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Volumn 16, Issue 1, 2015, Pages

Rewriting the blueprint of life by synthetic genomics and genome engineering

Author keywords

[No Author keywords available]

Indexed keywords

COMPLEMENTARY DNA; VIRUS DNA; BACTERIAL DNA; DEOXYRIBONUCLEASE; FUNGAL DNA; RECOMBINANT PROTEIN;

EID: 84938067770     PISSN: 14747596     EISSN: 1474760X     Source Type: Journal    
DOI: 10.1186/s13059-015-0689-y     Document Type: Review
Times cited : (22)

References (61)
  • 1
    • 0014932468 scopus 로고
    • Total synthesis of the gene for an alanine transfer ribonucleic acid from yeast
    • Agarwal KL, Buchi H, Caruthers MH, Gupta N, Khorana HG, Kleppe K, et al. Total synthesis of the gene for an alanine transfer ribonucleic acid from yeast. Nature. 1970;227:27-34.
    • (1970) Nature , vol.227 , pp. 27-34
    • Agarwal, K.L.1    Buchi, H.2    Caruthers, M.H.3    Gupta, N.4    Khorana, H.G.5    Kleppe, K.6
  • 2
    • 27144509740 scopus 로고    scopus 로고
    • Combinatorial polyketide biosynthesis by de novo design and rearrangement of modular polyketide synthase genes
    • Menzella HG, Reid R, Carney JR, Chandran SS, Reisinger SJ, Patel KG, et al. Combinatorial polyketide biosynthesis by de novo design and rearrangement of modular polyketide synthase genes. Nat Biotechnol. 2005;23:1171-6.
    • (2005) Nat Biotechnol , vol.23 , pp. 1171-1176
    • Menzella, H.G.1    Reid, R.2    Carney, J.R.3    Chandran, S.S.4    Reisinger, S.J.5    Patel, K.G.6
  • 3
    • 33645870422 scopus 로고    scopus 로고
    • Production of the antimalarial drug precursor artemisinic acid in engineered yeast
    • Ro DK, Paradise EM, Ouellet M, Fisher KJ, Newman KL, Ndungu JM, et al. Production of the antimalarial drug precursor artemisinic acid in engineered yeast. Nature. 2006;440:940-3.
    • (2006) Nature , vol.440 , pp. 940-943
    • Ro, D.K.1    Paradise, E.M.2    Ouellet, M.3    Fisher, K.J.4    Newman, K.L.5    Ndungu, J.M.6
  • 6
    • 37749014043 scopus 로고    scopus 로고
    • Bottom-up genome assembly using the Bacillus subtilis genome vector
    • Itaya M, Fujita K, Kuroki A, Tsuge K. Bottom-up genome assembly using the Bacillus subtilis genome vector. Nat Methods. 2008;5:41-3.
    • (2008) Nat Methods , vol.5 , pp. 41-43
    • Itaya, M.1    Fujita, K.2    Kuroki, A.3    Tsuge, K.4
  • 8
    • 68949161807 scopus 로고    scopus 로고
    • Programming cells by multiplex genome engineering and accelerated evolution
    • Wang HH, Isaacs FJ, Carr PA, Sun ZZ, Xu G, Forest CR, et al. Programming cells by multiplex genome engineering and accelerated evolution. Nature. 2009;460:894-8.
    • (2009) Nature , vol.460 , pp. 894-898
    • Wang, H.H.1    Isaacs, F.J.2    Carr, P.A.3    Sun, Z.Z.4    Xu, G.5    Forest, C.R.6
  • 9
    • 70349324305 scopus 로고    scopus 로고
    • Creating bacterial strains from genomes that have been cloned and engineered in yeast
    • Lartigue C, Vashee S, Algire MA, Chuang RY, Benders GA, et al. Creating bacterial strains from genomes that have been cloned and engineered in yeast. Science. 2009;325:1693-6.
    • (2009) Science , vol.325 , pp. 1693-1696
    • Lartigue, C.1    Vashee, S.2    Algire, M.A.3    Chuang, R.Y.4    Benders, G.A.5
  • 12
    • 84899698094 scopus 로고    scopus 로고
    • Programming biological operating systems: genome design, assembly and activation
    • Gibson DG. Programming biological operating systems: genome design, assembly and activation. Nat Methods. 2014;11:521-6.
    • (2014) Nat Methods , vol.11 , pp. 521-526
    • Gibson, D.G.1
  • 13
    • 0037047595 scopus 로고    scopus 로고
    • Chemical synthesis of poliovirus cDNA: generation of infectious virus in the absence of natural template
    • Cello J, Paul AV, Wimmer E. Chemical synthesis of poliovirus cDNA: generation of infectious virus in the absence of natural template. Science. 2002;297:1016-8.
    • (2002) Science , vol.297 , pp. 1016-1018
    • Cello, J.1    Paul, A.V.2    Wimmer, E.3
  • 15
    • 27644564234 scopus 로고    scopus 로고
    • Combining two genomes in one cell: stable cloning of the Synechocystis PCC6803 genome in the Bacillus subtilis 168 genome
    • Itaya M, Tsuge K, Koizumi M, Fujita K. Combining two genomes in one cell: stable cloning of the Synechocystis PCC6803 genome in the Bacillus subtilis 168 genome. Proc Natl Acad Sci U S A. 2005;102:15971-6.
    • (2005) Proc Natl Acad Sci U S A , vol.102 , pp. 15971-15976
    • Itaya, M.1    Tsuge, K.2    Koizumi, M.3    Fujita, K.4
  • 16
    • 37749014043 scopus 로고    scopus 로고
    • Bottom-up genome assembly using the Bacillus subtilis genome vector
    • Itaya M, Fujita K, Kuroki A, Tsuge K. Bottom-up genome assembly using the Bacillus subtilis genome vector. Nat Methods. 2008;5:41-3.
    • (2008) Nat Methods , vol.5 , pp. 41-43
    • Itaya, M.1    Fujita, K.2    Kuroki, A.3    Tsuge, K.4
  • 19
    • 77952456525 scopus 로고    scopus 로고
    • Reduced evolvability of Escherichia coli MDS42, an IS-less cellular chassis for molecular and synthetic biology applications
    • Umenhoffer K, Feher T, Baliko G, Ayaydin F, Posfai J, Blattner FR, et al. Reduced evolvability of Escherichia coli MDS42, an IS-less cellular chassis for molecular and synthetic biology applications. Microb Cell Fact. 2010;9:38.
    • (2010) Microb Cell Fact , vol.9 , pp. 38
    • Umenhoffer, K.1    Feher, T.2    Baliko, G.3    Ayaydin, F.4    Posfai, J.5    Blattner, F.R.6
  • 20
    • 84857114878 scopus 로고    scopus 로고
    • Low-mutation-rate, reduced-genome Escherichia coli: an improved host for faithful maintenance of engineered genetic constructs
    • Csorgo B, Feher T, Timar E, Blattner FR, Posfai G. Low-mutation-rate, reduced-genome Escherichia coli: an improved host for faithful maintenance of engineered genetic constructs. Microb Cell Fact. 2012;11:11.
    • (2012) Microb Cell Fact , vol.11 , pp. 11
    • Csorgo, B.1    Feher, T.2    Timar, E.3    Blattner, F.R.4    Posfai, G.5
  • 24
    • 79960502359 scopus 로고    scopus 로고
    • Precise manipulation of chromosomes in vivo enables genome-wide codon replacement
    • Isaacs FJ, Carr PA, Wang HH, Lajoie MJ, Sterling B, Kraal L, et al. Precise manipulation of chromosomes in vivo enables genome-wide codon replacement. Science. 2011;333:348-53.
    • (2011) Science , vol.333 , pp. 348-353
    • Isaacs, F.J.1    Carr, P.A.2    Wang, H.H.3    Lajoie, M.J.4    Sterling, B.5    Kraal, L.6
  • 29
    • 84938118741 scopus 로고    scopus 로고
    • PhD thesis. Johns Hopkins School of Public Health, Department of Environmental Health Sciences
    • Wu J. Manipulating the eukaryotic genomes. PhD thesis. Johns Hopkins School of Public Health, Department of Environmental Health Sciences; 2007.
    • (2007) Manipulating the eukaryotic genomes.
    • Wu, J.1
  • 30
    • 80053132391 scopus 로고    scopus 로고
    • Synthetic chromosome arms function in yeast and generate phenotypic diversity by design
    • Dymond JS, Richardson SM, Coombes CE, Babatz T, Muller H, Annaluru N, et al. Synthetic chromosome arms function in yeast and generate phenotypic diversity by design. Nature. 2011;477:471-6.
    • (2011) Nature , vol.477 , pp. 471-476
    • Dymond, J.S.1    Richardson, S.M.2    Coombes, C.E.3    Babatz, T.4    Muller, H.5    Annaluru, N.6
  • 33
    • 61549086812 scopus 로고    scopus 로고
    • Teaching synthetic biology, bioinformatics and engineering to undergraduates: the interdisciplinary Build-a-Genome course
    • Dymond JS, Scheifele LZ, Richardson S, Lee P, Chandrasegaran S, Bader JS, et al. Teaching synthetic biology, bioinformatics and engineering to undergraduates: the interdisciplinary Build-a-Genome course. Genetics. 2009;181:13-21.
    • (2009) Genetics , vol.181 , pp. 13-21
    • Dymond, J.S.1    Scheifele, L.Z.2    Richardson, S.3    Lee, P.4    Chandrasegaran, S.5    Bader, J.S.6
  • 36
    • 84868247020 scopus 로고    scopus 로고
    • Cloning the Acholeplasma laidlawii PG-8A genome in Saccharomyces cerevisiae as a yeast centromeric plasmid
    • Karas BJ, Tagwerker C, Yonemoto IT, Hutchison 3rd CA, Smith HO. Cloning the Acholeplasma laidlawii PG-8A genome in Saccharomyces cerevisiae as a yeast centromeric plasmid. ACS Synth Biol. 2012;1:22-8.
    • (2012) ACS Synth Biol , vol.1 , pp. 22-28
    • Karas, B.J.1    Tagwerker, C.2    Yonemoto, I.T.3    Hutchison, C.A.4    Smith, H.O.5
  • 38
    • 33748800981 scopus 로고    scopus 로고
    • TAR cloning: insights into gene function, long-range haplotypes and genome structure and evolution
    • Kouprina N, Larionov V. TAR cloning: insights into gene function, long-range haplotypes and genome structure and evolution. Nat Rev Genet. 2006;7:805-12.
    • (2006) Nat Rev Genet , vol.7 , pp. 805-812
    • Kouprina, N.1    Larionov, V.2
  • 39
    • 84930207520 scopus 로고    scopus 로고
    • Highly efficient CRISPR/Cas9-mediated TAR cloning of genes and chromosomal loci from complex genomes in yeast
    • Lee NC, Larionov V, Kouprina N. Highly efficient CRISPR/Cas9-mediated TAR cloning of genes and chromosomal loci from complex genomes in yeast. Nucleic Acids Res. 2015;43, e55.
    • (2015) Nucleic Acids Res , vol.43
    • Lee, N.C.1    Larionov, V.2    Kouprina, N.3
  • 40
    • 84923864848 scopus 로고    scopus 로고
    • Bacterial genome reduction using the progressive clustering of deletions via yeast sexual cycling
    • Suzuki Y, Assad-Garcia N, Kostylev M, Noskov VN, Wise KS, Karas BJ, et al. Bacterial genome reduction using the progressive clustering of deletions via yeast sexual cycling. Genome Res. 2015;25:435-44.
    • (2015) Genome Res , vol.25 , pp. 435-444
    • Suzuki, Y.1    Assad-Garcia, N.2    Kostylev, M.3    Noskov, V.N.4    Wise, K.S.5    Karas, B.J.6
  • 41
    • 84899051891 scopus 로고    scopus 로고
    • Semi-synthetic artemisinin: a model for the use of synthetic biology in pharmaceutical development
    • Paddon CJ, Keasling JD. Semi-synthetic artemisinin: a model for the use of synthetic biology in pharmaceutical development. Nat Rev Microbiol. 2014;12:355-67.
    • (2014) Nat Rev Microbiol , vol.12 , pp. 355-367
    • Paddon, C.J.1    Keasling, J.D.2
  • 42
    • 0024296027 scopus 로고
    • Disruption of the proto-oncogene int-2 in mouse embryo-derived stem cells: a general strategy for targeting mutations to non-selectable genes
    • Mansour SL, Thomas KR, Capecchi MR. Disruption of the proto-oncogene int-2 in mouse embryo-derived stem cells: a general strategy for targeting mutations to non-selectable genes. Nature. 1988;336:348-52.
    • (1988) Nature , vol.336 , pp. 348-352
    • Mansour, S.L.1    Thomas, K.R.2    Capecchi, M.R.3
  • 43
    • 0028061666 scopus 로고
    • Introduction of double-strand breaks into the genome of mouse cells by expression of a rare-cutting endonuclease
    • Rouet P, Smih F, Jasin M. Introduction of double-strand breaks into the genome of mouse cells by expression of a rare-cutting endonuclease. Mol Cell Biol. 1994;14:8096-106.
    • (1994) Mol Cell Biol , vol.14 , pp. 8096-8106
    • Rouet, P.1    Smih, F.2    Jasin, M.3
  • 44
    • 84874220668 scopus 로고    scopus 로고
    • A CRISPR way to engineer the human genome
    • Ramalingam S, Annaluru N, Chandrasegaran S. A CRISPR way to engineer the human genome. Genome Biol. 2013;14:107. doi: 10.1186/gb-2013-14-2-107.
    • (2013) Genome Biol , vol.14 , pp. 107
    • Ramalingam, S.1    Annaluru, N.2    Chandrasegaran, S.3
  • 45
    • 0030032063 scopus 로고    scopus 로고
    • Hybrid restriction enzymes: zinc finger fusions to Fok I cleavage domain
    • Kim YG, Cha J, Chandrasegaran S. Hybrid restriction enzymes: zinc finger fusions to Fok I cleavage domain. Proc Natl Acad Sci U S A. 1996;93:1156-60.
    • (1996) Proc Natl Acad Sci U S A , vol.93 , pp. 1156-1160
    • Kim, Y.G.1    Cha, J.2    Chandrasegaran, S.3
  • 47
  • 48
    • 0040215628 scopus 로고
    • Repetitive zinc-binding domains in the protein transcription factor IIIA from Xenopus oocytes
    • Miller J, McLachlan AD, Klug A. Repetitive zinc-binding domains in the protein transcription factor IIIA from Xenopus oocytes. EMBO J. 1985;4:1609-14.
    • (1985) EMBO J , vol.4 , pp. 1609-1614
    • Miller, J.1    McLachlan, A.D.2    Klug, A.3
  • 49
    • 0025773296 scopus 로고
    • Zinc finger-DNA recognition: crystal structure of a Zif268-DNA complex at 2.1 A
    • Pavletich NP, Pabo CO. Zinc finger-DNA recognition: crystal structure of a Zif268-DNA complex at 2.1 A. Science. 1991;252:809-17.
    • (1991) Science , vol.252 , pp. 809-817
    • Pavletich, N.P.1    Pabo, C.O.2
  • 50
    • 0034283804 scopus 로고    scopus 로고
    • Requirements for double-strand cleavage by chimeric restriction enzymes with zinc finger DNA-recognition domains
    • Smith J, Bibikova M, Whitby FG, Reddy AR, Chandrasegaran S, Carroll D. Requirements for double-strand cleavage by chimeric restriction enzymes with zinc finger DNA-recognition domains. Nucleic Acids Res. 2000;28:3361-9.
    • (2000) Nucleic Acids Res , vol.28 , pp. 3361-3369
    • Smith, J.1    Bibikova, M.2    Whitby, F.G.3    Reddy, A.R.4    Chandrasegaran, S.5    Carroll, D.6
  • 51
    • 0034749283 scopus 로고    scopus 로고
    • Stimulation of homologous recombination through targeted cleavage by chimeric nucleases
    • Bibikova M, Carroll D, Segal DJ, Trautman JK, Smith J, Kim YG, et al. Stimulation of homologous recombination through targeted cleavage by chimeric nucleases. Mol Cell Biol. 2001;21:289-97.
    • (2001) Mol Cell Biol , vol.21 , pp. 289-297
    • Bibikova, M.1    Carroll, D.2    Segal, D.J.3    Trautman, J.K.4    Smith, J.5    Kim, Y.G.6
  • 52
    • 0037510038 scopus 로고    scopus 로고
    • Enhancing gene targeting with designed zinc finger nucleases
    • Bibikova M, Beumer K, Trautman JK, Carroll D. Enhancing gene targeting with designed zinc finger nucleases. Science. 2003;300:764.
    • (2003) Science , vol.300 , pp. 764
    • Bibikova, M.1    Beumer, K.2    Trautman, J.K.3    Carroll, D.4
  • 53
    • 0036021389 scopus 로고    scopus 로고
    • Targeted chromosomal cleavage and mutagenesis in Drosophila using zinc-finger nucleases
    • Bibikova M, Golic M, Golic KG, Carroll D. Targeted chromosomal cleavage and mutagenesis in Drosophila using zinc-finger nucleases. Genetics. 2002;161:1169-75.
    • (2002) Genetics , vol.161 , pp. 1169-1175
    • Bibikova, M.1    Golic, M.2    Golic, K.G.3    Carroll, D.4
  • 55
    • 72149090954 scopus 로고    scopus 로고
    • A simple cipher governs DNA recognition by TAL effectors
    • Moscou MJ, Bogdanove AJ. A simple cipher governs DNA recognition by TAL effectors. Science. 2009;326:1501.
    • (2009) Science , vol.326 , pp. 1501
    • Moscou, M.J.1    Bogdanove, A.J.2
  • 56
    • 72149110399 scopus 로고    scopus 로고
    • Breaking the code of DNA binding specificity of TAL-type III effectors
    • Boch J, Scholze H, Schornack S, Landgraf A, Hahn S, Kay S, et al. Breaking the code of DNA binding specificity of TAL-type III effectors. Science. 2009;326:1509-12.
    • (2009) Science , vol.326 , pp. 1509-1512
    • Boch, J.1    Scholze, H.2    Schornack, S.3    Landgraf, A.4    Hahn, S.5    Kay, S.6
  • 57
    • 84913594397 scopus 로고    scopus 로고
    • Genome editing. The new frontier of genome engineering with CRISPR-Cas9
    • Doudna JA, Charpentier E. Genome editing. The new frontier of genome engineering with CRISPR-Cas9. Science. 2014;346:1258096.
    • (2014) Science , vol.346 , pp. 1258096
    • Doudna, J.A.1    Charpentier, E.2
  • 58
    • 84866859751 scopus 로고    scopus 로고
    • Cas9-crRNA ribonucleoprotein complex mediates specific DNA cleavage for adaptive immunity in bacteria
    • Gasiunas G, Barrangou R, Horvath P, Siksnys V. Cas9-crRNA ribonucleoprotein complex mediates specific DNA cleavage for adaptive immunity in bacteria. Proc Natl Acad Sci U S A. 2012;109:E2579-86.
    • (2012) Proc Natl Acad Sci U S A , vol.109 , pp. E2579-E2586
    • Gasiunas, G.1    Barrangou, R.2    Horvath, P.3    Siksnys, V.4
  • 59
  • 61
    • 84873729095 scopus 로고    scopus 로고
    • Multiplex genome engineering using CRISPR/Cas systems
    • Cong L, Ran FA, Cox D, Lin S, Barretto R, Habib N, et al. Multiplex genome engineering using CRISPR/Cas systems. Science. 2013;339:819-23.
    • (2013) Science , vol.339 , pp. 819-823
    • Cong, L.1    Ran, F.A.2    Cox, D.3    Lin, S.4    Barretto, R.5    Habib, N.6


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