Chemistry: molecular biology and microbiology – Measuring or testing process involving enzymes or... – Involving nucleic acid
Reexamination Certificate
2008-06-30
2011-10-18
Horlick, Kenneth R. (Department: 1637)
Chemistry: molecular biology and microbiology
Measuring or testing process involving enzymes or...
Involving nucleic acid
C435S006120, C435S091100, C435S091200
Reexamination Certificate
active
08039214
ABSTRACT:
The present invention relates generally to methods, compositions and kits for synthesizing sense RNA molecules from one or more RNA molecules of interest in a sample. In exemplary embodiments, the methods use a terminal tagging oligoribonucleotide (rTTO) to join a DNA sequence tag to the 3′-termini of first-strand cDNA molecules. The use of an rTTO comprising ribonucleotides results in decreased oligonucleotide-derived background synthesis of RNA in the absence of sample RNA and, surprisingly and unexpectedly, also results in significantly increased yields of sense RNA molecules that exhibit sequences that are substantially identical to those of the RNA molecules of interest in the sample. The sense RNA molecules also have an RNA sequence tag on their 5′-termini that is useful for fixing the lengths of sense RNA molecules that are synthesized in a second or subsequent round.
REFERENCES:
patent: 5021335 (1991-06-01), Tecott
patent: 5130238 (1992-07-01), Malek
patent: 5168038 (1992-12-01), Tecott
patent: 5169766 (1992-12-01), Schuster
patent: 5194370 (1993-03-01), Berninger
patent: 5399491 (1995-03-01), Kacian
patent: 5409818 (1995-04-01), Davey
patent: 5437990 (1995-08-01), Burg
patent: 5466586 (1995-11-01), Davey
patent: 5514545 (1996-05-01), Eberwine
patent: 5545522 (1996-08-01), Van Gelder
patent: 5554517 (1996-09-01), Davey
patent: 5665545 (1997-09-01), Malek
patent: 5679512 (1997-10-01), Laney
patent: 5712127 (1998-01-01), Malek
patent: 5716785 (1998-02-01), Van Gelder
patent: 5849546 (1998-12-01), Sousa
patent: 5891636 (1999-04-01), Van Gelder
patent: 5958688 (1999-09-01), Eberwine
patent: 5962271 (1999-10-01), Chenchik
patent: 5962272 (1999-10-01), Chenchik
patent: 6057494 (2000-05-01), Koops et al.
patent: 6063603 (2000-05-01), Davey
patent: 6090591 (2000-07-01), Burg
patent: 6096503 (2000-08-01), Sutcliffe et al.
patent: 6100024 (2000-08-01), Hudson
patent: 6291170 (2001-09-01), Van Gelder
patent: 6410276 (2002-06-01), Burg
patent: 6528262 (2003-03-01), Gilad et al.
patent: 6808888 (2004-10-01), Zhang
patent: 6818421 (2004-11-01), Kossman et al.
patent: 7335471 (2008-02-01), Guillerez
patent: 7354742 (2008-04-01), Kamme
patent: 7550264 (2009-06-01), Getts
patent: 2002/0127592 (2002-09-01), Ichihara
patent: 2003/0186237 (2003-10-01), Ginsberg
patent: 2004/0110191 (2004-06-01), Winkler et al.
patent: 2004/0171041 (2004-09-01), Dahl
patent: 2004/0197802 (2004-10-01), Dahl
patent: 2005/0153333 (2005-07-01), Sooknanan
patent: 2006/0035226 (2006-02-01), Scheinert
patent: 2007/0048741 (2007-03-01), Getts
patent: 2007/0105124 (2007-05-01), Getts
patent: 2008/0020431 (2008-01-01), Getts
patent: 0427073 (1991-05-01), None
patent: 0427074 (1991-05-01), None
patent: 8906700 (1989-07-01), None
patent: 9118155 (1991-11-01), None
patent: 9942618 (1999-08-01), None
patent: 0075356 (2000-12-01), None
patent: 02065093 (2002-08-01), None
patent: 2007062495 (2007-07-01), None
Butler and Chamberlain, “Bacteriophage SP6-specific RNA polymerase. I. Isolation and characterization of the enzyme” 1982 J. Biol. Chem. 257:5772-5778.
Dunn et al., “Different template specificities of phage T3 and T7 RNA polymerases” 1971 Nature New Biology 230:94-96.
Eberwine et al., “Analysis of gene expression in single live neurons” 1992 Proc. Natl. Acad. Sci. USA 89:3010-3014.
Edmonds et al., “Polyadenylate polymerases” 1990 Methods Enzymol., 181; 161-180.
Fahy et al., “Self-sustained sequence replication (3SR): an isothermal transcription-based amplification system alternative to PCR” 1991 PCR Methods and Applications, pp. 25-33.
Gershon et al., “(A)-tail of two polymerase structures” 2000 Nature Structural Biol. 7: 819-821.
Ginsberg et al., “Expression profile of transcripts in Alzheimer's disease tangle-bearing CA1 neurons” 2000 Ann. Neurol. 48:77-87.
Ginsberg et al., “Predominance of neuronal mRNAs in individual Alzheimer's disease senile plaques” 1999 Ann. Neurol. 45:174-181.
Harris et al., “An improved RNA amplification procedure results in increased yield of autologous RNA transfected dendritic cell-based vaccine” 2005 Biochimica Biophysica Acta—General Subjects 1724: 127-136.
Hausmann, “Bacteriophage T7 genetics” 1976 Current Topics in Microbiology and Immunology 75:77-109.
Kazmierczak et al., “The phage N4 virion RNA polymerase catalytic domain is related to single-subunit RNA polymerases” 2002 EMBO J., 21: 5815-5823.
Korsten et al., J. Gen. Virol. 43:57-73, 1975.
Kwoh et al., “Transcription-based amplification system and detection of amplified human immunodeficiency virus type 1 with a bead-based sandwich hybridization format” 1989 Proc. Natl. Acad. Sci. USA 86:1173.
Mueller et al., “CapSelect: a highly sensitive method for 5′ CAP-dependent enrichment of full-length cDNA in PCR-mediated analysis of mRNAs” 1999 Nucleic Acids Res., 27: e31.
Murakawa et al., “Direct detection of HIV-1 RNA from AIDS and ARC patient samples” 1988 DNA 7:287-295.
Ohmichi et al. “Efficient bacterial transcription of DNA nanocircle vectors with optimized single-stranded promoters” 2002 Proc. Natl. Acad. Sci. USA 99:54-59.
Ozawa, T et al. “Amplification and analysis of cDNA generated from a single cell by 5′-RACE: application to isolation of antibody heavy and light chain variable gene sequences from single B cells” 2006 Biotechniques 40: 469-478.
Padilla and Sousa, “A Y639F/H784A T7 RNA polymerase double mutant displays superior properties for synthesizing RNAs with non-canonical NTPs” 2002 Nucleic Acids Res., 15: e138.
Phillips and Eberwine, “Antisense RNA Amplification: A Linear Amplification Method for Analyzing the mRNA Population from Single Living Cells” 1996 Methods in Enzymol. Suppl. 10:283-288.
Sousa and Mukherjee, “T7 RNA polymerase” 2003 Prog Nucleic Acid Res Mol Biol., 73: 1-41.
Studier, FW et al., “Use of T7 RNA polymerase to direct expression of cloned genes” pp. 60-89 in Methods in Enzymology, vol. 185, ed. by Goeddel, DV, Academic Press, 1990.
Towle, et al., “Purification and characterization of bacteriophage gh-I-induced deoxyribonucleic acid-dependent ribonucleic acid polymerase fromPseudomonas putida” 1975 J. Biol. Chem. 250:1723-1733.
Vangelder et al., Proc. Natl. Acad. Sci. USA 87:1663-1667, 1990.
Wilusz and Shenk, Cell 52: 221, 1988.
International Search Report mailed Jan. 7, 2009 for PCT/US2008/068844.
Dahl Gary
Sooknanan Roy Rabindranauth
Casimir Jones S.C.
CellScript, Inc.
Horlick Kenneth R.
LandOfFree
Synthesis of tagged nucleic acids does not yet have a rating. At this time, there are no reviews or comments for this patent.
If you have personal experience with Synthesis of tagged nucleic acids, we encourage you to share that experience with our LandOfFree.com community. Your opinion is very important and Synthesis of tagged nucleic acids will most certainly appreciate the feedback.
Profile ID: LFUS-PAI-O-4301686