메뉴 건너뛰기




Volumn 98, Issue 4, 2014, Pages 1785-1794

Reconstitution of the peptidoglycan cytoplasmic precursor biosynthetic pathway in cell-free system and rapid screening of antisense oligonucleotides for Mur enzymes

Author keywords

Antisense oligonucleotides; Cell free system; In vitro pathway reconstruction; UDP N acetylmuramyl pentapeptide

Indexed keywords

BACTERIAL PROTEINS; CELL-FREE SYSTEM; OLIGONUCLEOTIDES, ANTISENSE; PEPTIDOGLYCAN;

EID: 84894337796     PISSN: 01757598     EISSN: 14320614     Source Type: Journal    
DOI: 10.1007/s00253-013-5467-8     Document Type: Article
Times cited : (13)

References (42)
  • 1
    • 0029643799 scopus 로고    scopus 로고
    • The structure of the substrate-free form of MurB, an essential enzyme for the synthesis of bacterial cell walls
    • 1:CAS:528:DyaK28XnvVGrug%3D%3D 8805513 10.1016/S0969-2126(96)00008-1
    • Benson TE, Walsh CT, Hogle JM (1996) The structure of the substrate-free form of MurB, an essential enzyme for the synthesis of bacterial cell walls. Structure 4:47-54
    • (1996) Structure , vol.4 , pp. 47-54
    • Benson, T.E.1    Walsh, C.T.2    Hogle, J.M.3
  • 2
    • 0030927105 scopus 로고    scopus 로고
    • Crystal structure of UDP-N-acetylmuramoyl-l-alanine: D-glutamate ligase from Escherichia coli
    • 10.1093/emboj/16.12.3416
    • Bertrand JA (2007) Crystal structure of UDP-N-acetylmuramoyl-l-alanine: d-glutamate ligase from Escherichia coli. EMBO J 16:3416-3425
    • (2007) EMBO J , vol.16 , pp. 3416-3425
    • Bertrand, J.A.1
  • 3
    • 0028093026 scopus 로고
    • Peptidoglycan fragments decrease food intake and body weight gain in rats
    • 1:CAS:528:DyaK2cXlsFCms7k%3D 302956 8039898
    • Biberstine KJ, Rosenthal RS (1994) Peptidoglycan fragments decrease food intake and body weight gain in rats. Infect Immun 62:3276-3281
    • (1994) Infect Immun , vol.62 , pp. 3276-3281
    • Biberstine, K.J.1    Rosenthal, R.S.2
  • 4
    • 0027321773 scopus 로고
    • A structure-activity relationship for induction of meningeal inflammation by muramyl peptides
    • 1:CAS:528:DyaK3sXms1OrsLs%3D 293593 8325996 10.1172/JCI116565
    • Burroughs M, Rozdzinski E, Geelen S, Tuomanen E (1993) A structure-activity relationship for induction of meningeal inflammation by muramyl peptides. J Clin Invest 92:297-302
    • (1993) J Clin Invest , vol.92 , pp. 297-302
    • Burroughs, M.1    Rozdzinski, E.2    Geelen, S.3    Tuomanen, E.4
  • 5
    • 84864953230 scopus 로고    scopus 로고
    • Cell-free protein synthesis: Applications come of age
    • Carlson E, Gan R, Hodgman C (2011) Cell-free protein synthesis: applications come of age. Biotechnol Adv 5:1185-1194
    • (2011) Biotechnol Adv , vol.5 , pp. 1185-1194
    • Carlson, E.1    Gan, R.2    Hodgman, C.3
  • 6
    • 84871614444 scopus 로고    scopus 로고
    • Expression without boundaries: Cell-free protein synthesis in pharmaceutical research
    • 22521712 10.1016/j.ijpharm.2012.04.005
    • Casteleijn M, Urtti A, Sarkhel S (2012) Expression without boundaries: cell-free protein synthesis in pharmaceutical research. Int J Pharm 440:39-47
    • (2012) Int J Pharm , vol.440 , pp. 39-47
    • Casteleijn, M.1    Urtti, A.2    Sarkhel, S.3
  • 8
    • 33845509079 scopus 로고    scopus 로고
    • Structure of Escherichia coli UDP-N-acetylmuramoyl: L-alanine ligase (MurC)
    • 1:CAS:528:DC%2BD28XhtlSqu7zI
    • Deva T, Baker EN, Squire CJ, Smith CA (2006) Structure of Escherichia coli UDP-N-acetylmuramoyl: l-alanine ligase (MurC). Acta Crystallogr 62:1466-1474
    • (2006) Acta Crystallogr , vol.62 , pp. 1466-1474
    • Deva, T.1    Baker, E.N.2    Squire, C.J.3    Smith, C.A.4
  • 9
    • 0035283171 scopus 로고    scopus 로고
    • Statistical prediction of single-stranded regions in RNA secondary structure and application to predicting effective antisense target sites and beyond
    • 1:CAS:528:DC%2BD3MXhvFaqs7o%3D 29728 11222752 10.1093/nar/29.5.1034
    • Ding Y, Lawrence CE (2001) Statistical prediction of single-stranded regions in RNA secondary structure and application to predicting effective antisense target sites and beyond. Nucleic Acids Res 29:1034-1046
    • (2001) Nucleic Acids Res , vol.29 , pp. 1034-1046
    • Ding, Y.1    Lawrence, C.E.2
  • 10
    • 0035815667 scopus 로고    scopus 로고
    • Crystal Structure of UDP-N-acetylmuramoyl-l-alanyl-d-glutamate: Meso-diaminopimelate ligase from Escherichia coli
    • 1:CAS:528:DC%2BD3MXjvFCqu7c%3D 11124264 10.1074/jbc.M009835200
    • Gordon E, Flouret B (2001) Crystal Structure of UDP-N-acetylmuramoyl-l- alanyl-d-glutamate: meso-diaminopimelate ligase from Escherichia coli. J Biol Chem 276:10999-11006
    • (2001) J Biol Chem , vol.276 , pp. 10999-11006
    • Gordon, E.1    Flouret, B.2
  • 11
    • 84867226844 scopus 로고    scopus 로고
    • Cell-free biology: Exploiting the interface between synthetic biology and synthetic chemistry
    • 10.1016/j.copbio.2012.02.002
    • Harris DC, Jewet MC (2012) Cell-free biology: Exploiting the interface between synthetic biology and synthetic chemistry. Curr Opin Biotechnol 23:1-7
    • (2012) Curr Opin Biotechnol , vol.23 , pp. 1-7
    • Harris, D.C.1    Jewet, M.C.2
  • 12
    • 77956798944 scopus 로고
    • Biosynthesis of the bacterial peptidoglycan unit
    • J.M. Ghuysen R.E. Hakenbeck (eds) Elsevier Amsterdam 10.1016/S0167- 7306(08)60406-8
    • Heijenoort J (1994) Biosynthesis of the bacterial peptidoglycan unit. In: Ghuysen JM, Hakenbeck RE (eds) Bacterial cell wall. Elsevier, Amsterdam, pp 39-54
    • (1994) Bacterial Cell Wall , pp. 39-54
    • Heijenoort, J.1
  • 13
    • 53949093950 scopus 로고    scopus 로고
    • An integrated cell-free metabolic platform for protein production and synthetic biology
    • 2583083 18854819 10.1038/msb.2008.57
    • Jewett MC, Calhoun KA, Voloshin A, Wuu JJ, Swartz JR (2008) An integrated cell-free metabolic platform for protein production and synthetic biology. Mol Syst Biol 4:220
    • (2008) Mol Syst Biol , vol.4 , pp. 220
    • Jewett, M.C.1    Calhoun, K.A.2    Voloshin, A.3    Wuu, J.J.4    Swartz, J.R.5
  • 14
    • 84860375823 scopus 로고    scopus 로고
    • Expression optimization and synthetic gene networks in cell-free systems
    • Karig DK, Iyer S, Simpson ML, Doktycz MJ (2011) Expression optimization and synthetic gene networks in cell-free systems. Nucleic Acids Res 8:3763-3774
    • (2011) Nucleic Acids Res , vol.8 , pp. 3763-3774
    • Karig, D.K.1    Iyer, S.2    Simpson, M.L.3    Doktycz, M.J.4
  • 15
    • 13944274948 scopus 로고    scopus 로고
    • The past, present and future of cell-free protein synthesis
    • 1:CAS:528:DC%2BD2MXhsleiuro%3D 15734558 10.1016/j.tibtech.2005.01.003
    • Katzen F, Chang G, Kudlicki W (2005) The past, present and future of cell-free protein synthesis. Trends Biotechnol 23:150-156
    • (2005) Trends Biotechnol , vol.23 , pp. 150-156
    • Katzen, F.1    Chang, G.2    Kudlicki, W.3
  • 16
    • 79551599731 scopus 로고    scopus 로고
    • Synthetic in vitro transcriptional oscillators
    • 3063688 21283141
    • Kim J, Winfree E (2011) Synthetic in vitro transcriptional oscillators. Mol Syst Biol 7:465
    • (2011) Mol Syst Biol , vol.7 , pp. 465
    • Kim, J.1    Winfree, E.2
  • 17
    • 59249084001 scopus 로고    scopus 로고
    • A synthetic biology approach to the construction of membrane proteins in semi-synthetic minimal cells
    • 10.1016/j.bbamem.2008.10.017
    • Kurumaa Y, Stanoa P, Uedac T, Luisib PL (2009) A synthetic biology approach to the construction of membrane proteins in semi-synthetic minimal cells. Biochim Biophys Acta Biomembr 1788:567-574
    • (2009) Biochim Biophys Acta Biomembr , vol.1788 , pp. 567-574
    • Kurumaa, Y.1    Stanoa, P.2    Uedac, T.3    Luisib, P.L.4
  • 18
    • 10044253923 scopus 로고
    • Utilization of lipid-linked precursors and the formation of peptidoglycan in the process of cell growth and division: Membrane enzymes involved in the final steps of peptidoglycan synthesis and the mechanism of their regulation
    • J.M. Ghuysen R.E. Hakenbeck (eds) Elsevier Amsterdam 10.1016/S0167- 7306(08)60407-X
    • Matsuhashi M (1994) Utilization of lipid-linked precursors and the formation of peptidoglycan in the process of cell growth and division: membrane enzymes involved in the final steps of peptidoglycan synthesis and the mechanism of their regulation. In: Ghuysen JM, Hakenbeck RE (eds) Bacterial cell wall. Elsevier, Amsterdam, pp 55-72
    • (1994) Bacterial Cell Wall , pp. 55-72
    • Matsuhashi, M.1
  • 21
    • 0242268453 scopus 로고    scopus 로고
    • Principles of cell-free genetic circuit assembly
    • 10.1073/pnas.2135496100
    • Noireaux V, Bar-Ziv R, Libchaber A (2003) Principles of cell-free genetic circuit assembly. Proc Natl Acad Sci U S A 22:12672-12677
    • (2003) Proc Natl Acad Sci U S A , vol.22 , pp. 12672-12677
    • Noireaux, V.1    Bar-Ziv, R.2    Libchaber, A.3
  • 22
    • 0345059135 scopus 로고    scopus 로고
    • A method for the enzymatic synthesis and HPLC purification of the peptidoglycan precursor UDP-N-acetylmuramic acid
    • 1:CAS:528:DC%2BD3sXptlOqs7c%3D 14659546 10.1016/S0378-1097(03)00793-6
    • Raymond JB, Price NP, Pavelka MS (2003) A method for the enzymatic synthesis and HPLC purification of the peptidoglycan precursor UDP-N-acetylmuramic acid. FEMS Microbiol Lett 229:83-89
    • (2003) FEMS Microbiol Lett , vol.229 , pp. 83-89
    • Raymond, J.B.1    Price, N.P.2    Pavelka, M.S.3
  • 23
    • 0033576995 scopus 로고    scopus 로고
    • Preparative enzymatic synthesis and characterization of the cytoplasmic intermediates of murein iosynthesis
    • 1:CAS:528:DyaK1MXlvFCguw%3D%3D 10.1021/ja983850b
    • Reddy SG, Waddell ST, Kuo DW, Wong KK, Pompliano DL (1999) Preparative enzymatic synthesis and characterization of the cytoplasmic intermediates of murein iosynthesis. J Am Chem Soc 121:1175-1178
    • (1999) J Am Chem Soc , vol.121 , pp. 1175-1178
    • Reddy, S.G.1    Waddell, S.T.2    Kuo, D.W.3    Wong, K.K.4    Pompliano, D.L.5
  • 24
    • 0029840799 scopus 로고    scopus 로고
    • Genetically engineered synthesis of natural products: From alkaloids to corrins
    • 1:CAS:528:DyaK28XmtFGhtr8%3D 8905088 10.1146/annurev.micro.50.1.467
    • Roessner CA, Scott AI (1996) Genetically engineered synthesis of natural products: from alkaloids to corrins. Annu Rev Microbiol 50:467-490
    • (1996) Annu Rev Microbiol , vol.50 , pp. 467-490
    • Roessner, C.A.1    Scott, A.I.2
  • 25
    • 0030587522 scopus 로고    scopus 로고
    • Crystal structure of UDP-N-acetylglucosamine enolpyruvyltransferase, the target of the antibiotic fosfomycin
    • 8805592 10.1016/S0969-2126(96)00113-X
    • Schönbrunn E, Sack S, Eschenburg S (1996) Crystal structure of UDP-N-acetylglucosamine enolpyruvyltransferase, the target of the antibiotic fosfomycin. Structure 4:1065-1075
    • (1996) Structure , vol.4 , pp. 1065-1075
    • Schönbrunn, E.1    Sack, S.2    Eschenburg, S.3
  • 26
    • 33750986817 scopus 로고    scopus 로고
    • Rational design and rapid screening of antisense oligonucleotides for prokaryotic gene modulation
    • 10.1093/nar/gkl715
    • Shao Y, Wu Y, Chan CY, McDonough K, Ding Y (2006) Rational design and rapid screening of antisense oligonucleotides for prokaryotic gene modulation. Nucleic Acids Res 19:5660-5669
    • (2006) Nucleic Acids Res , vol.19 , pp. 5660-5669
    • Shao, Y.1    Wu, Y.2    Chan, C.Y.3    McDonough, K.4    Ding, Y.5
  • 27
    • 33644558385 scopus 로고    scopus 로고
    • Does the cell wall of bacteria remain a viable source of targets for novel antibiotics?
    • 1:CAS:528:DC%2BD28XitVKju7g%3D 16290173 10.1016/j.bcp.2005.10.029
    • Silver LL (2006) Does the cell wall of bacteria remain a viable source of targets for novel antibiotics? Biochem Pharmacol 71:996-1005
    • (2006) Biochem Pharmacol , vol.71 , pp. 996-1005
    • Silver, L.L.1
  • 28
    • 77950444491 scopus 로고    scopus 로고
    • DNA as a universal substrate for chemical kinetics
    • 1:CAS:528:DC%2BC3cXktFKiu74%3D 2851759 20203007 10.1073/pnas.0909380107
    • Soloveichik D, Seelig G, Winfree E (2010) DNA as a universal substrate for chemical kinetics. Proc Natl Acad Sci U S A 107:5393-5398
    • (2010) Proc Natl Acad Sci U S A , vol.107 , pp. 5393-5398
    • Soloveichik, D.1    Seelig, G.2    Winfree, E.3
  • 29
    • 33745035191 scopus 로고    scopus 로고
    • Developing cell-free biology for industrial applications
    • 1:CAS:528:DC%2BD28XlsVCis7g%3D 16761165 10.1007/s10295-006-0127-y
    • Swartz JR (2006) Developing cell-free biology for industrial applications. J Ind Microbiol Biotechnol 33:476-485
    • (2006) J Ind Microbiol Biotechnol , vol.33 , pp. 476-485
    • Swartz, J.R.1
  • 30
    • 56149111222 scopus 로고    scopus 로고
    • Experiments and simulation models of a basic computation element of an autonomous molecular computing system
    • 10.1103/PhysRevE.78.041921
    • Takinoue M, Kiga D, Shohda K, Suyama A (2008) Experiments and simulation models of a basic computation element of an autonomous molecular computing system. Phys Rev E 78:041921
    • (2008) Phys Rev e , vol.78 , pp. 041921
    • Takinoue, M.1    Kiga, D.2    Shohda, K.3    Suyama, A.4
  • 31
    • 0033485278 scopus 로고
    • Antisense oligonucleotides: A systematic high-throughput approach to target validation and gene function determination
    • 10.1016/S1359-6446(99)01392-6
    • Taylor M, Wiederholt K, Sverdrup F (1994) Antisense oligonucleotides: a systematic high-throughput approach to target validation and gene function determination. Drug Discov Today 4:562-567
    • (1994) Drug Discov Today , vol.4 , pp. 562-567
    • Taylor, M.1    Wiederholt, K.2    Sverdrup, F.3
  • 32
    • 31344474305 scopus 로고    scopus 로고
    • Strategies for protein coexpression in Escherichia coli
    • 1:CAS:528:DC%2BD2MXhtlagur3P 16369554 10.1038/nmeth0106-55
    • Tolia NH, Joshua-Tor L (2006) Strategies for protein coexpression in Escherichia coli. Nat Methods 3:55-64
    • (2006) Nat Methods , vol.3 , pp. 55-64
    • Tolia, N.H.1    Joshua-Tor, L.2
  • 33
    • 77956445453 scopus 로고    scopus 로고
    • Artificial photosynthesis in ranaspumin-2 based foam
    • 1:CAS:528:DC%2BC3cXivVaitrY%3D 20205454 10.1021/nl100550k
    • Wendell D, Todd J, Montemagno C (2010) Artificial photosynthesis in ranaspumin-2 based foam. Nano Lett 10:3231-3236
    • (2010) Nano Lett , vol.10 , pp. 3231-3236
    • Wendell, D.1    Todd, J.2    Montemagno, C.3
  • 34
    • 0034423412 scopus 로고    scopus 로고
    • Crystal Structure of Escherichia coli UDPMurNAc tripeptide d-alanyl-d-alanine-adding Enzyme (MurF) at 2.3A resolution
    • 1:CAS:528:DC%2BD3cXot1Kltro%3D 11090285 10.1006/jmbi.2000.4215
    • Yan YW (2000) Crystal Structure of Escherichia coli UDPMurNAc tripeptide d-alanyl-d-alanine-adding Enzyme (MurF) at 2.3A resolution. J Mol Biol 304:435-445
    • (2000) J Mol Biol , vol.304 , pp. 435-445
    • Yan, Y.W.1
  • 35
    • 0041582974 scopus 로고
    • Inhibition of Roussarcoma virus replication and cell transformation by a specific oligodeoxynucleotide
    • 1:CAS:528:DyaE1cXhtlWnsr0%3D 411230 75545 10.1073/pnas.75.1.280
    • Zamecnik PC, Stephenson ML (1978) Inhibition of Roussarcoma virus replication and cell transformation by a specific oligodeoxynucleotide. Proc Natl Acad Sci U S A 75:280-284
    • (1978) Proc Natl Acad Sci U S A , vol.75 , pp. 280-284
    • Zamecnik, P.C.1    Stephenson, M.L.2
  • 36
    • 77449142867 scopus 로고    scopus 로고
    • Production of biocommodities and bioelectricity by cell-free synthetic enzymatic pathway biotransformations: Challenges and opportunities
    • 1:CAS:528:DC%2BC3cXhtVKjtLk%3D 19998281
    • Zhang YHP (2010) Production of biocommodities and bioelectricity by cell-free synthetic enzymatic pathway biotransformations: challenges and opportunities. Biotechnol Bioeng 105:663-677
    • (2010) Biotechnol Bioeng , vol.105 , pp. 663-677
    • Zhang, Y.H.P.1
  • 37
    • 79251621970 scopus 로고    scopus 로고
    • Dynamic DNA nanotechnology using strand-displacement reactions
    • 1:CAS:528:DC%2BC3MXovVGhsg%3D%3D 21258382 10.1038/nchem.957
    • Zhang DY, Seelig G (2011) Dynamic DNA nanotechnology using strand-displacement reactions. Nat Chem 3:103-113
    • (2011) Nat Chem , vol.3 , pp. 103-113
    • Zhang, D.Y.1    Seelig, G.2
  • 38
    • 55849139751 scopus 로고    scopus 로고
    • High-yield hydrogen production from starch and water by a synthetic enzymatic pathway
    • 1866174 17520015 10.1371/journal.pone.0000456
    • Zhang YHP, Evans BR, Mielenz JR, Hopkins RC, Adams MWW (2007a) High-yield hydrogen production from starch and water by a synthetic enzymatic pathway. PLoS One 2:e456
    • (2007) PLoS One , vol.2 , pp. 456
    • Zhang, Y.H.P.1    Evans, B.R.2    Mielenz, J.R.3    Hopkins, R.C.4    Adams, M.W.W.5
  • 39
    • 33947361092 scopus 로고    scopus 로고
    • Synthesis of heptaprenyl-lipid IV to analyze peptidoglycan glycosyltransferases
    • 1:CAS:528:DC%2BD2sXitVyiurs%3D 3222299 17323951 10.1021/ja069060g
    • Zhang Y, Fechter EJ, Wang TA, Barrett D, Suzanne W, Kahne DE (2007b) Synthesis of heptaprenyl-lipid IV to analyze peptidoglycan glycosyltransferases. J Am Chem Soc 129:3080-3081
    • (2007) J Am Chem Soc , vol.129 , pp. 3080-3081
    • Zhang, Y.1    Fechter, E.J.2    Wang, T.A.3    Barrett, D.4    Suzanne, W.5    Kahne, D.E.6
  • 40
    • 78649928322 scopus 로고    scopus 로고
    • Efficient production of uridine 5′-diphospho-nacetylglucosamin by combination of three recombinant enzymes and yeast cells
    • 10.1080/10826068.2010.488518
    • Zhou J, Fan L, Wei P, Huang L, Cai J, Xu Z (2010a) Efficient production of uridine 5′-diphospho-nacetylglucosamin by combination of three recombinant enzymes and yeast cells. Prep Biochem Biotechnol 4:294-304
    • (2010) Prep Biochem Biotechnol , vol.4 , pp. 294-304
    • Zhou, J.1    Fan, L.2    Wei, P.3    Huang, L.4    Cai, J.5    Xu, Z.6
  • 41
    • 77956762312 scopus 로고    scopus 로고
    • Reconstruction of the UDP-N-acetylglucosamine biosynthetic pathway in cell-free system
    • 1:CAS:528:DC%2BC3cXhtFOkt7fJ 20495944 10.1007/s10529-010-0315-8
    • Zhou J, Huang L, Lian J, Sheng J, Cai J, Xu Z (2010b) Reconstruction of the UDP-N-acetylglucosamine biosynthetic pathway in cell-free system. Biotechnol Lett 32:1481-1486
    • (2010) Biotechnol Lett , vol.32 , pp. 1481-1486
    • Zhou, J.1    Huang, L.2    Lian, J.3    Sheng, J.4    Cai, J.5    Xu, Z.6
  • 42
    • 0035943137 scopus 로고    scopus 로고
    • In vitro reconstruction of the biosynthetic pathway of peptidoglycan cytoplasmic precursor in Pseudomonas aeruginosa
    • 11470366 10.1111/j.1574-6968.2001.tb10761.x
    • Zoeiby AE, Sanschagrin F, Havugimana PC (2001) In vitro reconstruction of the biosynthetic pathway of peptidoglycan cytoplasmic precursor in Pseudomonas aeruginosa. FEMS Microbiol Lett 201:229-235
    • (2001) FEMS Microbiol Lett , vol.201 , pp. 229-235
    • Zoeiby, A.E.1    Sanschagrin, F.2    Havugimana, P.C.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.