006. A putative viral defence mechanism in archaeal cells. Archaea 2:59-72. http://dx.doi.org /10.1155/2006/542818.
    • (2006) Archaea , vol.2 , pp. 59-72
    • Lillestøl, R.1    Redder, P.2    Garrett, R.3    Brügger, K.4
  • 23
    • 79960418330 scopus 로고    scopus 로고
    • Comparative genomics of 28 Salmonella enterica isolates: evidence for CRISPR-mediated adaptive sublineage evolution
    • Fricke W, Mammel M, McDermott P, Tartera C, White D, Leclerc J, Ravel J, Cebula T. 2011. Comparative genomics of 28 Salmonella enterica isolates: evidence for CRISPR-mediated adaptive sublineage evolution. J. Bacteriol. 193:3556-3568. http://dx.doi.org/10.1128/JB.00297-11.
    • (2011) J. Bacteriol. , vol.193 , pp. 3556-3568
    • Fricke, W.1    Mammel, M.2    McDermott, P.3    Tartera, C.4    White, D.5    Leclerc, J.6    Ravel, J.7    Cebula, T.8
  • 24
    • 84868143545 scopus 로고    scopus 로고
    • The CRISPR/Cas adaptive immune system of Pseudomonas aeruginosa mediates resistance to naturally occurring and engineered phages.
    • Cady KC, Bondy-Denomy J, Heussler GE, Davidson AR, O'Toole GA. The CRISPR/Cas adaptive immune system of Pseudomonas aeruginosa mediates resistance to naturally occurring and engineered phages. J. Bacteriol. 194:5728-5738. http://dx.doi.org/10.1128/JB.01184-12.
    • J. Bacteriol. , vol.194 , pp. 5728-5738
    • Cady, K.C.1    Bondy-Denomy, J.2    Heussler, G.E.3    Davidson, A.R.4    O'Toole, G.A.5
  • 25
    • 67650756698 scopus 로고    scopus 로고
    • Analysis of CRISPR in Streptococcus mutans suggests frequent occurrence of acquired immunity against infection by M102-like bacteriophages
    • van der Ploeg J. 2009. Analysis of CRISPR in Streptococcus mutans suggests frequent occurrence of acquired immunity against infection by M102-like bacteriophages. Microbiology 155(Pt 6):1966-1976. http://dx .doi.org/10.1099/mic.0.027508-0.
    • (2009) Microbiology , vol.155 , Issue.PART 6 , pp. 1966-1976
    • van der Ploeg, J.1
  • 26
    • 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. http://dx.doi.org/10.1126/science.1157358.
    • (2008) Science , vol.320 , pp. 1047-1050
    • Andersson, A.F.1    Banfield, J.F.2
  • 27
    • 58549120798 scopus 로고    scopus 로고
    • Viral biogeography revealed by signatures in Sulfolobus islandicus genomes
    • Held N, Whitaker R. 2009. Viral biogeography revealed by signatures in Sulfolobus islandicus genomes. Environ. Microbiol. 11:457-466. http: //dx.doi.org/10.1111/j.1462-2920.2008.01784.x.
    • (2009) Environ. Microbiol. , vol.11 , pp. 457-466
    • Held, N.1    Whitaker, R.2
  • 29
    • 78651482834 scopus 로고    scopus 로고
    • Analysis of streptococcal CRISPRs from human saliva reveals substantial sequence diversity within and between subjects over time
    • Pride DT, Sun CL, Salzman J, Rao N, Loomer P, Armitage GC, Banfield JF, Relman DA. 2011. Analysis of streptococcal CRISPRs from human saliva reveals substantial sequence diversity within and between subjects over time. Genome Res. 21:126-136. http://dx.doi.org/10.1101/gr.111732 .110.
    • (2011) Genome Res. , vol.21 , pp. 126-136
    • Pride, D.T.1    Sun, C.L.2    Salzman, J.3    Rao, N.4    Loomer, P.5    Armitage, G.C.6    Banfield, J.F.7    Relman, D.A.8
  • 30
    • 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. http://dx.doi.org/10.1111/j.1462-2920.2007.01444.x.
    • (2008) Environ. Microbiol. , vol.10 , pp. 200-207
    • Tyson, G.W.1    Banfield, J.F.2
  • 32
    • 84864425353 scopus 로고    scopus 로고
    • Erwinia amylovora CRISPR elements provide new tools for evaluating strain diversity and for microbial source tracking
    • McGhee G, Sundin G. 2012. Erwinia amylovora CRISPR elements provide new tools for evaluating strain diversity and for microbial source tracking. PLoS One 7:e41706. http://dx.doi.org/10.1371/journal.pone .0041706.
    • (2012) PLoS One , vol.7
    • McGhee, G.1    Sundin, G.2
  • 33
    • 4844223197 scopus 로고    scopus 로고
    • Tandem repeats analysis for the high resolution phylogenetic analysis of Yersinia pestis
    • Pourcel C, Andre-Mazeaud F, Neubauer H, Ramisse F, Vergnaud G. Tandem repeats analysis for the high resolution phylogenetic analysis of Yersinia pestis. BMC Microbiol. 4:22. http://dx.doi.org/10.1186 /1471-2180-4-22.
    • BMC Microbiol , vol.4 , pp. 22
    • Pourcel, C.1    Andre-Mazeaud, F.2    Neubauer, H.3    Ramisse, F.4    Vergnaud, G.5
  • 34
    • 79958285933 scopus 로고    scopus 로고
    • Diversity, evolution and functionality of CRISPR regions in the fire blight pathogen Erwinia amylovora
    • Rezzonico F, Smits T, Duffy B. 2011. Diversity, evolution and functionality of CRISPR regions in the fire blight pathogen Erwinia amylovora. Appl. Environ. Microbiol. 77:3819-3829. http://dx.doi.org/10.1128/AEM .00177-11.
    • (2011) Appl. Environ. Microbiol. , vol.77 , pp. 3819-3829
    • Rezzonico, F.1    Smits, T.2    Duffy, B.3
  • 37
    • 84891621438 scopus 로고    scopus 로고
    • CRISPR regulation of intraspecies diversification by limiting IS transposition and intercellular recombination
    • Watanabe T, Nozawa T, Aikawa C, Amano A, Maruyama F, Nakagawa I. 2013. CRISPR regulation of intraspecies diversification by limiting IS transposition and intercellular recombination. Genome Biol. Evol. 5:1099-1114. http://dx.doi.org/10.1093/gbe/evt075.
    • (2013) Genome Biol. Evol. , vol.5 , pp. 1099-1114
    • Watanabe, T.1    Nozawa, T.2    Aikawa, C.3    Amano, A.4    Maruyama, F.5    Nakagawa, I.6
  • 38
    • 84884263150 scopus 로고    scopus 로고
    • Evolutionary divergence of Shiga toxin-producing Escherichia coli is reflected in CRISPR spacer composition
    • Yin S, Jensen MA, Bai J, DebRoy C, Barrangou R, Dudley EG. 2013. Evolutionary divergence of Shiga toxin-producing Escherichia coli is reflected in CRISPR spacer composition. Appl. Environ. Microbiol. 79: 5710-5720. http://dx.doi.org/10.1128/AEM.00950-13.
    • (2013) Appl. Environ. Microbiol. , vol.79 , pp. 5710-5720
    • Yin, S.1    Jensen, M.A.2    Bai, J.3    DebRoy, C.4    Barrangou, R.5    Dudley, E.G.6
  • 39
    • 58349087246 scopus 로고    scopus 로고
    • Germ warfare in a microbial mat community: CRISPRs provide insights into the coevolution of host and viral genomes
    • Heidelberg JF, Nelson WC, Schoenfeld T, Bhaya D. 2009. Germ warfare in a microbial mat community: CRISPRs provide insights into the coevolution of host and viral genomes. PLoS One 4:e4169. http://dx.doi.org /10.1371/journal.pone.0004169.
    • (2009) PLoS One , vol.4
    • Heidelberg, J.F.1    Nelson, W.C.2    Schoenfeld, T.3    Bhaya, D.4
  • 40
    • 84879007876 scopus 로고    scopus 로고
    • Holding a grudge: persisting anti-phage CRISPR immunity in multiple human gut microbiomes
    • Mick E, Stern A, Sorek R. 2013. Holding a grudge: persisting anti-phage CRISPR immunity in multiple human gut microbiomes. RNA Biol. 10: 900-906. http://dx.doi.org/10.4161/rna.23929.
    • (2013) RNA Biol. , vol.10 , pp. 900-906
    • Mick, E.1    Stern, A.2    Sorek, R.3
  • 41
    • 84865169354 scopus 로고    scopus 로고
    • CRISPR targeting reveals a reservoir of common phages associated with the human gut microbiome
    • Stern A, Mick E, Tirosh I, Sagy O, Sorek R. 2012. CRISPR targeting reveals a reservoir of common phages associated with the human gut microbiome. Genome Res. 22:1985-1994. http://dx.doi.org/10.1101/gr .138297.112.
    • (2012) Genome Res. , vol.22 , pp. 1985-1994
    • Stern, A.1    Mick, E.2    Tirosh, I.3    Sagy, O.4    Sorek, R.5
  • 43
    • 76449099470 scopus 로고    scopus 로고
    • CRISPR analysis of bacteriophage-insensitive mutants (BIMs) of industrial Streptococcus thermophilus-implications for starter design
    • Mills S, Griffin C, Coffey A, Meijer WC, Hafkamp B, Ross RP. 2010. CRISPR analysis of bacteriophage-insensitive mutants (BIMs) of industrial Streptococcus thermophilus-implications for starter design. J. Appl. Microbiol. 108:945-955. http://dx.doi.org/10.1111/j.1365-2672 .2009.04486.x.
    • (2010) J. Appl. Microbiol. , vol.108 , pp. 945-955
    • Mills, S.1    Griffin, C.2    Coffey, A.3    Meijer, W.C.4    Hafkamp, B.5    Ross, R.P.6
  • 46
    • 84874608929 scopus 로고    scopus 로고
    • RNA-guided editing of bacterial genomes using CRISPR-Cas systems
    • Jiang W, Bikard D, Cox D, Zhang F, Marraffini L. 2013. RNA-guided editing of bacterial genomes using CRISPR-Cas systems. Nat. Biotechnol. 31:233-239. http://dx.doi.org/10.1038/nbt.2508.
    • (2013) Nat. Biotechnol. , vol.31 , pp. 233-239
    • Jiang, W.1    Bikard, D.2    Cox, D.3    Zhang, F.4    Marraffini, L.5
  • 48
    • 84874687019 scopus 로고    scopus 로고
    • Repurposing CRISPR as an RNA-guided platform for sequencespecific control of gene expression
    • Qi L, Larson M, Gilbert L, Doudna J, Weissman J, Arkin A, Lim W. 2013. Repurposing CRISPR as an RNA-guided platform for sequencespecific control of gene expression. Cell 152:1173-1183. http://dx.doi.org /10.1016/j.cell.2013.02.022.
    • (2013) Cell , vol.152 , pp. 1173-1183
    • Qi, L.1    Larson, M.2    Gilbert, L.3    Doudna, J.4    Weissman, J.5    Arkin, A.6    Lim, W.7
  • 50
    • 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, Dudley EG. 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. http://dx.doi.org/10.1128/AEM .02625-10.
    • 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    Dudley, E.G.6
  • 51
    • 0034000319 scopus 로고    scopus 로고
    • Genetic variation and evolutionary origin of the direct repeat locus of Mycobacterium tuberculosis complex bacteria
    • van Embden J, van Gorkom T, Kremer K, Jansen R, van Der Zeijst B, Schouls L. 2000. Genetic variation and evolutionary origin of the direct repeat locus of Mycobacterium tuberculosis complex bacteria. J. Bacteriol. 182:2393-2401. http://dx.doi.org/10.1128/JB.182.9.2393-2401.2000.
    • (2000) J. Bacteriol. , vol.182 , pp. 2393-2401
    • van Embden, J.1    van Gorkom, T.2    Kremer, K.3    Jansen, R.4    van Der Zeijst, B.5    Schouls, L.6
  • 52
    • 84872243390 scopus 로고    scopus 로고
    • The combination of CRISPR-MVLST and PFGE provides increased discriminatory power for differentiating human clinical isolates of Salmonella enterica subsp enterica serovar Enteritidis
    • Shariat N, DiMarzio MJ, Yin S, Dettinger L, Sandt CH, Lute JR, Barrangou R, Dudley EG. 2013. The combination of CRISPR-MVLST and PFGE provides increased discriminatory power for differentiating human clinical isolates of Salmonella enterica subsp. enterica serovar Enteritidis. Food Microbiol. 34:164-173. http://dx.doi.org/10.1016/j.fm .2012.11.012.
    • (2013) Food Microbiol. , vol.34 , pp. 164-173
    • Shariat, N.1    DiMarzio, M.J.2    Yin, S.3    Dettinger, L.4    Sandt, C.H.5    Lute, J.R.6    Barrangou, R.7    Dudley, E.G.8
  • 53
    • 0027724480 scopus 로고    scopus 로고
    • Nature of DNA polymorphism in the direct repeat cluster of Mycobacterium tuberculosis; application for strain differentiation by a novel typing method.
    • Groenen PM, Bunschoten AE, van Soolingen D, van Embden JDA. Nature of DNA polymorphism in the direct repeat cluster of Mycobacterium tuberculosis; application for strain differentiation by a novel typing method. Mol. Microbiol. 10:1057-1065. http://dx.doi.org/10.1111 /j.1365-2958.1993.tb00976.x.
    • Mol. Microbiol , vol.10 , pp. 1057-1065
    • Groenen, P.M.1    Bunschoten, A.E.2    van Soolingen, D.3    van Embden, J.D.A.4
  • 56
    • 0346462903 scopus 로고    scopus 로고
    • Transfer of a Mycobacterium tuberculosis genotyping method, spoligotyping, from a reverse line-blot hybridization, membrane-based assay to the Luminex multianalyte profiling system
    • Cowan LS, Diem L, Brake MC, Crawford JT. 2004. Transfer of a Mycobacterium tuberculosis genotyping method, spoligotyping, from a reverse line-blot hybridization, membrane-based assay to the Luminex multianalyte profiling system. J. Clin. Microbiol. 42:474-477. http://dx.doi.org/10 .1128/JCM.42.1.474-477.2004.
    • (2004) J. Clin. Microbiol. , vol.42 , pp. 474-477
    • Cowan, L.S.1    Diem, L.2    Brake, M.C.3    Crawford, J.T.4
  • 57
    • 18744372982 scopus 로고    scopus 로고
    • Improvement of differentiation and interpretability of spoligotyping for Mycobacterium tuberculosis complex isolates by introduction of new spacer oligonucleotides
    • van der Zanden AGM, Kremer K, Schouls LM, Caimi K, Cataldi A, Hulleman A, Nagelkerke NJD, van Soolingen D. 2002. Improvement of differentiation and interpretability of spoligotyping for Mycobacterium tuberculosis complex isolates by introduction of new spacer oligonucleotides. J. Clin. Microbiol. 40:4628-4639. http://dx.doi.org/10.1128/JCM .40.12.4628-4639.2002.
    • (2002) J. Clin. Microbiol. , vol.40 , pp. 4628-4639
    • van der Zanden, A.G.M.1    Kremer, K.2    Schouls, L.M.3    Caimi, K.4    Cataldi, A.5    Hulleman, A.6    Nagelkerke, N.J.D.7    van Soolingen, D.8
  • 58
    • 76649135130 scopus 로고    scopus 로고
    • Mycobacterium tuberculosis complex CRISPR genotyping: improving efficiency, throughput and discriminative power of "spoligotyping" with new spacers and a microbead-based hybridization assay
    • Zhang J, Abadia E, Refregier G, Tafaj S, Boschiroli ML, Guillard B, Andremont A, Ruimy R, Sola C. 2010. Mycobacterium tuberculosis complex CRISPR genotyping: improving efficiency, throughput and discriminative power of "spoligotyping" with new spacers and a microbead-based hybridization assay. J. Med. Microbiol. 59(Pt 3):285-294. http://dx.doi .org/10.1099/jmm.0.016949-0.
    • (2010) J. Med. Microbiol. , vol.59 , Issue.PART 3 , pp. 285-294
    • Zhang, J.1    Abadia, E.2    Refregier, G.3    Tafaj, S.4    Boschiroli, M.L.5    Guillard, B.6    Andremont, A.7    Ruimy, R.8    Sola, C.9
  • 60
    • 84892450891 scopus 로고    scopus 로고
    • Antigenic formulae of the Salmonella serovars, 9th ed.WHOCollaborating Centre for Reference and Research on Salmonella, Paris, France.
    • Grimont P, Weill F. 2007. Antigenic formulae of the Salmonella serovars, 9th ed.WHOCollaborating Centre for Reference and Research on Salmonella, Paris, France.
    • , vol.2007
    • Grimont, P.1    Weill, F.2
  • 61
    • 16844378680 scopus 로고    scopus 로고
    • Efficient discrimination within a Corynebacterium diphtheriae epidemic clonal group by a novel macroarray-based method
    • Mokrousov I, Narvskaya O, Limeschenko E, Vyazovaya A. 2005. Efficient discrimination within a Corynebacterium diphtheriae epidemic clonal group by a novel macroarray-based method. J. Clin. Microbiol. 43:1662-1668. http://dx.doi.org/10.1128/JCM.43.4.1662-1668.2005.
    • (2005) J. Clin. Microbiol. , vol.43 , pp. 1662-1668
    • Mokrousov, I.1    Narvskaya, O.2    Limeschenko, E.3    Vyazovaya, A.4
  • 62
    • 34547405296 scopus 로고    scopus 로고
    • Corynebacterium diphtheriae spoligotyping based on combined use of two CRISPR loci
    • Mokrousov I, Limeschenko E, Vyazovaya A, Narvskaya O. 2007. Corynebacterium diphtheriae spoligotyping based on combined use of two CRISPR loci. Biotechnol. J. 2:901-906. http://dx.doi.org/10.1002/biot .200700035.
    • (2007) Biotechnol. J. , vol.2 , pp. 901-906
    • Mokrousov, I.1    Limeschenko, E.2    Vyazovaya, A.3    Narvskaya, O.4
  • 63
  • 65
    • 77951820302 scopus 로고    scopus 로고
    • Replacing reverse line blot hybridization spoligotyping of the Mycobacterium tuberculosis complex
    • Honisch C, Mosko M, Arnold C, Gharbia SE, Diel R, Niemann S. 2010. Replacing reverse line blot hybridization spoligotyping of the Mycobacterium tuberculosis complex. J. Clin. Microbiol. 48:1520-1526. http://dx.doi .org/10.1128/JCM.02299-09.
    • (2010) J. Clin. Microbiol. , vol.48 , pp. 1520-1526
    • Honisch, C.1    Mosko, M.2    Arnold, C.3    Gharbia, S.E.4    Diel, R.5    Niemann, S.6
  • 67
    • 84882428020 scopus 로고    scopus 로고
    • Antibiotic resistance in Salmonella enterica serovar Typhimurium associates with CRISPR sequence type.
    • DiMarzio MJ, Shariat N, Kariyawasam S, Barrangou R, Dudley EG. Antibiotic resistance in Salmonella enterica serovar Typhimurium associates with CRISPR sequence type. Antimicrob. Agents Chemother. 57:4282-4289. http://dx.doi.org/10.1128/AAC.00913-13.
    • Antimicrob. Agents Chemother. , vol.57 , pp. 4282-4289
    • DiMarzio, M.J.1    Shariat, N.2    Kariyawasam, S.3    Barrangou, R.4    Dudley, E.G.5
  • 68
    • 79960084127 scopus 로고    scopus 로고
    • Subtyping Salmonella enterica serovar enteritidis isolates from different sources by using sequence typing based on virulence genes and clustered regularly interspaced short palindromic repeats (CRISPRs)
    • Liu F, Kariyawasam S, Jayarao BM, Barrangou R, Gerner-Smidt P, Ribot EM, Knabel SJ, Dudley EG. 2011. Subtyping Salmonella enterica serovar enteritidis isolates from different sources by using sequence typing based on virulence genes and clustered regularly interspaced short palindromic repeats (CRISPRs). Appl. Environ. Microbiol. 77:4520-4526. http://dx.doi.org/10.1128/AEM.00468-11.
    • (2011) Appl. Environ. Microbiol. , vol.77 , pp. 4520-4526
    • Liu, F.1    Kariyawasam, S.2    Jayarao, B.M.3    Barrangou, R.4    Gerner-Smidt, P.5    Ribot, E.M.6    Knabel, S.J.7    Dudley, E.G.8
  • 69
    • 84879442753 scopus 로고    scopus 로고
    • CRISPR-MVLST subtyping of Salmonella enterica serovar Newport outbreak isolates and determination of the relationship between CRISPRMVLST and PFGE.
    • Shariat N, Kirchner MK, Sandt CH, Trees E, Barrangou R, Dudley EG. CRISPR-MVLST subtyping of Salmonella enterica serovar Newport outbreak isolates and determination of the relationship between CRISPRMVLST and PFGE. J. Clin. Microbiol. 51:2328-2336. http://dx.doi.org/10 .1128/JCM.00608-13.
    • J. Clin. Microbiol. , vol.51 , pp. 2328-2336
    • Shariat, N.1    Kirchner, M.K.2    Sandt, C.H.3    Trees, E.4    Barrangou, R.5    Dudley, E.G.6
  • 70
    • 0037236212 scopus 로고    scopus 로고
    • Comparative genotyping of Campylobacter jejuni by amplified fragment length polymorphism, multilocus sequence typing, and short repeat sequencing: strain diversity, host range, and recombination
    • Schouls LM, Reulen S, Duim B, Wagenaar JA, Willems RJL, Dingle KE, Colles FM, Van Embden JDA. 2003. Comparative genotyping of Campylobacter jejuni by amplified fragment length polymorphism, multilocus sequence typing, and short repeat sequencing: strain diversity, host range, and recombination. J. Clin. Microbiol. 41:15-26. http://dx.doi.org/10 .1128/JCM.41.1.15-26.2003.
    • (2003) J. Clin. Microbiol. , vol.41 , pp. 15-26
    • Schouls, L.M.1    Reulen, S.2    Duim, B.3    Wagenaar, J.A.4    Willems, R.J.L.5    Dingle, K.E.6    Colles, F.M.7    Van Embden, J.D.A.8
  • 72
    • 77949295507 scopus 로고    scopus 로고
    • Complete genome sequence of the fire blight pathogen Erwinia amylovora CFBP 1430 and comparison to other Erwinia spp
    • Smits TH, Rezzonico F, Kamber T, Blom J, Goesmann A, Frey JE, Duffy B. 2010. Complete genome sequence of the fire blight pathogen Erwinia amylovora CFBP 1430 and comparison to other Erwinia spp. Mol. Plant Microbe Interact. 23:384-393. http://dx.doi.org/10.1094/MPMI-23-4 -0384.
    • (2010) Mol. Plant Microbe Interact. , vol.23 , pp. 384-393
    • Smits, T.H.1    Rezzonico, F.2    Kamber, T.3    Blom, J.4    Goesmann, A.5    Frey, J.E.6    Duffy, B.7
  • 73
    • 0036010687 scopus 로고    scopus 로고
    • Following spread of fire blight in Western, Central and Southern Europe by molecular differentiation of Erwinia amylovora strains with PFGE analysis
    • Jock S, Donat V, López MM, Bazzi C, Geider K. 2002. Following spread of fire blight in Western, Central and Southern Europe by molecular differentiation of Erwinia amylovora strains with PFGE analysis. Environ. Microbiol. 4:106-114. http://dx.doi.org/10.1046/j.1462-2920.2002.00277.x.
    • (2002) Environ. Microbiol. , vol.4 , pp. 106-114
    • Jock, S.1    Donat, V.2    López, M.M.3    Bazzi, C.4    Geider, K.5
  • 74
    • 0029189033 scopus 로고
    • Genetic fingerprinting of Erwinia amylovora strains isolated from tree-fruit crops and Rubus spp
    • McManus P, Jones A. 1995. Genetic fingerprinting of Erwinia amylovora strains isolated from tree-fruit crops and Rubus spp. Phytopathology 85: 1547-1553. http://dx.doi.org/10.1094/Phyto-85-1547.
    • (1995) Phytopathology , vol.85 , pp. 1547-1553
    • McManus, P.1    Jones, A.2
  • 75
    • 0032723592 scopus 로고    scopus 로고
    • Analysis of variable short-sequence DNA repeats on the 29 kb plasmid of Erwinia amylovora strains
    • Kim W, Geider K. 1999. Analysis of variable short-sequence DNA repeats on the 29 kb plasmid of Erwinia amylovora strains. Eur. J. Plant Pathol. 105:703-713. http://dx.doi.org/10.1023/A:1008723717211.
    • (1999) Eur. J. Plant Pathol. , vol.105 , pp. 703-713
    • Kim, W.1    Geider, K.2
  • 76
    • 33947252883 scopus 로고    scopus 로고
    • Multi-virulence-locus sequence typing identifies single nucleotide polymorphisms which differentiate epidemic clones and outbreak strains of Listeria monocytogenes
    • Chen Y, Zhang W, Knabel SJ. 2007. Multi-virulence-locus sequence typing identifies single nucleotide polymorphisms which differentiate epidemic clones and outbreak strains of Listeria monocytogenes. J. Clin. Microbiol. 45:835-846. http://dx.doi.org/10.1128/JCM.01575-06.
    • (2007) J. Clin. Microbiol. , vol.45 , pp. 835-846
    • Chen, Y.1    Zhang, W.2    Knabel, S.J.3
  • 77
    • 57449107382 scopus 로고    scopus 로고
    • Analysis of additional virulence genes and virulence gene regions in Listeria monocytogenes confirms the epidemiologic relevance of multi-virulence-locus sequence typing
    • Lomonaco S, Chen Y, Knabel SJ. 2008. Analysis of additional virulence genes and virulence gene regions in Listeria monocytogenes confirms the epidemiologic relevance of multi-virulence-locus sequence typing. J. Food Prot. 71:2559-2566.
    • (2008) J. Food Prot. , vol.71 , pp. 2559-2566
    • Lomonaco, S.1    Chen, Y.2    Knabel, S.J.3
  • 78
    • 84866164635 scopus 로고    scopus 로고
    • A combined multi-virulence-locus sequence typing and staphylococcal cassette chromosome mec typing scheme possesses enhanced discriminatory power
    • Verghese B, Schwalm ND, III, Dudley EG, Knabel SJ. 2012. A combined multi-virulence-locus sequence typing and staphylococcal cassette chromosome mec typing scheme possesses enhanced discriminatory power. Infect. Genet. Evol. 12:1816-1821. http://dx.doi.org/10.1016/j.meegid .2012.07.026
    • (2012) Infect. Genet. Evol. , vol.12 , pp. 1816-1821
    • Verghese, B.1    Schwalm III, N.D.2    Dudley, E.G.3    Knabel, S.J.4
  • 79
    • 2342462892 scopus 로고    scopus 로고
    • Multi-virulence-locus sequence typing of Listeria monocytogenes
    • Zhang W, Jayarao BM, Knabel SJ. 2004. Multi-virulence-locus sequence typing of Listeria monocytogenes. Appl. Environ. Microbiol. 70:913-920. http://dx.doi.org/10.1128/AEM.70.2.913-920.2004.
    • (2004) Appl. Environ. Microbiol. , vol.70 , pp. 913-920
    • Zhang, W.1    Jayarao, B.M.2    Knabel, S.J.3
  • 80
    • 84887279490 scopus 로고    scopus 로고
    • CRISPR-MVLST subtyping of Salmonella enterica subsp enterica serovars Typhimurium and Heidelberg and application in identifying outbreak isolates
    • Shariat N, Sandt CH, DiMarzio MJ, Barrangou R, Dudley EG. 2013. CRISPR-MVLST subtyping of Salmonella enterica subsp. enterica serovars Typhimurium and Heidelberg and application in identifying outbreak isolates.BMCMicrobiol. 13:254. http://dx.doi.org/10.1186/1471-2180-13 -254.
    • (2013) BMCMicrobiol. , vol.13 , pp. 254
    • Shariat, N.1    Sandt, C.H.2    DiMarzio, M.J.3    Barrangou, R.4    Dudley, E.G.5
  • 81
    • 0023738045 scopus 로고
    • Numerical index of the discriminatory ability of typing systems: an application of Simpson's index of diversity
    • Hunter PR, Gaston MA. 1988. Numerical index of the discriminatory ability of typing systems: an application of Simpson's index of diversity. J. Clin. Microbiol. 26:2465-2466.
    • (1988) J. Clin. Microbiol. , vol.26 , pp. 2465-2466
    • Hunter, P.R.1    Gaston, M.A.2
  • 82
    • 77953747382 scopus 로고    scopus 로고
    • National Salmonella surveillance annual summary 2009
    • Centers for Disease Control and Prevention. Centers for Disease Control and Prevention, Washington, DC.
    • Centers for Disease Control and Prevention. 2009. National Salmonella surveillance annual summary 2009. Centers for Disease Control and Prevention, Washington, DC.
    • (2009)
  • 83
    • 0002823441 scopus 로고    scopus 로고
    • Classification of Escherichia coli
    • In Gyles CL (ed), Escherichia coli in domestic animals and humans. CAB International, Wallingford, United Kingdom.
    • Lior H. 1996. Classification of Escherichia coli, p 31-72. In Gyles CL (ed), Escherichia coli in domestic animals and humans. CAB International, Wallingford, United Kingdom.
    • (1996) , pp. 31-72
    • Lior, H.1
  • 84
    • 34248680659 scopus 로고    scopus 로고
    • Shiga toxin-producing Escherichia coli: an overview.
    • Gyles C. 2007. Shiga toxin-producing Escherichia coli: an overview. J. Anim. Sci. 85(Suppl):E45-E62. http://dx.doi.org/10.2527/jas.2006-508.
    • (2007) J. Anim. Sci. , vol.85 , Issue.SUPPL.
    • Gyles, C.1
  • 85
    • 84869231487 scopus 로고    scopus 로고
    • Use of clustered regularly interspaced short palindromic repeat sequence polymorphisms for specific detection of enterohemorrhagic Escherichia coli strains of serotypes O26: H11, O45:H2, O103:H2, O111:H8, O121:H19, O145:H28, and O157:H7 by real-time PCR
    • Delannoy S, Beutin L, Fach P. 2012. Use of clustered regularly interspaced short palindromic repeat sequence polymorphisms for specific detection of enterohemorrhagic Escherichia coli strains of serotypes O26: H11, O45:H2, O103:H2, O111:H8, O121:H19, O145:H28, and O157:H7 by real-time PCR. J. Clin. Microbiol. 50:4035-4040. http://dx.doi.org/10 .1128/JCM.02097-12.
    • (2012) J. Clin. Microbiol. , vol.50 , pp. 4035-4040
    • Delannoy, S.1    Beutin, L.2    Fach, P.3
  • 86
    • 25844432970 scopus 로고    scopus 로고
    • Non-O157 Shiga toxin-producing Escherichia coli infections in the United States, 1983-2002
    • Brooks J, Sowers E, Wells J, Greene K, Griffin P, Hoekstra R, Strockbine N. 2005. Non-O157 Shiga toxin-producing Escherichia coli infections in the United States, 1983-2002. J. Infect. Dis. 192:1422-1429. http://dx.doi .org/10.1086/466536.
    • (2005) J. Infect. Dis. , vol.192 , pp. 1422-1429
    • Brooks, J.1    Sowers, E.2    Wells, J.3    Greene, K.4    Griffin, P.5    Hoekstra, R.6    Strockbine, N.7
  • 87
    • 84867509983 scopus 로고    scopus 로고
    • Specific detection of enteroaggregative hemorrhagic Escherichia coli O104:H4 strains by use of the CRISPR locus as a target for a diagnostic real-time PCR
    • Delannoy S, Beutin L, Burgos Y, Fach P. 2012. Specific detection of enteroaggregative hemorrhagic Escherichia coli O104:H4 strains by use of the CRISPR locus as a target for a diagnostic real-time PCR. J. Clin. Microbiol. 50:3485-3492. http://dx.doi.org/10.1128/JCM.01656-12.
    • (2012) J. Clin. Microbiol. , vol.50 , pp. 3485-3492
    • Delannoy, S.1    Beutin, L.2    Burgos, Y.3    Fach, P.4
  • 88
    • 84892465437 scopus 로고    scopus 로고
    • European Food Safety Authority. E. coli: rapid response in a crisis
    • European Food Safety Authority. 11 July 2012. E. coli: rapid response in a crisis. http://www.efsa.europa.eu/en/press/news/120711.htm.
    • (2012)
  • 89
    • 34249726643 scopus 로고    scopus 로고
    • High-resolution DNA melt curve analysis of the clustered, regularly interspaced shortpalindromic- repeat locus of Campylobacter jejuni
    • Price EP, Smith H, Huygens F, Giffard PM. 2007. High-resolution DNA melt curve analysis of the clustered, regularly interspaced shortpalindromic- repeat locus of Campylobacter jejuni. Appl. Environ. Microbiol. 73:3431-3436. http://dx.doi.org/10.1128/AEM.02702-06.
    • (2007) Appl. Environ. Microbiol. , vol.73 , pp. 3431-3436
    • Price, E.P.1    Smith, H.2    Huygens, F.3    Giffard, P.M.4
  • 91
    • 67849116792 scopus 로고    scopus 로고
    • Spoligotyping for molecular epidemiology of the Mycobacterium tuberculosis complex
    • Driscoll JR. 2009. Spoligotyping for molecular epidemiology of the Mycobacterium tuberculosis complex. Methods Mol. Biol. 551:117-128. http: //dx.doi.org/10.1007/978-1-60327-999-4_10.
    • (2009) Methods Mol. Biol. , vol.551 , pp. 117-128
    • Driscoll, J.R.1
  • 92
    • 84892465746 scopus 로고    scopus 로고
    • Institut Pasteur. Accessed 10 May 2013. Institut Pasteur CRISPR query page.
    • Institut Pasteur. Accessed 10 May 2013. Institut Pasteur CRISPR query page. http://www.pasteur.fr/recherche/genopole/PF8/crispr/CRISPRDB.html.
  • 93
    • 75849154794 scopus 로고    scopus 로고
    • CRISPI: a CRISPR interactive database
    • Rousseau C, Gonnet M, Le Romancer M, Nicolas J. 2009. CRISPI: a CRISPR interactive database. Bioinformatics 25:3317-3318. http://dx.doi .org/10.1093/bioinformatics/btp586.
    • (2009) Bioinformatics , vol.25 , pp. 3317-3318
    • Rousseau, C.1    Gonnet, M.2    Le Romancer, M.3    Nicolas, J.4
  • 96
    • 58149479228 scopus 로고    scopus 로고
    • Interaction between bacteriophage DMS3 and host CRISPR region inhibits group behaviors of Pseudomonas aeruginosa
    • Zegans ME, Wagner JC, Cady KC, Murphy DM, Hammond JH, O'Toole GA. 2009. Interaction between bacteriophage DMS3 and host CRISPR region inhibits group behaviors of Pseudomonas aeruginosa. J. Bacteriol. 191:210-219. http://dx.doi.org/10.1128/JB.00797-08.
    • (2009) J. Bacteriol. , vol.191 , pp. 210-219
    • Zegans, M.E.1    Wagner, J.C.2    Cady, K.C.3    Murphy, D.M.4    Hammond, J.H.5    O'Toole, G.A.6


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.