다음과 같은 기능을 한번의 로그인으로 사용 할 수 있습니다.
NTIS 바로가기
Frontiers in microbiology, v.8, 2017년, pp.1851 -
Hidalgo-Cantabrana, Claudio (Department of Food, Bioprocessing and Nutrition Sciences, North Carolina State University , Raleigh, NC , United States) , Crawley, Alexandra B. (Department of Food, Bioprocessing and Nutrition Sciences, North Carolina State University , Raleigh, NC , United States) , Sanchez, Borja (Department of Microbiology and Biochemistry of Dairy Products, Dairy Research Institute of Asturias, IPLA-CSIC , Villaviciosa , Spain) , Barrangou, Rodolphe (Department of Food, Bioprocessing and Nutrition Sciences, North Carolina State University , Raleigh, NC , United States)
AI-Helper
Diverse CRISPR-Cas systems provide adaptive immunity in many bacteria and most archaea, via a DNA-encoded, RNA-mediated, nucleic-acid targeting mechanism. Over time, CRISPR loci expand via iterative uptake of invasive DNA sequences into the CRISPR array during the adaptation process. These genetic v...
Almeida F. Medeiros M. I. Rodrigues D. D. Allard M. W. Falcao J. P. ( 2017 ). Molecular characterization of Salmonella typhimurium isolated in Brazil by CRISPR-MVLST . J. Microbiol. Methods 133 , 55 – 61 . 10.1016/j.mimet.2016.12.020 28034696
Altmann F. Kosma P. O'Callaghan A. Leahy S. Bottacini F. Molloy E. . ( 2016 ). Genome analysis and characterisation of the Exopolysaccharide produced by Bifidobacterium longum subsp. longum 35624 . PLoS ONE 11 : e0162983 . 10.1371/journal.pone.0162983 27656878
Altschul S. F. Madden T. L. Schaffer A. A. Zhang J. Zhang Z. Miller W. . ( 1997 ). Gapped BLAST and PSI-BLAST: a new generation of protein database search programs . Nucleic Acids Res. 25 , 3389 – 3402 . 10.1093/nar/25.17.3389 9254694
Andersen J. M. Shoup M. Robinson C. Britton R. Olsen K. E. Barrangou R. ( 2016 ). CRISPR diversity and microevolution in Clostridium difficile . Genome Biol. Evol. 8 , 2841 – 2855 . 10.1093/gbe/evw203 27576538
Arboleya S. Watkins C. Stanton C. Ross R. P. ( 2016 ). Gut Bifidobacteria populations in human health and aging . Front. Microbiol. 7 : 1204 . 10.3389/fmicb.2016.01204 27594848
Averina O. V. Nezametdinova V. Z. Alekseeva M. G. Danilenko V. N. ( 2012 ). Genetic instability of probiotic characteristics in the Bifidobacterium longum subsp. longum B379M strain during cultivation and maintenance . Russian J. Genet. 48 , 1103 – 1111 . 10.1134/S1022795412110026 23297484
Bachmann N. L. Petty N. K. Ben Zakour N. L. Szubert J. M. Savill J. Beatson S. A. ( 2014 ). Genome analysis and CRISPR typing of Salmonella enterica serovar Virchow . BMC Genomics 15 : 389 . 10.1186/1471-2164-15-389 24885207
Barrangou R. Doudna J. A. ( 2016 ). Applications of CRISPR technologies in research and beyond . Nat. Biotechnol. 34 , 933 – 941 . 10.1038/nbt.3659 27606440
Barrangou R. Horvath P. ( 2017 ). A decade of discovery: CRISPR functions and applications . Nat. Microbiol. 2 , 17092 . 10.1038/nmicrobiol.2017.92 28581505
Barrangou R. Fremaux C. Deveau H. Richards M. Boyaval P. Moineau S. . ( 2007 ). CRISPR provides acquired resistance against viruses in prokaryotes . Science 315 , 1709 – 1712 . 10.1126/science.1138140 17379808
Barros M. P. Franca C. T. Lins R. H. Santos M. D. Silva E. J. Oliveira M. B. . ( 2014 ). Dynamics of CRISPR loci in microevolutionary process of Yersinia pestis strains . PLoS ONE 9 : e108353 . 10.1371/journal.pone.0108353 25265542
Bland C. Ramsey T. L. Sabree F. Lowe M. Brown K. Kyrpides N. C. . ( 2007 ). CRISPR recognition tool (CRT): a tool for automatic detection of clustered regularly interspaced palindromic repeats . BMC Bioinformatics 8 : 209 . 10.1186/1471-2105-8-209 17577412
Boto L. ( 2010 ). Horizontal gene transfer in evolution: facts and challenges . Proc. Biol. Sci. 277 , 819 – 827 . 10.1098/rspb.2009.1679 19864285
Brandt K. Barrangou R. ( 2016 ). Phylogenetic analysis of the Bifidobacterium genus using glycolysis enzyme sequences . Front. Microbiol. 7 : 657 . 10.3389/fmicb.2016.00657 27242688
Briner A. E. Barrangou R. ( 2014 ). Lactobacillus buchneri genotyping on the basis of clustered regularly interspaced short palindromic repeat (CRISPR) locus diversity . Appl. Environ. Microbiol. 80 , 994 – 1001 . 10.1128/AEM.03015-13 24271175
Briner A. E. Barrangou R. ( 2016 ). Deciphering and shaping bacterial diversity through CRISPR . Curr. Opin. Microbiol. 31 , 101 – 108 . 10.1016/j.mib.2016.03.006 27045713
Briner A. E. Lugli G. A. Milani C. Duranti S. Turroni F. Gueimonde M. . ( 2015 ). Occurrence and diversity of CRISPR-cas systems in the genus Bifidobacterium . PLoS ONE 10 : e0133661 . 10.1371/journal.pone.0133661 26230606
Broadbent J. R. Neeno-Eckwall E. C. Stahl B. Tandee K. Cai H. Morovic W. . ( 2012 ). Analysis of the Lactobacillus casei supragenome and its influence in species evolution and lifestyle adaptation . BMC Genomics 13 : 533 . 10.1186/1471-2164-13-533 23035691
Bunesova V. Lacroix C. Schwab C. ( 2016 ). Fucosyllactose and L-fucose utilization of infant Bifidobacterium longum and Bifidobacterium kashiwanohense . BMC Microbiol. 16 , 248 . 10.1186/s12866-016-0867-4 27782805
Chaplin A. V. Efimov B. A. Smeianov V. V. Kafarskaia L. I. Pikina A. P. Shkoporov A. N. ( 2015 ). Intraspecies genomic diversity and long-term persistence of Bifidobacterium longum . PLoS ONE 10 : e0135658 . 10.1371/journal.pone.0135658 26275230
Chenoll E. C. F. Silva A. Ibáñez A. Martinez-Blanch J. F. Bollati-Fogolín M. Crispo M. ( 2013 ). Genomic sequence and pre-clinical safety assessment of Bifidobacterium longum CECT 7347, a probiotic able to reduce the toxicity and inflammatory potential of Gliadin-derived peptides . J. Probiotics Health 1 : 106 10.4172/2329-8901.1000106
Chung M. J. ( 2017 ). Bifidobacterium Longum cbt bg7 Strain and Functional Food Composition Containing Same for Promoting Growth . Google Patents. WO2016186245A1.
Chylinski K. Makarova K. S. Charpentier E. Koonin E. V. ( 2014 ). Classification and evolution of type II CRISPR-Cas systems . Nucleic Acids Res. 42 , 6091 – 6105 . 10.1093/nar/gku241 24728998
Crooks G. E. Hon G. Chandonia J. M. Brenner S. E. ( 2004 ). WebLogo: a sequence logo generator . Genome Res. 14 , 1188 – 1190 . 10.1101/gr.849004 15173120
Deveau H. Barrangou R. Garneau J. E. Labonte J. Fremaux C. Boyaval P. . ( 2008 ). Phage response to CRISPR-encoded resistance in Streptococcus thermophilus . J. Bacteriol. 190 , 1390 – 1400 . 10.1128/JB.01412-07 18065545
Douillard F. P. Ribbera A. Kant R. Pietila T. E. Jarvinen H. M. Messing M. . ( 2013 ). Comparative genomic and functional analysis of 100 Lactobacillus rhamnosus strains and their comparison with strain GG . PLoS Genet. 9 : e1003683 . 10.1371/journal.pgen.1003683 23966868
Duranti S. Lugli G. A. Mancabelli L. Armanini F. Turroni F. James K. . ( 2017 ). Maternal inheritance of bifidobacterial communities and bifidophages in infants through vertical transmission . Microbiome 5 , 66 . 10.1186/s40168-017-0282-6 28651630
Edgar R. C. ( 2004 ). MUSCLE: a multiple sequence alignment method with reduced time and space complexity . BMC Bioinformatics 5 : 113 . 10.1186/1471-2105-5-113 15318951
EFSA ( 2016 ). Guidance on the scientific requirements for health claims related to the immune system, the gastrointestinal tract and defence against pathogenic microorganisms . EFSA J . 14 , 23 10.2903/j.efsa.2016.4369
FAO/WHO ( 2002 ). Guidelines for the Evaluation of Probiotics in Food . Available online at: http://www.who.int/foodsafety/fs_management/en/probiotic_guidelines.pdf
Ferrario C. Milani C. Mancabelli L. Lugli G. A. Turroni F. Duranti S. . ( 2015 ). A genome-based identification approach for members of the genus Bifidobacterium . FEMS Microbiol. Ecol. 91. 10.1093/femsec/fiv009 25764568
Freidlin P. J. Nissan I. Luria A. Goldblatt D. Schaffer L. Kaidar-Shwartz H. . ( 2017 ). Structure and variation of CRISPR and CRISPR-flanking regions in deleted-direct repeat region Mycobacterium tuberculosis complex strains . BMC Genomics 18 : 168 . 10.1186/s12864-017-3560-6 28201993
Gogleva A. A. Gelfand M. S. Artamonova I. I. ( 2014 ). Comparative analysis of CRISPR cassettes from the human gut metagenomic contigs . BMC Genomics 15 : 202 . 10.1186/1471-2164-15-202 24628983
Grissa I. Vergnaud G. Pourcel C. ( 2007 ). CRISPRFinder: a web tool to identify clustered regularly interspaced short palindromic repeats . Nucleic Acids Res. 35 , W52 – W57 . 10.1093/nar/gkm360 17537822
Gu Z. Eils R. Schlesner M. ( 2016 ). Complex heatmaps reveal patterns and correlations in multidimensional genomic data . Bioinformatics 32 , 2847 – 2849 . 10.1093/bioinformatics/btw313 27207943
Ham J. S. Lee T. Byun M. J. Lee K. T. Kim M. K. Han G. S. . ( 2011 ). Complete genome sequence of Bifidobacterium longum subsp. longum KACC 91563 . J. Bacteriol. 193 , 5044 . 10.1128/JB.05620-11 21742881
Hao Y. Huang D. Guo H. Xiao M. An H. Zhao L. . ( 2011 ). Complete genome sequence of Bifidobacterium longum subsp. longum BBMN68, a new strain from a healthy chinese centenarian . J. Bacteriol. 193 , 787 – 788 . 10.1128/JB.01213-10 21097614
Hidalgo-Cantabrana C. O'Flaherty S. Barrangou R. ( 2017 ). CRISPR-based engineering of next-generation lactic acid bacteria . Curr. Opin. Microbiol. 37 , 79 – 87 . 10.1016/j.mib.2017.05.015 28622636
Hill C. Guarner F. Reid G. Gibson G. R. Merenstein D. J. Pot B. . ( 2014 ). Expert consensus document. The International Scientific Association for probiotics and prebiotics consensus statement on the scope and appropriate use of the term probiotic . Nat. Rev. Gastroenterol. Hepatol. 11 , 506 – 514 . 10.1038/nrgastro.2014.66 24912386
Horvath P. Coute-Monvoisin A. C. Romero D. A. Boyaval P. Fremaux C. Barrangou R. ( 2009 ). Comparative analysis of CRISPR loci in lactic acid bacteria genomes . Int. J. Food Microbiol. 131 , 62 – 70 . 10.1016/j.ijfoodmicro.2008.05.030 18635282
Horvath P. Romero D. A. Coute-Monvoisin A. C. Richards M. Deveau H. Moineau S. . ( 2008 ). Diversity, activity, and evolution of CRISPR loci in Streptococcus thermophilus . J. Bacteriol. 190 , 1401 – 1412 . 10.1128/JB.01415-07 18065539
Jinek M. Chylinski K. Fonfara I. Hauer M. Doudna J. A. Charpentier E. ( 2012 ). A programmable dual-RNA-guided DNA endonuclease in adaptive bacterial immunity . Science 337 , 816 – 821 . 10.1126/science.1225829 22745249
Kala S. Cumby N. Sadowski P. D. Hyder B. Z. Kanelis V. Davidson A. R. . ( 2014 ). HNH proteins are a widespread component of phage DNA packaging machines . Proc. Natl. Acad. Sci. U.S.A. 111 , 6022 – 6027 . 10.1073/pnas.1320952111 24711378
Kanesaki Y. Masutani H. Sakanaka M. Shiwa Y. Fujisawa T. Nakamura Y. . ( 2014 ). Complete genome sequence of Bifidobacterium longum 105-A, a strain with high transformation efficiency . Genome Announc. 2 : e01311 - 14 . 10.1128/genomeA.01311-14 25523770
Kearse M. Moir R. Wilson A. Stones-Havas S. Cheung M. Sturrock S. . ( 2012 ). Geneious Basic: an integrated and extendable desktop software platform for the organization and analysis of sequence data . Bioinformatics 28 , 1647 – 1649 . 10.1093/bioinformatics/bts199 22543367
Kelly W. J. Cookson A. L. Altermann E. Lambie S. C. Perry R. Teh K. H. . ( 2016 ). Genomic analysis of three Bifidobacterium species isolated from the calf gastrointestinal tract . Sci. Rep. 6 : 30768 . 10.1038/srep30768 27468806
Koonin E. V. Makarova K. S. Zhang F. ( 2017 ). Diversity, classification and evolution of CRISPR-Cas systems . Curr. Opin. Microbiol. 37 , 67 – 78 . 10.1016/j.mib.2017.05.008 28605718
Koskela K. A. Mattinen L. Kalin-Manttari L. Vergnaud G. Gorge O. Nikkari S. . ( 2015 ). Generation of a CRISPR database for Yersinia pseudotuberculosis complex and role of CRISPR-based immunity in conjugation . Environ. Microbiol. 17 , 4306 – 4321 . 10.1111/1462-2920.12816 25712141
Kovanen S. M. Kivisto R. I. Rossi M. Hanninen M. L. ( 2014 ). A combination of MLST and CRISPR typing reveals dominant Campylobacter jejuni types in organically farmed laying hens . J. Appl. Microbiol. 117 , 249 – 257 . 10.1111/jam.12503 24655229
Kwon S. K. Kwak M. J. Seo J. G. Chung M. J. Kim J. F. ( 2015 ). Complete genome sequence of Bifidobacterium longum KCTC 12200BP, a probiotic strain promoting the intestinal health . J. Biotechnol. 214 , 169 – 170 . 10.1016/j.jbiotec.2015.09.039 26439427
Lee J. H. Karamychev V. N. Kozyavkin S. A. Mills D. Pavlov A. R. Pavlova N. V. . ( 2008 ). Comparative genomic analysis of the gut bacterium Bifidobacterium longum reveals loci susceptible to deletion during pure culture growth . BMC Genomics 9 : 247 . 10.1186/1471-2164-9-247 18505588
Lewis Z. T. Bokulich N. A. Kalanetra K. M. Ruiz-Moyano S. Underwood M. A. Mills D. A. ( 2013 ). Use of bifidobacterial specific terminal restriction fragment length polymorphisms to complement next generation sequence profiling of infant gut communities . Anaerobe 19 , 62 – 69 . 10.1016/j.anaerobe.2012.12.005 23261904
Lewis Z. T. Shani G. Masarweh C. F. Popovic M. Frese S. A. Sela D. A. . ( 2016 ). Validating bifidobacterial species and subspecies identity in commercial probiotic products . Pediatr. Res. 79 , 445 – 452 . 10.1038/pr.2015.244 26571226
Lugli G. A. Milani C. Turroni F. Duranti S. Ferrario C. Viappiani A. . ( 2014 ). Investigation of the evolutionary development of the genus Bifidobacterium by comparative genomics . Appl. Environ. Microbiol. 80 , 6383 – 6394 . 10.1128/AEM.02004-14 25107967
Lugli G. A. Milani C. Turroni F. Tremblay D. Ferrario C. Mancabelli L. . ( 2016 ). Prophages of the genus Bifidobacterium as modulating agents of the infant gut microbiota . Environ. Microbiol. 18 , 2196 – 2213 . 10.1111/1462-2920.13154 26627180
Makarova K. S. Haft D. H. Barrangou R. Brouns S. J. Charpentier E. Horvath P. . ( 2011 ). Evolution and classification of the CRISPR-Cas systems . Nat. Rev. Microbiol. 9 , 467 – 477 . 10.1038/nrmicro2577 21552286
Makarova K. S. Wolf Y. I. Alkhnbashi O. S. Costa F. Shah S. A. Saunders S. J. . ( 2015 ). An updated evolutionary classification of CRISPR-Cas systems . Nat. Rev. Microbiol. 13 , 722 – 736 . 10.1038/nrmicro3569 26411297
Matsuki T. Yahagi K. Mori H. Matsumoto H. Hara T. Tajima S. . ( 2016 ). A key genetic factor for fucosyllactose utilization affects infant gut microbiota development . Nat. Commun. 7 : 11939 . 10.1038/ncomms11939 27340092
Milani C. Lugli G. A. Duranti S. Turroni F. Bottacini F. Mangifesta M. . ( 2014 ). Genomic encyclopedia of type strains of the genus Bifidobacterium . Appl. Environ. Microbiol. 80 , 6290 – 6302 . 10.1128/AEM.02308-14 25085493
Milani C. Mancabelli L. Lugli G. A. Duranti S. Turroni F. Ferrario C. . ( 2015 ). Exploring vertical transmission of Bifidobacteria from mother to child . Appl. Environ. Microbiol. 81 , 7078 – 7087 . 10.1128/AEM.02037-15 26231653
Mojica F. J. Diez-Villasenor C. Garcia-Martinez J. Almendros C. ( 2009 ). Short motif sequences determine the targets of the prokaryotic CRISPR defence system . Microbiology 155 ( Pt 3 ), 733 – 740 . 10.1099/mic.0.023960-0 19246744
Morovic W. Hibberd A. A. Zabel B. Barrangou R. Stahl B. ( 2016 ). Genotyping by PCR and high-throughput sequencing of commercial probiotic products reveals composition biases . Front. Microbiol. 7 : 747 . 10.3389/fmicb.2016.01747 27242760
Sanozky-Dawes R. Selle K. O'Flaherty S. Klaenhammer T. Barrangou R. ( 2015 ). Occurrence and activity of a type II CRISPR-Cas system in Lactobacillus gasseri . Microbiology 161 , 1752 – 1761 . 10.1099/mic.0.000129 26297561
Shariat N. Sandt C. H. DiMarzio M. J. Barrangou R. Dudley E. G. ( 2013 ). CRISPR-MVLST subtyping of Salmonella enterica subsp. enterica serovars Typhimurium and Heidelberg and application in identifying outbreak isolates . BMC Microbiol. 13 : 254 . 10.1186/1471-2180-13-254 24219629
Shariat N. Timme R. E. Pettengill J. B. Barrangou R. Dudley E. G. ( 2015 ). Characterization and evolution of Salmonella CRISPR-Cas systems . Microbiology 161 , 374 – 386 . 10.1099/mic.0.000005
Shkoporov A. N. Efimov B. A. Khokhlova E. V. Chaplin A. V. Kafarskaya L. I. Durkin A. S. . ( 2013 ). Draft genome sequences of two pairs of human intestinal Bifidobacterium longum subsp. longum strains, 44B and 1-6B and 35B and 2-2B, consecutively isolated from two children after a 5-Year time period . Genome Announc. 1 : e00234 - 13 . 10.1128/genomeA.00234-13 23682142
Shmakov S. Smargon A. Scott D. Cox D. Pyzocha N. Yan W. . ( 2017 ). Diversity and evolution of class 2 CRISPR-Cas systems . Nat. Rev. Microbiol. 15 , 169 – 182 . 10.1038/nrmicro.2016.184 28111461
Smokvina T. Wels M. Polka J. Chervaux C. Brisse S. Boekhorst J. . ( 2013 ). Lactobacillus paracasei comparative genomics: towards species pan-genome definition and exploitation of diversity . PLoS ONE 8 : e68731 . 10.1371/journal.pone.0068731 23894338
Sneath P. H. Sokal R. R. ( 1973 ). Numerical Taxonomy. San Francisco, CA : W.H. Freeman and Company .
Sola C. Abadia E. Le Hello S. Weill F. X. ( 2015 ). High-throughput CRISPR typing of Mycobacterium tuberculosis complex and Salmonella enterica Serotype Typhimurium . Methods Mol. Biol. 1311 , 91 – 109 . 10.1007/978-1-4939-2687-9_6 25981468
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 . 10.1101/gr.138297.112 22732228
Sternberg S. H. Redding S. Jinek M. Greene E. C. Doudna J. A. ( 2014 ). DNA interrogation by the CRISPR RNA-guided endonuclease Cas9 . Nature 507 , 62 – 67 . 10.1038/nature13011 24476820
Sun H. Li Y. Shi X. Lin Y. Qiu Y. Zhang J. . ( 2015 ). Association of CRISPR/Cas evolution with Vibrio parahaemolyticus virulence factors and genotypes . Foodborne Pathog. Dis. 12 , 68 – 73 . 10.1089/fpd.2014.1792 25455966
Sun L. Zhang X. Gao S. Rao P. A. Padilla-Sanchez V. Chen Z. . ( 2015 ). Cryo-EM structure of the bacteriophage T4 portal protein assembly at near-atomic resolution . Nat. Commun. 6 , 7548 . 10.1038/ncomms8548 26144253
R Development Core Team ( 2008 ). R: A Language and Environment for Statistical Computing. Vienna : R Foundation for Statistical Computing .
Tojo R. Suarez A. Clemente M. G. de los Reyes-Gavilan C. G. Margolles A. Gueimonde M. . ( 2014 ). Intestinal microbiota in health and disease: role of bifidobacteria in gut homeostasis . World J. Gastroenterol. 20 , 15163 – 15176 . 10.3748/wjg.v20.i41.15163 25386066
Tupikin A. E. Kalmykova A. I. Kabilov M. R. ( 2016 ). Draft genome sequence of the probiotic Bifidobacterium longum subsp. longum strain MC-42 . Genome Announc. 4 : e01411 - 16 . 10.1128/genomeA.01411-16 27979954
Ventura M. Turroni F. Lima-Mendez G. Foroni E. Zomer A. Duranti S. . ( 2009 ). Comparative analyses of prophage-like elements present in bifidobacterial genomes . Appl. Environ. Microbiol. 75 , 6929 – 6936 . 10.1128/AEM.01112-09 19734330
Wang J. Gao Y. Zhao F. ( 2016 ). Phage-bacteria interaction network in human oral microbiome . Environ. Microbiol. 18 , 2143 – 2158 . 10.1111/1462-2920.12923 26036920
Xie X. Hu Y. Xu Y. Yin K. Li Y. Chen Y. . ( 2017 ). Genetic analysis of Salmonella enterica serovar Gallinarum biovar Pullorum based on characterization and evolution of CRISPR sequence . Vet. Microbiol. 203 , 81 – 87 . 10.1016/j.vetmic.2017.02.010 28619172
Xu X. Q. Xin Y. Q. Li X. Zhang Q. W. Yang X. Y. Jin Y. . ( 2017 ). [Genotyping by CRISPR and regional distribution of Yersinia pestis in Qinghai-plateau from 1954 to 2011] . Zhonghua Yu Fang Yi Xue Za Zhi 51 , 237 – 242 . 10.3760/cma.j.issn.0253-9624.2017.03.009 28260338
*원문 PDF 파일 및 링크정보가 존재하지 않을 경우 KISTI DDS 시스템에서 제공하는 원문복사서비스를 사용할 수 있습니다.
오픈액세스 학술지에 출판된 논문
Copyright KISTI. All Rights Reserved.
※ AI-Helper는 부적절한 답변을 할 수 있습니다.