Chemistry: molecular biology and microbiology – Micro-organism – tissue cell culture or enzyme using process... – Preparing compound containing saccharide radical
Patent
1997-06-17
2000-04-25
Martinell, James
Chemistry: molecular biology and microbiology
Micro-organism, tissue cell culture or enzyme using process...
Preparing compound containing saccharide radical
435 914, 4353201, 4352523, C12N 1500
Patent
active
060542993
ABSTRACT:
Methods and compositions for the isolation and specific targeting of any single stranded DNA sequence to be acted upon by any desired double stranded DNA genetic element or recognition sequence in a cis-oriented fashion. The invention involves construction of a vector comprised of single stranded sequences that form "stem-loop" structures wherein the "loop" comprises the single stranded target sequence and the "stem" comprises the double stranded "functional" cis-acting genetic elements or recognition sequences. The in vivo formation of this single stranded intermediate (prior to stem-loop folding) is performed by genetic elements which direct the normal DNA replication of any one of a number of prokaryotic and eukaryotic viruses during their life cycles. Constructs containing these replicative functions are used to produce the desired single stranded intermediates. Also included in the stem-loop structure is an appropriate inverted tandem repeat which, forms the "stem" of the stem-loop structure. Once these functions are designed into a particular chimera, any desired functional genetic elements (i.e., promoters, enhancer elements, or ribosome binding sites) or recognition sequences (i.e. restriction endonuclease sites) may comprise the inverted repeats and thus the cis-acting double stranded "stem" directs these useful functions to the isolated single stranded target sequence in the "loop".
REFERENCES:
Beggs, Nature 275: 104 (1978).
Colvin, Richard A., et al., "Strucural Features of an RNA Containing the CUGGGA Loop of the Human Immunodeficiency Virus Type 1 Trans-Activation Response Element," Biochemistry 1993, 32, 1105-1112.
Pollack, Jonathan R., et al., An RNA Stem-Loop Structure Directs Hepatitis B. Virus Genomic RNA Encapsidation, Journal of Virology 3254-3263 (Jun. 1993).
D'Souza, D.J., et al. "Strong Binding of Single-stranded DNA by Stem-Loop Oligonucleotides," Journal of Biomolecular Structure & Dynamics 10:141 (1992).
Ohshima, A., et al. "In vivo duplication of genetic elements by the formation of stem-loop DNA without a RNA intermediate," Biochemistry 89:1016 (1992).
Mead, D.A., et al. "A universal method for the direct cloning of PCR amplified nucleic acid," Biotechnology, vol. 9:657 (1991).
Xodo, L.E., et al. DNA hairpin loops in solution. Correlation between primary structure, thermostability and reactivity with single-strand-specific nuclease from mung bean, Nucleic Acides Research 19:1505 (1991).
Barabino, Silvia, et al., "Antisense probes targeted to an internal domain in U2 snRNP specifically inhibit the second step of pre-nRMA splicing," Nucleic Acids Research, vol 20, No. 17, 4457-4464 (1992).
Nag, Dilip K., et al. "Seven-Base-Pair Inverted Repeats in DNA Form Stable Hairpins in Vivo in Saccharomyces cerevisiae,"Genetics 129: 669-673 (Nov. 1991).
Vickers, T., et al. "Inhibition of HIV-LTR gene expression by oligonucleotides targeted to the TAR element," Nucleic Acides Research, vol. 19, No. 12, 3359-3368 (1991).
Vieira, J., et al. Production of single-stranded plasmid DNA, Methods Enzymol 153:3 (1987).
Baumann, U., et al. "Conformational analysis of hairpin oligodeoxyribonucleotides by a single-strand-specific nuclease," Eur. J. Biochem. 161:409 (1986).
Peeters, B.P.H., et al. Plasmid pKUN9, a versatile ector for the selective packaging of both DNA strands into single-stranded DNA-containing phage-like particles, Gene 41:39 (1986).
Yanisch-Perron, C., "Improved M13 phage cloning vectors and host strains: Nucleotide sequences of the M13mp18 and pUC19 vectors," Gene 33:103 (1985).
Levinson, A., et al. "Minimal size plasmids containing and M13 origin for production of single-strand transducing particles," J. Mol. Appl. Genet. 2:507 (1984).
Drew, Horace R., "Structural Specificities of Five Commonly Used DNA Nucleases," J. Mol. Biol. 176, 535-557 (1984).
Dente, L., et al. pEMBL: A new family of single stranded plasmids, Nucleic Acids Res. 11:1645 (1983).
Messing, J., et al. A new pair of M13 vectors for selecting either DNA strand of double-digest restriction fragments, Gene 19:269 (1982).
Beck, E., et al. "Nucleotide sequence and genome organization of filamentous bacteriophages f1 and fd," Gene 16:35 (1981).
Dotto, Gian P., et al., "Functional Analysis of Bacteriophage f1 Intergenic Region," Virology 114, 463-473 (1981).
Cleary, J.M., et al. Replication of the plasmid pBR322 under the control of a cloned replication origin from the single-stranded DNA phage M13, Proc. Natl. Acad. Sci. 77:4638 (1980).
Herrmann, R., et al. "Conversion of bacteriophage fd into an efficient single-stranded DNA vector system," Mol. Gen. Genet. 177:231 (1980).
Messing, J., "A multipurpose cloning system based on single-stranded DNA bacteriophage M13," Recomb, DNA Tech. Bull. 2(2):43 (1979).
Beck, E., et al. "Nucleotide sequence of bacteriophage fd DNA," Nucleic Acids Res. 5:4495 (1978).
Konings, R.N.H., et al. "Transcription of the filamentous phage genome," The Single-stranded DNA phages (ed. D.T.Denhardt et al.), 507 (1978).
Messing, J., et al. "Filamentous coliphage M13 as a cloning vehicle: Insertion of a HindII fragment of the lac regulatory region in M13 replicative form in vitro," Proc. Natl. Acad. Sci., 74:3642 (1977).
Marvin, D.A., Filamentous bacterial viruses, Bacteriol. Rev. 33:172 (1969).
Martinell James
Wisner Mark R.
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