메뉴 건너뛰기




Volumn 114, Issue 8, 2017, Pages E1470-E1479

Low escape-rate genome safeguards with minimal molecular perturbation of Saccharomyces cerevisiae

Author keywords

Escape mutants; Genome safety; Histone deacetylase; Rpd3L; Yeast

Indexed keywords

LIGAND;

EID: 85013304603     PISSN: 00278424     EISSN: 10916490     Source Type: Journal    
DOI: 10.1073/pnas.1621250114     Document Type: Article
Times cited : (23)

References (42)
  • 1
    • 2442728636 scopus 로고
    • Construction of biologically functional bacterial plasmids in vitro
    • Cohen SN, Chang AC, Boyer HW, Helling RB (1973) Construction of biologically functional bacterial plasmids in vitro. Proc Natl Acad Sci USA 70(11):3240-3244.
    • (1973) Proc Natl Acad Sci USA , vol.70 , Issue.11 , pp. 3240-3244
    • Cohen, S.N.1    Chang, A.C.2    Boyer, H.W.3    Helling, R.B.4
  • 2
    • 79951501719 scopus 로고    scopus 로고
    • DNA assembly for synthetic biology: From parts to pathways and beyond
    • Ellis T, Adie T, Baldwin GS (2011) DNA assembly for synthetic biology: From parts to pathways and beyond. Integr Biol (Camb) 3(2):109-118.
    • (2011) Integr Biol (Camb) , vol.3 , Issue.2 , pp. 109-118
    • Ellis, T.1    Adie, T.2    Baldwin, G.S.3
  • 3
    • 68949161807 scopus 로고    scopus 로고
    • Programming cells by multiplex genome engineering and accelerated evolution
    • Wang HH, et al. (2009) Programming cells by multiplex genome engineering and accelerated evolution. Nature 460(7257):894-898.
    • (2009) Nature , vol.460 , Issue.7257 , pp. 894-898
    • Wang, H.H.1
  • 4
    • 79960502359 scopus 로고    scopus 로고
    • Precise manipulation of chromosomes in vivo enables genome-wide codon replacement
    • Isaacs FJ, et al. (2011) Precise manipulation of chromosomes in vivo enables genome-wide codon replacement. Science 333(6040):348-353.
    • (2011) Science , vol.333 , Issue.6040 , pp. 348-353
    • Isaacs, F.J.1
  • 5
    • 84962138875 scopus 로고    scopus 로고
    • BioPartsBuilder: A synthetic biology tool for combinatorial assembly of biological parts
    • Yang K, Stracquadanio G, Luo J, Boeke JD, Bader JS (2016) BioPartsBuilder: A synthetic biology tool for combinatorial assembly of biological parts. Bioinformatics 32(6):937-939.
    • (2016) Bioinformatics , vol.32 , Issue.6 , pp. 937-939
    • Yang, K.1    Stracquadanio, G.2    Luo, J.3    Boeke, J.D.4    Bader, J.S.5
  • 6
    • 85013248914 scopus 로고    scopus 로고
    • BioPartsDB: A synthetic biology workflow web-application for education and research
    • Stracquadanio G, Yang K, Boeke JD, Bader JS (2016) BioPartsDB: A synthetic biology workflow web-application for education and research. Bioinformatics 32(22):3519-3521.
    • (2016) Bioinformatics , vol.32 , Issue.22 , pp. 3519-3521
    • Stracquadanio, G.1    Yang, K.2    Boeke, J.D.3    Bader, J.S.4
  • 8
    • 67849130568 scopus 로고    scopus 로고
    • Writing DNA with GenoCAD
    • Czar MJ, Cai Y, Peccoud J (2009) Writing DNA with GenoCAD. Nucleic Acid Res 37(Web Server issue):W40-W47.
    • (2009) Nucleic Acid Res , vol.37 , Issue.WEB SERVER ISSUE , pp. W40-W47
    • Czar, M.J.1    Cai, Y.2    Peccoud, J.3
  • 9
    • 35748938455 scopus 로고    scopus 로고
    • A syntactic model to design and verify synthetic genetic constructs derived from standard biological parts
    • Cai Y, Hartnett B, Gustafsson C, Peccoud J (2007) A syntactic model to design and verify synthetic genetic constructs derived from standard biological parts. Bioinformatics 23(20):2760-2767.
    • (2007) Bioinformatics , vol.23 , Issue.20 , pp. 2760-2767
    • Cai, Y.1    Hartnett, B.2    Gustafsson, C.3    Peccoud, J.4
  • 10
    • 84879816810 scopus 로고    scopus 로고
    • Building-in biosafety for synthetic biology
    • Wright O, Stan GB, Ellis T (2013) Building-in biosafety for synthetic biology. Microbiology 159(Pt 7):1221-1235.
    • (2013) Microbiology , vol.159 , pp. 1221-1235
    • Wright, O.1    Stan, G.B.2    Ellis, T.3
  • 11
    • 0037820426 scopus 로고    scopus 로고
    • Biological containment of genetically modified Lactococcus lactis for intestinal delivery of human interleukin 10
    • Steidler L, et al. (2003) Biological containment of genetically modified Lactococcus lactis for intestinal delivery of human interleukin 10. Nat Biotechnol 21(7):785-789.
    • (2003) Nat Biotechnol , vol.21 , Issue.7 , pp. 785-789
    • Steidler, L.1
  • 12
    • 0024311086 scopus 로고
    • A family of genes encoding a cell-killing function may be conserved in all gram-negative bacteria
    • Poulsen LK, Larsen NW, Molin S, Andersson P (1989) A family of genes encoding a cell-killing function may be conserved in all gram-negative bacteria. Mol Microbiol 3(11):1463-1472.
    • (1989) Mol Microbiol , vol.3 , Issue.11 , pp. 1463-1472
    • Poulsen, L.K.1    Larsen, N.W.2    Molin, S.3    Andersson, P.4
  • 13
    • 0025966530 scopus 로고
    • Development of efficient suicide mechanisms for biological containment of bacteria
    • Knudsen SM, Karlström OH (1991) Development of efficient suicide mechanisms for biological containment of bacteria. Appl Environ Microbiol 57(1):85-92.
    • (1991) Appl Environ Microbiol , vol.57 , Issue.1 , pp. 85-92
    • Knudsen, S.M.1    Karlström, O.H.2
  • 14
    • 0022764432 scopus 로고
    • Mechanism of postsegregational killing by the hok gene product of the parB system of plasmid R1 and its homology with the relF gene product of the E. coli relB operon
    • Gerdes K, et al. (1986) Mechanism of postsegregational killing by the hok gene product of the parB system of plasmid R1 and its homology with the relF gene product of the E. coli relB operon. EMBO J 5(8):2023-2029.
    • (1986) EMBO J , vol.5 , Issue.8 , pp. 2023-2029
    • Gerdes, K.1
  • 15
    • 0023696645 scopus 로고
    • Model suicide vector for containment of genetically engineered microorganisms
    • Bej AK, Perlin MH, Atlas RM (1988) Model suicide vector for containment of genetically engineered microorganisms. Appl Environ Microbiol 54(10):2472-2477.
    • (1988) Appl Environ Microbiol , vol.54 , Issue.10 , pp. 2472-2477
    • Bej, A.K.1    Perlin, M.H.2    Atlas, R.M.3
  • 16
    • 84925610163 scopus 로고    scopus 로고
    • GeneGuard: A modular plasmid system designed for biosafety
    • Wright O, Delmans M, Stan GB, Ellis T (2015) GeneGuard: A modular plasmid system designed for biosafety. ACS Synth Biol 4(3):307-316.
    • (2015) ACS Synth Biol , vol.4 , Issue.3 , pp. 307-316
    • Wright, O.1    Delmans, M.2    Stan, G.B.3    Ellis, T.4
  • 17
    • 0035377246 scopus 로고    scopus 로고
    • Dual system to reinforce biological containment of recombinant bacteria designed for rhizoremediation
    • Ronchel MC, Ramos JL (2001) Dual system to reinforce biological containment of recombinant bacteria designed for rhizoremediation. Appl Environ Microbiol 67(6):2649-2656.
    • (2001) Appl Environ Microbiol , vol.67 , Issue.6 , pp. 2649-2656
    • Ronchel, M.C.1    Ramos, J.L.2
  • 18
    • 84922595374 scopus 로고    scopus 로고
    • Recoded organisms engineered to depend on synthetic amino acids
    • Rovner AJ, et al. (2015) Recoded organisms engineered to depend on synthetic amino acids. Nature 518(7537):89-93.
    • (2015) Nature , vol.518 , Issue.7537 , pp. 89-93
    • Rovner, A.J.1
  • 19
    • 84923112573 scopus 로고    scopus 로고
    • Biocontainment of genetically modified organisms by synthetic protein design
    • Mandell DJ, et al. (2015) Biocontainment of genetically modified organisms by synthetic protein design. Nature 518(7537):55-60.
    • (2015) Nature , vol.518 , Issue.7537 , pp. 55-60
    • Mandell, D.J.1
  • 20
    • 84922678329 scopus 로고    scopus 로고
    • Intrinsic biocontainment: Multiplex genome safeguards combine transcriptional and recombinational control of essential yeast genes
    • Cai Y, et al. (2015) Intrinsic biocontainment: Multiplex genome safeguards combine transcriptional and recombinational control of essential yeast genes. Proc Natl Acad Sci USA 112(6):1803-1808.
    • (2015) Proc Natl Acad Sci USA , vol.112 , Issue.6 , pp. 1803-1808
    • Cai, Y.1
  • 21
    • 0034064282 scopus 로고    scopus 로고
    • Evolution and variation of the yeast (Saccharomyces) genome
    • Mortimer RK (2000) Evolution and variation of the yeast (Saccharomyces) genome. Genome Res 10(4):403-409.
    • (2000) Genome Res , vol.10 , Issue.4 , pp. 403-409
    • Mortimer, R.K.1
  • 22
    • 3142536716 scopus 로고    scopus 로고
    • Exploration of essential gene functions via titratable promoter alleles
    • Mnaimneh S, et al. (2004) Exploration of essential gene functions via titratable promoter alleles. Cell 118(1):31-44.
    • (2004) Cell , vol.118 , Issue.1 , pp. 31-44
    • Mnaimneh, S.1
  • 23
    • 0023484186 scopus 로고
    • 5-Fluoroorotic acid as a selective agent in yeast molecular genetics
    • Boeke JD, Trueheart J, Natsoulis G, Fink GR (1987) 5-Fluoroorotic acid as a selective agent in yeast molecular genetics. Methods Enzymol 154:164-175.
    • (1987) Methods Enzymol , vol.154 , pp. 164-175
    • Boeke, J.D.1    Trueheart, J.2    Natsoulis, G.3    Fink, G.R.4
  • 24
    • 0032579440 scopus 로고    scopus 로고
    • Designer deletion strains derived from Saccharomyces cerevisiae S288C: A useful set of strains and plasmids for PCR-mediated gene disruption and other applications
    • Brachmann CB, et al. (1998) Designer deletion strains derived from Saccharomyces cerevisiae S288C: A useful set of strains and plasmids for PCR-mediated gene disruption and other applications. Yeast 14(2):115-132.
    • (1998) Yeast , vol.14 , Issue.2 , pp. 115-132
    • Brachmann, C.B.1
  • 25
    • 84937157618 scopus 로고    scopus 로고
    • Yeast Golden Gate (yGG) for the efficient assembly of S. Cerevisiae transcription units
    • Agmon N, et al. (2015) Yeast Golden Gate (yGG) for the efficient assembly of S. cerevisiae transcription units. ACS Synth Biol 4(7):853-859.
    • (2015) ACS Synth Biol , vol.4 , Issue.7 , pp. 853-859
    • Agmon, N.1
  • 26
    • 0029809862 scopus 로고    scopus 로고
    • Reverse two-hybrid and one-hybrid systems to detect dissociation of protein-protein and DNA-protein interactions
    • Vidal M, Brachmann RK, Fattaey A, Harlow E, Boeke JD (1996) Reverse two-hybrid and one-hybrid systems to detect dissociation of protein-protein and DNA-protein interactions. Proc Natl Acad Sci USA 93(19):10315-10320.
    • (1996) Proc Natl Acad Sci USA , vol.93 , Issue.19 , pp. 10315-10320
    • Vidal, M.1    Brachmann, R.K.2    Fattaey, A.3    Harlow, E.4    Boeke, J.D.5
  • 27
    • 80655143315 scopus 로고    scopus 로고
    • Fast-acting and nearly gratuitous induction of gene expression and protein depletion in Saccharomyces cerevisiae
    • McIsaac RS, et al. (2011) Fast-acting and nearly gratuitous induction of gene expression and protein depletion in Saccharomyces cerevisiae. Mol Biol Cell 22(22):4447-4459.
    • (2011) Mol Biol Cell , vol.22 , Issue.22 , pp. 4447-4459
    • McIsaac, R.S.1
  • 28
    • 84876379604 scopus 로고    scopus 로고
    • Synthetic gene expression perturbation systems with rapid, tunable, single-gene specificity in yeast
    • McIsaac RS, et al. (2013) Synthetic gene expression perturbation systems with rapid, tunable, single-gene specificity in yeast. Nucleic Acids Res 41(4):e57.
    • (2013) Nucleic Acids Res , vol.41 , Issue.4 , pp. e57
    • McIsaac, R.S.1
  • 29
    • 27744587302 scopus 로고    scopus 로고
    • Cotranscriptional set2 methylation of histone H3 lysine 36 recruits a repressive Rpd3 complex
    • Keogh MC, et al. (2005) Cotranscriptional set2 methylation of histone H3 lysine 36 recruits a repressive Rpd3 complex. Cell 123(4):593-605.
    • (2005) Cell , vol.123 , Issue.4 , pp. 593-605
    • Keogh, M.C.1
  • 30
    • 0346659954 scopus 로고
    • Ubiquitous upstream repression sequences control activation of the inducible arginase gene in yeast
    • Sumrada RA, Cooper TG (1987) Ubiquitous upstream repression sequences control activation of the inducible arginase gene in yeast. Proc Natl Acad Sci USA 84(12):3997-4001.
    • (1987) Proc Natl Acad Sci USA , vol.84 , Issue.12 , pp. 3997-4001
    • Sumrada, R.A.1    Cooper, T.G.2
  • 31
    • 0030798070 scopus 로고    scopus 로고
    • A set of vectors with a tetracycline-regulatable promoter system for modulated gene expression in Saccharomyces cerevisiae
    • Garí E, Piedrafita L, Aldea M, Herrero E (1997) A set of vectors with a tetracycline-regulatable promoter system for modulated gene expression in Saccharomyces cerevisiae. Yeast 13(9):837-848.
    • (1997) Yeast , vol.13 , Issue.9 , pp. 837-848
    • Garí, E.1    Piedrafita, L.2    Aldea, M.3    Herrero, E.4
  • 32
    • 84943421779 scopus 로고    scopus 로고
    • Development of a tightly controlled off switch for Saccharomyces cerevisiae regulated by camphor, a low-cost natural product
    • Ikushima S, Zhao Y, Boeke JD (2015) Development of a tightly controlled off switch for Saccharomyces cerevisiae regulated by camphor, a low-cost natural product. G3 (Bethesda) 5(10):1983-1990.
    • (2015) G3 (Bethesda) , vol.5 , Issue.10 , pp. 1983-1990
    • Ikushima, S.1    Zhao, Y.2    Boeke, J.D.3
  • 33
    • 79958081747 scopus 로고    scopus 로고
    • Dosage suppression genetic interaction networks enhance functional wiring diagrams of the cell
    • Magtanong L, et al. (2011) Dosage suppression genetic interaction networks enhance functional wiring diagrams of the cell. Nat Biotechnol 29(6):505-511.
    • (2011) Nat Biotechnol , vol.29 , Issue.6 , pp. 505-511
    • Magtanong, L.1
  • 35
    • 0036275447 scopus 로고    scopus 로고
    • Getting started with yeast
    • Sherman F (2002) Getting started with yeast. Methods Enzymol 350:3-41.
    • (2002) Methods Enzymol , vol.350 , pp. 3-41
    • Sherman, F.1
  • 36
    • 0001313535 scopus 로고
    • The distribution of the numbers of mutants in bacterial populations
    • Lea DE, Coulson CA (1949) The distribution of the numbers of mutants in bacterial populations. J Genet 49(3):264-285.
    • (1949) J Genet , vol.49 , Issue.3 , pp. 264-285
    • Lea, D.E.1    Coulson, C.A.2
  • 38
    • 67649884743 scopus 로고    scopus 로고
    • Fast and accurate short read alignment with Burrows-Wheeler transform
    • Li H, Durbin R (2009) Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25(14):1754-1760.
    • (2009) Bioinformatics , vol.25 , Issue.14 , pp. 1754-1760
    • Li, H.1    Durbin, R.2
  • 39
    • 68549104404 scopus 로고    scopus 로고
    • The Sequence Alignment/Map format and SAMtools
    • Li H, et al.; 1000 Genome Project Data Processing Subgroup (2009) The Sequence Alignment/Map format and SAMtools. Bioinformatics 25(16):2078-2079.
    • (2009) Bioinformatics , vol.25 , Issue.16 , pp. 2078-2079
    • Li, H.1
  • 40
    • 0037371728 scopus 로고    scopus 로고
    • An optimized protocol for metabolome analysis in yeast using direct infusion electrospray mass spectrometry
    • Castrillo JI, Hayes A, Mohammed S, Gaskell SJ, Oliver SG (2003) An optimized protocol for metabolome analysis in yeast using direct infusion electrospray mass spectrometry. Phytochemistry 62(6):929-937.
    • (2003) Phytochemistry , vol.62 , Issue.6 , pp. 929-937
    • Castrillo, J.I.1    Hayes, A.2    Mohammed, S.3    Gaskell, S.J.4    Oliver, S.G.5
  • 41
    • 84919400169 scopus 로고    scopus 로고
    • Npr2 inhibits TORC1 to prevent inappropriate utilization of glutamine for biosynthesis of nitrogen-containing metabolites
    • Laxman S, Sutter BM, Shi L, Tu BP (2014) Npr2 inhibits TORC1 to prevent inappropriate utilization of glutamine for biosynthesis of nitrogen-containing metabolites. Sci Signal 7(356):ra120.
    • (2014) Sci Signal , vol.7 , Issue.356
    • Laxman, S.1    Sutter, B.M.2    Shi, L.3    Tu, B.P.4
  • 42
    • 36749067297 scopus 로고    scopus 로고
    • Cyclic changes in metabolic state during the life of a yeast cell
    • Tu BP, et al. (2007) Cyclic changes in metabolic state during the life of a yeast cell. Proc Natl Acad Sci USA 104(43):16886-16891.
    • (2007) Proc Natl Acad Sci USA , vol.104 , Issue.43 , pp. 16886-16891
    • Tu, B.P.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.