메뉴 건너뛰기




Volumn 46, Issue 9, 2013, Pages 727-737

Effects of 2′-O-methyl nucleotide on ligation capability of T4 DNA ligase

Author keywords

2 O methyl nucleotide; Ligation; Mismatch; T4 DNA ligase

Indexed keywords

NUCLEOTIDE; POLYDEOXYRIBONUCLEOTIDE SYNTHASE;

EID: 84911426889     PISSN: 16729145     EISSN: 17457270     Source Type: Journal    
DOI: 10.1093/abbs/gmu058     Document Type: Article
Times cited : (10)

References (43)
  • 1
    • 0034734323 scopus 로고    scopus 로고
    • DNA ligases in the repair and replication of DNA
    • Timson DJ, Singleton MR and Wigley DB. DNA ligases in the repair and replication of DNA. Mutat Res 2000, 460: 301-318.
    • (2000) Mutat Res , vol.460 , pp. 301-318
    • Timson, D.J.1    Singleton, M.R.2    Wigley, D.B.3
  • 2
  • 3
    • 0016273515 scopus 로고
    • DNA ligase: Structure, mechanism, and function
    • Lehman IR. DNA ligase: structure, mechanism, and function. Science 1974, 186: 790-797.
    • (1974) Science , vol.186 , pp. 790-797
    • Lehman, I.R.1
  • 4
    • 50649116450 scopus 로고    scopus 로고
    • Eukaryotic DNA ligases: Structural and functional insights
    • Ellenberger T and Tomkinson AE. Eukaryotic DNA ligases: structural and functional insights. Annu Rev Biochem 2008, 77: 313-338.
    • (2008) Annu Rev Biochem , vol.77 , pp. 313-338
    • Ellenberger, T.1    Tomkinson, A.E.2
  • 5
    • 0030873236 scopus 로고    scopus 로고
    • Functional characterization of the T4 DNA ligase: A new insight into the mechanism of action
    • Rossi R, Montecucco A, Ciarrocchi G and Biamonti G. Functional characterization of the T4 DNA ligase: a new insight into the mechanism of action. Nucleic Acids Res 1997, 25: 2106-2113.
    • (1997) Nucleic Acids Res , vol.25 , pp. 2106-2113
    • Rossi, R.1    Montecucco, A.2    Ciarrocchi, G.3    Biamonti, G.4
  • 6
    • 0014877121 scopus 로고
    • Studies on polynucleotides. C. A novel joining reaction catalyzed by the T4-polynucleotide ligase
    • Sgaramella V, Van de Sande JH and Khorana HG. Studies on polynucleotides, C. A novel joining reaction catalyzed by the T4-polynucleotide ligase. Proc Natl Acad Sci USA 1970, 67: 1468-1475.
    • (1970) Proc Natl Acad Sci USA , vol.67 , pp. 1468-1475
    • Sgaramella, V.1    Van De Sande, J.H.2    Khorana, H.G.3
  • 7
    • 0021112655 scopus 로고
    • Primary structure and genetic organization of phage T4 DNA ligase
    • Armstrong J, Brown RS and Tsugita A. Primary structure and genetic organization of phage T4 DNA ligase. Nucleic Acids Res 1983, 11: 7145-7156.
    • (1983) Nucleic Acids Res , vol.11 , pp. 7145-7156
    • Armstrong, J.1    Brown, R.S.2    Tsugita, A.3
  • 8
    • 80052236108 scopus 로고    scopus 로고
    • Nick sealing by T4 DNA ligase on a modified DNA template: Tethering a functional molecule on D-threoninol
    • Liang X, Fujioka K and Asanuma H. Nick sealing by T4 DNA ligase on a modified DNA template: tethering a functional molecule on D-threoninol. Chemistry 2011, 17: 10388-10396.
    • (2011) Chemistry , vol.17 , pp. 10388-10396
    • Liang, X.1    Fujioka, K.2    Asanuma, H.3
  • 9
    • 0037126846 scopus 로고    scopus 로고
    • Kinetic mechanism of the Mg2+-dependent nucleotidyl transfer catalyzed by T4 DNA and RNA ligases
    • Cherepanov AV and de Vries S. Kinetic mechanism of the Mg2+-dependent nucleotidyl transfer catalyzed by T4 DNA and RNA ligases. J Biol Chem 2002, 277: 1695-1704.
    • (2002) J Biol Chem , vol.277 , pp. 1695-1704
    • Cherepanov, A.V.1    De Vries, S.2
  • 10
    • 84876716976 scopus 로고    scopus 로고
    • A novel sensitive and selective ligation-based ATP assay using a molecular beacon
    • Ma C, Tang Z,Wang K, Yang X and TanW. A novel sensitive and selective ligation-based ATP assay using a molecular beacon. Analyst 2013, 138: 3013-3017.
    • (2013) Analyst , vol.138 , pp. 3013-3017
    • Ma, C.1    Tang, Z.2    Wang, K.3    Yang, X.4    Tan, W.5
  • 11
    • 0035125009 scopus 로고    scopus 로고
    • Joining of short DNA oligonucleotides with base pair mismatches by T4 DNA ligase
    • Cherepanov A, Yildirim E and de Vries S. Joining of short DNA oligonucleotides with base pair mismatches by T4 DNA ligase. J Biochem 2001, 129: 61-68.
    • (2001) J Biochem , vol.129 , pp. 61-68
    • Cherepanov, A.1    Yildirim, E.2    De Vries, S.3
  • 13
    • 0030727765 scopus 로고    scopus 로고
    • The ups and downs of nucleic acid duplex stability: Structure-stability studies on chemically-modified DNA:RNA duplexes
    • Freier SM and Altmann KH. The ups and downs of nucleic acid duplex stability: structure-stability studies on chemically-modified DNA:RNA duplexes. Nucleic Acids Res 1997, 25: 4429-4443.
    • (1997) Nucleic Acids Res , vol.25 , pp. 4429-4443
    • Freier, S.M.1    Altmann, K.H.2
  • 15
    • 80051733474 scopus 로고    scopus 로고
    • A sensitive alternative for microRNA in situ hybridizations using probes of 20-O-methyl RNA+LNA
    • Soe MJ, Moller T, Dufva M and Holmstrom K. A sensitive alternative for microRNA in situ hybridizations using probes of 20-O-methyl RNA+LNA. J Histochem Cytochem 2011, 59: 661-672.
    • (2011) J Histochem Cytochem , vol.59 , pp. 661-672
    • Soe, M.J.1    Moller, T.2    Dufva, M.3    Holmstrom, K.4
  • 18
    • 57349134691 scopus 로고    scopus 로고
    • Chemical modification of siRNAs for in vivo use
    • Behlke MA. Chemical modification of siRNAs for in vivo use. Oligonucleotides 2008, 18: 305-319.
    • (2008) Oligonucleotides , vol.18 , pp. 305-319
    • Behlke, M.A.1
  • 19
    • 84886040521 scopus 로고    scopus 로고
    • Effects of 20-O-methyl nucleotide substitution on EcoRI endonuclease cleavage activities
    • Zhao G, Zhao B, Tong Z, Mu R and Guan Y. Effects of 20-O-methyl nucleotide substitution on EcoRI endonuclease cleavage activities. PLoS ONE 2013, 8: e77111.
    • (2013) PLoS ONE , vol.8 , pp. e77111
    • Zhao, G.1    Zhao, B.2    Tong, Z.3    Mu, R.4    Guan, Y.5
  • 20
    • 79960868183 scopus 로고    scopus 로고
    • A ligation-triggered DNAzyme cascade for amplified fluorescence detection of biological small molecules with zero-background signal
    • Lu LM, Zhang XB, Kong RM, Yang B and Tan W. A ligation-triggered DNAzyme cascade for amplified fluorescence detection of biological small molecules with zero-background signal. J Am Chem Soc 2011, 133: 11686-11691.
    • (2011) J Am Chem Soc , vol.133 , pp. 11686-11691
    • Lu, L.M.1    Zhang, X.B.2    Kong, R.M.3    Yang, B.4    Tan, W.5
  • 21
    • 33646852808 scopus 로고    scopus 로고
    • Fluorescence resonance energy transfer: Evaluation of the intracellular stability of polyplexes
    • Breunig M, Lungwitz U, Liebl R and Goepferich A. Fluorescence resonance energy transfer: evaluation of the intracellular stability of polyplexes. Eur J Pharm Biopharm 2006, 63: 156-165.
    • (2006) Eur J Pharm Biopharm , vol.63 , pp. 156-165
    • Breunig, M.1    Lungwitz, U.2    Liebl, R.3    Goepferich, A.4
  • 22
    • 0036180593 scopus 로고    scopus 로고
    • Fluorescence resonance energy transfer (FRET) and competing processes in donor-acceptor substituted DNA strands: A comparative study of ensemble and single-molecule data
    • Dietrich A, Buschmann V, Muller C and Sauer M. Fluorescence resonance energy transfer (FRET) and competing processes in donor-acceptor substituted DNA strands: a comparative study of ensemble and single-molecule data. J Biotechnol 2002, 82: 211-231.
    • (2002) J Biotechnol , vol.82 , pp. 211-231
    • Dietrich, A.1    Buschmann, V.2    Muller, C.3    Sauer, M.4
  • 23
    • 34248353386 scopus 로고    scopus 로고
    • Highly sensitive DNA detection and point mutation identification: An electrochemical approach based on the combined use of ligase and reverse molecular beacon
    • Wu ZS, Jiang JH, Shen GL and Yu RQ. Highly sensitive DNA detection and point mutation identification: an electrochemical approach based on the combined use of ligase and reverse molecular beacon. Hum Mutat 2007, 28: 630-637.
    • (2007) Hum Mutat , vol.28 , pp. 630-637
    • Wu, Z.S.1    Jiang, J.H.2    Shen, G.L.3    Yu, R.Q.4
  • 24
    • 0034529249 scopus 로고    scopus 로고
    • Molecular beacons: Novel fluorescent probes
    • Fang X, Li JJ, Perlette J, Tan W and Wang K. Molecular beacons: novel fluorescent probes. Anal Chem 2000, 72: 747A-753A.
    • (2000) Anal Chem , vol.72 , pp. 747A-753A
    • Fang, X.1    Li, J.J.2    Perlette, J.3    Tan, W.4    Wang, K.5
  • 25
    • 3843054927 scopus 로고    scopus 로고
    • Peptide-linked molecular beacons for efficient delivery and rapid mRNA detection in living cells
    • Nitin N, Santangelo PJ, Kim G, Nie S and Bao G. Peptide-linked molecular beacons for efficient delivery and rapid mRNA detection in living cells. Nucleic Acids Res 2004, 32: e58.
    • (2004) Nucleic Acids Res , vol.32 , pp. e58
    • Nitin, N.1    Santangelo, P.J.2    Kim, G.3    Nie, S.4    Bao, G.5
  • 26
    • 26444596631 scopus 로고    scopus 로고
    • Real-time investigation of nucleic acids phosphorylation process using molecular beacons
    • Tang Z, Wang K, Tan W, Ma C, Li J, Liu L and Guo Q, et al. Real-time investigation of nucleic acids phosphorylation process using molecular beacons. Nucleic Acids Res 2005, 33: e97.
    • (2005) Nucleic Acids Res , vol.33 , pp. e97
    • Tang, Z.1    Wang, K.2    Tan, W.3    Ma, C.4    Li, J.5    Liu, L.6    Guo, Q.7
  • 27
    • 79954627142 scopus 로고    scopus 로고
    • MicroRNA profiling by simultaneous selective isotachophoresis and hybridization with molecular beacons
    • Persat A and Santiago JG. MicroRNA profiling by simultaneous selective isotachophoresis and hybridization with molecular beacons. Anal Chem 2011, 83: 2310-2316.
    • (2011) Anal Chem , vol.83 , pp. 2310-2316
    • Persat, A.1    Santiago, J.G.2
  • 28
    • 15244353779 scopus 로고    scopus 로고
    • Using molecular beacon to monitor activity of E. Coli DNA ligase
    • Liu L, Tang Z, Wang K, Tan W, Li J, Guo Q and Meng X, et al. Using molecular beacon to monitor activity of E. coli DNA ligase. Analyst 2005, 130: 350-357.
    • (2005) Analyst , vol.130 , pp. 350-357
    • Liu, L.1    Tang, Z.2    Wang, K.3    Tan, W.4    Li, J.5    Guo, Q.6    Meng, X.7
  • 29
    • 75749100164 scopus 로고    scopus 로고
    • Detection of T4 DNA ligase using a solid-state electrochemiluminescence biosensing switch based on ferrocene-labeled molecular beacon
    • Wang X, Dong P, Yun W, Xu Y, He P and Fang Y. Detection of T4 DNA ligase using a solid-state electrochemiluminescence biosensing switch based on ferrocene-labeled molecular beacon. Talanta 2010, 80: 1643-1647.
    • (2010) Talanta , vol.80 , pp. 1643-1647
    • Wang, X.1    Dong, P.2    Yun, W.3    Xu, Y.4    He, P.5    Fang, Y.6
  • 30
    • 4644239154 scopus 로고    scopus 로고
    • Real-time monitoring of nucleic acid ligation in homogenous solutions using molecular beacons
    • Tang Z, Wang K, Tan W, Li J, Liu L, Guo Q and Meng X, et al. Real-time monitoring of nucleic acid ligation in homogenous solutions using molecular beacons. Nucleic Acids Res 2003, 31: e148.
    • (2003) Nucleic Acids Res , vol.31 , pp. e148
    • Tang, Z.1    Wang, K.2    Tan, W.3    Li, J.4    Liu, L.5    Guo, Q.6    Meng, X.7
  • 31
    • 58149517850 scopus 로고    scopus 로고
    • Effects of mismatches and insertions on discrimination accuracy of nucleic acid probes
    • Piao X, Sun L, Zhang T, Gan Y and Guan Y. Effects of mismatches and insertions on discrimination accuracy of nucleic acid probes. Acta Biochim Pol 2008, 55: 713-720.
    • (2008) Acta Biochim Pol , vol.55 , pp. 713-720
    • Piao, X.1    Sun, L.2    Zhang, T.3    Gan, Y.4    Guan, Y.5
  • 32
    • 84865208997 scopus 로고    scopus 로고
    • Kinetic analysis of DNA strand joining by Chlorella virus DNA ligase and the role of nucleotidyltransferase motif VI in ligase adenylylation
    • Samai P and Shuman S. Kinetic analysis of DNA strand joining by Chlorella virus DNA ligase and the role of nucleotidyltransferase motif VI in ligase adenylylation. J Biol Chem 2012, 287: 28609-28618.
    • (2012) J Biol Chem , vol.287 , pp. 28609-28618
    • Samai, P.1    Shuman, S.2
  • 33
    • 0030738913 scopus 로고    scopus 로고
    • Effects of base mismatches on joining of short oligodeoxynucleotides by DNA ligases
    • Pritchard CE and Southern EM. Effects of base mismatches on joining of short oligodeoxynucleotides by DNA ligases. Nucleic Acids Res 1997, 25: 3403-3407.
    • (1997) Nucleic Acids Res , vol.25 , pp. 3403-3407
    • Pritchard, C.E.1    Southern, E.M.2
  • 34
    • 4344569343 scopus 로고    scopus 로고
    • DNA ligases ensure fidelity by interrogating minor groove contacts
    • Liu P, Burdzy A and Sowers LC. DNA ligases ensure fidelity by interrogating minor groove contacts. Nucleic Acids Res 2004, 32: 4503-4511.
    • (2004) Nucleic Acids Res , vol.32 , pp. 4503-4511
    • Liu, P.1    Burdzy, A.2    Sowers, L.C.3
  • 35
    • 78049513811 scopus 로고    scopus 로고
    • Efficient assembly of very short oligonucleotides using T4 DNA Ligase
    • Horspool DR, Coope RJ and Holt RA. Efficient assembly of very short oligonucleotides using T4 DNA Ligase. BMC Res Notes 2010, 3: 291.
    • (2010) BMC Res Notes , vol.3 , pp. 291
    • Horspool, D.R.1    Coope, R.J.2    Holt, R.A.3
  • 36
    • 33747177904 scopus 로고    scopus 로고
    • Direct comparison of nick-joining activity of the nucleic acid ligases from bacteriophage T4
    • Bullard DR and Bowater RP. Direct comparison of nick-joining activity of the nucleic acid ligases from bacteriophage T4. Biochem J 2006, 398: 135-144.
    • (2006) Biochem J , vol.398 , pp. 135-144
    • Bullard, D.R.1    Bowater, R.P.2
  • 37
    • 84864340201 scopus 로고    scopus 로고
    • Effect of LNA- and OMeN-modified oligonucleotide probes on the stability and discrimination of mismatched base pairs of duplexes
    • Yan Y, Yan J, Piao X, Zhang T and Guan Y. Effect of LNA- and OMeN-modified oligonucleotide probes on the stability and discrimination of mismatched base pairs of duplexes. J Biosci 2012, 37: 233-241.
    • (2012) J Biosci , vol.37 , pp. 233-241
    • Yan, Y.1    Yan, J.2    Piao, X.3    Zhang, T.4    Guan, Y.5
  • 38
    • 78649909547 scopus 로고    scopus 로고
    • Evaluation of enzyme kinetic parameters using explicit analytic approximations to the solution of the Michaelis-Menten equation
    • Golicnik M. Evaluation of enzyme kinetic parameters using explicit analytic approximations to the solution of the Michaelis-Menten equation. Biochem Eng J 2011, 53: 234-238.
    • (2011) Biochem Eng J , vol.53 , pp. 234-238
    • Golicnik, M.1
  • 39
    • 0024559478 scopus 로고
    • Specificity of the nick-closing activity of bacteriophage T4 DNA ligase
    • Wu DY andWallace RB. Specificity of the nick-closing activity of bacteriophage T4 DNA ligase. Gene 1989, 76:245-254.
    • (1989) Gene , vol.76 , pp. 245-254
    • Wu, D.Y.1    Wallace, R.B.2
  • 40
    • 0034635347 scopus 로고    scopus 로고
    • Nick recognition by DNA ligases
    • Doherty AJ and Dafforn TR. Nick recognition by DNA ligases. J Mol Biol 2000, 296: 43-56.
    • (2000) J Mol Biol , vol.296 , pp. 43-56
    • Doherty, A.J.1    Dafforn, T.R.2
  • 41
    • 0038578021 scopus 로고    scopus 로고
    • Comparison of different antisense strategies in mammalian cells using locked nucleic acids, 20-O-methyl RNA, phosphorothioates and small interfering RNA
    • Grunweller A, Wyszko E, Bieber B, Jahnel R, Erdmann VA and Kurreck J. Comparison of different antisense strategies in mammalian cells using locked nucleic acids, 20-O-methyl RNA, phosphorothioates and small interfering RNA. Nucleic Acids Res 2003, 31: 3185-3193.
    • (2003) Nucleic Acids Res , vol.31 , pp. 3185-3193
    • Grunweller, A.1    Wyszko, E.2    Bieber, B.3    Jahnel, R.4    Erdmann, V.A.5    Kurreck, J.6
  • 42
    • 0242299593 scopus 로고    scopus 로고
    • Kinetics and thermodynamics of nick sealing by T4 DNA ligase
    • Cherepanov AV and de Vries S. Kinetics and thermodynamics of nick sealing by T4 DNA ligase. Eur J Biochem 2003, 270: 4315-4325.
    • (2003) Eur J Biochem , vol.270 , pp. 4315-4325
    • Cherepanov, A.V.1    De Vries, S.2
  • 43
    • 34247586674 scopus 로고    scopus 로고
    • 20-Modified oligonucleotides for antisense therapeutics
    • Prakash TP and Bhat B. 20-Modified oligonucleotides for antisense therapeutics. Curr Top Med Chem 2007, 7: 641-649.
    • (2007) Curr Top Med Chem , vol.7 , pp. 641-649
    • Prakash, T.P.1    Bhat, B.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.