Viral inhibitory nucleotide sequences and vaccines
Abstract
The invention relates to inhibitory nucleotide signal sequences or “INS” sequences in the genomes of lentiviruses. In particular the invention relates to the AGG motif present in all viral genomes. The AGG motif may have an inhibitory effect on a virus, for example by reducing the levels of, or maintaining low steady-state levels of, viral RNAs in host cells, and inducing and/or maintaining in viral latency. In one aspect, the invention provides vaccines that contain, or are produced from, viral nucleic acids in which the AGG sequences have been mutated. In another aspect, the invention provides methods and compositions for affecting the function of the AGG motif, and methods for identifying other INS sequences in viral genomes.
- Inventors:
- Issue Date:
- Research Org.:
- Institute for Advanced Study, Princeton, NJ (United States)
- Sponsoring Org.:
- USDOE
- OSTI Identifier:
- 1771553
- Patent Number(s):
- 10815277
- Application Number:
- 15/228,451
- Assignee:
- Institute for Advanced Study (Princeton, NJ)
- Patent Classifications (CPCs):
-
A - HUMAN NECESSITIES A61 - MEDICAL OR VETERINARY SCIENCE A61K - PREPARATIONS FOR MEDICAL, DENTAL, OR TOILET PURPOSES
A - HUMAN NECESSITIES A61 - MEDICAL OR VETERINARY SCIENCE A61P - SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
- DOE Contract Number:
- FG02-90ER40542
- Resource Type:
- Patent
- Resource Relation:
- Patent File Date: 08/04/2016
- Country of Publication:
- United States
- Language:
- English
Citation Formats
Rabadan, Raul, Krasnitz, Michael, Robins, Harlan S., Witten, Daniela, and Levine, Arnold J. Viral inhibitory nucleotide sequences and vaccines. United States: N. p., 2020.
Web.
Rabadan, Raul, Krasnitz, Michael, Robins, Harlan S., Witten, Daniela, & Levine, Arnold J. Viral inhibitory nucleotide sequences and vaccines. United States.
Rabadan, Raul, Krasnitz, Michael, Robins, Harlan S., Witten, Daniela, and Levine, Arnold J. Tue .
"Viral inhibitory nucleotide sequences and vaccines". United States. https://www.osti.gov/servlets/purl/1771553.
@article{osti_1771553,
title = {Viral inhibitory nucleotide sequences and vaccines},
author = {Rabadan, Raul and Krasnitz, Michael and Robins, Harlan S. and Witten, Daniela and Levine, Arnold J.},
abstractNote = {The invention relates to inhibitory nucleotide signal sequences or “INS” sequences in the genomes of lentiviruses. In particular the invention relates to the AGG motif present in all viral genomes. The AGG motif may have an inhibitory effect on a virus, for example by reducing the levels of, or maintaining low steady-state levels of, viral RNAs in host cells, and inducing and/or maintaining in viral latency. In one aspect, the invention provides vaccines that contain, or are produced from, viral nucleic acids in which the AGG sequences have been mutated. In another aspect, the invention provides methods and compositions for affecting the function of the AGG motif, and methods for identifying other INS sequences in viral genomes.},
doi = {},
journal = {},
number = ,
volume = ,
place = {United States},
year = {Tue Oct 27 00:00:00 EDT 2020},
month = {Tue Oct 27 00:00:00 EDT 2020}
}
Save to My Library
You must Sign In or Create an Account in order to save documents to your library.
Works referenced in this record:
Site-directed mutagenesis by overlap extension using the polymerase chain reaction
journal, April 1989
- Ho, Steffan N.; Hunt, Henry D.; Horton, Robert M.
- Gene, Vol. 77, Issue 1, p. 51-59
Informatics for Unveiling Hidden Genome Signatures
journal, April 2003
- Abe, T.
- Genome Research, Vol. 13, Issue 4
The relationship between palindrome avoidance and intragenic codon usage variations: a Monte Carlo study
journal, April 2004
- Fuglsang, Anders
- Biochemical and Biophysical Research Communications, Vol. 316, Issue 3
Inhibition of restriction endonuclease Nel I cleavage by phosphorothioate groups and its application to oligonucleotide-directed mutagenesis
journal, January 1986
- Nakamaye, Kay L.; Eckstein, Fritz
- Nucleic Acids Research, Vol. 14, Issue 24
Alignment-free sequence comparison--a review
journal, March 2003
- Vinga, S.; Almeida, J.
- Bioinformatics, Vol. 19, Issue 4
A general method of in vitro preparation and specific mutagenesis of DNA fragments: study of protein and DNA interactions
journal, January 1988
- Higuchi, Russell; Krummel, Barbara; Saiki, Randall
- Nucleic Acids Research, Vol. 16, Issue 15
RESCUE-ESE identifies candidate exonic splicing enhancers in vertebrate exons
journal, July 2004
- Fairbrother, W. G.; Yeo, G. W.; Yeh, R.
- Nucleic Acids Research, Vol. 32, Issue Web Server
Suppression of HIV replication by dominant negative mutants of HIV-1 (review).
journal, September 1998
- Inubushi, R.; Shimano, R.; Oshima, Y.
- International Journal of Molecular Medicine
Concerted Action of Multiple cis-Acting Sequences Is Required for Rev Dependence of Late Human Immunodeficiency Virus Type 1 Gene Expression
journal, November 2000
- Graf, M.; Bojak, A.; Deml, L.
- Journal of Virology, Vol. 74, Issue 22
Engineering hybrid genes without the use of restriction enzymes: gene splicing by overlap extension
journal, April 1989
- Horton, Robert M.; Hunt, Henry D.; Ho, Steffan N.
- Gene, Vol. 77, Issue 1, p. 61-68
Computational dna Sequence Analysis
journal, October 1994
- Karlin, Samuel; Cardon, Lon R.
- Annual Review of Microbiology, Vol. 48, Issue 1
Environmental Genome Shotgun Sequencing of the Sargasso Sea
journal, April 2004
- Venter, J. C.
- Science, Vol. 304, Issue 5667
Tissue-specific codon usage and the expression of human genes
journal, August 2004
- Plotkin, J. B.; Robins, H.; Levine, A. J.
- Proceedings of the National Academy of Sciences, Vol. 101, Issue 34
Expression of tetanus toxin fragment C in E.coli : high level expression by removing rare codons
journal, January 1989
- Makoff, A. J.; Oxer, M. D.; Romanos, M. A.
- Nucleic Acids Research, Vol. 17, Issue 24, p. 10191-10202
Maximum Entropy Modeling of Short Sequence Motifs with Applications to RNA Splicing Signals
journal, March 2004
- Yeo, Gene; Burge, Christopher B.
- Journal of Computational Biology, Vol. 11, Issue 2-3
Coreceptor Tropism Can Be Influenced by Amino Acid Substitutions in the gp41 Transmembrane Subunit of Human Immunodeficiency Virus Type 1 Envelope Protein
journal, March 2008
- Huang, W.; Toma, J.; Fransen, S.
- Journal of Virology, Vol. 82, Issue 11
Genome-wide analysis of mRNA decay in resting and activated primary human T lymphocytes
journal, December 2002
- Raghavan, A.
- Nucleic Acids Research, Vol. 30, Issue 24
Method of eliminating inhibitory/instability regions of mRNA
patent, September 2004
- Pavlakis, George N.; Felber, Barbara K.
- US Patent Document 6,794,498
Relative contributions of codon usage, promoter efficiency and leader sequence to the antigen expression and immunogenicity of HIV-1 Env DNA vaccine
journal, May 2006
- Wang, Shixia; Farfan-Arribas, Diego J.; Shen, Siyuan
- Vaccine, Vol. 24, Issue 21, p. 4531-4540
Rapid and efficient site-specific mutagenesis without phenotypic selection.
journal, January 1985
- Kunkel, T. A.
- Proceedings of the National Academy of Sciences, Vol. 82, Issue 2, p. 488-492
Site-directed mutagenesis of virtually any plasmid by eliminating a unique site
journal, January 1992
- Deng, Win Ping; Nickoloff, Jac A.
- Analytical Biochemistry, Vol. 200, Issue 1
A Recoding Method to Improve the Humoral Immune Response to an HIV DNA Vaccine
journal, September 2008
- Huang, Yaoxing; Krasnitz, Michael; Rabadan, Raul
- PLoS ONE, Vol. 3, Issue 9
Viral vaccine composition, process, and methods of use
patent-application, May 2003
- Jira, Vic; Jirathitikal, Vichai
- US Patent Application 09/935344; 20030092145
What are DNA sequence motifs?
journal, April 2006
- D'haeseleer, Patrik
- Nature Biotechnology, Vol. 24, Issue 4
Efficient site directed in vitro mutagenesis using ampicillin selection
journal, January 1990
- Lewis, Martin K.; Thompson, David V.
- Nucleic Acids Research, Vol. 18, Issue 12
A Single-Stranded DNA Binding Site in the Human A 1 Adenosine Receptor Gene Promoter
journal, January 1998
- Ren, Hongzu; Stiles, Gary L.
- Molecular Pharmacology, Vol. 53, Issue 1
Functional Surfaces of the Human Immunodeficiency Virus Type 1 Capsid Protein
journal, May 2003
- von Schwedler, U. K.; Stray, K. M.; Garrus, J. E.
- Journal of Virology, Vol. 77, Issue 9
Increased Expression and Immunogenicity of Sequence-Modified Human Immunodeficiency Virus Type 1 gag Gene
journal, March 2000
- zur Megede, J.; Chen, M. -C.; Doe, B.
- Journal of Virology, Vol. 74, Issue 6
Similarities and dissimilarities of phage genomes.
journal, June 1996
- Blaisdell, B. E.; Campbell, A. M.; Karlin, S.
- Proceedings of the National Academy of Sciences, Vol. 93, Issue 12
The use of phosphorothioate-modified DNA in restriction enzyme reactions to prepare nicked DNA
journal, January 1985
- Taylor, John W.; Schmidt, Walter; Cosstick, Richard
- Nucleic Acids Research, Vol. 13, Issue 24
On Information and Sufficiency
journal, March 1951
- Kullback, S.; Leibler, R. A.
- The Annals of Mathematical Statistics, Vol. 22, Issue 1
Packaging cells comprising codon-optimized gagpol sequences and lacking lentiviral accessory proteins
patent, October 2005
- Gray, John; Lee, Jeng-Shin; Mulligan, Richard C.
- US Patent Document 6,958,226
Adenovirus carrying gag gene HIV vaccine
patent, September 2004
- Chen, Ling; Shiver, John; Bett, Andrew J.
- US Patent Document 6,787,351
Correlation between the abundance of Escherichia coli transfer RNAs and the occurrence of the respective codons in its protein genes
journal, February 1981
- Ikemura, Toshimichi
- Journal of Molecular Biology, Vol. 146, Issue 1
Human Immunodeficiency Virus Type 1 Gag Polyprotein Multimerization Requires the Nucleocapsid Domain and RNA and Is Promoted by the Capsid-Dimer Interface and the Basic Region of Matrix Protein
journal, October 1999
- Burniston, Mark T.; Cimarelli, Andrea; Colgan, John
- Journal of Virology, Vol. 73, Issue 10
Highly expressible genes
patent, May 2004
- Weiner, David B.; Yang, Joo-Sung
- US Patent Document 6,733,994
Genome-Scale Compositional Comparisons in Eukaryotes
journal, April 2001
- Gentles, A. J.
- Genome Research, Vol. 11, Issue 4
Isochores and tissue-specificity
journal, September 2003
- Vinogradov, A. E.
- Nucleic Acids Research, Vol. 31, Issue 17