SYSTEMS AND METHODS FOR NUCLEIC ACID EXPRESSION IN VIVO
The present invention provides compositions, systems, kits, and methods for expression of one or more biomolecules in a subject, human or non-human mammal, (e.g., at therapeutic levels for the extended periods of time required to produce therapeutic effects). In certain embodiments, compositions, systems, kits, and methods are provided that comprise a first composition comprising polycationic structures (e.g., empty cationic liposomes, cationic micelles, cationic emulsions, or cationic polymers) and a second composition comprising expression vectors (e.g., non-viral expression vectors not associated with liposomes or other carriers) encoding one or more biomolecules of interest.
Latest DNARx Patents:
The present application claims priority to U.S. Provisionals application 62/475,477 filed Mar. 23, 2017, which is herein incorporated by reference in its entirety.
FIELD OF THE INVENTIONThe present invention provides compositions, systems, kits, and methods for expression of one or more biomolecules in a subject, human or non-human mammal, (e.g., at therapeutic levels for the extended periods of time required to produce therapeutic effects). In certain embodiments, compositions, systems, kits, and methods are provided that comprise a first composition comprising polycationic structures (e.g., empty cationic liposomes, cationic micelles, cationic emulsions, or cationic polymers) and a second composition comprising expression vectors (e.g., non-viral expression vectors not associated with liposomes or other carriers) encoding one or more biomolecules of interest.
BACKGROUNDThe simplest non-viral gene delivery system uses naked expression vector DNA. Direct injection of free DNA into certain tissues, particularly muscle, has been shown to produce high levels of gene expression, and the simplicity of this approach has led to its adoption in a number of clinical protocols. In particular, this approach has been applied to the gene therapy of cancer where the DNA can be injected either directly into the tumor or can be injected into muscle cells in order to express tumor antigens that might function as a cancer vaccine.
Although direct injection of plasmid DNA has been shown to lead to gene expression, the overall level of expression is much lower than with either viral or liposomal vectors. Naked DNA is also generally thought to be unsuitable for systemic administration due to the presence of serum nucleases. As a result, direct injection of plasmid DNA appears to be limited to only a few applications involving tissues that are easily accessible to direct injection such as skin and muscle cells.
SUMMARY OF THE INVENTIONThe present invention provides compositions, systems, kits, and methods for expression of one or more biomolecules in a subject, human or non-human mammal, (e.g., at therapeutic levels for the extended periods of time required to produce therapeutic effects). In certain embodiments, compositions, systems, kits, and methods are provided that comprise a first composition comprising polycationic structures (e.g., empty cationic liposomes, cationic micelles, cationic emulsions, or cationic polymers) and a second composition comprising expression vectors (e.g., non-viral expression vectors not associated with liposomes or other carriers) encoding one or more biomolecules of interest. In some embodiments, the compositions, systems, kits, and methods may employ one or more components of the compositions, systems, kits, and methods described in U.S. patent application Ser. No. 15/268,000, filed Sep. 16, 2016, the disclosure of which is herein incorporated by reference in its entirety.
In some embodiments, provided herein are compositions, kits, and/or systems comprising: a) a first composition comprising a first amount of polycationic structures liposomes, wherein the first composition is free, or essentially free, of nucleic acid molecules; and b) a second composition comprising an expression vector (e.g., one or more expression vectors that express a biomolecule of interest) (e.g., a therapeutically effective amount of one or more expression vectors). In some embodiments, the compositions, kits, and/or systems have one or more or all of the following properties: i) the ratio of the first amount of said polycationic structures to the expression vectors is 5:1 to 25:1; ii) 2.0% to 6.0%, or 2.0% to 20% (e.g., 2% . . . 5% . . . 10% . . . 15% . . . or 20%) of the first composition comprises dexamethasone palmitate and/or dexamethasone; iii) the first composition further comprises neutral lipid; and iv) the polycationic structures comprise empty liposomes, wherein the empty liposomes present in the first composition have a z-average diameter of about 20-85 nm.
In some embodiments, provided herein are aqueous compositions comprising or consisting essentially of: a) polycationic structures present in said composition at a concentration of between 500 nM and 500 mM; b) dexamethasone and/or dexamethasone palmitate present in said composition at a concentration between 1-10% of said composition; and c) a physiologically tolerable buffer, and wherein said composition is free, or essentially free, of nucleic acid molecules. In some embodiments, said polycationic structure are cationic lipids that are present as small unilamellar vesicles. In some embodiments, said physiologically tolerable buffer is selected from the group consisting of: saline buffer, 5% dextrose in water, lactated ringers buffer, and any combination thereof. In some embodiments, said polycationic structures comprise DOTAP. In some embodiments, said polycationic structures are present in said composition at a concentration of between 800 nM and 1500 nM, or between 10 mM and 100 mM.
In some embodiments, provided herein are aqueous compositions comprising or consisting essentially of: a) neutral lipids present in said composition at a concentration of between 500 nM and 500 mM; b) dexamethasone and/or dexamethasone palmitate present in said composition at a concentration between 1-10% of said composition; and c) a physiologically tolerable buffer, and wherein said composition is free, or essentially free, of nucleic acid molecules. In some embodiments, said neutral lipids are present as multi-lamellar vesicles. In some embodiments, said physiologically tolerable buffer is selected from the group consisting of: saline buffer, 5% dextrose in water, lactated ringers buffer, and any combination thereof. In some embodiments, said neutral lipids comprise DMPC. In some embodiments, said neutral lipids are present in said composition at a concentration of between 800 nM and 1500 nM, or between 10 mM and 100 mM.
In some embodiments, provided herein are aqueous compositions comprising or consisting essentially of: a) polycationic structures present in said composition at a concentration of between 500 nM and 500 mM; b) neutral lipids present in said composition at a concentration of between 500 nM and 500 mM; and c) a physiologically tolerable buffer, and wherein said composition is free, or essentially free, of nucleic acid molecules. In some embodiments, said neutral lipids are present as multi-lamellar vesicles. In some embodiments, compositions comprise neutral liposomes with (e.g., extruded to) mean diameters of 75-250 nm (e.g., 100 nm, 150 nm, 200 nm, etc.). In some embodiments, said polycationic structure are cationic lipids that are present as small unilamellar vesicles. In some embodiments, said polycationic structure are cationic lipids that are present as multilamellar vesicles. In some embodiments, compositions further comprise: d) dexamethasone, wherein said dexamethasone is present in a concentration such that it is 1-10% of said composition. In some embodiments, compositions further comprise: d) dexamethasone palmitate, wherein said dexamethasone palmitate is present in a concentration such that it is 1-10% of said composition. In some embodiments, said neutral lipids comprise DMPC. In some embodiments, said neutral lipids are present in said composition at a concentration of between 800 nM and 1300 nM, or between 10 mM and 100 mM. In some embodiments, said polycationic structures comprise DOTAP. In some embodiments, said polycationic structures are present in said composition at a concentration of between 800 nM and 1500 nM, or between 10 mM and 100 mM.
In some embodiments, provided herein are compositions, kits, and/or systems comprising: a) a first composition comprising a first amount of polycationic structures liposomes, wherein the first composition is free, or essentially free, of nucleic acid molecules; and b) a second composition comprising a therapeutically effective amount of expression vectors, wherein the expression vectors comprise circularized synthetically amplified nucleic acid, or minicircle DNA, encoding one or more biomolecules (e.g., therapeutic biomolecules). In some embodiments, the synthetically amplified nucleic acid is produced by a polymerase chain reaction. In some embodiments, no cells are used in the production of the vector (e.g., the vector is not recombinantly expressed in culture for its production). In some embodiments, the vector consists of the nucleic acid encoding one or more biomolecules and one or more promoters and enhancers operatively linked thereto.
In some embodiments, the one or more biomolecules is a therapeutic biomolecule. In some embodiments, the therapeutic biomolecule is an antibody. In some embodiments, the antibody is a broadly neutralizing antibody. In some embodiments, the broadly neutralizing antibody specifically binds to a pathogen or pathogen component. In some embodiments, the pathogen is a virus. In some embodiments, the antibody specifically binds to a tumor antigen. In some embodiments, the mAb or antigen-binding portion thereof specifically binds to a cytokine.
In some embodiments, one or more antibodies comprise a first antibody that specifically binds to a first target molecule, a second antibody that specifically binds to a second, different, target molecule, and in some embodiments, a third antibody that specifically binds to a third, different, target molecule.
In some embodiments, the one or more biomolecules comprise a CRISPR/Cas9 component (e.g., for use in gene therapy, research, or diagnostic applications).
In some embodiments, the one or more biomolecules comprise a nucleic acid (e.g., a therapeutic or diagnostic nucleic acid). In some embodiments, the nucleic acid is an antisense oligonucleotide (see e.g., 7,592,440, 7,919,472, and 9,045,754, herein incorporated by reference in their entireties). In some embodiments, the nucleic acid is a ribozyme. In some embodiments, the nucleic acid is an shRNA, miRNA, siRNA, piRNA, snoRNA, tsRNA, or srRNA.
In some embodiments, the expression vectors comprise a super enhancer regulating expression of at least one of the one or more biomolecules. In some embodiments, the expression vectors encode a first therapeutic biomolecule and a second therapeutic biomolecule, wherein said first and second therapeutic biomolecules express for different lengths of time than one another (e.g., expressed using different promoters and/or enhancers or expressed in different expression cassettes within the vectors). In certain embodiments, the expression vectors encode a first therapeutic biomolecule and a second therapeutic biomolecule, wherein said first and second therapeutic biomolecules are the same (e.g., a single vector has two expression cassettes that both express the same or different therapeutic biomolecule). In further embodiments, the expression vectors encode a first therapeutic biomolecule, a second therapeutic biomolecule, and a third therapeutic biomolecule wherein said first, second, third therapeutic biomolecules are all the same (e.g., a single vector has three expression cassettes that all express the same or different therapeutic biomolecule).
In some embodiments, the expression vectors comprise an R6K origin of replication. In some embodiments, the expression vectors are CpG-free or CpG-reduced. In some embodiments, the expression vectors are not CpG-free or CpG-reduced.
Further provided herein are methods of using the compositions, kits, and/or system described herein. For example, in some embodiments, provided herein are methods of expressing one or more therapeutic biomolecules in a subject, comprising: a) administering a first composition of the system into a subject; and b) administering a second composition of the system into said subject.
In some embodiments, provided herein are methods of expressing two or more therapeutic biomolecules in a subject for different durations, comprising: a) administering a first composition of a system into a subject; and b) administering (e.g., subsequently, within 300 minutes) a second composition of the system into the subject, wherein the vectors express first and second biomolecules each in a separate cassette or under the control of different promoters and/or enhances such that the first and second biomolecules express for different lengths of time than one another in the subject. For example, the first molecule expressed from the first cassette is present for at least seven, or 21 or 100 days following injection, whereas the biomolecule expressed from the second cassette remains present for less than seven days or fourteen 14 days.
In some embodiments, step b) of the method occurs from 1 to 400 minutes after step a) (e.g., 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 12, 15, 20, 30, 40, 50, 100, 200, 300, 400 minutes or any increments therein between). In some embodiments, the biomolecule or biomolecules are expressed at a desired (e.g., therapeutic) level in the subject for at least 7 consecutive days (e.g., at least 30 days, at least 1 year or any increments therein between). In certain embodiments, the first therapeutic biomolecule expresses for at least 7 days (e.g., 7 . . . 14 . . . 21 . . . 190 . . . 365 days) at therapeutic levels, and the second therapeutic biomolecule expresses at a level that is at least 50% reduced (e.g., at least 50% . . . 65% . . . 75% . . . 90% . . . or 99% reduced) at day 7 compared to the initial expression of said second therapeutic biomolecules on day 1. In particular embodiments, the first therapeutic biomolecule expresses for at least 14 days at therapeutic levels, and the second therapeutic biomolecule expresses at a level that is at least 75% reduced at day 14 compared to the initial expression of said second therapeutic biomolecules on day 1. In additional embodiments, the first therapeutic biomolecules comprises a CRISP or a monoclonal antibody sequence (or fragment thereof, such as F(ab)2), and the second therapeutic biomolecule comprises a Cas9 protein.
In some embodiments (e.g., to increase expression levels of the desired biomolecule), the methods further comprise step c): repeating steps a) and b) one or more times.
In some embodiments, the biomolecules are therapeutic biomolecules. Any suitable or desired therapeutic biomolecule may be selected. In some embodiments, the one or more therapeutic biomolecules comprises an anti-PCSK9 monoclonal antibody that expresses at sufficient levels to reduce LDL (e.g., in a human subject). In some embodiments, the one or more therapeutic biomolecules expresses an anti-influenza A stem antigen monoclonal antibody (e.g., that broadly immunizes against a wide spectrum of influenza A strains). In some embodiments, the one or more therapeutic biomolecules expresses a combination of anti-CD20 and anti-CD47 monoclonal antibodies. In some embodiments, the one or more therapeutic biomolecules expresses an anti-PD-1 monoclonal antibody, one or more self-tumor neoantigens, and optionally one or more immunomodulatory cytokines.
In some embodiments, the present invention provides compositions, systems, kits, and methods for expression of a protein or proteins and/or biologically active nucleic acid molecule(s) in a subject (e.g., at therapeutic levels for the extended periods of time required to produce therapeutic effects in the host). In certain embodiments, systems and kits are provided that comprise a first composition comprising a first amount of polycationic structures (e.g., empty cationic liposomes, empty cationic micelles, or empty cationic emulsions), and a second composition comprising a therapeutically effective amount of expression vector(s) (e.g., non-viral expression vectors not associated with liposomes) (e.g., that are CpG-free or CpG-reduced), where the expression vectors comprise a first nucleic acid sequence encoding: i) a first therapeutic protein (or non-therapeutic protein, such as a marker protein), and/or ii) a first biologically active nucleic acid molecule. In certain embodiments, the expression vector comprises a second, third, or fourth nucleic acid sequence encoding a second, third, and/or fourth therapeutic or non-therapeutic protein, and/or a second, third, or fourth biologically active nucleic acid molecule. In some embodiments, the first nucleic acid sequences further encode a second, third, fourth, fifth, and/or sixth therapeutic protein, and/or a second, third, fourth, fifth, and/or sixth biologically active nucleic acid molecule. In other embodiments, such first and second compositions are sequentially administered (e.g., systemically) to a subject such that the therapeutic protein(s) and/or the biologically active nucleic acid molecule(s) is/are expressed in the subject (e.g., at a therapeutic level (e.g., for at least 5 or at least 50 days, or at least 100 . . . 200 . . . or at least 400 days), such that disease(s) or condition(s) is/are treated or physiological trait(s) is/are altered; at a prophylactic level (e.g., for at least 5 or at least 50 days, or at least 100 . . . 200 . . . or at least 400 days), such that disease(s), condition(s), and/or infection(s) is/are prevented).
In some embodiments, provided herein are methods of expressing a first therapeutic protein and/or a biologically active nucleic acid molecule in a subject (e.g., human or non-human mammal) comprising: a) administering (e.g., systemically) a first composition to a subject, wherein the first composition comprises first amount of polycationic structures (e.g., empty cationic liposomes, empty cationic micelles, or empty cationic emulsions) and wherein the first composition is free, or essentially free, of nucleic acid molecules (e.g., nucleic acid is un-detectable or barely detectable in the composition); and b) administering (e.g., systemically, intravascularly, etc.) a second composition to the subject (e.g., initiating within about 2 . . . 10 . . . 50 . . . 100 . . . 200 . . . 300 . . . 400 minutes of administering the first composition), wherein the second composition comprises an amount of expression vectors (e.g., non-viral expression vectors not associated with liposomes or any other carrier), wherein the expression vectors are CpG-free or CpG-reduced, wherein each of the expression vectors comprise nucleic acid sequence(s) encoding: i) first, second, third, fourth, fifth, and/or sixth therapeutic protein(s) or non-therapeutic, and/or ii) first, second, third, fourth, fifth, and/or sixth biologically active nucleic acid molecule(s). In certain embodiments, as a result of the administering the first composition and the administering the second composition, the first therapeutic or non-therapeutic protein and/or the biologically active nucleic acid molecule is/are expressed in the subject (e.g., at a therapeutic level, for at least 5 . . . 50 . . . 100 . . . 300 days . . . 400 days or longer, with respect to a disease or condition, or at an effective level sufficient to alter a physiological or disease trait). In certain embodiments, the polycationic structures (e.g., empty liposomes) present in the first composition have a z-average diameter of about 20-85 nm (e.g., 20 . . . 25 . . . 30 . . . 40 . . . 45 . . . 50 . . . 55 . . . 60 . . . 65 . . . 70 . . . 75 . . . 80 . . . 85 nm). In certain embodiments, the polycationic structures are empty liposomes with a z-average diameter of about 72-76 nm, and are small uni-lammellar vesicles.
In some embodiments, provided herein are methods of expressing a first therapeutic or non-therapeutic protein and/or a biologically active nucleic acid molecule in a subject comprising: a) administering a first composition to a subject, wherein the subject has at least one symptom of a disease or condition, or has at least physiological trait to be altered, wherein the first composition comprises a first amount of polycationic structures (e.g., empty cationic liposomes, empty cationic micelles, or empty cationic emulsions), and wherein the first composition is free, or essentially free, of nucleic acid molecules; and b) administering (or initiating administration of) a second composition to the subject within about 100 minutes or about 200 . . . or 400 minutes of administering said first composition, wherein the second composition comprises a therapeutically effective amount of expression vectors (e.g., wherein the expression vectors are CpG-free or CpG-reduced), wherein the expression vectors each comprise a first nucleic acid sequence encoding: i) a first therapeutic or non-therapeutic protein, and/or ii) a first biologically active nucleic acid molecule, c) administering dexamethasone palmitate and/or neutral lipids to the subject, either in said first and/or second composition, or present in a third composition (e.g., within 100 or 200 . . . or 400 minutes of administration of the first or second compositions). In some embodiments, as a result of the administering the first composition, the administering the second composition, and the administering of the dexamethasone palmitate and/or neutral lipids, the first therapeutic protein and/or the biologically active nucleic acid molecule is/are expressed in the subject at a therapeutic level with respect to the disease or condition, or at an effective level sufficient to alter the physiological or disease trait.
In certain embodiments, dexamethasone palmitate is in the first composition, and wherein 2.0% to 20.0% (e.g., 2.0% . . . 2.5% . . . 3.0% . . . 10% . . . 15% . . . or 20%) of the first composition comprises the dexamethasone palmitate. In certain embodiments, the dexamethasone palmitate is administered in the third composition, which is administered before the first and/or second composition is administered, or is administered after the first and/or second composition, but within 100 . . . 400 minutes thereof. In certain embodiments, the methods further comprise d) administering dexamethasone to the subject, either in the first and/or second and/or third composition, or present in a fourth composition (e.g., initiating within 100 or 300 minutes of administration of the first or second or third compositions, such as before any of the administrations or after the other administrations). In certain embodiments, the polycationic structures (e.g., empty liposomes) present in the first composition have a z-average diameter of about 20-85 nm (e.g., 20 . . . 25 . . . 30 . . . 40 . . . 45 . . . 50 . . . 55 . . . 60 . . . 65 . . . 70 . . . 75 . . . 80 . . . 85 nm). In certain embodiments, the polycationic structures are empty liposomes with a z-average diameter of about 72-76 nm, and are small uni-lammellar vesicles.
In some embodiments, A) the ratio is 10:1 to 18:1; B) 2.0% to 20.0% of the first composition comprises dexamethasone or dexamethasone palmitate; and/or C) each of the expression vectors each comprise only a single expression cassette (i.e., no other expression cassettes are present in each vector), wherein the expression cassette comprises the first nucleic acid sequence encoding the first therapeutic protein and a second nucleic acid sequence encoding a second therapeutic protein, and wherein the expression cassette encodes a self-cleaving peptide sequence (or other cleavage sequence) between the first and second nucleic acid sequences. In certain embodiments, the self-cleaving peptide comprises F2A, P2A, T2A or E2A. In some embodiments, a furin recognition site and/or (S)GSG linker are included upstream of self-cleaving peptides to enhance the cleavage efficiency. In particular embodiments, the first therapeutic protein comprises a monoclonal antibody light chain and the second therapeutic protein comprises a heavy chain of said monoclonal antibody (e.g., the light and heavy chains combine to form a monoclonal antibody fragment (e.g., Fab) or monoclonal antibody when expresses in a subject). In certain embodiments, the polycationic structures comprise empty liposomes. In particular embodiments, the empty liposomes present in said first composition have an average diameter of about 50-85 nm. In certain embodiments, the methods further comprise administering an agent or additional regulating expression vectors, either in said first and/or second composition, or present in a third composition, wherein the agent increases or decreases the expression at the therapeutic or effective level, and/or the length of time of the expression at said therapeutic or effective level, compared to when the drug agent is not administered to said subject (e.g., for therapeutics that need to be expressed for only a certain, limited amount of time). In particular embodiments, the agent is selected from colchicine, dexamethasone, dexamethasone palmitate, neutral lipids, valproic acid, theophylline, sildenafil, amlexanox, chloroquine, SAHA, and L-arginine+sildenafil.
In some embodiments, the expression vectors each further comprise a regulating nucleic acid sequence, wherein the regulating nucleic acid sequence reduces the duration of expression of the first nucleic acid sequence that would occur in the absence of said regulating nucleic acid sequence. In other embodiments, the regulating nucleic acid sequence is selected from the group consisting of: a promoter, an enhancer, a second nucleic acid sequence encoding a second protein, and/or a second biologically active nucleic acid molecule. In additional embodiments, the first amount of polycationic structures in the first composition comprises a mixture of at least a first and second different types of cationic liposomes that reduces the expression of the first therapeutic protein and/or first biologically active nucleic acid molecule compared to such expression when only said first or only said second type of cationic liposomes are employed in said method. In particular embodiments, the therapeutic protein is expressed at a level that is above 1 ug/ml (e.g., 1.1-1.5 ug/ml), and wherein said therapeutic protein is expressed at the level in said subject for at least 7 consecutive days (e.g., at least 7 . . . 21 . . . 50 . . . 100 . . . or 400 days).
In certain embodiments, provided herein are methods of expressing a first therapeutic protein and/or a biologically active nucleic acid molecule in a subject comprising: a) administering (e.g., systemically) a first composition to a subject, wherein the subject has at least one symptom of a disease or condition, is at risk of infection from one or more infectious diseases, or has at least physiological trait to be altered (e.g., level of hematopoietic stem cells), wherein the first composition comprises a first amount of polycationic structures (e.g., empty cationic liposomes, empty cationic micelles, or empty cationic emulsions), and wherein the first composition is free, or essentially free, of nucleic acid molecules; and b) administering (e.g., systemically) a second composition to the subject be initiated (or completed) within about 2 . . . 10 . . . 25 . . . 100 . . . 200 or 400 minutes of administering the first composition, wherein the second composition comprises a therapeutically effective amount of expression vectors (e.g., plasmid), wherein the expression vectors are CpG-free or CpG-reduced (e.g., the nucleic acid sequence of the expression vector has been altered to contain fewer CpG di-nucleotides than normally present in the wild-type version of the sequences in the vector) or are CpG-containing vectors (e.g, the the wild-type C-CSF is employed, which contains a plurality of CpG dinucleotides), wherein the expression vectors each comprise nucleic acid sequence(s) encoding: i) a first therapeutic protein (or first and second therapeutic proteins, or first, second, and third therapeutic proteins, etc.), and/or ii) a first biologically active nucleic acid molecule (or first and second or more biologically active nucleic acid molecules), and wherein, as a result of the administering the first composition and the administering the second composition, and wherein, as a result of administering the first and second compositions, the therapeutic protein(s) and/or the biologically active nucleic acid molecule(s) is/are expressed in the subject at a therapeutic level with respect to the disease or condition, or at an effective level sufficient to alter the physiological or disease trait.
In certain embodiments, the expression vectors are not associated with polycationic structures (e.g., empty cationic liposomes, empty cationic micelles, or empty cationic emulsions)), or other molecules, in the second composition (and there are no detectable polycationic structures present in the second composition). In other embodiments, the expression vectors are naked, non-viral, expression vectors (e.g., plasmids). In certain embodiments, the expression vectors are viral expression vectors (e.g., adeno-associated viral vector or adenovirus vector or synthetic mRNA, miRNA, ribozyme or shRNA nucleic acid vectors). In particular embodiments, the first and/or second composition is administered systemically, regionally, transcutaneously, intradermally, orally, intramuscularly, intravenously, into the gastrointestinal tract, bladder or by pulmonary inhalation, or by an intrathecal or intraventricular route.
In certain embodiments, the therapeutic protein or proteins and/or biologically active nucleic acid molecule or molecules is/are expressed at the therapeutic or effective level in the subject on consecutive days for at least 5 . . . 20 . . . 63 . . . 100 . . . 200 . . . 300 days . . . 1 year or more. In some embodiments, the methods further comprise: c) testing the subject (e.g., body imaging or scanning), or a sample (e.g., blood, serum, plasma, tissue, urine, etc.) from the subject, after at least 5 . . . 20 . . . 63 . . . 100 . . . 200 . . . 300 days . . . or 1 year from the administering the first and second compositions, and determining that the therapeutic protein(s) and/or biologically active nucleic acid molecule(s) is/are being expressed in the subject at the therapeutic or effective level (e.g., therapeutic levels have been sustained in the subject for a time period required to produce therapeutic and/or prophylactic effects in the subject due the single treatment of the first and second compositions). In additional embodiments, the methods further comprise: d) generating a written and/or electronic report that indicates the therapeutic protein and/or biologically active nucleic acid molecule is/are being expressed in the subject at the therapeutic or effective level (e.g., for a certain amount of time). In other embodiments, the report is sent to the treating clinician or practitioner and/or patient from a lab that conducted the test.
In some embodiments, the therapeutic protein and/or biologically active nucleic acid molecule is/are expressed at a level of at least 50 pg/ml . . . 100 . . . 500 . . . 1000 . . . 1500 . . . 4000 . . . 8000 . . . 9500 . . . 1,000,000 pg/ml (1 ug/ml) . . . 1.5 ug/ml or higher, and wherein a blood, serum, or plasma sample (or other biological sample) from the subject is assayed to determine that the therapeutic or effective level is achieved for at least 5 . . . 7 . . . 10 . . . 25 . . . 45 . . . 63 . . . 150 . . . 300 days, or longer, after the administration of the first and second compositions. In other embodiments, the therapeutic protein(s) is/are expressed at a level that is at least 50 pg/ml or at least 100 pg/ml or at least 500, 1,000,000 pg/ml (1 ug/ml) . . . 1.5 ug/ml or higher, and wherein the therapeutic protein is expressed at the level in the subject for at least 5 . . . 7 . . . 10 . . . 25 . . . 45 . . . 63 . . . 150 . . . 300 . . . 350 consecutive days. In certain embodiments, the therapeutic protein and/or biologically active nucleic acid molecule is expressed (e.g., at therapeutic levels) in the subject without clinically significant elevated toxicity (e.g., as measured by ALT (alanine aminotransferase) and/or AST (aspartate aminotransferase)) after at least 48 hours following the administration of the first and second compositions.
In certain embodiments, the therapeutic protein is human G-CSF (e.g., as encoded by SEQ ID NO:1, or sequence with at least 98% identity with SEQ ID NO:1) and is expressed in the subject at a therapeutic level of at least 100 pg/ml as measured in a blood, serum, or plasma sample, wherein the therapeutic protein is expressed in the subject for at least seven days, and wherein the disease, condition, or physiological trait is selected from the group consisting of: neutropenia caused by chemotherapy, non-elevated levels of hematopoietic stem cells in blood of a stem cell donor or recipient, heart degeneration, cerebral ischemia, amyotrophic lateral sclerosis, neutrophil deficiency diseases, and radiation exposure. In particular embodiments, the G-CSF is expressed for at least 5, or 6, or 7 days, but no more than about 10 days (e.g., using drugs, promoter/enhancer combinations, additional expression cassette within the nucleic acid vector or additional expressed proteins to limit production to about 10 days to avoid any toxic neutrophilia-related side effects by expression beyond about days). In other embodiments, the therapeutic protein is Rituximab or similar anti-CD20 antibody or antibody fragment. In some embodiments, the therapeutic protein is human Factor IX or similar protein.
In particular embodiments, the therapeutic protein or proteins and/or biologically active nucleic acid molecule or molecules is/are expressed in the subject for a sufficient amount of time at the therapeutic level to reduce or eliminate the at least one symptom (or all symptoms) without the subject having to receive any other treatment that provides the therapeutic protein(s) and/or biologically active nucleic acid molecule(s) to the subject. In further embodiments, during the sufficient time, the subject does not receive any other specific treatment (e.g., no other specific therapeutic treatment that provides the therapeutic protein or biologically active nucleic acid molecule(s) to the subject). In certain embodiments, the subject has multiple symptoms of a disease or diseases, and wherein the sufficient amount of time is such that all or substantially all of the multiple symptoms of the disease(s) and/or the condition(s) are reduced or eliminated in the subject (e.g., permanently, or for at least 20 days . . . 50 days . . . 200 days . . . 1 year or longer). In other embodiments, during the sufficient time, the subject does not receive the any other disease-specific treatment.
In some embodiments, the first amount of the polycationic structures (e.g., empty cationic liposomes, empty cationic micelles, or empty cationic emulsions) is about 0.01-70, 30-50, or 20-60, μmoles per 1 kilogram of the subject (e.g., 0.01 . . . 1 . . . 10 . . . 20 . . . 40 . . . or 60 μmoles per kilogram). In other embodiments, the ratio of the first amount of the polycationic structures (e.g., empty cationic lipids) to the therapeutically effective amount of the expression vectors is 0.5:1 to 25:1, nmoles of polycationic structures (e.g., empty cationic lipids) to 1 μg of expression vectors (e.g., 0.5:1 . . . 1:1 . . . 4:1 . . . 8:1 . . . 12:1 . . . 17:1 . . . 21:1 . . . or 25:1). In certain embodiments, the ratio of the first amount of the polycationic structures (e.g., empty cationic lipids) to the therapeutically effective amount of the expression vectors is 7:1 to 13:1, nmoles of polycationic structures (e.g., empty cationic lipids) to 1 μg of expression vectors. In particular embodiments, the therapeutically effective amount of the expression vectors is 0.001-8.0 milligrams of the expression vectors per 1 kilogram of the subject (e.g., 0.001 . . . 0.1 . . . 3.0 . . . 4.5 . . . 5.7 . . . 7.1 . . . 8.0 milligrams per kilogram). In some embodiments, the therapeutically effective amount of expression vectors is 0.001 to 1 μg per 1 kilogram of the subject (e.g., 0.001 . . . 0.01 . . . 0.1 . . . 1 μg per kilogram of subject). In certain embodiments, the therapeutically effective amount of the expression vectors is about 0.01-4.0 milligrams of the expression vectors per 1 kilogram of the subject.
In some embodiments, the first nucleic acid sequence encodes the first or first and second, or first, second, and third, therapeutic protein(s). In additional embodiments, the first nucleic acid sequence encodes the biologically active nucleic acid molecule(s). In other embodiments, the subject is a human. In additional embodiments, the expression vectors are CpG-free. In other embodiments, the expression vectors are CpG-reduced. In other embodiments, the therapeutic protein(s) is/are human protein(s) or animal protein(s).
In some embodiments, the polycationic structures do not contain cholesterol (e.g., cholesterol free empty cationic micelles or liposomes). In certain embodiments, the cationic liposomes each comprise at least 60% DOTAP and/or DPTAP (e.g., 60% . . . 75% . . . 85% . . . 95% . . . 98% . . . 100% DOTAP and/or DPTAP). In other embodiments, all or substantially all of the cationic liposomes are multi-lamellar vesicles. In further embodiments, all or substantially all of the cationic liposomes are uni-lamellar vesicles. In further embodiments, the cationic liposomes each comprise at least 99% DOTAP or 99% DPTAP. In further embodiments, the empty cationic liposomes each comprise DOTAP and cholesterol. In additional embodiments, the cationic liposomes each comprise about one-third cholesterol and about two-thirds DOTAP and/or DPTAP. In further embodiments, the first nucleic acid sequence encodes human G-CSF (e.g., as shown in SEQ ID NO:1).
In certain embodiments, the biologically active nucleic acid molecule(s) comprises sequence(s) selected from: shRNA sequence(s), miRNA sequence(s), antisense sequence(s), ribozyme(s), and/or CRISPR single guide RNA sequence(s) (sgRNA). In other embodiments, the CRISPR sgRNA comprises: i) a Cas9 nuclease-recruiting sequence (tracRNA), and ii) a target-specific sequence (crRNA) that hybridizes to a sgRNA target site. In particular embodiments, the biologically active nucleic acid molecule targets human p65 (aka, NF-kappa-B p65 or RELA). Any desired combination of one or more RNA sequences may be encoded in a vector or in combination with non-RNA encoded molecules of interest. For example, in some embodiments, multiple expression cassettes (e.g., 2, 3, 4, etc.) are included in the vector, each expressing a different molecule of interest. In some embodiments, the molecules of interest comprise multiple single CRISPR/Cas9 guide cassettes contained in the vector.
In further embodiments, each of the expression vectors further comprises a second nucleic acid sequence encoding: i) a second therapeutic protein, and/or ii) a second biologically active nucleic acid molecule. In some embodiments, each of the expression vectors further comprises a third nucleic acid sequence encoding: i) a third, and/or fourth therapeutic protein, and/or ii) a third, and/or fourth biologically active nucleic acid molecule. In further embodiments, each of the expression vectors further comprise a first promoter associated with the first nucleic acid sequence, and a second promoter associated with the second nucleic acid sequence, and wherein the first and second promoters are the same or different. In other embodiments, the therapeutic or effective expression level of the first nucleic acid sequence and/or the length of time of the therapeutic or effective expression level, is reduced compared to the expression level or the length of time, when the second nucleic acid is not present and/or expressed from the expression vectors. In other embodiments, the first nucleic acid sequence is expressed at the therapeutic level for at least 5 days, but less than 21 days (e.g., 5 . . . 7 . . . 13 . . . 16 . . . 20 . . . and 21 days). In certain embodiments, the first nucleic acid sequence encodes the therapeutic protein, and wherein the therapeutic protein comprises human G-CSF.
In other embodiments, the expression vector provides the expression at the therapeutic or effective level for a first length of time and/or at a first level of expression when each of the expression vectors comprises a first promoter and first enhancer associated with the first nucleic acid sequence, and wherein the first length of time and/or expression level is altered when a second promoter, different from the first promoter, replaces the first promoter, and/or a second enhancer, different from the second enhancer, replaces the second promoter, on the expression vectors. In other embodiments, the expression at the therapeutic or effective level for a first length of time is for at least 10 . . . 15 . . . 45 . . . 100 . . . 200 . . . 300 days, and wherein replacement with the second promoter and/or second enhancer reduces expression at the therapeutic or effective level to a second length of time that is less than 10 . . . 15 . . . 45 . . . 100 . . . 200 days. In other embodiments, each of the expression vectors comprises a first promoter and a first enhancer, and wherein the first promoter and the first enhancer cause expression at the therapeutic level for at least 5 days, but less than 21 . . . 15 . . . or 10 days. In particular embodiments, the first nucleic acid sequence encodes the therapeutic protein, and wherein the therapeutic protein comprises human G-CSF.
In some embodiments, the methods further comprise administering a drug agent or agents, either in the first and/or second composition, or present in a third composition, wherein the drug agent or agents increase or decrease the expression of the first nucleic acid (e.g., at the therapeutic or effective level, and/or the length of time of the expression at the therapeutic or effective level), compared to when the drug agent or agents are not administered to the subject. In particular embodiments, the drug agent increases the expression level of the first nucleic acid in the subject, and wherein the drug is selected from colchicine, an immunosuppressant, dexamethasone, dexamethasone palmitate, sildenafil, or L-arginine+sildenafil. In certain embodiments, the drug (e.g., dexamethasone or dexamethasone palmitate) is present at between 2.0% and 20.0% of a polycationic structure (e.g., empty cationic lipid composition), such as at 2.0% . . . 2.5% . . . 3.5% . . . 4.5% . . . 6.0% . . . 15% . . . or 20%). In other embodiments, the drug (e.g., dexamethasone or dexamethasone palmitate), is administered to the subject before or after the polycationic structure and vector compositions are administered. In certain embodiments, the polycationic structures (e.g., empty liposomes) present in the first composition have a z-average diameter of about 20-85 nm (e.g., 20 . . . 25 . . . 30 . . . 40 . . . 45 . . . 50 . . . 55 . . . 60 . . . 65 . . . 70 . . . 75 . . . 80 . . . 85 nm). In certain embodiments, the polycationic structures are empty liposomes with a z-average diameter of about 72-76 nm, and are small uni-lammellar vesicles. In some embodiments, drug agents (e.g., dexamethasone) are provided to a subject prior to dosing of the first and/or second composition, in addition to incorporating such agents into the first composition.
In other embodiments, the therapeutic protein is expressed at a level of at least two times higher (or at least 3 or 4 or 5 times higher) when the drug agent is administered to the subject compared to when the drug agent is not administered to the subject. In particular embodiments, the drug agent decreases the expression level of the first nucleic acid sequence, and wherein the drug agent is L-arginine. In further embodiments, the therapeutic protein is expressed at a level of at least two times (or at least three times or four times) lower when the drug agent is administered to the subject compared to when the drug agent is not administered to the subject. In some embodiments, the drug agent comprises an anti-inflammatory agent. In additional embodiments, the drug agent is selected from the group consisting of: amlexanox, chloroquine, valproic acid, theophylline, DHA, prostaglandin, and SAHA.
In further embodiments, the expression vectors are free of operable matrix attachment region (MAR) sequences. In certain embodiments, the expression vectors are free of operable EBNA-1 and/or EBV viral sequences. In certain embodiments the subject's blood pressure, immediately prior to said administering said first and second compositions, is not altered (e.g., no physical transfection aids are applied to the subject to attempt to increase expression of the first nucleic acid sequence). In certain embodiments, the expression vectors comprise at least one of the following: an R6K origin of replication (e.g., located in the 3′ or 5′ UTR of a gene in the vector), an hr3 enhancer, a BV3 signal sequence, a Syn21 sequence, a delta-p10 sequence, or an MITD (MHC class I trafficking signal) sequence.
In particular embodiments, the therapeutic level and/or effective level is at least 150 . . . 100 . . . 500 . . . 1000 . . . 1500 . . . 5000 . . . 1,000,000 pg/ml (1 ug/ml) . . . 1.5 ug/ml or higher, and wherein a blood, serum, or plasma sample (or other biological sample) from the subject is determined to be at the therapeutic level and/or effective level at least 7 . . . 10 . . . 25 . . . 45 . . . 63 . . . 150 . . . 300 . . . 400 days or more after the administration of the first and second compositions. In particular embodiments, the sample from the subject is tested with an ELISA assay or by mass spectrometry to determine the expression level.
In some embodiments, the methods further comprise administering a therapeutically effective amount of neutral liposomes to the subject, wherein the neutral liposomes are present in the first and/or second composition, and/are administered in a third composition, and wherein the therapeutically effective amount of neutral liposomes are administered to the subject prior to the administering the second composition. In certain embodiments, the neutral liposomes comprise at least material selected from: phospholipon 90H, hydrogenated soy PC, stearic and palmitic. In other embodiments, the therapeutically effective amount of neutral liposomes are present in the first composition or present in a third composition administered to the subject. In further embodiments, the neutral liposomes are multilamellar vesicles or extruded to 0.2 or 0.1 um. In particular embodiments, administering the therapeutically effective amount of the neutral liposomes causes expression of the first therapeutic protein and/or the biologically active nucleic acid molecule in the subject that is at least 3 . . . 4 . . . 25 . . . 100 . . . 350 . . . or 600 times higher than occurs when the neutral liposomes are not administered to the subject. In certain embodiments, the ratio of empty cationic liposomes to the neutral liposomes administered to the subject is between about 2:1 and 1:5 (e.g., 2:1 . . . 1:1 . . . 2:5 . . . 1:5).
In some embodiments, provided herein are methods of expressing a first therapeutic protein and/or a biologically active nucleic acid molecule in a subject comprising: a) administering a first composition to a subject, wherein the first composition comprises an anti-inflammatory agent; and b) administering or initiating administration of, a second composition to the subject within about 2 minutes . . . 20 minutes . . . 1 hour . . . 24 hours . . . 5 days . . . 7 days . . . 9 days or more of administering the first composition, wherein the second composition comprises a therapeutically effective amount of polyplexes, wherein each polyplex comprises an expression vector and polyethylenimine, wherein the expression vector is CpG-free or CpG-reduced, wherein each expression vector comprises a first nucleic acid sequence encoding: i) a first therapeutic protein (and/or first and second proteins), and/or ii) a first (and/or first and second) biologically active nucleic acid molecule, and wherein, as a result of administering the first composition and administering the second composition, the first therapeutic protein and/or the biologically active nucleic acid molecule is/are expressed in the subject. In further embodiments, the subject has at least one symptom of a disease or condition, or has at least one physiological trait desired to be altered, and wherein the first therapeutic protein and/or the biologically active nucleic acid molecule is expressed at a therapeutic level with respect to the disease, condition, or physiological trait to be altered. In some embodiments, the anti-inflammatory agent is selected from the group consisting of amlexanox, chloroquine, and suberanilohydroxamic acid (SAHA).
In some embodiments, the expression vector comprises a plasmid or other non-viral vector. In further certain embodiments, the administration in step b) is accomplished by systemically administering the second composition.
In some embodiments, provided herein are systems or kits comprising: a) a first composition comprising a first amount of polycationic structures (e.g., empty cationic liposomes, empty cationic micelles, or empty cationic emulsions), wherein the first composition is free, or essentially free, of nucleic acid molecules; and b) a second composition comprises a therapeutically effective amount of expression vectors (e.g., non-viral and not associated with liposomes or other carrier molecules), wherein the expression vectors are CpG-free or CpG-reduced, wherein each of the expression vectors comprises a first nucleic acid sequence encoding: i) a first therapeutic protein or non-therapeutic protein, and/or ii) a first biologically active nucleic acid molecule. In other embodiments, the expression vectors are a naked, non-viral expression vectors (e.g., plasmid). In certain embodiments, at least one of the following applies: i) wherein the ratio of the first amount of the polycationic structure (e.g., empty cationic liposome) to the therapeutically effective amount of expression vectors is 2:1 to 25:1 or 5:1 to 25:1; ii) wherein 2.0% to 20.0% of the first composition comprises dexamethasone palmitate; iii) wherein the first composition further comprises neutral lipid, and iv) wherein the polycationic structures comprise empty liposomes, and wherein the empty liposomes present in the first composition have a z-average diameter of about 20-85 nm (e.g., 20 . . . 25 . . . 30 . . . 40 . . . 45 . . . 50 . . . 55 . . . 60 . . . 65 . . . 70 . . . 75 . . . 80 . . . 85 nm). In certain embodiments, the vectors are viral vectors (e.g., AAV or adeno viral vectors). In particular embodiments, the therapeutic protein is human G-CSF (e.g., as shown in SEQ ID NO:1), or the wild-type human G-CSF which contains a plurality of CpG dinucleotides.
In particular embodiments, the first amount of the polycationic structure (e.g., empty cationic liposomes) is between 0.1 to 7.0 millimoles (e.g., 0.1 . . . 5.0 . . . 7.0 millimoles) or 1.5 and 5.0 millimoles (e.g., suitable amount for administration to a human subject). In other embodiments, the ratio of the first amount of the polycationic structure (e.g., empty cationic liposome) to the therapeutically effective amount of the expression vectors is 0.5:1 to 25:1, nmoles of empty cationic lipid to 1 μg of expression vectors (e.g., 0.5:1 . . . 1:1 . . . 5:1 . . . 10:1 . . . 15:1 . . . 25:1). In some embodiments, the ratio of the first amount of the polycationic structure (e.g., empty cationic lipid) to the therapeutically effective amount of the expression vectors is 7:1 to 13:1, nmoles of polycationic structure to 1 μg of expression vectors (e.g., 7:1 . . . 10:1 . . . or 13:1). In other embodiments, the therapeutically effective amount of the expression vectors is between 0.1 and 800 milligrams (e.g., suitable amount for administration to a human subject, such as when the vector is a plasmid). In certain embodiments, the amount is 1 . . . 25 . . . 400 . . . or 800 milligrams of expression vectors for human administration.
In other embodiments, the first nucleic acid sequence encodes the first therapeutic protein. In additional embodiments, the first nucleic acid sequence encodes the biologically active nucleic acid molecule. In particular embodiments, the expression vectors are CpG-free. In other embodiments, the expression vectors are CpG-reduced. In further embodiments, the first therapeutic protein is a human protein. In other embodiments, the first nucleic acid sequence encodes the therapeutic protein, and wherein the therapeutic protein comprises human G-CSF, Rituximab, a monoclonal antibody or monoclonal antibody fragment (e.g., Fab), or human Factor IX.
In certain embodiments, the empty cationic liposomes, micelles, or emulsions, each comprise at least 60% DOTAP and/or DPTAP (e.g., 60% . . . 75% . . . 85% . . . 95% . . . 98 . . . 100% DOTAP and/or DPTAP), and may be cholesterol-free (e.g., no detectable cholesterol in the composition). In other embodiments, all or substantially all of the empty cationic liposomes, micelles, or emulsions are multilamellar vesicles. In further embodiments, all or substantially all of the empty cationic liposomes, micelles, or emulsions are either unilamellar, multilamellar, or oligolamellar vesicles. In further embodiments, the empty cationic liposomes, micelle, or emulsions each comprise at least 99% DOTAP or at least 99% DPTAP, and may be cholesterol free. In further embodiments, the empty cationic liposomes each comprise DOTAP and/or DPTAP and cholesterol. In additional embodiments, the empty cationic liposomes, micelles, or emulsions each comprise about one-third cholesterol and about two-thirds DOTAP and/or DPTAP.
In certain embodiments, the first biologically active nucleic acid molecule comprises a sequence selected from: an siRNA or shRNA sequence, a miRNA sequence, an antisense sequence, a CRISPR multimerized single guide, and a CRISPR single guide RNA sequence (sgRNA). In other embodiments, the CRISPR sgRNA comprises: i) a Cas9 nuclease-recruiting sequence (tracRNA), and ii) a target-specific sequence (crRNA) that hybridizes to a sgRNA target site.
In further embodiments, each of the expression vectors further comprises a second nucleic acid sequence encoding: i) a second therapeutic protein, and/or ii) a second biologically active nucleic acid molecule. In further embodiments, each of the expression vectors further comprise a first promoter associated with the first nucleic acid sequence, and a second promoter associated with the second nucleic acid sequence, and wherein the first and second promoters are the same or different.
In some embodiments, the kits and systems further comprise a first container and a second container, and wherein the first composition is present in the first container and the second composition is present in the second container. In other embodiments, kits and systems further comprise a packaging component (e.g., cardboard box, plastic pouch, etc.), wherein the first container and the second container are inside the packaging component.
In certain embodiments, the kits and systems further comprise a drug agent or drug agents, wherein the drug agent(s) are present in the first and/or second compositions, or is present in a third composition. In additional embodiments, the drug agent is selected from colchicine, an immunosuppressant, dexamethasone, sildenafil, L-arginine, or L-arginine+sildenafil. In further embodiments, the drug agent comprises an anti-inflammatory agent. In further embodiments, the drug agent is selected from the group consisting of: amlexanox, valproic acid, theophylline, chloroquine, and SAHA.
In particular embodiments, the expression vectors are free of operable matrix attachment region (MAR) sequences. In additional embodiments, the expression vectors are free of operable EBNA-1 and/or EBV viral sequences.
In certain embodiments, the kits and systems further comprise a therapeutically effective amount of neutral liposomes, wherein the neutral liposomes are present in the first and/or second compositions, or is present in a third composition. In additional embodiments, the therapeutically effective amount of neutral liposomes are present in the first composition. In other embodiments, the neutral liposomes are multilamellar or oligo- or uni-lamellar vesicles. In further embodiments, the ratio of empty cationic liposomes or micelles to the neutral liposomes is between about 2:1 and 1:5 (e.g., 2:1 . . . 1:1 . . . 3:5 . . . 1:5).
In some embodiments, provided herein are a first composition and a second, separate, composition for combined use in the treatment of a disease amenable to treatment with in vivo expression of a first therapeutic protein and/or biologically active nucleic acid molecule, wherein the first composition comprises a first amount of polycationic structures (e.g., empty cationic liposomes, empty cationic micelles, or empty cationic emulsions), wherein the first composition is free, or essentially free, of nucleic acid molecules; and b) a second composition that comprises a therapeutically effective amount of expression vectors, wherein the expression vectors are CpG-free or CpG-reduced, wherein each of the expression vectors comprises a first nucleic acid sequence encoding: i) a first therapeutic protein, and/or ii) a first biologically active nucleic acid molecule.
In certain embodiments, provided herein are methods of expressing a first therapeutic protein and/or a biologically active nucleic acid molecule in a subject comprising: a) administering a first composition to a subject, wherein the first composition comprises a first amount of polycationic structures (e.g., empty cationic liposomes, empty cationic micelles, or empty cationic emulsions), and wherein the first composition is free, or essentially free, of nucleic acid molecules; and b) administering a second composition to the subject within about 100 minutes or 200 minutes of administering the first composition, wherein the second composition comprises a therapeutically effective amount of non-viral expression vectors, wherein the expression vectors are CpG-free or CpG-reduced, wherein the expression vectors each comprise a first nucleic acid sequence encoding: i) a first therapeutic protein, and/or ii) a first biologically active nucleic acid molecule, and wherein, as a result of administering the first composition and administering about the second composition, the first therapeutic protein and/or the biologically active nucleic acid molecule is/are expressed in the subject at a level above (e.g., at least 150 . . . 300 . . . 575 . . . 1000 . . . 1500 . . . 2000 . . . 5000 . . . or 1,000,000 pg/ml) (e.g., as measured in a serum sample from the subject (e.g., after 7 . . . 25 . . . 50 days from the first and second administrations).
In certain embodiments, provided herein are methods comprising: administering a composition to a subject comprising a therapeutically effective amount of non-viral expression vectors that are CpG-free or CpG-reduced, or CpG containing vectors, and comprise a first nucleic acid sequence encoding: i) a first therapeutic protein, and/or ii) a first biologically active nucleic acid molecule, and wherein, as a result of administering the first and second compositions, the first therapeutic protein and/or the biologically active nucleic acid molecule is/are expressed in the subject at a level above 100 pg/ml (e.g., at least 150 . . . 400 . . . 1200 . . . 2000 . . . 5000 . . . or more than 1,000,000 pg/ml) (e.g., as measured in a serum sample from the subject (e.g., after 7 . . . 25 . . . 50 days from the first and second administrations).
In certain embodiments, the polycationic structures comprise empty cationic liposomes, micelles, or emulsions. In other embodiments, the polycationic structures comprise one or more of the following, either alone or combined with polycationic structures: linear or branched polyethyleneimine, dendrimers (e.g., 4th generation pamaam dendrimer based on ethylene diamine, polylysine, polyarginine, and protamine sulfate), poly-lysine, and protamine sulfate. In certain embodiments, the polycationic structures are provided as a cationic emulsion. In particular embodiments, the surfactants in the emulsions are selected from: cetylpyridinium chloride, cetyltrimethylammonium bromide or the like. In other embodiments, the emulsions further comprise a neutral component, such as tweens, spans and triglycerides. In particular embodiments, the emulsions comprise a cationic lipid, such as, for example, DOTAP, DPTAP, DOTMA, or DDAB. In some embodiments, the emulsions are self-emulsifying emulsions or microemulsions (SEDDS, SMEDDS).
In some embodiments, provided herein are methods of expressing a first and second proteins and/or first and second biologically active nucleic acid molecules in a subject comprising: a) administering a first composition to a subject, wherein the subject has at least one symptom of a disease or condition, or has at least physiological trait to be altered, wherein said first composition comprises a first amount of polycationic structures, and wherein said first composition is free, or essentially free, of nucleic acid molecules; and b) administering a second composition to said subject within about 100 minutes of administering the first composition, wherein the second composition comprises a therapeutically effective amount of expression vectors, wherein the expression vectors are non-viral and are CpG-free or CpG-reduced, wherein the expression vectors each comprise: i) a first expression cassette encoding: A) a first protein, and/or B) a first biologically active nucleic acid molecule, and ii) a second expression cassette encoding: A) a second protein and/or B) a second biologically active nucleic acid molecule. In certain embodiments, as a result of the administering the first composition and the administering the second composition, the first and second proteins and/or said first and second biologically active nucleic acid molecule is/are expressed in the subject at a therapeutic level with respect to the disease or condition, or at an effective level sufficient to alter said physiological or disease trait.
In particular embodiments, the first protein comprises a monoclonal antibody light chain, and the second protein comprises a heavy chain of said monoclonal antibody. In other embodiments, the first and second expression cassettes both comprise regulatory elements. In additional embodiments, the regulatory elements are the same or different in said first and second expression cassettes.
In some embodiments, provided herein are methods of expressing a monoclonal antibody (mAb), Fab, F(ab)2, and/or scFv in a subject comprising: a) administering a first composition to a subject, wherein the subject has at least one symptom of a disease or condition, or has at least physiological trait to be altered, wherein the first composition comprises a first amount of polycationic structures, and wherein the first composition is free, or essentially free, of nucleic acid molecules; and b) administering a second composition to the subject within about 300 minutes of administering the first composition, wherein the second composition comprises a therapeutically effective amount of expression vectors encoding the mAb, the Fab, the F(ab)2, and/or scFv, and wherein, as a result of the administering the first composition and the administering the second composition, the first therapeutic protein is expressed in the subject at a therapeutic level with respect to the disease or condition, or at an effective level sufficient to alter the physiological or disease trait.
In certain embodiments, the ratio of the first amount of the polycationic structures to the therapeutically effective amount of expression vectors is 5:1 to 25:1. In further embodiments, the expression vectors are CpG-free or CpG-reduced. In other embodiments, the expression vectors contain a plurality of CpG motifs, and/or are not CpG-free or CpG-reduced. In additional embodiments, the mAb, the Fab, the F(ab)2, and/or the scFv is/are expressed at a therapeutic level in the subject for at least 7 consecutive days without any further administering. In other embodiments, the at least 7 consecutive days is at least 190 consecutive days without any further administering.
In some embodiments, the F(ab)2 is selected from the group consisting of: F(ab′)2 Afelimomab, Alacizumab pegol, Dorlimomab aritox, Erlizumab, and Igovomab. In additional embodiments, the Fab is selected from the group consisting of: Abciximab, Anatumomab mafenatox, Citatuzumab bogatox, Nacolomab tafenatox, Naptumomab estafenatox, Nofetumomab merpentan, Ranibizumab, Tadocizumab, Telimomab aritox, Arcitumomab, Bectumomab, Biciromab, Certolizumab pegol, and Sulesomab. In certain embodiments, the scFv is selected from the group consisting of: Efungumab, Oportuzumab monatox, and Pexelizumab.
In particular embodiments, the mAb is selected from the group consisting of: 3F8, 8H9, Abagovomab, Abituzumab, Abrilumab, Actoxumab, Adalimumab, Adecatumumab, Aducanumab, Afasevikumab, Afutuzumab, Alemtuzumab, Alirocumab, Altumomab pentetate, Amatuximab, Anetumab ravtansine, Anifrolumab, Anrukinzumab, Apolizumab, Ascrinvacumab, Aselizumab, Atezolizumab, Atinumab, Atlizumab, Atorolimumab, Avelumab, Bapineuzumab, Basiliximab, Bavituximab, Begelomab, Belimumab, Benralizumab, Bertilimumab, Besilesomab, Bevacizumab, Bezlotoxumab, Bimagrumab, Bimekizumab, Bivatuzumab mertansine, Bleselumab, Blontuvetmab, Blosozumab, Bococizumab, Brazikumab, Brentuximab vedotin, Briakinumab, Brodalumab, Brolucizumab, Brontictuzumab, Burosumab, Cabiralizumab, Canakinumab, Cantuzumab mertansine, Cantuzumab ravtansine, Caplacizumab, Capromab pendetide, Carlumab, Carotuximab, cBR96-doxorubicin immunoconjugate, Cedelizumab, Cergutuzumab amunaleukin, Cetuximab, Ch. 14.18, Cixutumumab, Clazakizumab, Clenoliximab, Clivatuzumab tetraxetan, Codrituzumab, Coltuximab ravtansine, Conatumumab, Concizumab, CR6261, Crenezumab, Crotedumab, Dacetuzumab, Daclizumab, Dalotuzumab, Dapirolizumab pegol, Daratumumab, Dectrekumab, Demcizumab, Denintuzumab mafodotin, Denosumab, Depatuxizumab mafodotin, Derlotuximab biotin, Detumomab, Dinutuximab, Diridavumab, Domagrozumab, Drozitumab, Duligotumab, Dupilumab, Durvalumab, Dusigitumab, Ecromeximab, Eculizumab, Edobacomab, Edrecolomab, Efalizumab, Eldelumab, Elgemtumab, Elotuzumab, Elsilimomab, Emactuzumab, Emibetuzumab, Emicizumab, Enavatuzumab, Enfortumab vedotin, Enlimomab pegol, Enoblituzumab, Enokizumab, Enoticumab, Ensituximab, Epitumomab cituxetan, and Epratuzumab.
In some embodiments, the mAb is selected from the group consisting of: Erenumab, Etaracizumab, Etrolizumab, Evinacumab, Evolocumab, Exbivirumab, Fanolesomab, Faralimomab, Farletuzumab, Fasinumab, Felvizumab, Fezakinumab, Fibatuzumab, Ficlatuzumab, Figitumumab, Firivumab, Flanvotumab, Fletikumab, Fontolizumab, Foralumab, Foravirumab, Fresolimumab, Fulranumab, Futuximab, Galcanezumab, Galiximab, Ganitumab, Gantenerumab, Gavilimomab, Gemtuzumab ozogamicin, Gevokizumab, Girentuximab, Glembatumumab vedotin, Golimumab, Gomiliximab, Guselkumab, Ibalizumab, Ibritumomab tiuxetan, Icrucumab, Idarucizumab, IMAB362, Imalumab, Imciromab, Imgatuzumab, Inclacumab, Indatuximab ravtansine, Indusatumab vedotin, Inebilizumab, Infliximab, Inolimomab, Inotuzumab ozogamicin, Intetumumab, Ipilimumab, Iratumumab, Isatuximab, Itolizumab, Ixekizumab, Keliximab, Labetuzumab, Lampalizumab, Lanadelumab, Landogrozumab, Laprituximab emtansine, Lebrikizumab, Lemalesomab, Lendalizumab, Lenzilumab, Lerdelimumab, Lexatumumab, Libivirumab, Lifastuzumab vedotin, Ligelizumab, Lilotomab satetraxetan, Lintuzumab, Lirilumab, Lodelcizumab, Lokivetmab, Lorvotuzumab mertansine, Lucatumumab, Lulizumab pegol, Lumiliximab, Lumretuzumab, MABpl, Mapatumumab, Margetuximab, Matuzumab, Mavrilimumab, Mepolizumab, Metelimumab, Milatuzumab, Minretumomab, Mirvetuximab soravtansine, Mitumomab, Mogamulizumab, Monalizumab, Morolimumab, Motavizumab, Moxetumomab pasudotox, Muromonab-CD3, Namilumab, Naratuximab emtansine, Narnatumab, Natalizumab, Navicixizumab, Navivumab, Nebacumab, Necitumumab, Nemolizumab, Nerelimomab, Nesvacumab, Nimotuzumab, Nivolumab, Obiltoxaximab, Obinutuzumab, Ocaratuzumab, Ocrelizumab, Odulimomab, Ofatumumab, Olaratumab, Olokizumab, Omalizumab, Onartuzumab, Ontuxizumab, Opicinumab, Oregovomab, Orticumab, Otelixizumab, Otlertuzumab, Oxelumab, Ozanezumab, Ozoralizumab, Pagibaximab, Palivizumab, Pamrevlumab, Panitumumab, Pankomab, Panobacumab, Parsatuzumab, Pascolizumab, and Pasotuxizumab.
In certain embodiments, the mAb is selected from the group consisting of: Pateclizumab, Patritumab, Pembrolizumab, Perakizumab, Pertuzumab, Pidilizumab, Pinatuzumab vedotin, Pintumomab, Placulumab, Plozalizumab, Pogalizumab, Polatuzumab vedotin, Ponezumab, Prezalizumab, Priliximab, Pritoxaximab, Pritumumab, Quilizumab, Racotumomab, Radretumab, Rafivirumab, Ralpancizumab, Ramucirumab, Raxibacumab, Refanezumab, Regavirumab, Reslizumab, Rilotumumab, Rinucumab, Risankizumab, Rituximab, Rivabazumab pegol, Robatumumab, Roledumab, Romosozumab, Rontalizumab, Rovalpituzumab tesirine, Rovelizumab, Ruplizumab, Sacituzumab govitecan, Samalizumab, Sapelizumab, Sarilumab, Satumomab pendetide, Secukinumab, Seribantumab, Setoxaximab, SGN-CD19A, SGN-CD33A, Sibrotuzumab, Sifalimumab, Siltuximab, Simtuzumab, Siplizumab, Sirukumab, Sofituzumab vedotin, Solanezumab, Sontuzumab, Stamulumab, Suvizumab, Tabalumab, Tacatuzumab tetraxetan, Talizumab, Tamtuvetmab, Tanezumab, Taplitumomab paptox, Tarextumab, Tefibazumab, Tenatumomab, Teneliximab, Teplizumab, Teprotumumab, Tesidolumab, Tetulomab, Tezepelumab, Ticilimumab, Tigatuzumab, Tildrakizumab, Timolumab, Tisotumab vedotin, Tocilizumab, Toralizumab, Tosatoxumab, Tovetumab, Tralokinumab, Trastuzumab, Trastuzumab emtansine, Tregalizumab, Tremelimumab, Trevogrumab, Tucotuzumab celmoleukin, Ublituximab, Ulocuplumab, Urelumab, Urtoxazumab, Ustekinumab, Utomilumab, Vadastuximab talirine, Vandortuzumab vedotin, Vantictumab, Vanucizumab, Vapaliximab, Varlilumab, Vatelizumab, Vedolizumab, Veltuzumab, Vepalimomab, Vesencumab, Visilizumab, Vobarilizumab, Volociximab, Vorsetuzumab mafodotin, Votumumab, Xentuzumab, Zalutumumab, Zanolimumab, Zatuximab, Ziralimumab, and Zolimomab aritox.
In particular embodiments, the disease or condition comprises a viral or bacterial infection. In other embodimetns, the disease or condition comprises cardiovascular disease or atherosclerosis. In further embodiments, the disease or condition comprises an autoimmune disease. In certain embodiments, the disease or condition comprises cancer (e.g., lung cancer, ovarian cancer, skin cancer, lymphoma, brain cancer, prostate cancer, pancreatic cancer, breast cancer, thyroid cancer, colon cancer, etc.). In further embodiments, the method further comprises at least one of the following: i) wherein 2.0% to 20% % of the first composition comprises dexamethasone palmitate; ii) wherein the first composition further comprises neutral lipid; and iii) wherein the polycationic structures comprise empty liposomes, and wherein the empty liposomes present in the first composition have a z-average diameter of about 20-85 nm.
In some embodiments, provided herein are systems and kits comprising: a first composition comprising a first amount of polycationic structures liposomes, wherein the first composition is free, or essentially free, of nucleic acid molecules; and b) a second composition comprising a therapeutically effective amount of expression vectors, wherein the expression vectors comprise nucleic acid sequences encoding a monoclonal antibody (mAb), Fab, F(ab)2, and/or scFv. In further embodiments, the monoclonal antibody (mAb), Fab, F(ab)2, and/or scFv is selected from those recited above and in Table 3 below.
In certain embodiments, at least one of the following applies: i) wherein the ratio of the first amount of the polycationic structures to the therapeutically effective amount of expression vectors is 5:1 to 25:1; ii) wherein 2.0% to 20% of the first composition comprises dexamethasone palmitate; iii) wherein the first composition further comprises neutral lipid; and iv) wherein the polycationic structures comprise empty liposomes, and wherein the empty liposomes present in the first composition have a z-average diameter of about 20-85 nm.
In some embodiments, the neutral lipids comprises 1,2-Dimyristoyl-SN-glycero-3-phosphocholine (DMPC; Dimyristoylphosphatidylcholine). In other embodiments, the neutral lipids are selected from: distearoyl phosphatidyl choline (DSPC), dipalmitoyl phosphatidylcholine (DPPC), palmitoyl oleoyl phosphatidylcholine (POPC), palmitoyl stearoyl phosphatidylcholine (PSPC), egg phosphatidylcholine (EPC), hydrogenated or non-hydrogenated soya phosphatidylcholine (HSPC), or sunflower phosphatidylcholine.
As used herein, the phrase “CpG-reduced” refers to a nucleic acid sequence or expression vector that has less CpG di-nucleotides than present in the wild-type versions of the sequence or vector. “CpG-free” means the subject nucleic acid sequence or vector does not have any CpG di-nucleotides. An initial sequence, that contains CpG dinucleotides (e.g., wild-type version of human G-CSF), may be modified to remove CpG dinucleotides by altering the nucleic acid sequence. Such CpG di-nucleotides can be suitably reduced or eliminated not just in a coding sequence, but also in the non-coding sequences, including, e.g., 5′ and 3′ untranslated regions (UTRs), promoter, enhancer, polyA, ITRs, introns, and any other sequences present in the nucleic acid molecule or vector.
As used herein, “empty liposomes” refers to liposomes that do not contain nucleic acid molecules but that may contain other bioactive molecules (e.g., liposomes that are only composed of the lipid molecules themselves, or only lipid molecules and a small molecule drug).
As used herein, “empty cationic micelles” refers to cationic micelles that do not contain nucleic acid molecules but that may contain other bioactive molecules (e.g., micelles that are only composed of lipid and surfactant molecules themselves, or only lipid and surfactant molecules and a small molecule drug).
As used herein, “empty cationic emulsions” refers to cationic emulsions or microemulsions that do not contain nucleic acid molecules but that may contain other bioactive molecules.
DETAILED DESCRIPTIONThe present invention provides compositions, systems, kits, and methods for expression of one or more biomolecules in a subject, human or non-human mammal, (e.g., at therapeutic levels for the extended periods of time required to produce therapeutic effects). In certain embodiments, compositions, systems, kits, and methods are provided that comprise a first composition comprising polycationic structures (e.g., empty cationic liposomes, cationic micelles, cationic emulsions, or cationic polymers) and a second composition comprising expression vectors (e.g., non-viral expression vectors not associated with liposomes or other carriers) encoding one or more biomolecules of interest.
The present disclosure provides methods, systems, and compositions, that allow a single injection (e.g., intravenous injection) of cationic liposomes, followed shortly thereafter by injection (e.g., intravenous injection) of vectors encoding a therapeutic protein produces circulating protein levels many times (e.g., 2-20 times higher) than the therapeutic serum level for the protein for a prolonged period, such at 190 days or over 500 days. Thus, the approach provided herein allows for successful therapeutic application of systemic non-viral gene delivery.
In addition, the systems, methods, and compositions provided herein provide a versatile (e.g., non-viral) gene delivery and expression platform that can much more precisely control the duration of expression of delivered genes at therapeutic levels. This ability to control the duration of expression of delivered genes addresses a need within the gene therapy field, the ability to control the duration at which proteins are expressed at therapeutic levels. Specifically, there is now a wide and expanding spectrum of FDA-approved, recombinant, secreted human protein therapies. Different approved protein therapies must be present at therapeutic levels for very different durations in order to both effectively and safely treat patients. Recommended treatment durations of different protein therapies vary from less than two weeks (HG-CSF) to the lifetime of the patient (factor IX). For example, recombinant human G-CSF protein, Neupogen, is given daily for only the first 10 days of each three-week chemotherapy cycle. Serum HG-CSF levels return to baseline approximately 14 hours after each daily Neupogen dose. This 10 day treatment schedule is used because its neutrophil increasing effect is indicated only during this approximately 10 day period of chemotherapy-induced neutropenia. G-CSF elevation from days 11 to 21 is generally not beneficial, as the patient's own neutrophil producing capacity returns. Giving Neupogen beyond day 10 can cause toxic, neutrophilia-related side effects. In contrast, anti-TNF antibodies are routinely administered for months or years, and factor IX replacement for the lifetime of the patient. Thus, different proteins must be produced at therapeutic levels for different durations, from less than two weeks to the lifetime of the patient. Therefore, a gene therapy approach that can control the duration of gene expression at therapeutic levels it produces in patients achieves therapeutic endpoints while avoiding toxic side effects for a wide spectrum of now FDA-approved, human therapeutic proteins. Provided herein are various technologies that can be employed to provide this control.
In certain embodiments, the present disclosure employs polycationic structures (e.g., empty cationic liposomes, empty cationic micelles, or empty cationic emulsions) not containing vector DNA, which are administered to a subject prior to vector administration. In certain embodiments, the polycationic structures are cationic lipids and/or are provided as an emulsion. The present disclosure is not limited to the cationic lipids employed, which can be composed, in some embodiments, of one or more of the following: DDAB, dimethyldioctadecyl ammonium bromide; DPTAP (1,2-dipalmitoyl 3-trimethylammonium propane); DHA; prostaglandin, N-[1-(2,3-Dioloyloxy)propyl]-N,N,N-trimethylammonium methylsulfate; 1,2-diacyl-3-trimethylammonium-propanes, (including but not limited to, dioleoyl (DOTAP), dimyristoyl, dipalmitoyl, disearoyl); 1,2-diacyl-3-dimethylammonium-propanes, (including but not limited to, dioleoyl, dimyristoyl, dipalmitoyl, disearoyl) DOTMA, N[1-[2,3-bis(oleoyloxy)]propyl]-N,N,N-trimethylammoniu-m chloride; DOGS, dioctadecylamidoglycylspermine; DC-cholesterol, 3.beta.-[N-(N′,N′-dimethylaminoethane)carbamoyl]cholesterol; DOSPA, 2,3-dioleoyloxy-N-(2(sperminecarboxamido)-ethyl)-N,N-dimethyl-1-propanami-nium trifluoroacetate; 1,2-diacyl-sn-glycero-3-ethylphosphocholines (including but not limited to dioleoyl (DOEPC), dilauroyl, dimyristoyl, dipalmitoyl, distearoyl, palmitoyl-oleoyl); beta-alanyl cholesterol; CTAB, cetyl trimethyl ammonium bromide; diC14-amidine, N-t-butyl-N′-tetradecyl-3-tetradecylaminopropionamidine; 14Dea2, O,O′-ditetradecanolyl-N-(trimethylammonioacetyl) diethanolamine chloride; DOSPER, 1,3-dioleoyloxy-2-(6-carboxy-spermyl)-propylamide; N,N,N,N-tetramethyl-N,N-bis(2-hydroxylethyl)-2,3-dioleoyloxy-1,4-butan-ediammonium iodide; 1-[2-acyloxy)ethyl]2-alkyl (alkenyl)-3-(2-hydroxyethyl-) imidazolinium chloride derivatives such as 1-[2-(9(Z)-octadecenoyloxy)eth-yl]-2-(8(Z)-heptadecenyl-3-(2-hydroxyethyl)imidazolinium chloride (DOTIM), 1-[2-(hexadecanoyloxy)ethyl]-2-pentadecyl-3-(2-hydroxyethyl)imidazolinium chloride (DPTIM); 1-[2-tetradecanoyloxy)ethyl]-2-tridecyl-3-(2-hydroxyeth-yl)imidazolium chloride (DMTIM) (e.g., as described in Solodin et al. (1995) Biochem. 43:13537-13544, herein incorporated by reference); 2,3-dialkyloxypropyl quaternary ammonium compound derivates, containing a hydroxyalkyl moiety on the quaternary amine, such as 1,2-dioleoyl-3-dimethyl-hydroxyethyl ammonium bromide (DORI); 1,2-dioleyloxypropyl-3-dimethyl-hydroxyethyl ammonium bromide (DORIE); 1,2-dioleyloxypropyl-3-dimethyl-hydroxypropyl ammonium bromide (DORIE-HP), 1,2-dioleyloxypropyl-3-dimethyl-hydroxybutyl ammonium bromide (DORIE-HB); 1,2-dioleyloxypropyl-3-dimethyl-hydroxypentyl ammonium bromide (DORIE-HPe); 1,2-dimyristyloxypropyl-3-dimethyl-hydroxylethyl ammonium bromide (DMRIE); 1,2-dipalmityloxypropyl-3-dimethyl-hydroxyethyl ammonium bromide (DPRIE); 1,2-disteryloxypropyl-3-dimethyl-hydroxyethyl ammonium bromide (DSRIE) (e.g., as described in Felgner et al. (1994) J. Biol. Chem. 269:2550-2561, herein incorporated by reference in its entirety). Many of the above-mentioned lipids are available commercially from, e.g., Avanti Polar Lipids, Inc.; Sigma Chemical Co.; Molecular Probes, Inc.; Northern Lipids, Inc.; Roche Molecular Biochemicals; and Promega Corp.
In certain embodiments, the neutral lipids employed with the methods, compositions, systems, and kits includes diacylglycerophosphorylcholine wherein the acyl chains are generally at least 12 carbons in length (e.g., 12 . . . 14 . . . 20 . . . 24 . . . or more carbons in length), and may contain one or more cis or trans double bonds. Examples of said compounds include, but are not limited to, distearoyl phosphatidyl choline (DSPC), dimyristoyl phosphatidylcholine (DMPC), dipalmitoyl phosphatidylcholine (DPPC), palmitoyl oleoyl phosphatidylcholine (POPC), palmitoyl stearoyl phosphatidylcholine (PSPC), egg phosphatidylcholine (EPC), hydrogenated or non-hydrogenated soya phosphatidylcholine (HSPC), or sunflower phosphatidylcholine.
In certain embodiments, the neutral lipids include, for example, up to 70 mol diacylglycerophosphorylethanolamine/100 mol phospholipid (e.g., 10/100 mol 25/100 mol . . . 50/100 . . . 70/100 mol). In some embodiments, the diacylglycerophosphorylethanolamine has acyl chains that are generally at least 12 carbons in length (e.g., 12 . . . 14 . . . 20 . . . 24 . . . or more carbons in length), and may contain one or more cis or trans double bonds. Examples of such compounds include, but are not limited to distearoylphosphatidylethanolamine (DSPE), dimyristoylphosphatidylethanolamine (DMPE), dipalmitoylphosphatidylethanolamine (DPPE), palmitoyloleoylphosphatidylethanolamine (POPE), egg phosphatidylethanolamine (EPE), and transphosphatidylated phosphatidylethanolamine (t-EPE), which can be generated from various natural or semisynthetic phosphatidylcholines using phospholipase D.
In certain embodiments, the present disclosure employs CpG-reduced or CpG-free expression vectors. An initial sequence that contains CpG dinucleotides (e.g., wild-type version of human G-CSF), may be modified to remove CpG dinucleotides by altering the nucleic acid sequence.
In addition, within the coding region, the interface between triplets should be taken into consideration. For example, if an amino acid triplet ends in a C-nucleotide which is then followed by an amino acid triplet which can start only with a G-nucleotide (e.g., Valine, Glycine, Glutamic Acid, Alanine, Aspartic Acid), then the triplet for the first amino acid triplet is changed to one which does not end in a C-nucleotide. Methods for making CpG free sequences are shown, for example, in U.S. Pat. No. 7,244,609, which is herein incorporated by reference. A commercial service provided by INVIVOGEN is also available to produce CpG free (or reduced) nucleic acid sequences/vectors (plasmids). A commercial service provided by ThermoScientific produces CpG free nucleotide.
Provided below in Table 2 are exemplary promoters and enhancers that may be used in the vectors described herein. Such promoters, and other promoters known in the art, may be used alone or with any of the enhancers, or enhancers, known in the art. Additionally, when multiple proteins or biologically active nucleic acid molecules (e.g., two, three, four, or more) are expressed from the same vector, the same or different promoters may be used in conjunction with the subject nucleic acid sequence.
The present disclosure is not limited by the type of therapeutic proteins that is expressed. In certain embodiments, the therapeutic protein comprises an antibody or antibody fragments (e.g., F(ab) or F(ab′)2). In other embodiments, the therapeutic protein is selected from the group consisting of an anti-inflammatory protein, coagulation protein, anti-cancer protein, anti-sepsis protein, etc. Example of therapeutic proteins that can be expressed with the methods, systems, and compositions described herein include the therapeutic monoclonal antibodies (mAbs), Fabs, F(ab)2s, and scFv's that are shown in Table 3 below.
Further examples of therapeutic proteins that can be expressed with the methods, systems, and compositions described herein include the therapeutic monoclonal antibodies (mAbs), Fabs, F(ab)2s, and scFv's, such as broadly neutralizing anti-HIV monoclonals, including antibody 10-1074 (Caskey et al., Nat Med. 2017 February; 23(2):185-191, Epub 2017 Jan. 16, herein incorporated by reference in its entirety); HIV-1 antibody 3BNC117 (Scheid, et al., Nature. 2016 Jul. 28; 535(7613):556-60, herein incorporated by reference in its entirety); and VRC01 (see, e.g., Bar et al., N Engl J Med. 2016 Nov. 24; 375(21):2037-2050, herein incorporated by reference in its entirety).
In some embodiments, compositions and systems herein are provided and/or administered in doses selected to elicit a therapeutic and/or prophylactic effect in an appropriate subject (e.g., mouse, human, etc.). In some embodiments, a therapeutic dose is provided. In some embodiments, a prophylactic dose is provided. Dosing and administration regimes are tailored by the clinician, or others skilled in the pharmacological arts, based upon well-known pharmacological and therapeutic/prophylactic considerations including, but not limited to, the desired level of pharmacologic effect, the practical level of pharmacologic effect obtainable, toxicity. Generally, it is advisable to follow well-known pharmacological principles for administrating pharmaceutical agents (e.g., it is generally advisable to not change dosages by more than 50% at time and no more than every 3-4 agent half-lives). For compositions that have relatively little or no dose-related toxicity considerations, and where maximum efficacy is desired, doses in excess of the average required dose are not uncommon. This approach to dosing is commonly referred to as the “maximal dose” strategy. In certain embodiments, a dose (e.g., therapeutic of prophylactic) is about 0.01 mg/kg to about 200 mg/kg (e.g., 0.01 mg/kg, 0.02 mg/kg, 0.05 mg/kg, 0.1 mg/kg, 0.2 mg/kg, 0.5 mg/kg, 1.0 mg/kg, 2.0 mg/kg, 5.0 mg/kg, 10 mg/kg, 20 mg/kg, 50 mg/kg, 100 mg/kg, 200 mg/kg, or any ranges therebetween (e.g., 5.0 mg/kg to 100 mg/kg)). In some embodiments, a subject is between 0.1 kg (e.g., mouse) and 150 kg (e.g., human), for example, 0.1 kg, 0.2 kg, kg, 1.0 kg, 2.0 kg, 5.0 kg, 10 kg, 20 kg, 50 kg, 100 kg, 200 kg, or any ranges therebetween (e.g., 40-125 kg). In some embodiments, a dose comprises between 0.001 mg and 40,000 mg (e.g., 0.001 mg, 0.002 mg, 0.005 mg, 0.01 mg, 0.02 mg, 0.05 mg, 0.1 kg, 0.2 mg, 0.5 mg, 1.0 mg, 2.0 mg, 5.0 mg, 10 mg, 20 mg, 50 mg, 100 mg, 200 mg, 500 mg, 1,000 mg, 2,000 mg, 5,000 mg, 10,000 mg, 20,000 mg, 40,000 mg, or ragnes therebetween.
EXAMPLESIn all of the Examples below, all of the expression vectors are CpG free except for Genscript px458-relAl (SEQ ID NO:8) and Genscript px458-relA4 (SEQ ID NO:9), both of which are CpG-laden sequences which are commercially available (see, www followed by “genscript.com/CRISPR-gRNA-constructs.html.”).
Example 1 Long-Term Therapeutic Rituximab ExpressionThis Example describes experiments conducted that demonstrate long-term expression of monoclonal antibody Rituximab at therapeutic serum levels following a single injection of either a dual cassette or single cassette plasmid vector encoding Rituximab.
First ExampleIn a first example, three mice were injected per group. Each mouse received a single IV injection of 1050 nmoles of DOTAP cationic liposomes containing 2.5% dexamethasone palmitate (DP) incorporated into the liposome bilayer. This was followed two minutes later by a single IV injection of 75 ug of one of two different plasmid DNAs encoding anti-CD20 (Rituximab). Both groups were treated two hours prior to IV injection with an IP injection of dexamethasone. Plasmid 715.1 2a (P2A), shown in
The results are shown in
In a second example, Raji cells (5×10 4 cells/well) were plated in 96 well plates using RPMI+10% FBS medium. Next day cells were incubated with Rituximab (0.5, 1, 10 ug/ml) or mouse serum samples (20 ul/well, duplicate samples) for 1 h at room temperature. Twenty microliters of pooled normal human plasma (Innovative Research) was then added to all wells (except the Rituximab control condition) and the plates incubated for another 12 h at 37 C. Cell viability was measured using the PROMEGA Cell titer Glo reagent according to the manufacturer's instructions. Results are shown in
Serum from mice sequentially injected with cationic liposomes, then a plasmid DNA vector encoding either anti-CD20 mAb 148 days earlier or human G-CSF was analyzed first by ELISA for concentration determination of anti-CD20. The numbers in red font placed above the bars represent the concentration of Rituxumab for the corresponding serum samples (ng/ml). Using a cell lysis assay, sera isolated from anti-CD20 DNA vector-injected mice 148 days earlier lysed CD-20+human Raji cells at a level comparable to Raji cells treated with a high concentration of recombinant Rituximab protein (Invivogen). These data (in
In a third example, three mice were injected per group. Each mouse received a single IV injection of 1000 nmoles of DOTAP cationic liposomes containing 2.5% dexamethasone palmitate (DP) incorporated into the liposome bilayer. This was followed two minutes later by a single IV injection of 75 ug of one of two different plasmid DNAs encoding anti-CD20 (Rituximab). Both groups were treated two hours prior to IV injection with an IP injection of 40 mg/kg dexamethasone. Plasmid 902.8 (P2A), shown in
In a fourth example, three mice were injected per group. Each mouse received a single IV injection of 1000 nmoles of DOTAP cationic liposomes and 1000 nmoles of DMPC neutral liposomes, each containing 2.5% dexamethasone palmitate (DP) incorporated into the liposome bilayer. This was followed two minutes later by a single IV injection of 75 ug of plasmid DNA encoding anti-CD20 (Rituximab). Both groups were treated two hours prior to IV injection with an IP injection of 40 mg/kg dexamethasone. Plasmid p718.1 is a dual expression cassette plasmid vector that encodes the anti-CD20 mAb heavy and light chain cDNAs respectively. Plasmid p113.2, shown in
This Example describes experiments conducted that demonstrate IV, sequential injection of cationic liposomes then plasmid DNA vectors encoding CPISPR/Cas9, shRNA, ribozyme or anti-sense sequences specifically targeting mouse NFkB-p65 each suppresses p65 expression in mice.
First ExampleIn a first example, three or four mice were injected per group. Each mouse received a single IV injection of 1000 nmoles of DOTAP cationic liposomes containing 2.5% dexamethasone palmitate (DP) incorporated into the liposome bilayer. This was followed two minutes later by a single IV injection of 75 ug of plasmid DNA encoding the indicated CRISPR- or ribozyme-based plasmids to suppress expression of endogenous mouse NFkB-p65. The plasmids used are as follows: ribozyme (
Tissue preparation and anti-mouse-p65 ELISA methods were as follows. Lung lysates were generated 24 hours after injection (Anti-p65 Ribozyme) and 8 days after injection (Anti-p65 CRISPR1/2) by dissection into 500 uL of prepared 1× Triton lysis buffer on ice. Samples include both lungs per animal. Each sample was homogenized (Polytron PT 2100) for 30 seconds, pulse sonicated (Misonix XL2000 Microson Ultrasonic Cell Disruptor XL 2000), and centrifuged for 10 minutes at 4 C, and the lysate was aspirated from the tissue pellet. Protein concentration from each lysate was then determined using a BCA total protein assay purchased from Thermo Fisher. Protein normalized lysate was added to a 96 well plate ELISA from Cell Signaling Technologies (PathScan Total NF-κB p65 Sandwich ELISA Kit) in duplicate as per the manufacture's instructions. The plate was then analyzed in a (Molecular Devices Spectramax M5) plate reader. After recording absorbance from the plate, a standard curve generated using murine B16 melanoma cell supernatant was fit by 4PL analysis. Error bars represent the standard error of the mean.
The results of this example are shown in
The methods for this example are the same as above. The results are shown in
Paraffin embedded sections of mouse lung were batch (sections from controls and treated animals) stained on a Leica Bond autostainer with a primary rabbit Mab to C-terminus of p65 (Anti-NF-kB p65 antibody [E379] (ab32536)—ABCAM). Peroxidase labeled secondary. The IHC stained slides were scanned in brightfield at 20× magnification using the Hamamatsu NanoZoomer Digital Pathology System. The digital images were then imported into Visiopharm software for quantitative analysis.
Using the Visiopharm Image Analysis module, five scattered, representative regions of lung parenchyma (ROIs) of each sample were randomly selected by the HIC image analysis technician and manually delineated for further quantitative analysis. The software converted the initial digital image into grayscale values using three features, RGB-B with a mean and polynomial smoothing filter, Contrast Red-Blue, and HDAB-DAB with minimum H&E-Eosin filter. Visiopharm software was then trained to label positive brown staining, hematoxylin counterstain, and blank space using a Bayesian classification scheme. All ROIs were processed in batch mode using this configuration to generate the desired outputs.
The ratio of NFkB was determined by dividing the Area NFkB by the Total Area of lung parenchyma. The difference between the control (Ringers) and the treated lung (143-39) ratios shows an approximately 53% reduction in NfKb staining. This finding is consistent with visual observations of stained sections. The results are shown in
The methods for this example are the same as above. The results are shown in
The methods for this example are the same as above. The results are shown in
This Example describes experiments conducted that demonstrate a single IV, sequential injection of cationic liposomes followed up by a plasmid DNA vector encoding the human G-CSF gene produces supra-therapeutic human G-CSF serum protein levels (
In another example, plasmid encoding HG-CSF was injected into rats. Rats No. 10 and No. 12 were given one sequential injection each, while rat 14 was re-injected twice, on days 7 and 21 after initial injection. Rat No. 10 was injected IV with 3000 nmol DOTAP SUV followed by 300 ug MARless plasmid DNA encoding HG-CSF. Rat No. 12 was injected with 3 mg Dexamethasone (IP) followed by IV injections of 3000 nmol DOTAP SUV and then 300 ug MARless plasmid DNA encoding HG-CSF. Rat No. 14 was injected at the start of the experiment with 3000 nmol DOTAP SUV and then 300 ug MAR-containing plasmid DNA encoding HG-CSF. Rat 14 was later injected on day 7 with 3 mg Dexamethasone (IP) followed by IV injections of 3300 nmol DOTAP SUV and then 330 ug MAR-containing plasmid DNA encoding HG-CSF. On day 21, rat no. 14 was injected with 3 mg Dexamethasone (IP) followed by IV injections of 4400 nmol DOTAP SUV and then 330 ug MAR-containing plasmid DNA encoding HG-CSF.
Results are shown in
This Example describes experiments conducted that demonstrate that administration of PCR-generated DNA vectors substantially increases both the level and duration of DNA vector gene-encoded protein product production in mice when compared to plasmid DNA.
Circularized, PCR Generated DNA Vector Increases the Level of Serum Human G-CSF Production in Mice
Methods: To generate DNA expression vectors by PCR, the HG-CSF expression cassette was amplified by PCR, using a primer pair containing the corresponding enzyme restriction site or a primer pair with a stem-loop configuration (for protected linear product) using Q5 High-Fidelity Polymerase (New England Biolab). The purified PCR product was digested with the corresponding enzyme (BamHI) at 10 U/ug then heat inactivated at 85 C for 20 min. Ligation of purified digested PCR was performed at 1 or 50 ng/ul with 80 T4DNA ligase Unit/ug of digested PCR at room temperature for 1 hr, then heat inactivated at 65 C for min. For the 1 ng/ul ligation condition, the volume was reduced with Millipore filtration Ultra15 before purification. The ligated PCR product was then eluted with lactated ringers from the purification column before being subjected to the final 0.2 uM filtration. All purification steps were performed using a Purelink PCR purification kit (Thermofisher).
Results are shown in
Circularized, PCR Generated DNA Vector Increases the Level and Duration of Serum Human G-CSF and ANCs. Furthermore, a Single Re-Injection of PCR Generating DNA Substantially Increases Long-Term, High-Level Human G-CSF Levels in Mice
Inclusion of R6K DNA Sequence into Circularized, PCR Generated DNA Vector Increases the Level and Duration of Serum Human G-CSF Production in Mice
Methods: 27 g mice were injected IV with DOTAP SUV cationic liposomes, followed by circularized PCR DNA encoding HG-CSF, with or without an origin of replication (R6K). Mice were subsequently bled every 7 or 14 days.
This Example describes experiments conducted that demonstrate that the addition of neutral lipid and dexamethasone palmitate to sequential IV administration of a human G-CSF expression vector significantly increases both human G-CSF serum levels and ANC for prolonged periods in mice.
Methods: Mice were injected with one of three different liposome preparations. 1050 nmol DOTAP SUV alone, 1050 nmol DOTAP SUV mixed with 1050 nmol DMPC neutral lipid, or 1050 nmol SUV containing 2.5% Dexamethasone Palmitate mixed with 1050 nmol DMPC. The lipid injection was followed 2 minutes later by injection of a MAR containing plasmid coding for expression of human G-CSF. Mice were subsequently bled every 7 or 14 days. Heparinized whole blood was analyzed for neutrophil counts, and plasma was analyzed for HG-CSF by ELISA. Untreated control mice are consistently <3K/uL.
This Example describes experiments conducted that demonstrate that the addition of a second enhancer in a human G-CSF DNA expression plasmid can increase human G-CSF serum levels after sequential IV injection in mice.
Methods: Mice were injected first with 1000 nmol each of DOTAP containing 2.5% Dexamethasone Palmitate and DMPC containing 2.5% Dexamethasone Palmitate. This was followed two minutes later by plasmids encoding HG-CSF. The four plasmids that were employed sv40-mCMVEF1 (SEQ ID NO:13;
This Example describes experiments conducted that demonstrate that the addition of super enhancer sequences in a human G-CSF DNA expression plasmid can increase human G-CSF serum levels after sequential IV injection in mice.
Methods: Mice were first injected with 1000 nmol each of DOTAP containing 2.5% Dexamethasone Palmitate and DMPC neutral lipid containing 2.5% Dexamethasone Palmitate. This was followed 2 minutes later by HG-CSF encoding plasmids with or without super-enhancer elements (hr3). The hr3-containing plasmids are as follows: hr3-mCMVEF1 #2 (SEQ ID NO:17;
In
This Example describes experiments conducted that demonstrate that the addition of super enhancer, R6K or RNA-out DNA sequence in a human factor nine DNA expression plasmid can increase human factor nine serum levels after sequential IV injection in mice.
Methods: 27 g mice were injected IV with DOTAP SUV cationic liposomes, followed by DNA encoding human Factor IX. Both plasmid and circularized PCR constructs were used, with or without an origin of replication (R6K).
This Example describes experiments conducted that demonstrate anti-p65 CRISPR/Cas9-mediated knockdown of mouse NFkB-p65 protein 10 days and 40 days after sequential IV injection in mice.
Mouse treatment methods: Three or four mice were injected per group. Each mouse received a single IV injection of 1000 nmoles of DOTAP cationic liposomes containing 2.5% dexamethasone palmitate (DP) incorporated into the liposome bilayer. This was followed two minutes later by a single IV injection of 75 ug of plasmid DNA encoding the indicated CRISPR- or ribozyme-based plasmids to suppress expression of endogenous mouse NFkB-p65. PECAM CRISPR control is shown in SEQ ID NO:10, and p65 CRISPR RelA1 is shown in SEQ ID NO:8. Plasmid EF1/U6 RelA1 (020117 #5) (SEQ ID NO:57) is shown in
Tissue preparation and anti-mouse-p65 ELISA methods. Lung lysates were generated 24 hours after injection (Anti-p65 Ribozyme) and 8 days after injection (Anti-p65 CRISPR1/2) by dissection into 500 uL of prepared 1× Triton lysis buffer on ice. Samples include both lungs per animal. Each sample was homogenized (Polytron PT 2100) for 30 seconds, pulse sonicated (Misonix XL2000 Microson Ultrasonic Cell Disruptor XL 2000), and centrifuged for 10 minutes at 4 C, and the lysate was aspirated from the tissue pellet. Protein concentration from each lysate was then determined using a BCA total protein assay purchased from Thermo Fisher. Protein normalized lysate was added to a 96 well plate ELISA from Cell Signaling Technologies (PathScan Total NF-κB p65 Sandwich ELISA Kit) in duplicate as per the manufacture's instructions. The plate was then analyzed in a (Molecular Devices Spectramax M5) plate reader. After recording absorbance from the plate, a standard curve generated using murine B16 melanoma cell supernatant was fit by 4PL analysis. Error bars represent the standard error of the mean.
Description of Results: These data, shown in
This Example describes experiments conducted that demonstrate that a mouse sacrificed 582 days after a single sequential IV injection of cationic liposomes, then an HG-CSF DNA expression vector shows very large numbers of neutrophils in spleen and bone marrow not present in control mouse. Methods were as follows. Control mouse was un-injected. Treated 27 g mouse was injected IV with 800 nmol DOTAP SUV cationic liposomes, followed by 90 ug plasmid DNA encoding hG-CSF and euthanized 582 days after injection. Mice were exsanguinated and organs preserved in 10% neutral buffered formalin.
This Example describes experiments conducted that demonstrate that a rat sacrificed 168 days after last sequential IV injection of cationic liposomes, then an HG-CSF DNA expression vector shows very large numbers of neutrophils in bone marrow not present in control rat. The methods were as follows. Control rat was un-injected. Treated rat: a 150 g female rat was injected at the start of the experiment with 3000 nmol DOTAP SUV and then 300 ug of a DNA expression vector encoding HG-CSF. The treated rat was later injected on day 7 with 3 mg dexamethasone (IP) followed by IV injections of 3300 nmol DOTAP SUV and then 330 ug of the DNA expression vector encoding HG-CSF. On day 21, the treated rat was re-injected with 3 mg dexamethasone (IP) followed by IV injections of 4400 nmol DOTAP SUV and then 330 ug of the DNA expression vector encoding HG-CSF. Rats were euthanized, exsanguinated, and organs preserved in 10% neutral buffered formalin.
This Example describes sequential IV injection of cationic liposomes followed by a DNA expression vector encoding anti-human PCSK9 monoclonal antibody to reduce LDL in mice. Five CD-1 mice are injected per group. For the 2 months prior to injection, mice are placed on a high cholesterol and cholic acid diet to increase LDL cholesterol (Envigo Atherogenic Teklad Diet TD.02028). Each mouse then receives a single IV injection of 1050 nmoles of DOTAP cationic liposomes containing 2.5% dexamethasone palmitate (DP) incorporated into the liposome bilayer, followed two minutes later by a single IV injection of 75 ug of one of three different plasmid DNAs encoding an anti-human PCSK9 monoclonal antibody (mAb) or a plasmid DNA encoding an anti-human CD20 monoclonal antibody as a control group. All groups are treated two hours prior to IV injection with an IP injection of dexamethasone. DNARx-31H4-2A (SEQ ID NO:25;
This Example describes sequential IV injection of cationic liposomes followed by a DNA expression vector encoding anti-human CD47 monoclonal antibody to suppress Raji, human B cell lymphoma tumor progression in tumor-bearing nude mice. Five athymic nude mice are injected per group. Mice receive 0.1×105-2×106 Raji cells subcutaneously in the shoulder or flank. Ten to fourteen days later, or when tumors reach a volume of 70-100 mm3, each mouse receives a single IV injection of 1050 nmoles of DOTAP cationic liposomes containing 2.5% dexamethasone palmitate (DP) incorporated into the liposome bilayer, followed two minutes later by a single IV injection of 75 ug of a DNA expression plasmid encoding an anti-human CD47 monoclonal antibody or a plasmid DNA encoding an anti-human PCSK9 monoclonal antibody as a control group. All groups are treated two hours prior to IV injection with an IP injection of 40 mg/kg dexamethasone. DNARx-CD47-2A (P2A) (SEQ ID NO:29;
This Example describes sequential IV injection of cationic liposomes followed by a DNA expression vector encoding anti-human CD47 monoclonal antibody, anti-human CD20 monoclonal antibody or both anti-human CD47 and anti-CD20 monoclonal antibodies to suppress Raji, human B cell lymphoma tumor progression in tumor-bearing nude mice. Five athymic nude mice are injected per group. Mice receive 0.1×105-2×106 Raji cells subcutaneously in the shoulder or flank. Ten to fourteen days later, or when tumors reach a volume of 70-100 mm3, each mouse receives a single IV injection of 1050 nmoles of DOTAP cationic liposomes containing 2.5% dexamethasone palmitate (DP) incorporated into the liposome bilayer, followed two minutes later by a single IV injection of 75 ug of a DNA expression plasmid encoding an anti-human CD47 monoclonal antibody, an anti-human CD20 monoclonal antibody, anti-human CD47 plus anti-CD20 monoclonal antibodies, or a plasmid DNA encoding an anti-human PCSK9 monoclonal antibody as a control group. All groups were treated two hours prior to IV injection with an IP injection of 40 mg/kg dexamethasone.
DNARx-CD47-2A (P2A) (SEQ ID NO:29;
This Example describes sequential IV injection of cationic liposomes followed by a DNA expression vector encoding anti-influenza A stem antigen to prevent and/or treat influenza A in mice. Five C57B16 mice are injected per group. Prior to injection, mice are inoculated with 2×MLD50 of PR/8/34 (H1N1), HKx31 (H3N1) or B/Lee/40 viral strains of influenza. The respective MLD50 of a challenge virus are determined by infection of unvaccinated mice with increasing amounts of virus. The mice are monitored for weight loss and mortality for 14-20 days following infection. Each mouse then receives a single IV injection of 1050 nmoles of DOTAP cationic liposomes containing 2.5% dexamethasone palmitate (DP) incorporated into the liposome bilayer, followed two minutes later by a single IV injection of 75 ug of one of three different plasmid DNAs encoding an anti-influenza A stem antigen monoclonal antibody or a plasmid DNA encoding an anti-human CD20 monoclonal antibody as a control group. All groups are treated two hours prior to IV injection with an IP injection of 40 mg/kg dexamethasone.
Plasmids DNARx-D8-2A (SEQ ID NO:31;
This Example describes sequential IV injection of cationic liposomes then a DNA expression vector encoding anti-mouse PD-1 monoclonal antibody, ovalbumin, gp-70, anti-mouse PD-1 monoclonal antibody plus ovalbumin or anti-mouse PD-1 monoclonal antibody plus gp-70 to suppress B16 melanoma or CT26 colon tumor progression in tumor-bearing mice. Five C57B16 mice are injected subcutaneously in the flank with 2×105 B16 cells per animal, or five BALBC mice are injected subcutaneously in the flank with 2×105 CT26 cells per animal. At day four following inoculation, each mouse receives a single IV injection of 1050 nmoles of DOTAP cationic liposomes containing 2.5% dexamethasone palmitate (DP) incorporated into the liposome bilayer, followed two minutes later by a single IV injection of 75 ug of a DNA expression plasmid encoding an anti-mouse PL-1 monoclonal antibody, ovalbumin, gp-70, or a plasmid DNA encoding an anti-human PCSK9 monoclonal antibody as a control group. All groups are treated two hours prior to IV injection with an IP injection of 40 mg/kg dexamethasone. Plasmid DNARx-PD1-2A (P2A) (SEQ ID NO:48;
This Example describes sequential IV injection of cationic liposomes followed by DNA expression vectors encoding anti-human anti-CD20 monoclonal antibody, human G-CSF, streptococcal Cas9, anti-CD20 monoclonal antibody plus HG-CSF or anti-CD20 monoclonal antibody plus Cas9 in mice. Five CD-1 mice are injected per group. Each mouse receives a single IV injection of 1050 nmoles of DOTAP cationic liposomes containing 2.5% dexamethasone palmitate (DP) incorporated into the liposome bilayer, followed two minutes later by a single IV injection of 75 ug plasmid DNAs encoding an anti-human CD20 monoclonal antibody (mAb), HG-CSF, Cas9, anti-human CD20 monoclonal antibody plus HG-CSF, anti-human CD20 monoclonal antibody plus HG-CSF or a plasmid DNA encoding an anti-human CD20 monoclonal antibody plus luciferase as a control group. All groups are treated two hours prior to IV injection with an IP injection of 40 mg/kg dexamethasone. Plasmid DNARx CD20-2A Cas9 (SEQ ID NO:53;
This Example describes how co-injecting of neutral liposomes with cationic liposomes increases mouse serum anti-CD20 monoclonal antibody levels over time versus injecting the same cationic liposomes without neutral liposomes. Three mice per group were given IP injections of Dexamethasone at a level of 40 mg/kg. Two hours later they were sequentially injected, first with 1000 nmol or 1250 nmol DOTAP SUV, with or without 1000 nmol DMPC (1,2-Dimyristoyl-SN-glycero-3-phosphocholine) neutral lipid, and then of plasmid vector containing Rituximab (anti-CD20 monoclonal antibody) cDNA. Serum levels of Rituximab protein were measured by ELISA after 24 hours and every 2-3 weeks thereafter. Results are shown in
This Example describes how incorporating dexamethasone palmitate into neutral liposomes further increases gene expression. Three mice per group were given IP injections of Dexamethasone at a level of 40 mg/kg. Two hours later they were sequentially injected, first with 1000 nmol DOTAP SUV containing 2.5% Dexamethasone Palmitate, and 1000 nmol DMPC neutral lipid containing 1, 2.5, 5, or 10% Dexamethasone Palmitate, and then 75 ug of plasmid vector containing Rituximab cDNA. Serum levels of Rituximab protein were measured by ELISA after 24 hours. The results are shown in
This Example describes how including Syn 21 and/or delta-p10 sequences 5′ or 3′ of the anti-CD20 mAb heavy and light chain cDNA's increases serum anti-CD20 mAb levels in mice. Three mice per group were given IP injections of Dexamethasone at a level of 40 mg/kg. Two hours later they were sequentially injected, first with 1000 nmol DOTAP SUV and 1000 nmol DMPC neutral lipid, both containing 2.5% Dexamethasone Palmitate, and then of plasmid vector containing Rituximab cDNA. A representative vector construct, containing both the Syn21 and delta-p10 sequences, is shown in SEQ ID NO:82 (
This Example describes how the addition of a five prime hr3 super enhancer sequence increases the expression of human G CSF as well as anti-CD 20 monoclonal antibody in mice. Three mice per group were given IP injections of Dexamethasone at a level of 40 mg/kg. Two hours later they were sequentially injected, first with 1000 nmol DOTAP SUV and 1000 nmol DMPC neutral lipid, both containing 2.5% Dexamethasone Palmitate, and then of plasmid vector containing human G-CSF or Rituximab cDNA. Serum levels of hG-CSF or Rituximab protein were measured by ELISA after 24 hours. The results are shown in
This Example describes how the insertion of an R6K origin of replication sequence either in the 5′ UTR or 3′UTR of the human factor nine cDNA, increases the level of human factor nine serum levels produced in mice. Three mice per group were given IP injections of Dexamethasone at a level of 40 mg/kg. Two hours later they were sequentially injected, first with 1000 nmol DOTAP SUV and 1000 nmol DMPC neutral lipid, both containing 2.5% Dexamethasone Palmitate, and then 75 ug (
This Example describes how mouse serum Rituximab levels produced 148, 232 and 284 days after a single Rituximab DNA injection remain therapeutically effective (
This Example describes how one sequential IV injection of a dual cassette, single plasmid DNA vector (SEQ ID NO:83;
This Example describes how one sequential IV injection of a dual cassette, single plasmid DNA vector (SEQ ID NO:84,
This Example describes how sequential IV injection of a single plasmid DNA vector (SEQ ID NO:85,
This Example describes how a dual expression cassette, single plasmid vector containing two hG-CSF cassettes produces higher absolute neutrophil counts over time than a single cassette hG-CSF vector. Three mice per group were given IP injections of Dexamethasone at a level of 40 mg/kg. Two hours later they were sequentially injected, first with 1000 nmol DOTAP SUV and 1000 nmol DMPC MLV, both containing 2.5% Dexamethasone Palmitate, and then 75 ug of plasmid vector containing a dual-cassette cDNA for hG-CSF. Plasma levels of hG-CSF protein were measured by ELISA after 24 hours and every 1-2 weeks thereafter. Absolute Neutrophil Count (ANC) was assessed from whole blood.
This Example describes how a dual expression cassette, single plasmid vector, each cassette containing an identical anti-human IL-5 heavy and light chain mAb cDNAs separated by a porcine teschovirus-1 2A (P2A) self cleaving peptide sequence produces higher anti-human IL-5 serum mAb levels in mice than a single cassette anti-human IL-5 mAb encoding DNA vector. Three mice per group were given IP injections of Dexamethasone at a level of 40 mg/kg. Two hours later they were sequentially injected, first with 1120 nmol DOTAP SUV containing 2.5% Dexamethasone Palmitate along with 1000 nmol DMPC MLV containing 5% Dexamethasone Palmitate, and then 88 ug of plasmid vector containing cDNA for and IL-5. Serum levels of IL-5 protein were measured by ELISA after 24 hours. Results are shown in
This Example describes how a dual expression cassette, single plasmid vector, each cassette containing an identical anti-influenza A heavy and light chain monoclonal antibody 5J8 cDNAs separated by a porcine teschovirus-1 2A (P2A) self cleaving peptide sequence produces higher anti-5J8 mAb serum levels in mice than a single cassette anti-human IL-5 mAb encoding DNA vector. Three mice per group were given IP injections of Dexamethasone at a level of 40 mg/kg. Two hours later they were sequentially injected, first with 1120 nmol DOTAP SUV containing 2.5% Dexamethasone Palmitate along with 1000 nmol DMPC MLV containing 5% Dexamethasone Palmitate, and then 88 ug of plasmid vector containing cDNA for IL-5. Serum levels of IL-5 protein were measured by ELISA after 24 hours. The results are shown in
This Example describes how one IV injection of a dual expression cassette, single plasmid vector, one cassette containing an anti-influenza A heavy and light chain monoclonal antibody 5J8 cDNAs separated by a porcine teschovirus-1 2A (P2A) self cleaving peptide sequence, and the second cassette containing an anti-human IL-5 heavy and light chain monoclonal antibody cDNAs (2B6) separated by a porcine teschovirus-1 2A (P2A) self cleaving peptide produces significant serum levels of both monoclonal antibodies in mice. Furthermore, one IV co-injection of two different single expression cassette DNA vectors encoding the intact heavy and light chain monoclonal antibodies anti-influenza 5J8 and anti-human IL-5 (2B6) respectively also produce significant serum levels of both monoclonal antibodies in mice. Three mice per group were given IP injections of Dexamethasone at a level of 40 mg/kg. Two hours later they were sequentially injected, first with 1120 nmol DOTAP SUV containing 2.5% Dexamethasone Palmitate along with 1000 nmol DMPC MLV containing 5% Dexamethasone Palmitate, and then 88 ug of plasmid vector. Serum levels of protein were measured by ELISA after 24 hours. The results are shown in
This Example describes how one IV injection of a dual expression cassette, single plasmid vector, one cassette containing an anti-influenza A heavy and light chain monoclonal antibody 5J8 cDNAs separated by a porcine teschovirus-1 2A (P2A) self cleaving peptide sequence and the second cassette containing an anti-human IL-5 heavy (2B6) and light chain monoclonal antibody cDNAs separated by a porcine teschovirus-1 2A (P2A) self cleaving peptide produces significant serum levels of both monoclonal antibodies in mice. Three mice per group were given IP injections of Dexamethasone at a level of 40 mg/kg. Two hours later they were sequentially injected, first with 1120 nmol DOTAP SUV containing 2.5% Dexamethasone Palmitate along with 1000 nmol DMPC MLV containing 5% Dexamethasone Palmitate, and then 88 ug of plasmid vector. Serum levels of protein were measured by ELISA after 24 hours. The results are shown in
This Example describes how one IV injection of a triple expression cassette, single plasmid vector, one cassette containing an anti-influenza A heavy and light chain monoclonal antibody 5J8 cDNAs separated by a porcine teschovirus-1 2A (P2A) self cleaving peptide sequence, the second cassette containing an anti-human IL-5 heavy and light chain monoclonal antibody cDNA's separated by a porcine teschovirus-1 2A (P2A) self cleaving peptide, and the third cassette containing an anti-human CD20 heavy and light chain monoclonal antibody cDNAs separated by a porcine teschovirus-1 2A (P2A) self cleaving peptide produces significant serum levels of all three different monoclonal antibodies in mice. Furthermore, one IV co-injection of three different single expression cassette DNA vectors encoding the intact heavy and light chain monoclonal antibodies: anti-influenza 5J8, anti-human IL-5, and anti-human CD20 mAbs respectively also produce significant serum levels of all three different monoclonal antibodies in mice. Three mice per group were given IP injections of Dexamethasone at a level of 40 mg/kg. Two hours later they were sequentially injected, first with 1120 nmol DOTAP SUV containing 2.5% Dexamethasone Palmitate along with 1000 nmol DMPC MLV containing 5% Dexamethasone Palmitate, and then 88 ug of plasmid vector. Serum levels of protein were measured by ELISA after 24 hours. The results are shown in
This Example describes how one IV injection of a single plasmid vector expressing anti-PCSK9 mAbs reduces LDL levels in mice. Three mice per group were given IP injections of Dexamethasone at a level of 40 mg/kg. Two hours later they were sequentially injected, first with 1000 nmol each of DOTAP SUV and DMPC MLV, both containing 2.5% Dexamethasone Palmitate, and then 75 ug of plasmid vector. Plasma levels of LDL cholesterol were measured 15 days after injection and plotted according to proportion relative to LDL cholesterol measurements on the same mice prior to injection.
This Example describes how expression of anti-PCSK9 mAbs in vivo provides long-lasting reduction of LDL levels. Mice were assessed for serum LDL levels prior to injection. On the day of injection, three mice per group were given IP injections of Dexamethasone at a level of 40 mg/kg. Two hours later they were sequentially injected, first with 1000 nmol DOTAP SUV and 1000 nmol DMPC MLV, both containing 2.5% Dexamethasone Palmitate, and then 75 ug of plasmid vector encoding the light and have chain of an anti-PCSK9 mAb. Serum levels of LDL cholesterol were measured every 7-21 days thereafter. The results are shown in
This Example describes how expression of anti-PCSK9 mAbs in vivo provides reduction of LDL levels in mice on a fatty diet compared to control (anti-CD20 mAb expression). Mice were assessed for serum LDL levels prior to injection. On the day of injection, three mice per group were given IP injections of Dexamethasone at a level of 40 mg/kg. Two hours later they were sequentially injected, first with 1000 nmol DOTAP SUV and 1000 nmol DMPC MLV, both containing 2.5% Dexamethasone Palmitate, and then 75 ug of plasmid vector. The day after injection, mice were switched to a fatty, cholesterol-elevating diet. Serum levels of LDL cholesterol were measured every 7-14 days thereafter.
This Example describes how the long-term expression of mAbs, including Rituximab (anti-CD20 mAb), anti-flu mAb (FI6), anti-flu mAb (5J8), and anti-IL5 mAb. Three mice per group were given IP injections of Dexamethasone at a level of 40 mg/kg. Two hours later they were sequentially injected. Sequential injections for Rituximab comprised injections of Dexamethasone at a level of 40 mg/kg. Two hours later they were sequentially injected, first with 1050 nmol DOTAP SUV containing 2.5% Dexamethasone Palmitate, and then 75 ug of plasmid vector containing Rituximab cDNA. Sequential injections for anti-flu and anti-IL-5 antibodies comprised 1120 nmol DOTAP SUV containing 2.5% Dexamethasone Palmitate along with 1000 nmol DMPC MLV containing 5% Dexamethasone Palmitate, and then 88 ug of plasmid vector. Serum levels of protein were measured by ELISA after 24 hours, and then every 7-21 days thereafter. The results are shown in
This Example describes a comparison of expression levels from four different doses of plasmid vector expressing Rituximab. Three mice per group were given IP injections of Dexamethasone at a level of 40 mg/kg. Two hours later they were sequentially injected as follows. Liposomes were injected first, composed of 1000 nmol DMPC MLV containing 5% Dexamethasone Palmitate as well as 1000, 1080, 1170, or 1250 nmol DOTAP SUV containing 2.5% Dexamethasone Palmitate; plasmid vector was injected second in doses of 75, 81, 88, or 95 ug. Serum levels of protein were measured by ELISA after 24 hours. Results are shown in
This Example describes how the ALB and AZU signal sequences enhance the expression of the 5J8 mAb. Three mice per group were given IP injections of Dexamethasone at a level of 40 mg/kg. Two hours later they were sequentially injected, first with 1120 nmol DOTAP SUV containing 2.5% Dexamethasone Palmitate along with 1000 nmol DMPC MLV containing 5% Dexamethasone Palmitate, and then 88 ug of plasmid vector. Serum levels of protein were measured by ELISA after 24 hours. The results are shown in
This Example describes how the human p53 gene is widely expressed in mouse lungs 24 hours after IV injection, and further how the human p53 gene is expressed predominately in vascular endothelial cells. Three mice per group were given IP injections of Dexamethasone at a level of 40 mg/kg. Two hours later they were sequentially injected, first with DOTAP SUV liposomes and DMPC neutral lipids, both at 1000 nmol with 2.5% Dex Palmitate by weight, then two minutes later, 75 ug per mouse of plasmid vector encoding human p53 (
All publications and patents mentioned in the present application are herein incorporated by reference. Various modification and variation of the described methods and compositions of the invention will be apparent to those skilled in the art without departing from the scope and spirit of the invention. Although the invention has been described in connection with specific preferred embodiments, it should be understood that the invention as claimed should not be unduly limited to such specific embodiments. Indeed, various modifications of the described modes for carrying out the invention that are obvious to those skilled in the relevant fields are intended to be within the scope of the following claims.
Claims
1. A system comprising:
- a) a first composition comprising a first amount of polycationic structures, wherein said first composition is free, or essentially free, of nucleic acid molecules; and
- b) a second composition comprising a therapeutically effective amount of expression vectors,
- wherein said expression vectors comprise nucleic acid sequences encoding one or more therapeutic biomolecules; and
- at least one of the following:
- i) wherein the ratio of said first amount of said polycationic structures to said therapeutically effective amount of expression vectors is 5:1 to 25:1;
- ii) wherein 2.0% to 15.0% of said first composition comprises dexamethasone palmitate and/or dexamethasone;
- iii) wherein said first composition further comprises neutral lipid; and
- iv) wherein said polycationic structures comprise empty liposomes, and wherein said empty liposomes present in said first composition have a z-average diameter of about 20-85 nm.
2. The system of claim 1, wherein said expression vectors comprise circularized synthetically amplified nucleic acid, plasmid-based vector, or minicircle DNA.
3. The system of claim 1, wherein said one or more therapeutic biomolecules comprise one or more monoclonal antibodies (mAb), or antigen-binding portion thereof.
4. The system of claim 3, wherein said antigen-binding portion of said mAb is selected from a Fab, F(ab)2, and/or scFv.
5. The system of claim 3, wherein said mAb or antigen-binding portion thereof specifically binds to a pathogen or pathogen component, a tumor antigen, or a cytokine.
6-7. (canceled)
8. The system of claim 3, wherein said one or more mAb or antigen-binding portion thereof comprise a first mAb or antigen-binding portion thereof that specifically binds to a first target molecule and a second mAb or antigen-binding portion thereof that specifically binds to a second, different, target molecule.
9. The system of claim 8, wherein said one or more mAb or antigen-binding portion thereof comprise a first mAb or antigen-binding portion thereof that specifically binds to a first target molecule, a second mAb or antigen-binding portion thereof that specifically binds to a second target molecule, and a third mAb or antigen-binding portion thereof that specifically binds to a third target molecule, wherein said first, second, and third target molecules are different molecules.
10. The system of claim 1, wherein said one or more therapeutic biomolecules comprise one or more CRISPR/Cas9 components in one or more expression cassettes in said expression vectors.
11. The system of claim 1, wherein said one or more therapeutic biomolecules comprise a nucleic acid, optionally wherein said nucleic acid is an antisense oligonucleotide, ribozyme, an shRNA, miRNA, siRNA, piRNA, snoRNA, tsRNA, or srRNA.
12. (canceled)
13. The system of claim 1, wherein said expression vectors
- (a) encode a first therapeutic biomolecule and a second therapeutic biomolecule, wherein said first and second therapeutic biomolecules: i) express for different lengths of time than one another, and/or ii) are the same;
- (b) comprise at least one of the following: an R6K origin of replication, an hr3 enhancer, a BV3 signal sequence, a Syn21 sequence, a delta-p10 sequence, or an MITD (MHC class I trafficking signal) sequence;
- (c) are CpG-free or CpG-reduced; or
- (d) contain a plurality of CpG motifs, and/or are not CpG-free or CpG-reduced.
14-16. (canceled)
17. A method of expressing one or more therapeutic biomolecules in a subject, comprising: a) administering a first composition of a system of claim 1 into a subject; and b) administering a second composition of said system into said subject.
18. A method of expressing a monoclonal antibody (mAb), Fab, F(ab)2, and/or scFv in a subject comprising:
- a) administering a first composition to a subject, wherein said first composition comprises a first amount of polycationic structures, and
- wherein said first composition is free, or essentially free, of nucleic acid molecules; and
- b) administering a second composition to said subject within about 300 minutes of administering said first composition,
- wherein said second composition comprises a therapeutically effective amount of expression vectors encoding said mAb, said Fab, said F(ab)2, and/or scFv, and
- wherein, as a result of said administering said first composition and said administering said second composition, said first therapeutic protein is expressed in said subject.
19. The method of claim 18, wherein said subject has at least one symptom of a disease or condition, or has at least physiological trait to be altered, and wherein said first therapeutic protein is expressed in said subject at a therapeutic level with respect to said disease or condition, or at an effective level sufficient to alter said physiological or disease trait.
20. The method of claim 18, wherein said first therapeutic protein is expressed in said subject at a prophylactic level with respect sufficient to prevent the subject from acquiring one or more infectious diseases.
21. An aqueous composition comprising or consisting essentially of:
- a) polycationic structures or neutral lipid present in said composition at a concentration of between 500 nM and 500 mM;
- b) dexamethasone and/or dexamethasone palmitate present in said composition at a concentration between 1-10% of said composition; and
- c) a physiologically tolerable buffer, and
- wherein said composition is free, or essentially free, of nucleic acid molecules.
22. The composition of claim 21, wherein
- (a) said polycationic structure are cationic lipids that are present as small unilamellar vesicles;
- (b) said polycationic structures comprise DOTAP; or
- (c) said polycationic structures are present in said composition at a concentration of between 800 nM and 1500 nM, or between 10 mM and 100 mM.
23. The composition of claim 21, wherein said physiologically tolerable buffer is selected from the group consisting of: saline buffer, 5% dextrose in water, lactated ringers buffer, and any combination thereof.
24-26. (canceled)
27. The composition of claim 21, wherein said neutral lipids
- (a) are present as multi-lamellar vesicles;
- (b) comprise DMPC, or
- (c) are present in said composition at a concentration of between 800 nM and 1500 nM, or between 10 mM and 100 mM.
28-41. (canceled)
42. A system comprising:
- a) a composition of claim 18, and
- b) a syringe, wherein at least part of said composition is located inside said syringe.
43. The system of claim 42, wherein said composition located inside said syringe contains a therapeutic and/or prophylactic dose of said polycationic structures.
44-47. (canceled)
Type: Application
Filed: Oct 27, 2022
Publication Date: Feb 1, 2024
Applicant: DNARx (San Francisco, CA)
Inventors: Robert James DEBS (San Francisco, CA), Timothy D. HEATH (Madison, WI), Chakkrapong HANDUMRONGKUL (Richmond, VA)
Application Number: 18/050,389
