Antibody evolution immunogens
Abstract
The present invention relates, in general, to HIV-1 and, in particular, to broadly neutralizing HIV-1 antibodies, and to HIV-1 immunogens and to methods of using such immunogens to induce the production of broadly neutralizing HIV-1 antibodies in a subject (e.g., a human).
- Inventors:
- Issue Date:
- Research Org.:
- Los Alamos National Laboratory (LANL), Los Alamos, NM (United States)
- Sponsoring Org.:
- USDOE
- OSTI Identifier:
- 1771680
- Patent Number(s):
- 10849970
- Application Number:
- 15/864,822
- Assignee:
- Duke University (Durham, NC); Triad National Security, LLC (Los Alamos, NM); The Trustees of the University of Pennsylvania (Philadelphia, PA); TRUSTEES OF BOSTON UNIVERSITY (Boston, MA); The United States of America, as represented by the Secretary, Department of Health and Human Services (Rockville, MD); The Board of Trustees of the Leland Stanford Junior University (Palo Alto, CA)
- 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:
- AC52-06NA25396
- Resource Type:
- Patent
- Resource Relation:
- Patent File Date: 01/08/2018
- Country of Publication:
- United States
- Language:
- English
Citation Formats
Haynes, Barton F., Liao, Hua-Xin, Lynch, Rebecca M., Zhou, Tongqing, Gao, Feng, Boyd, Scott, Shaw, George M., Hahn, Beatrice H., Kepler, Thomas B., Korber, Bette T., Kwong, Peter, and Mascola, John R. Antibody evolution immunogens. United States: N. p., 2020.
Web.
Haynes, Barton F., Liao, Hua-Xin, Lynch, Rebecca M., Zhou, Tongqing, Gao, Feng, Boyd, Scott, Shaw, George M., Hahn, Beatrice H., Kepler, Thomas B., Korber, Bette T., Kwong, Peter, & Mascola, John R. Antibody evolution immunogens. United States.
Haynes, Barton F., Liao, Hua-Xin, Lynch, Rebecca M., Zhou, Tongqing, Gao, Feng, Boyd, Scott, Shaw, George M., Hahn, Beatrice H., Kepler, Thomas B., Korber, Bette T., Kwong, Peter, and Mascola, John R. Tue .
"Antibody evolution immunogens". United States. https://www.osti.gov/servlets/purl/1771680.
@article{osti_1771680,
title = {Antibody evolution immunogens},
author = {Haynes, Barton F. and Liao, Hua-Xin and Lynch, Rebecca M. and Zhou, Tongqing and Gao, Feng and Boyd, Scott and Shaw, George M. and Hahn, Beatrice H. and Kepler, Thomas B. and Korber, Bette T. and Kwong, Peter and Mascola, John R.},
abstractNote = {The present invention relates, in general, to HIV-1 and, in particular, to broadly neutralizing HIV-1 antibodies, and to HIV-1 immunogens and to methods of using such immunogens to induce the production of broadly neutralizing HIV-1 antibodies in a subject (e.g., a human).},
doi = {},
journal = {},
number = ,
volume = ,
place = {United States},
year = {Tue Dec 01 00:00:00 EST 2020},
month = {Tue Dec 01 00:00:00 EST 2020}
}
Works referenced in this record:
Predominant Autoantibody Production by Early Human B Cell Precursors
journal, September 2003
- Wardemann, H.
- Science, Vol. 301, Issue 5638
Influenza Virus H5 DNA Vaccination Is Immunogenic by Intramuscular and Intradermal Routes in Humans
journal, September 2012
- Ledgerwood, J. E.; Hu, Z.; Gordon, I. J.
- Clinical and Vaccine Immunology, Vol. 19, Issue 11
Polyclonal B Cell Responses to Conserved Neutralization Epitopes in a Subset of HIV-1-Infected Individuals
journal, August 2011
- Tomaras, G. D.; Binley, J. M.; Gray, E. S.
- Journal of Virology, Vol. 85, Issue 21
Differential Reactivity of Germ Line Allelic Variants of a Broadly Neutralizing HIV-1 Antibody to a gp41 Fusion Intermediate Conformation
journal, September 2011
- Alam, S. M.; Liao, H. -X.; Dennison, S. M.
- Journal of Virology, Vol. 85, Issue 22
CD4-induced interaction of primary HIV-1 gp120 glycoproteins with the chemokine receptor CCR-5
journal, November 1996
- Wu, Lijun; Gerard, Norma P.; Wyatt, Richard
- Nature, Vol. 384, Issue 6605
Vaccine
patent-application, November 2014
- Haynes, Barton F.; Kelsoe, Garnett; Harrison, Stephen
- US Patent Application 14/349539; 20140341949
Germline-like predecessors of broadly neutralizing antibodies lack measurable binding to HIV-1 envelope glycoproteins: Implications for evasion of immune responses and design of vaccine immunogens
journal, December 2009
- Xiao, Xiaodong; Chen, Weizao; Feng, Yang
- Biochemical and Biophysical Research Communications, Vol. 390, Issue 3
Nonviral delivery of self-amplifying RNA vaccines
journal, August 2012
- Geall, A. J.; Verma, A.; Otten, G. R.
- Proceedings of the National Academy of Sciences, Vol. 109, Issue 36
Broad neutralization by a combination of antibodies recognizing the CD4 binding site and a new conformational epitope on the HIV-1 envelope protein
journal, July 2012
- Klein, Florian; Gaebler, Christian; Mouquet, Hugo
- The Journal of Experimental Medicine, Vol. 209, Issue 8
Antibody polyspecificity and neutralization of HIV-1: A hypothesis
journal, May 2006
- Haynes, Barton F.; Moody, M. Anthony; Verkoczy, Laurent
- Human Antibodies, Vol. 14, Issue 3-4
Therapeutic antibodies, vaccines and antibodyomes
journal, May 2010
- Dimitrov, Dimiter S.
- mAbs, Vol. 2, Issue 3
Phaser crystallographic software
journal, July 2007
- McCoy, Airlie J.; Grosse-Kunstleve, Ralf W.; Adams, Paul D.
- Journal of Applied Crystallography, Vol. 40, Issue 4
Effects of inefficient cleavage of the signal sequence of HIV-1 gp 120 on its association with calnexin, folding, and intracellular transport.
journal, September 1996
- Li, Y.; Bergeron, J. J.; Luo, L.
- Proceedings of the National Academy of Sciences, Vol. 93, Issue 18
[20] Processing of X-ray diffraction data collected in oscillation mode
book, January 1997
- Otwinowski, Zbyszek; Minor, Wladek
- Macromolecular Crystallography Part A, 307-326
Polyreactivity increases the apparent affinity of anti-HIV antibodies by heteroligation
journal, September 2010
- Mouquet, Hugo; Scheid, Johannes F.; Zoller, Markus J.
- Nature, Vol. 467, Issue 7315
Inference of Macromolecular Assemblies from Crystalline State
journal, September 2007
- Krissinel, Evgeny; Henrick, Kim
- Journal of Molecular Biology, Vol. 372, Issue 3
The first T cell response to transmitted/founder virus contributes to the control of acute viremia in HIV-1 infection
journal, June 2009
- Goonetilleke, Nilu; Liu, Michael K. P.; Salazar-Gonzalez, Jesus F.
- The Journal of Experimental Medicine, Vol. 206, Issue 6
A Simple, Fast, and Accurate Algorithm to Estimate Large Phylogenies by Maximum Likelihood
journal, October 2003
- Guindon, Stéphane; Gascuel, Olivier
- Systematic Biology, Vol. 52, Issue 5
PHENIX : building new software for automated crystallographic structure determination
journal, October 2002
- Adams, Paul D.; Grosse-Kunstleve, Ralf W.; Hung, Li-Wei
- Acta Crystallographica Section D Biological Crystallography, Vol. 58, Issue 11
Two Distinct Broadly Neutralizing Antibody Specificities of Different Clonal Lineages in a Single HIV-1-Infected Donor: Implications for Vaccine Design
journal, February 2012
- Bonsignori, Mattia; Montefiori, David C.; Wu, Xueling
- Journal of Virology, Vol. 86, Issue 8
DNA/NYVAC Vaccine Regimen Induces HIV-Specific CD4 and CD8 T-Cell Responses in Intestinal Mucosa
journal, October 2011
- Perreau, Matthieu; Welles, Hugh C.; Harari, Alexandre
- Journal of Virology, Vol. 85, Issue 19
Broad diversity of neutralizing antibodies isolated from memory B cells in HIV-infected individuals
journal, March 2009
- Scheid, Johannes F.; Mouquet, Hugo; Feldhahn, Niklas
- Nature, Vol. 458, Issue 7238
Antibody neutralization and escape by HIV-1
journal, March 2003
- Wei, Xiping; Decker, Julie M.; Wang, Shuyi
- Nature, Vol. 422, Issue 6929
Cardiolipin Polyspecific Autoreactivity in Two Broadly Neutralizing HIV-1 Antibodies
journal, June 2005
- Haynes, B. F.
- Science, Vol. 308, Issue 5730
Measurement and Clinical Monitoring of Human Lymphocyte Clonality by Massively Parallel V-D-J Pyrosequencing
journal, December 2009
- Boyd, S. D.; Marshall, E. L.; Merker, J. D.
- Science Translational Medicine, Vol. 1, Issue 12
HIV-1 Antibodies
patent-application, October 2012
- Haynes, Barton F.; Liao, Hua-Xin; Moody, M. Anthony
- US Patent Application 13/314712; 20120269821
The Newick utilities: high-throughput phylogenetic tree processing in the UNIX shell
journal, May 2010
- Junier, T.; Zdobnov, E. M.
- Bioinformatics, Vol. 26, Issue 13
Reconstructing a B-cell clonal lineage. I. Statistical inference of unobserved ancestors
journal, January 2013
- Kepler, Thomas B.
- F1000Research, Vol. 2
B-cell–lineage immunogen design in vaccine development with HIV-1 as a case study
journal, May 2012
- Haynes, Barton F.; Kelsoe, Garnett; Harrison, Stephen C.
- Nature Biotechnology, Vol. 30, Issue 5
Sequence and Structural Convergence of Broad and Potent HIV Antibodies That Mimic CD4 Binding
journal, July 2011
- Scheid, J. F.; Mouquet, H.; Ueberheide, B.
- Science, Vol. 333, Issue 6049
Analysis of a Clonal Lineage of HIV-1 Envelope V2/V3 Conformational Epitope-Specific Broadly Neutralizing Antibodies and Their Inferred Unmutated Common Ancestors
journal, July 2011
- Bonsignori, M.; Hwang, K. -K.; Chen, X.
- Journal of Virology, Vol. 85, Issue 19
A method for identification of HIV gp140 binding memory B cells in human blood
journal, April 2009
- Scheid, Johannes F.; Mouquet, Hugo; Feldhahn, Niklas
- Journal of Immunological Methods, Vol. 343, Issue 2
Recombinant Mycobacterium bovis Bacillus Calmette-Guérin Elicits Human Immunodeficiency Virus Type 1 Envelope-Specific T Lymphocytes at Mucosal Sites
journal, July 2007
- Yu, Jae-Sung; Peacock, James W.; Jacobs, William R.
- Clinical and Vaccine Immunology, Vol. 14, Issue 7
The Neutralization Breadth of HIV-1 Develops Incrementally over Four Years and Is Associated with CD4+ T Cell Decline and High Viral Load during Acute Infection
journal, March 2011
- Gray, E. S.; Madiga, M. C.; Hermanus, T.
- Journal of Virology, Vol. 85, Issue 10
Broad neutralization coverage of HIV by multiple highly potent antibodies
journal, September 2011
- Walker, Laura M.; Huber, Michael; Doores, Katie J.
- Nature, Vol. 477, Issue 7365
Initial B-Cell Responses to Transmitted Human Immunodeficiency Virus Type 1: Virion-Binding Immunoglobulin M (IgM) and IgG Antibodies Followed by Plasma Anti-gp41 Antibodies with Ineffective Control of Initial Viremia
journal, October 2008
- Tomaras, G. D.; Yates, N. L.; Liu, P.
- Journal of Virology, Vol. 82, Issue 24, p. 12449-12463
The Role of Antibody Polyspecificity and Lipid Reactivity in Binding of Broadly Neutralizing Anti-HIV-1 Envelope Human Monoclonal Antibodies 2F5 and 4E10 to Glycoprotein 41 Membrane Proximal Envelope Epitopes
journal, March 2007
- Alam, S. Munir; McAdams, Mildred; Boren, David
- The Journal of Immunology, Vol. 178, Issue 7
Vaccination with ALVAC and AIDSVAX to Prevent HIV-1 Infection in Thailand
journal, December 2009
- Rerks-Ngarm, Supachai; Pitisuttithum, Punnee; Nitayaphan, Sorachai
- New England Journal of Medicine, Vol. 361, Issue 23
A group M consensus envelope glycoprotein induces antibodies that neutralize subsets of subtype B and C HIV-1 primary viruses
journal, September 2006
- Liao, Hua-Xin; Sutherland, Laura L.; Xia, Shi-Mao
- Virology, Vol. 353, Issue 2, p. 268-282
HIV vaccine design: the neutralizing antibody conundrum
journal, June 2012
- Stamatatos, Leonidas
- Current Opinion in Immunology, Vol. 24, Issue 3
Rapid evolution of the neutralizing antibody response to HIV type 1 infection
journal, March 2003
- Richman, D. D.; Wrin, T.; Little, S. J.
- Proceedings of the National Academy of Sciences, Vol. 100, Issue 7
Polyreactive antibodies in adaptive immune responses to viruses
journal, November 2011
- Mouquet, Hugo; Nussenzweig, Michel C.
- Cellular and Molecular Life Sciences, Vol. 69, Issue 9
Most rhesus macaques infected with the CCR5-tropic SHIVAD8 generate cross-reactive antibodies that neutralize multiple HIV-1 strains
journal, November 2012
- Shingai, M.; Donau, O. K.; Schmidt, S. D.
- Proceedings of the National Academy of Sciences, Vol. 109, Issue 48
Increased Immune Response Elicited by DNA Vaccination with a Synthetic gp120 Sequence with Optimized Codon Usage
journal, February 1998
- André, Stefanie; Seed, Brian; Eberle, Josef
- Journal of Virology, Vol. 72, Issue 2
Structural Basis for Broad and Potent Neutralization of HIV-1 by Antibody VRC01
journal, July 2010
- Zhou, T.; Georgiev, I.; Wu, X.
- Science, Vol. 329, Issue 5993
Motif-optimized subtype A HIV envelope-based DNA vaccines rapidly elicit neutralizing antibodies when delivered sequentially
journal, August 2012
- Pissani, Franco; Malherbe, Delphine C.; Robins, Harlan
- Vaccine, Vol. 30, Issue 37
The rapid generation of mutation data matrices from protein sequences
journal, January 1992
- Jones, David T.; Taylor, William R.; Thornton, Janet M.
- Bioinformatics, Vol. 8, Issue 3
High-throughput isolation of immunoglobulin genes from single human B cells and expression as monoclonal antibodies
journal, June 2009
- Liao, Hua-Xin; Levesque, Marc C.; Nagel, Ashleigh
- Journal of Virological Methods, Vol. 158, Issue 1-2
Isolation of a Human Anti-HIV gp41 Membrane Proximal Region Neutralizing Antibody by Antigen-Specific Single B Cell Sorting
journal, September 2011
- Morris, Lynn; Chen, Xi; Alam, Munir
- PLoS ONE, Vol. 6, Issue 9
Specificity of the autologous neutralizing antibody response
journal, January 2009
- Moore, Penny L.; Gray, Elin S.; Morris, Lynn
- Current Opinion in HIV and AIDS, Vol. 4, Issue 5
Improved NYVAC-Based Vaccine Vectors
journal, November 2011
- Kibler, Karen V.; Gomez, Carmen E.; Perdiguero, Beatriz
- PLoS ONE, Vol. 6, Issue 11
Induction of Immunity to Human Immunodeficiency Virus Type-1 by Vaccination
journal, October 2010
- McElrath, M. Juliana; Haynes, Barton F.
- Immunity, Vol. 33, Issue 4
PGV04, an HIV-1 gp120 CD4 Binding Site Antibody, Is Broad and Potent in Neutralization but Does Not Induce Conformational Changes Characteristic of CD4
journal, February 2012
- Falkowska, Emilia; Ramos, Alejandra; Feng, Yu
- Journal of Virology, Vol. 86, Issue 8
New templates for HIV-1 antibody-based vaccine design
journal, August 2010
- Sattentau, Quentin J.; McMichael, Andrew J.
- F1000 Biology Reports, Vol. 2
Envelope Deglycosylation Enhances Antigenicity of HIV-1 gp41 Epitopes for Both Broad Neutralizing Antibodies and Their Unmutated Ancestor Antibodies
journal, September 2011
- Ma, Ben-Jiang; Alam, S. Munir; Go, Eden P.
- PLoS Pathogens, Vol. 7, Issue 9
Normalization of B Cell Counts and Subpopulations after Antiretroviral Therapy in Chronic HIV Disease
journal, February 2008
- Moir, Susan; Malaspina, Angela; Ho, Jason
- The Journal of Infectious Diseases, Vol. 197, Issue 4
Deletion of the Beta 20-21 Loop in HIV GP120 Exposes the CD4 Binding Site for Improved Antibody Binding and Antibody Induction
patent-application, August 2010
- Berkower, Ira
- US Patent Application 12/714085; 20100215682
Vaccine Induction of Antibodies against a Structurally Heterogeneous Site of Immune Pressure within HIV-1 Envelope Protein Variable Regions 1 and 2
journal, January 2013
- Liao, Hua-Xin; Bonsignori, Mattia; Alam, S. Munir
- Immunity, Vol. 38, Issue 1
Antibody evolution immunogens
patent, June 2018
- Haynes, Barton F.; Liao, Hua-Xin; Lynch, Rebecca M.
- US Patent Document 10,004,800
Algorithm-driven Artifacts in median polish summarization of Microarray data
journal, November 2010
- Giorgi, Federico M.; Bolger, Anthony M.; Lohse, Marc
- BMC Bioinformatics, Vol. 11, Issue 1
Generation of Mucosal Anti-Human Immunodeficiency Virus Type 1 T-Cell Responses by Recombinant Mycobacterium smegmatis ▿
journal, November 2006
- Yu, Jae-Sung; Peacock, James W.; Vanleeuwen, Stacie
- Clinical and Vaccine Immunology, Vol. 13, Issue 11
Modified HIV-1 Envelope Proteins
patent-application, September 2009
- Quinnan, Gerald; Cham, Fatim; Groen, Guido Van De
- US Patent Application 11/661210; 20090232830
Human Antibodies that Neutralize HIV-1: Identification, Structures, and B Cell Ontogenies
journal, September 2012
- Kwong, Peter D.; Mascola, John R.
- Immunity, Vol. 37, Issue 3
APE: Analyses of Phylogenetics and Evolution in R language
journal, January 2004
- Paradis, E.; Claude, J.; Strimmer, K.
- Bioinformatics, Vol. 20, Issue 2
Control of Expression, Glycosylation, and Secretion of HIV-1 gp120 by Homologous and Heterologous Signal Sequences
journal, October 1994
- Li, Yan; Luo, Lizhong; Thomas, David Y.
- Virology, Vol. 204, Issue 1
The Development of CD4 Binding Site Antibodies during HIV-1 Infection
journal, May 2012
- Lynch, R. M.; Tran, L.; Louder, M. K.
- Journal of Virology, Vol. 86, Issue 14
Genetic differences between blood- and brain-derived viral sequences from human immunodeficiency virus type 1-infected patients: evidence of conserved elements in the V3 region of the envelope protein of brain-derived sequences.
journal, January 1994
- Korber, B. T.; Kunstman, K. J.; Patterson, B. K.
- Journal of Virology, Vol. 68, Issue 11
The immune response during acute HIV-1 infection: clues for vaccine development
journal, December 2009
- McMichael, Andrew J.; Borrow, Persephone; Tomaras, Georgia D.
- Nature Reviews Immunology, Vol. 10, Issue 1
Analysis of Memory B Cell Responses and Isolation of Novel Monoclonal Antibodies with Neutralizing Breadth from HIV-1-Infected Individuals
journal, January 2010
- Corti, Davide; Langedijk, Johannes P. M.; Hinz, Andreas
- PLoS ONE, Vol. 5, Issue 1
Broadly Neutralizing Antibodies Present New Prospects to Counter Highly Antigenically Diverse Viruses
journal, July 2012
- Burton, D. R.; Poignard, P.; Stanfield, R. L.
- Science, Vol. 337, Issue 6091
The CCP4 suite programs for protein crystallography
journal, September 1994
- ,
- Acta Crystallographica Section D Biological Crystallography, Vol. 50, Issue 5, p. 760-763
Coot model-building tools for molecular graphics
journal, November 2004
- Emsley, Paul; Cowtan, Kevin
- Acta Crystallographica Section D Biological Crystallography, Vol. 60, Issue 12, p. 2126-2132
Potent and Broad Neutralization of HIV-1 Subtype C by Plasma Antibodies Targeting a Quaternary Epitope Including Residues in the V2 Loop
journal, January 2011
- Moore, P. L.; Gray, E. S.; Sheward, D.
- Journal of Virology, Vol. 85, Issue 7
Crystal Structure of PG16 and Chimeric Dissection with Somatically Related PG9: Structure-Function Analysis of Two Quaternary-Specific Antibodies That Effectively Neutralize HIV-1
journal, June 2010
- Pancera, M.; McLellan, J. S.; Wu, X.
- Journal of Virology, Vol. 84, Issue 16
Antibody Evolution Immunogens
patent-application, December 2015
- Haynes, Barton F.; Liao, Hua-Xin; Lynch, Rebecca M.
- US Patent Application 14/427581; 20150366961
Magnitude and Breadth of the Neutralizing Antibody Response in the RV144 and Vax003 HIV-1 Vaccine Efficacy Trials
journal, May 2012
- Montefiori, D. C.; Karnasuta, C.; Huang, Y.
- Journal of Infectious Diseases, Vol. 206, Issue 3
Tiered Categorization of a Diverse Panel of HIV-1 Env Pseudoviruses for Assessment of Neutralizing Antibodies
journal, November 2009
- Seaman, M. S.; Janes, H.; Hawkins, N.
- Journal of Virology, Vol. 84, Issue 3
Modified HIV-1 Envelope Proteins
patent-application, June 2012
- Broder, Christopher; Quinnan, Gerald
- US Patent Application 11/662422; 20120039923
MolProbity: all-atom contacts and structure validation for proteins and nucleic acids
journal, May 2007
- Davis, I. W.; Leaver-Fay, A.; Chen, V. B.
- Nucleic Acids Research, Vol. 35, Issue Web Server
Limited Neutralizing Antibody Specificities Drive Neutralization Escape in Early HIV-1 Subtype C Infection
journal, September 2009
- Moore, Penny L.; Ranchobe, Nthabeleng; Lambson, Bronwen E.
- PLoS Pathogens, Vol. 5, Issue 9
Recombinant HIV Envelope Proteins Fail to Engage Germline Versions of Anti-CD4bs bNAbs
journal, January 2013
- Hoot, Sam; McGuire, Andrew T.; Cohen, Kristen W.
- PLoS Pathogens, Vol. 9, Issue 1