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Volumn 22, Issue 2, 2012, Pages 60-66

Biomolecular and structural analyses of cauliflower-like DNAs by ultraviolet, circular dichroism, and fluorescence spectroscopies in comparison with natural DNA

Author keywords

Extinction coefficient; Extrinsic; Intrinsic; LAMP; Nanostructures

Indexed keywords

AGAROSE; DNA; DNA POLYMERASE; DOUBLE STRANDED DNA; NUCLEOTIDE; PHOSPHATE BUFFERED SALINE; PRIMER DNA; SODIUM CHLORIDE;

EID: 84857414823     PISSN: 15240215     EISSN: 19434731     Source Type: Journal    
DOI: None     Document Type: Article
Times cited : (8)

References (42)
  • 2
    • 38949113780 scopus 로고    scopus 로고
    • Nucleic acid isothermal amplification technologies- a review
    • Gill P, Ghaemi A. Nucleic acid isothermal amplification technologies- a review. Nucleosides Nucleotides Nucleic Acids 2008;27: 224-243.
    • (2008) Nucleosides Nucleotides Nucleic Acids , vol.27 , pp. 224-243
    • Gill, P.1    Ghaemi, A.2
  • 3
    • 0036599262 scopus 로고    scopus 로고
    • Accelerated reaction by loopmediated isothermal amplification using loop primers
    • Nagamine K, Hase T, Notomi T. Accelerated reaction by loopmediated isothermal amplification using loop primers. Mol Cell Probes 2002;16:223-229.
    • (2002) Mol Cell Probes , vol.16 , pp. 223-229
    • Nagamine, K.1    Hase, T.2    Notomi, T.3
  • 4
    • 43149084823 scopus 로고    scopus 로고
    • Loop-mediated isothermal amplification (LAMP) of gene sequences and simple visual detection of products
    • Tomita N, Mori Y, Kanda H, Notomi T. Loop-mediated isothermal amplification (LAMP) of gene sequences and simple visual detection of products. Nat Protoc 2008;3:877-882.
    • (2008) Nat Protoc , vol.3 , pp. 877-882
    • Tomita, N.1    Mori, Y.2    Kanda, H.3    Notomi, T.4
  • 5
    • 65349100762 scopus 로고    scopus 로고
    • Loop-mediated isothermal amplification (LAMP): A rapid, accurate, and cost-effective diagnostic method for infectious diseases
    • Mori Y, Notomi T. Loop-mediated isothermal amplification (LAMP): a rapid, accurate, and cost-effective diagnostic method for infectious diseases. J Infect Chemother 2009;15:62-69.
    • (2009) J Infect Chemother , vol.15 , pp. 62-69
    • Mori, Y.1    Notomi, T.2
  • 6
    • 34347331191 scopus 로고    scopus 로고
    • Application of loop-mediated isothermal amplification technique to rapid and direct detection of methicillin-resistant Staphylococcus aureus (MRSA) in blood cultures
    • Misawa Y, Yoshida A, Saito R, et al. Application of loop-mediated isothermal amplification technique to rapid and direct detection of methicillin-resistant Staphylococcus aureus (MRSA) in blood cultures. J Infect Chemother 2007;13:134-140.
    • (2007) J Infect Chemother , vol.13 , pp. 134-140
    • Misawa, Y.1    Yoshida, A.2    Saito, R.3
  • 7
    • 27744549435 scopus 로고    scopus 로고
    • Loop-mediated isothermal amplification for the rapid detection of Salmonella
    • Hara-Kudo Y, Yoshino M, Kojima T, Ikedo M. Loop-mediated isothermal amplification for the rapid detection of Salmonella. FEMS Microbiol Lett 2005;253:155-161.
    • (2005) FEMS Microbiol Lett , vol.253 , pp. 155-161
    • Hara-Kudo, Y.1    Yoshino, M.2    Kojima, T.3    Ikedo, M.4
  • 8
    • 32044455776 scopus 로고    scopus 로고
    • Detection of Salmonella enterica in naturally contaminated liquid eggs by loopmediated isothermal amplification, and characterization of Salmonella isolates
    • Ohtsuka K, Yanagawa K, Takatori K, Hara-Kudo Y. Detection of Salmonella enterica in naturally contaminated liquid eggs by loopmediated isothermal amplification, and characterization of Salmonella isolates. Appl Environ Microbiol 2005;71:6730-6735.
    • (2005) Appl Environ Microbiol , vol.71 , pp. 6730-6735
    • Ohtsuka, K.1    Yanagawa, K.2    Takatori, K.3    Hara-Kudo, Y.4
  • 9
    • 51649119277 scopus 로고    scopus 로고
    • Loop-mediated isothermal amplification for the rapid, sensitive, and specific detection of the O9 group of Salmonella in chickens
    • Okamura M, Ohba Y, Kikuchi S, et al. Loop-mediated isothermal amplification for the rapid, sensitive, and specific detection of the O9 group of Salmonella in chickens. Vet Microbiol 2008;132: 197-204.
    • (2008) Vet Microbiol , vol.132 , pp. 197-204
    • Okamura, M.1    Ohba, Y.2    Kikuchi, S.3
  • 10
    • 46149096910 scopus 로고    scopus 로고
    • Evaluation of the Loopamp (loop-mediated isothermal amplification) kit for detecting Norovirus RNA in fecal samples
    • Iturriza-Gomara M, Xerry J, Gallimore CI, Dockery C, Gray J. Evaluation of the Loopamp (loop-mediated isothermal amplification) kit for detecting Norovirus RNA in fecal samples. J Clin Virol 2008;42:389-393.
    • (2008) J Clin Virol , vol.42 , pp. 389-393
    • Iturriza-Gomara, M.1    Xerry, J.2    Gallimore, C.I.3    Dockery, C.4    Gray, J.5
  • 11
    • 47649083435 scopus 로고    scopus 로고
    • Compact optical diagnostic device for isothermal nucleic acids amplification
    • Lee SY, Huang JG, Chuang TL, et al. Compact optical diagnostic device for isothermal nucleic acids amplification. Sens Actuators B Chem 2008;133:493-501.
    • (2008) Sens Actuators B Chem , vol.133 , pp. 493-501
    • Lee, S.Y.1    Huang, J.G.2    Chuang, T.L.3
  • 12
    • 3042703985 scopus 로고    scopus 로고
    • Analysis of specific gene by integration of isothermal amplification and electrophoresis on poly (methylmethacrylate) microchips
    • Hataoka Y, Zhang L, Mori Y, Tomita N, Notomi T, Baba Y. Analysis of specific gene by integration of isothermal amplification and electrophoresis on poly (methylmethacrylate) microchips. Anal Chem 2004;76:3689-3693.
    • (2004) Anal Chem , vol.76 , pp. 3689-3693
    • Hataoka, Y.1    Zhang, L.2    Mori, Y.3    Tomita, N.4    Notomi, T.5    Baba, Y.6
  • 13
    • 54349127333 scopus 로고    scopus 로고
    • Coupled rolling circle amplification loop mediated amplification for rapid detection of short DNA sequences
    • Marciniak JY, Kummel AC, Esener SC, Heller MJ, Messmer BT. Coupled rolling circle amplification loop mediated amplification for rapid detection of short DNA sequences. BioTechniques 2008;45:275-280.
    • (2008) BioTechniques , vol.45 , pp. 275-280
    • Marciniak, J.Y.1    Kummel, A.C.2    Esener, S.C.3    Heller, M.J.4    Messmer, B.T.5
  • 14
    • 0034866656 scopus 로고    scopus 로고
    • Loop-mediated isothermal amplification reaction using a nondenatured template
    • Nagamine K, Watanabe K, Ohtsuka K, Hase T, Notomi T. Loop-mediated isothermal amplification reaction using a nondenatured template. Clin Chem 2001;47:1742-1743.
    • (2001) Clin Chem , vol.47 , pp. 1742-1743
    • Nagamine, K.1    Watanabe, K.2    Ohtsuka, K.3    Hase, T.4    Notomi, T.5
  • 15
    • 78751553175 scopus 로고    scopus 로고
    • Scanning tunneling microscopy of cauliflower-like DNA nanostructures synthesized by loop-mediated isothermal amplification
    • Gill P, Ranjbar B, Saber R. Scanning tunneling microscopy of cauliflower-like DNA nanostructures synthesized by loop-mediated isothermal amplification. IET Nanobiotechnol 2011;5: 8-13.
    • (2011) IET Nanobiotechnol , vol.5 , pp. 8-13
    • Gill, P.1    Ranjbar, B.2    Saber, R.3
  • 16
    • 38749146474 scopus 로고    scopus 로고
    • Predicting ultraviolet spectrum of single stranded and double stranded deoxyribonucleic acids
    • Tataurov AV, You Y, Owczarzy R. Predicting ultraviolet spectrum of single stranded and double stranded deoxyribonucleic acids. Biophys Chem 2008;133:66-70.
    • (2008) Biophys Chem , vol.133 , pp. 66-70
    • Tataurov, A.V.1    You, Y.2    Owczarzy, R.3
  • 17
    • 0014725117 scopus 로고
    • Oligonucleotide interactions. III. Circular dichroism studies of the conformation of deoxyoligonucleotides
    • Cantor CR, Warshaw MM, Shapiro H. Oligonucleotide interactions. III. Circular dichroism studies of the conformation of deoxyoligonucleotides. Biopolymers 1970;9:1059-1077.
    • (1970) Biopolymers , vol.9 , pp. 1059-1077
    • Cantor, C.R.1    Warshaw, M.M.2    Shapiro, H.3
  • 18
    • 0029987812 scopus 로고    scopus 로고
    • A comparison of measured and calculated single- and double-stranded oligodeoxynucleotide extinction coefficients
    • Kallansrud G, Ward B. A comparison of measured and calculated single- and double-stranded oligodeoxynucleotide extinction coefficients. Anal Biochem 1996;236:134-138.
    • (1996) Anal Biochem , vol.236 , pp. 134-138
    • Kallansrud, G.1    Ward, B.2
  • 19
    • 0016259616 scopus 로고
    • On the origin of the hypochromic effect in doublestranded polynucleotides
    • Danilov VI. On the origin of the hypochromic effect in doublestranded polynucleotides. FEBS Lett 1974;47:155-157.
    • (1974) FEBS Lett , vol.47 , pp. 155-157
    • Danilov, V.I.1
  • 20
    • 0343480637 scopus 로고
    • Two characteristic and sensitive color reactions between sulfhydryl compounds and thymonucleic acid
    • Dische Z. Two characteristic and sensitive color reactions between sulfhydryl compounds and thymonucleic acid. Proc Soc Exptl® Biol Med 1944;55:217-218.
    • (1944) Proc Soc Exptl® Biol Med , vol.55 , pp. 217-218
    • Dische, Z.1
  • 21
    • 0038352646 scopus 로고
    • A colorimetric method for the determination of deoxyribonucleic acid
    • Stumpf PK. A colorimetric method for the determination of deoxyribonucleic acid. J Biol Chem 1974;169:367-371.
    • (1974) J Biol Chem , vol.169 , pp. 367-371
    • Stumpf, P.K.1
  • 22
    • 48849104161 scopus 로고    scopus 로고
    • Quantitation of DNA and RNA with absorption and fluorescence spectroscopy
    • 4K. 1-A. 4K. 21
    • Gallagher SR, Desjardins PR. Quantitation of DNA and RNA with absorption and fluorescence spectroscopy. Curr Protoc Protein Sci 2008;52:A. 4K. 1-A. 4K. 21.
    • (2008) Curr Protoc Protein Sci , vol.52 , Issue.A
    • Gallagher, S.R.1    Desjardins, P.R.2
  • 23
    • 67651241140 scopus 로고    scopus 로고
    • Circular dichroism techniques: Biomolecular and nanostructural analyses-a review
    • Ranjbar B, Gill P. Circular dichroism techniques: biomolecular and nanostructural analyses-a review. Chem Biol Drug Des 2009;74:101-120.
    • (2009) Chem Biol Drug Des , vol.74 , pp. 101-120
    • Ranjbar, B.1    Gill, P.2
  • 24
    • 0031050319 scopus 로고    scopus 로고
    • Conformation and thermal denaturation of apocalmodulin: Role of electrostatic mutations
    • Protasevich I, Ranjbar B, Lobachov V, et al. Conformation and thermal denaturation of apocalmodulin: role of electrostatic mutations. Biochemistry 1997;36:2017-2024.
    • (1997) Biochemistry , vol.36 , pp. 2017-2024
    • Protasevich, I.1    Ranjbar, B.2    Lobachov, V.3
  • 26
    • 46049099009 scopus 로고    scopus 로고
    • Self-assembling DNA nanostructures and DNAbased nanofabrication
    • International Electron Devices Meeting, 4154226 San Francisco, CA, USA
    • LaBean T. Self-assembling DNA nanostructures and DNAbased nanofabrication. Technical Digest, International Electron Devices Meeting, San Francisco, CA, USA. 2006;Article number 4154226:1-3.
    • (2006) Technical Digest , pp. 1-3
    • Labean, T.1
  • 27
    • 66249095982 scopus 로고    scopus 로고
    • Nanotechnology: Another dimension for DNA art
    • LaBean TH. Nanotechnology: another dimension for DNA art. Nature 2009;459:331-332.
    • (2009) Nature , vol.459 , pp. 331-332
    • Labean, T.H.1
  • 28
    • 0033638275 scopus 로고    scopus 로고
    • Self-assembled nanostructures based on DNA: Towards the development of nanobiotechnology
    • Niemeyer CM. Self-assembled nanostructures based on DNA: towards the development of nanobiotechnology. Curr Opin Chem Biol 2000;4:609-618.
    • (2000) Curr Opin Chem Biol , vol.4 , pp. 609-618
    • Niemeyer, C.M.1
  • 29
    • 68149098420 scopus 로고    scopus 로고
    • DNA in the material world: Electrical properties and nano-applications
    • Triberis GP, Dimakogianni M. DNA in the material world: electrical properties and nano-applications. Rec Patents Nanotechnol 2009;3:135-153.
    • (2009) Rec Patents Nanotechnol , vol.3 , pp. 135-153
    • Triberis, G.P.1    Dimakogianni, M.2
  • 30
    • 36448977956 scopus 로고    scopus 로고
    • Rolling circle enzymatic replication of a complex multi-crossover DNA nanostructure
    • Lin C, Wang X, Liu Y, Seeman NC, Yan H. Rolling circle enzymatic replication of a complex multi-crossover DNA nanostructure. J Am Chem Soc 2007;129:14475-14481.
    • (2007) J Am Chem Soc , vol.129 , pp. 14475-14481
    • Lin, C.1    Wang, X.2    Liu, Y.3    Seeman, N.C.4    Yan, H.5
  • 31
    • 33845210113 scopus 로고    scopus 로고
    • Rolling-circle amplification of a DNA nanojunction
    • Lin C, Xie M, Chen JJL, Liu Y, Yan H. Rolling-circle amplification of a DNA nanojunction. Angew Chem 2006;45:7537-7539.
    • (2006) Angew Chem , vol.45 , pp. 7537-7539
    • Lin, C.1    Xie, M.2    Chen, J.J.L.3    Liu, Y.4    Yan, H.5
  • 33
    • 30844461475 scopus 로고    scopus 로고
    • Sequence specific visual detection of LAMP reactions by addition of cationic polymers
    • Mori Y, Hirano T, Notomi T. Sequence specific visual detection of LAMP reactions by addition of cationic polymers. BMC Biotechnol 2007;6:1-10.
    • (2007) BMC Biotechnol , vol.6 , pp. 1-10
    • Mori, Y.1    Hirano, T.2    Notomi, T.3
  • 34
    • 17644364785 scopus 로고    scopus 로고
    • A loop mediated isothermal amplification (LAMP) method for detection of infectious hematopoietic necrosis virus (IHNV) in rainbow trout (Oncorhynchus mykiss)
    • Kono GT, LaPatra SE, Sakai M. A loop mediated isothermal amplification (LAMP) method for detection of infectious hematopoietic necrosis virus (IHNV) in rainbow trout (Oncorhynchus mykiss). Arch Virol 2005;150:845-1046.
    • (2005) Arch Virol , vol.150 , pp. 845-1046
    • Kono, G.T.1    Lapatra, S.E.2    Sakai, M.3
  • 35
    • 0035940965 scopus 로고    scopus 로고
    • Detection of loop-mediated isothermal amplification by turbidity derived from magnesium pyrophosphate formation
    • Mori Y, Nagamine K, Tomita N, Notomi T. Detection of loop-mediated isothermal amplification by turbidity derived from magnesium pyrophosphate formation. Biochem Biophys Res Commun 2001;289:150-154.
    • (2001) Biochem Biophys Res Commun , vol.289 , pp. 150-154
    • Mori, Y.1    Nagamine, K.2    Tomita, N.3    Notomi, T.4
  • 36
    • 77950436747 scopus 로고    scopus 로고
    • Loop-mediated isothermal amplification integrated on microfluidic chips for point-of-care quantitative detection of pathogens
    • Fang X, Liu Y, Kong J, Jiang X. Loop-mediated isothermal amplification integrated on microfluidic chips for point-of-care quantitative detection of pathogens. Anal Chem 2010;82:3002-3006.
    • (2010) Anal Chem , vol.82 , pp. 3002-3006
    • Fang, X.1    Liu, Y.2    Kong, J.3    Jiang, X.4
  • 37
    • 24744438446 scopus 로고    scopus 로고
    • Direct molecular detection of nucleic acids by fluorescence signal amplification
    • Ho HA, Dore ́ K, Boissinot M, et al. Direct molecular detection of nucleic acids by fluorescence signal amplification. J Am Chem Soc 2005;127:12673-12676.
    • (2005) J Am Chem Soc , vol.127 , pp. 12673-12676
    • Ho, H.A.1    Doré, K.2    Boissinot, M.3
  • 39
    • 24944436333 scopus 로고    scopus 로고
    • Fluorescent properties of DNA base analogue tC upon incorporation into DNA-negligible influence of neighboring bases on fluorescence quantum yield
    • Sandin P, Wilhelmsson LM, Lincoln P, Powers VEC, Brown T, Albinsson B. Fluorescent properties of DNA base analogue tC upon incorporation into DNA-negligible influence of neighboring bases on fluorescence quantum yield. Nucleic Acids Res 2005;33:5019-5025.
    • (2005) Nucleic Acids Res , vol.33 , pp. 5019-5025
    • Sandin, P.1    Wilhelmsson, L.M.2    Lincoln, P.3    Powers, V.E.C.4    Brown, T.5    Albinsson, B.6
  • 40
    • 4844229802 scopus 로고    scopus 로고
    • DNA adopts normal B-form upon incorporation of highly fluorescent DNA base analogue tC: NMR structure and UV-Vis spectroscopy characterization
    • Engman KC, Sandin P, Osborne S, et al. DNA adopts normal B-form upon incorporation of highly fluorescent DNA base analogue tC: NMR structure and UV-Vis spectroscopy characterization. Nucleic Acids Res 2004;32:5087-5095.
    • (2004) Nucleic Acids Res , vol.32 , pp. 5087-5095
    • Engman, K.C.1    Sandin, P.2    Osborne, S.3
  • 41
    • 70349785723 scopus 로고    scopus 로고
    • Fluorescence of unmodified oligonucleotides: A tool to probe G-quadruplex DNA structure
    • Mendez MA, Szalai VA. Fluorescence of unmodified oligonucleotides: a tool to probe G-quadruplex DNA structure. Biopolymers 2009;91:841-850.
    • (2009) Biopolymers , vol.91 , pp. 841-850
    • Mendez, M.A.1    Szalai, V.A.2
  • 42
    • 37549026872 scopus 로고    scopus 로고
    • Fast detection of quadruplex structure in DNA by the intrinsic fluorescence of a single-stranded DNA binding protein
    • Zhuang XY, Tang J, Hao Y-H, Tan Z. Fast detection of quadruplex structure in DNA by the intrinsic fluorescence of a single-stranded DNA binding protein. J Mol Recognit 2007;20: 386-391.
    • (2007) J Mol Recognit , vol.20 , pp. 386-391
    • Zhuang, X.Y.1    Tang, J.2    Hao, Y.-H.3    Tan, Z.4


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