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  • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
  • C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
  • C12N15/09—Recombinant DNA-technology
  • C12N15/63—Introduction of foreign genetic material using vectors; Vectors; Use of hosts therefor; Regulation of expression
  • C12N15/79—Vectors or expression systems specially adapted for eukaryotic hosts
  • C12N15/85—Vectors or expression systems specially adapted for eukaryotic hosts for animal cells
  • C12N15/86—Viral vectors
• • A—HUMAN NECESSITIES
  • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
  • A61K—PREPARATIONS FOR MEDICAL, DENTAL OR TOILETRY PURPOSES
  • A61K38/00—Medicinal preparations containing peptides
  • A61K38/16—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof
  • A61K38/17—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof from animals; from humans
  • A61K38/22—Hormones
  • A61K38/28—Insulins
• • A—HUMAN NECESSITIES
  • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
  • A61K—PREPARATIONS FOR MEDICAL, DENTAL OR TOILETRY PURPOSES
  • A61K38/00—Medicinal preparations containing peptides
  • A61K38/16—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof
  • A61K38/17—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof from animals; from humans
  • A61K38/38—Albumins
  • A61K38/385—Serum albumin
• • A—HUMAN NECESSITIES
  • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
  • A61K—PREPARATIONS FOR MEDICAL, DENTAL OR TOILETRY PURPOSES
  • A61K48/00—Medicinal preparations containing genetic material which is inserted into cells of the living body to treat genetic diseases; Gene therapy
  • A61K48/005—Medicinal preparations containing genetic material which is inserted into cells of the living body to treat genetic diseases; Gene therapy characterised by an aspect of the 'active' part of the composition delivered, i.e. the nucleic acid delivered
• • A—HUMAN NECESSITIES
  • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
  • A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
  • A61P3/00—Drugs for disorders of the metabolism
  • A61P3/08—Drugs for disorders of the metabolism for glucose homeostasis
  • A61P3/10—Drugs for disorders of the metabolism for glucose homeostasis for hyperglycaemia, e.g. antidiabetics
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  • C07—ORGANIC CHEMISTRY
  • C07K—PEPTIDES
  • C07K14/00—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof
  • C07K14/005—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof from viruses
• • C—CHEMISTRY; METALLURGY
  • C07—ORGANIC CHEMISTRY
  • C07K—PEPTIDES
  • C07K14/00—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof
  • C07K14/435—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof from animals; from humans
  • C07K14/575—Hormones
  • C07K14/62—Insulins
• • C—CHEMISTRY; METALLURGY
  • C07—ORGANIC CHEMISTRY
  • C07K—PEPTIDES
  • C07K14/00—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof
  • C07K14/435—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof from animals; from humans
  • C07K14/76—Albumins
  • C07K14/765—Serum albumin, e.g. HSA
• • A—HUMAN NECESSITIES
  • A01—AGRICULTURE; FORESTRY; ANIMAL HUSBANDRY; HUNTING; TRAPPING; FISHING
  • A01K—ANIMAL HUSBANDRY; AVICULTURE; APICULTURE; PISCICULTURE; FISHING; REARING OR BREEDING ANIMALS, NOT OTHERWISE PROVIDED FOR; NEW BREEDS OF ANIMALS
  • A01K2207/00—Modified animals
  • A01K2207/20—Animals treated with compounds which are neither proteins nor nucleic acids
• • A—HUMAN NECESSITIES
  • A01—AGRICULTURE; FORESTRY; ANIMAL HUSBANDRY; HUNTING; TRAPPING; FISHING
  • A01K—ANIMAL HUSBANDRY; AVICULTURE; APICULTURE; PISCICULTURE; FISHING; REARING OR BREEDING ANIMALS, NOT OTHERWISE PROVIDED FOR; NEW BREEDS OF ANIMALS
  • A01K2227/00—Animals characterised by species
  • A01K2227/10—Mammal
  • A01K2227/105—Murine
• • A—HUMAN NECESSITIES
  • A01—AGRICULTURE; FORESTRY; ANIMAL HUSBANDRY; HUNTING; TRAPPING; FISHING
  • A01K—ANIMAL HUSBANDRY; AVICULTURE; APICULTURE; PISCICULTURE; FISHING; REARING OR BREEDING ANIMALS, NOT OTHERWISE PROVIDED FOR; NEW BREEDS OF ANIMALS
  • A01K2267/00—Animals characterised by purpose
  • A01K2267/03—Animal model, e.g. for test or diseases
  • A01K2267/035—Animal model for multifactorial diseases
  • A01K2267/0362—Animal model for lipid/glucose metabolism, e.g. obesity, type-2 diabetes
• • C—CHEMISTRY; METALLURGY
  • C07—ORGANIC CHEMISTRY
  • C07K—PEPTIDES
  • C07K2319/00—Fusion polypeptide
  • C07K2319/01—Fusion polypeptide containing a localisation/targetting motif
  • C07K2319/02—Fusion polypeptide containing a localisation/targetting motif containing a signal sequence
• • C—CHEMISTRY; METALLURGY
  • C07—ORGANIC CHEMISTRY
  • C07K—PEPTIDES
  • C07K2319/00—Fusion polypeptide
  • C07K2319/31—Fusion polypeptide fusions, other than Fc, for prolonged plasma life, e.g. albumin
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  • C12N2750/00—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA ssDNA viruses
  • C12N2750/00011—Details
  • C12N2750/14011—Parvoviridae
  • C12N2750/14111—Dependovirus, e.g. adenoassociated viruses
  • C12N2750/14122—New viral proteins or individual genes, new structural or functional aspects of known viral proteins or genes
• • C—CHEMISTRY; METALLURGY
  • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
  • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
  • C12N2750/00—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA ssDNA viruses
  • C12N2750/00011—Details
  • C12N2750/14011—Parvoviridae
  • C12N2750/14111—Dependovirus, e.g. adenoassociated viruses
  • C12N2750/14141—Use of virus, viral particle or viral elements as a vector
  • C12N2750/14143—Use of virus, viral particle or viral elements as a vector viral genome or elements thereof as genetic vector
• • C—CHEMISTRY; METALLURGY
  • C12—BIOCHEMISTRY; BEER; SPIRITS; WINE; VINEGAR; MICROBIOLOGY; ENZYMOLOGY; MUTATION OR GENETIC ENGINEERING
  • C12N—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA
  • C12N2750/00—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA ssDNA viruses
  • C12N2750/00011—Details
  • C12N2750/14011—Parvoviridae
  • C12N2750/14111—Dependovirus, e.g. adenoassociated viruses
  • C12N2750/14141—Use of virus, viral particle or viral elements as a vector
  • C12N2750/14145—Special targeting system for viral vectors

Definitions

• the invention relates generally to compositions and methods for treating diabetes in a canine or feline.
• Diabetes mellitus is a syndrome associated with protracted hyperglycemia due to loss or dysfunction of insulin secretion by pancreatic beta cells, diminished insulin sensitivity in tissues, or both.
• beta-cell loss tends to be rapid and progressive, and is usually due to immune-mediated destmction, vacuolar degeneration, or pancreatitis.
• loss or dysfunction of beta cells is the result of insulin resistance, islet amyloidosis, or chronic lymphoplasmacytic pancreatitis.
• Insulin is an endogenous peptide hormone produced by beta cells of the pancreatic islets and it is considered to be the main anabolic hormone of the body. Insulin is the mainstay of therapy for diabetic dogs and cats. The current standard of care is twice daily insulin injections by the dog or cat’s caregiver along with frequent veterinarian visits and disposable diagnostics that are expensive, time consuming and inconvenient.
• compositions and methods related to a virion engineered to provide sustained expression of insulin are provided.
• a recombinant adeno-associated viral (rAAV) virion for treatment of companion animals.
• the rAAV comprises an AAV capsid and a vector genome comprising an expression cassete comprising a polynucleotide encoding a fusion protein comprising a proinsulin and serum albumin, the expression cassete flanked by a 5' inverted terminal repeat (ITR) and a 3' ITR, wherein the proinsulin is a canine proinsulin or a feline proinsulin.
• the AAV capsid is selected for its ability to express in muscle cells.
• the capsid is a AAVrh91 capsid.
• the proinsulin is canine proinsulin. In other embodiments, the proinsulin is feline proinsulin.
• the canine or feline proinsulin comprises an N-terminal signal peptide.
• the N-terminal signal peptide for canine insulin is a canine insulin signal peptide.
• the N-terminal signal peptide for feline insulin is a feline signal peptide.
• the canine proinsulin is a canine proinsulin variant having a mutation at one or more cleavage sites compared to a reference polypeptide sequence as set forth in SEQ ID NO: 10.
• the proinsulin is a canine proinsulin fused to a canine serum albumin.
• the proinsulin-serum albumin fusion polynucleotide shares at least 80%, at least 85%, at least 90%, at least 95%, at least 99%, or 100% identity to SEQ ID NO: 2.
• the proinsulin comprises K29R, R31K, and L62R mutations compared to a reference polypeptide sequence as set forth in SEQ ID NO: 10.
• the canine proinsulin-serum albumin fusion protein comprises a linker that shares at least 80%, at least 85%, at least 90%, at least 95%, at least 99%, or 100% identity to SEQ ID NO: 8.
• the feline proinsulin is a variant having a mutation at one or more cleavage sites compared to a reference polypeptide sequence as set forth in SEQ ID NO: 24.
• the proinsulin is a feline proinsulin fused to a feline serum albumin.
• the feline proinsulin - feline serum albumin fusion polynucleotide shares at least 80%, at least 85%, at least 90%, at least 95%, at least 99%, or 100% identity to SEQ ID NO: 33.
• the feline proinsulin may comprise K29R, R31K, and L62R mutations compared to a reference polypeptide sequence as set forth in SEQ ID NO: 24.
• the feline proinsulin - feline serum albumin fusion polynucleotide shares at least 80%, at least 85%, at least 90%, at least 95%, at least 99%, or 100% identity to SEQ ID NO: 33.
• the feline proinsulin may comprises K29R, R31K, and L62R mutations compared to a reference polypeptide sequence as set forth in SEQ ID NO: 24.
• the polynucleotide encoding the fusion protein is operatively linked to a promoter.
• the promoter is a CB7 promoter element comprising a cytomegalovirus enhancer/ and a chicken b-actin promoter.
• the expression cassette comprises polynucleotide sequence encoding a homology directed repair (HDR) template configured for insertion into a cut site.
• HDR homology directed repair
• a pharmaceutical composition suitable for use in treating a metabolic disease in a canine or feline which comprises the rAAV virion.
• the rAAV virion or the pharmaceutical composition may be used in a method for treating a canine or feline subject having a metabolic disease, optionally diabetes.
• Certain embodiments provide for use of the rAAV virion or the pharmaceutical composition in the manufacture of a medicament for treating a canine or feline subject having a metabolic disease, optionally diabetes. Certain embodiments provide for the rAAV virion to be in a composition formulated to be administered to the canine or feline subject at a dose of 1 x 10 9 GC/kg to 3 x 10 13 GC/kg of the rAAV and/or wherein the rAAV is delivered intramuscularly.
• a method of treating a canine or feline subject having a metabolic disease comprises administering to the canine or feline subject an effective amount of the rAAV virion or the pharmaceutical composition.
• the method is for treatment of a metabolic disease, e.g., diabetes.
• the diabetes is Type 1 diabetes.
• the diabetes is Type 2 diabetes.
• the effective amount is administered intramuscularly.
• the effective amount is between 1 x 10 9 GC/kg to 3 x 10 13 GC/kg of the rAAV virion.
• the effective amount is between 1 x 10 10 GC/kg to 3 x 10 13 GC/kg of the rAAV virion.
• the method results in expression of the fusion protein in the subject for at least one week, at least two weeks, at least four weeks, at least 6 weeks, at least 8 weeks, at least 10 weeks, at least 12 weeks, at least 16 weeks, at least 20 weeks, at least 30 weeks, at least 40 weeks, at least 50 weeks, or at least 60 weeks.
• the method results in expression of the fusion protein in the subject at a therapeutically effective concentration for at least three months, at least six months, or at least twelve months Tn certain embodiments, the method decreases fasting blood glucose in the subject by about 10%, about 15%, about 20%, about 25%, about 30%, about 35%, about 40%, about 45%, or about 50%.
• FIGs. 1A - 1C show schematic diagrams of illustrative canine insulin proteins of the present disclosure. All three proteins incorporate a native signal peptide (SP) and modified furin sites.
• FIG. 1A shows a schematic diagram of an illustrative canine preproinsulm-serum albumin fusion protein (cINS-Alb). The calNS-Alb protein has a glycine/ serine linker that links the A-chain of insulin to canine serum albumin.
• FIG. IB shows a schematic diagram of an illustrative canine preproinsulin-transferrin fusion protein (cINS-Tf).
• the calNS-Tf protein has a glycine/serine linker that links the A-chain of insulin to canine transferrin.
• FIG. 1C shows a schematic diagram of an illustrative canine preproinsulin protein containing the furin site modifications and serves as a control (cINS-2-1).
• FIG. 2 shows in vitro insulin bioactivity of calNS-Alb and calNS-Tf compared to a control insulin standard.
• EC xx values are listed in the table below the graph.
• a reference insulin standard was used as a control.
• Relative potency is represented as Relative Light Units.
• FIG. 3A shows blood glucose levels of Streptozotocm (STZ) NOD-SCID mice administered AAV virions containing canine insulin analogs or PBS control.
• STZ Streptozotocm
• AAV-cINS analogs cINS-Alb and cINS-Tf
• IM intramuscular
• SD standard deviation
• FIG. 3B shows body weight of STZ NOD-SCID mice administered AAV virions containing canine insulin analogs or PBS control.
• FIGs. 3C and 3D show sx vivo serum insulin activity of STZ NOD-SCID mice administered AAV virions containing canine insulin analogs or PBS control.
• AAV-cINS analogs cINS-Alb and cINS-TI
• IM intramuscular
• Serum samples were taken at Day 28 (FIG 3C) and Day 56 (FIG 3D) and were assayed for insulin bioactivity.
• Relative insulin activity is expressed as Relative Light Units.
• Data shown is mean and spread of individual mice. Statistical difference is shown between the control cINS-2-1 and cINS-Alb at both timepoints (analyzed with one-way ANOVA).
• the present disclosure is predicated, at least in part, on the inventors' surprising finding that virions encoding insulin fusion proteins achieve sustained expression of insulin in canines and felines. Provided are methods of making and using such virions.
• An insulin fusion protein engineered to overcome the short half-life of the native hormone by fusion to a protein with longer half-life is a therapeutic advancement for the treatment of diabetes.
• Long-acting insulin fusion protein expression constructs have been developed for use in canine and feline animals.
• the expression constructs comprise a secretion signal peptide, as well as a fusion domain intended to prolong the time in circulation of the resulting fusion protein.
• the expression constructs are delivered to subjects in need thereof via transduction of a viral particle, such as an AAV particle, and in vivo expression of the encoded insulin fusion protein. Also provided are methods of using these constructs in regimens for treating type 1 diabetes mellitus (T1DM), type 2 diabetes mellitus (T2DM), or metabolic syndrome in a veterinary subject and increasing the half- life of insulin in a subject.
• T1DM type 1 diabetes mellitus
• T2DM type 2 diabetes mellitus
• metabolic syndrome in a veterinary subject and increasing the half- life of insulin in a subject.
• the present invention encompasses insulin-albumin fusion proteins comprising a therapeutic protein having insulin activity.
• the present invention also encompasses polynucleotides comprising, or alternatively consisting of, nucleic acid molecules encoding a therapeutic protein having insulin activity fused to albumin or a fragment (portion) or variant of albumin.
• Albumin may be fused to the N-terminus, the C-terminus, or both termini of the therapeutic protein having insulin activity. In some embodiments, the albumin is fused to the C-terminus of the proinsulin.
• the present invention also encompasses polynucleotides, comprising nucleic acid molecules encoding proteins comprising a therapeutic protein having insulin activity fused to albumin or a fragment (portion) or variant of albumin, that is sufficient to prolong its activity in vivo.
• the insulin protein comprises a leader sequence, which may comprise a secretion signal peptide.
• leader sequence refers to any N-terminal sequence of a polypeptide.
• the canine or feline insulin proteins described herein comprise a leader, or signal sequence, and proinsulin.
• the leader sequence is, in one embodiment, a native sequence (canine or feline insulin) leader.
• the leader sequence is a heterologous sequence, i.e., derived from another protein than canine or feline insulin.
• the leader is a canine IL-2 sequence.
• the IL-2 leader comprises a sequence that shares at least 80%, at least 85%, at least 90%, at least 95%, at least 99%, or 100% identity to SEQ ID NO: 12.
• SEQ ID NO: 12 MYKMQLLSCIALTLVLVANS
• the leader is the native canine insulin sequence.
• the canine leader comprises a sequence that shares at least 80%, at least 85%, at least 90%, at least 95%, at least 99%, or 100% identity to SEQ ID NO: 7.
• the leader sequence is a feline IL-2 sequence.
• the IL-2 leader comprises a sequence that shares at least 80%, at least 85%, at least 90%, at least 95%, at least 99%, or 100% identity to SEQ ID NO: 13.
• SEQ ID NO: 13 MYKIQLLSCIALTLILVTNS
• the leader is the native feline insulin sequence.
• the canine leader comprises a sequence that shares at least 80%, at least 85%, at least 90%, at least 95%, at least 99%, or 100% identity to SEQ ID NO: 9.
• SEQ ID NO: 9 MAPWTRLLPLLALLSLWIPAPTRA
• the leader sequence may be derived from the same species for which administration is ultimately intended, i.e., a canine or feline animal.
• the terms “derived” or “derived from” mean the sequence or protein is sourced from a specific subject species or shares the same sequence as a protein or sequence sourced from a specific subject species.
• a leader sequence which is “derived from” a canine or feline shares the same sequence (or a variant thereof, as defined herein) as the same leader sequence as expressed in a canine or feline.
• the specified nucleic acid or amino acid need not actually be sourced from a canine or feline.
• nucleic acid or amino acid sequence retains the function of the same nucleic acid or amino acid in the species from which it is “derived”, regardless of actual source of the derived sequence.
• Insulin is involved in regulation of glucose utilization in the body.
• the body’s inability to synthesize insulin or cells that are resistant to insulin leads to diabetes mellitus which is characterized by chronic hyperglycemia.
• Preproinsulin is transcribed as a 110 amino acid chain having an N-terminal signal peptide. Removal of the signal peptide from its N-terminus produces proinsulin. Formation of disulfide bonds between the A- & B-chain components, and removal of the intervening C-chain, produces a biologically active insulin molecule comprising 51 amino acids, in size less than half of the original translation product.
• the term “insulin” refers to a biologically active insulin molecule or a functional fragment thereof which provides a desired insulin-like activity , and amino-acid sequence variants of these molecules.
• the disclosure provides proteins comprising canine insulin or feline insulin, as well as polynucleotides and expression vectors encoding such proteins.
• the insulin protein comprises a polynucleotide sequence encoding a polypeptide comprising (a) a secretion signal peptide, (b) a proinsulin polypeptide, (c) an optional linker, and (d) an optional fusion partner.
• the protein comprises a canine IL2 signal peptide and canine proinsulin. In another embodiment, the protein comprises a canine insulin signal peptide and canine proinsulin. The amino acid sequence of native canine proinsulin is show n in SEQ ID NO: 10. In another embodiment, the protein comprises a feline IL2 signal peptide and feline proinsulin. In another embodiment, the protein comprises a feline insulin signal peptide and feline proinsulin. The amino acid sequence of native feline proinsulin is shown in SEQ ID NO: 24.
• canine or feline insulin includes variants which may include up to about 10% variation from an insulin nucleic acid or amino acid sequence described herein or known in the art, which retain the function of the wild-type sequence.
• by “retain function” it is meant that the nucleic acid or amino acid functions in the same way as the wild type sequence, although not necessarily at the same level of expression or activity.
• a functional variant has increased expression or activity as compared to the wild type sequence.
• the functional variant has decreased expression or activity as compared to the wild type sequence.
• the functional variant has 10%, 20%, 30%, 40%, 50%, 60%, 70%, 80%, 90% or greater increase or decrease in expression or activity as compared to the wild type sequence [SEQ ID NO: 24],
• the canine proinsulin sequence in one embodiment, contains one or more mutations as compared to the native sequence. These mutations are, in some embodiments, in the cleavage sites between the B/C chains and C/A chains. In one embodiment, one or more of the cleavage sites are mutated to incorporate at least one furin cleavage site at existing protease cleavage sites.
• the proinsulin sequence has a K29R mutation. In another embodiment, the proinsulin sequence has a R31K mutation. In another embodiment, the proinsulin sequence has a L62R mutation. In another embodiment, the proinsulin sequence has both K29R and R31K mutations.
• the proinsulin sequence has both K29R and L62R mutations. In another embodiment, the proinsulin sequence has both R31K and L62R mutations. In another embodiment, the proinsulin sequence has K29R, R31K, and L62R mutations.
• the canine proinsulin sequence is a sequence that shares at least 80%, at least 85%, at least 90%, at least 95%, at least 99%, or 100% identity SEQ ID NO: 1, 3, 10 or 14.
• the feline proinsulm sequence is a sequence that shares at least 80%, at least 85%, at least 90%, at least 95%, at least 99%, or 100% identity SEQ ID NO: 15, 25, or 33.
• the coding sequences for these peptides may be generated using site-directed mutagenesis of the wild-type nucleic acid sequence.
• web-based or commercially available computer programs, as well as service-based companies may be used to back translate the amino acids sequences to nucleic acid coding sequences, including both RNA and/or cDNA. See, e.g., backtranseq by EMBOSS; Gene Infinity; and/or ExPasy.
• the RNA and/or cDNA coding sequences are designed for optimal expression in the subject species for which administration is ultimately intended, i.e., a canine or a feline.
• the disclosure provides fusion proteins comprising a fusion domain.
• the insulin fusion protein overcomes the short half-life ofthe native hormone.
• the fusion domain comprises either (i) a canine serum albumin or a functional variant thereof, (ii) a canine IgG Fc or a functional variant thereof, or (iii) a canine transferrin or a functional variant thereof.
• the fusion domain comprises a canine serum albumin.
• the fusion domain comprises either (i) a feline serum albumin or a functional variant thereof, (ii) a feline IgG Fc or a functional variant thereof, or (iii) a feline transferrin or a functional variant thereof.
• the fusion domain compri s es a feline serum al bumi n .
• the fusion domain is a canine serum albumin comprising a sequence that shares at least 80%, at least 85%, at least 90%, at least 95%, at least 99%, or 100% identity to SEQ ID NO: 16.
• the fusion domain is a canine transferrin comprising a sequence that shares at least 80%, at least 85%, at least 90%, at least 95%, at least 99%, or 100% identity to SEQ ID NO: 17.
• the fusion domain is a feline serum albumin comprising a sequence that shares at least 80%, at least 85%, at least 90%, at least 95%, at least 99%, or 100% identity to SEQ ID NO: 18.
• the disclosure provides fusion proteins comprising one or more copies of proinsulin, as well as polynucleotides and expression vectors encoding such fusion proteins.
• the fusion protein comprises a polynucleotide sequence encoding a fusion protein comprising (a) a leader sequence comprising a secretion signal peptide, (b) a proinsulin, and (c) a fusion domain comprising either (i) an IgG Fc or a functional variant thereof, (ii) an albumin or a functional variant thereof, or (iii) a transferrin or a functional variant thereof.
• the fusion protein comprises a thrombin leader sequence, a proinsulin, and an IgG Fc or functional variant thereof. In another embodiment, the fusion protein comprises a thrombin leader sequence, a proinsulin, and an albumin or functional variant thereof.
• the fusion protein comprises a canine insulin leader sequence, a canine proinsulin (K29R, R31K and L62R, with respect to the numbering of SEQ ID NO: 10), a glycine/serine linker, and a canine serum albumin.
• the fusion protein comprises a sequence that shares at least 80%, at least 85%, at least 90%, at least 95%, at least 99%, or 100% identity to SEQ ID NO: 1.
• the fusion protein comprises a canine insulin leader sequence, a canine proinsulin (K29R, R31K and L62R, with respect to the numbering of SEQ ID NO: 10), aglycine/serine linker, and a canine transferrin.
• the fusion protein comprises a sequence that shares at least 80%, at least 85%, at least 90%, at least 95%, at least 99%, or 100% identity to SEQ ID NO: 3.
• the fusion protein comprises a canine insulin leader sequence and a canine proinsulin (K29R, R31K and L62R, with respect to the numbering of SEQ ID NO: 10).
• the fusion protein comprises a sequence that shares at least 80%, at least 85%, at least 90%, at least 95%, at least 99%, or 100% identity to SEQ ID NO: 5.
• the fusion protein comprises a feline insulin leader sequence, a feline proinsulin (K29R, R31K and L62R, with respect to the numbering of SEQ ID NO: 24), a glycine/serine linker, and a feline serum albumin.
• the fusion protein comprises a sequence that shares at least 80%, at least 85%, at least 90%, at least 95%, at least 99%, or 100% identity to SEQ ID NO: 24 or 25.
• the fusion protein comprises an insulin leader sequence, a proinsulin, and an albumin or functional variant thereof. In one embodiment, the fusion protein comprises an insulin leader sequence, a proinsulin, and a transferrin or functional vanant thereof.
• the fusion protein comprises an IL2 leader sequence, a proinsulin, and an albumin or functional variant thereof. In one embodiment, the fusion protein comprises an IL2 leader sequence, a proinsulin, and a transferrin or functional variant thereof.
• nucleic acid sequences (used interchangeably with “polynucleotides”) encoding these polypeptides are provided.
• a nucleic acid sequence is provided which encodes for the proinsulin-serum albumin fusion polypeptide described herein.
• the nucleic acid sequence which encodes the canine proinsulin-serum albumin fusion comprises a sequence that shares at least 80%, at least 85%, at least 90%, at least 95%, at least 99%, or 100% identity to SEQ ID NO: 2.
• the nucleic acid sequence which encodes the canine proinsulin- transferrin fusion comprises a sequence that shares at least 80%, at least 85%, at least 90%, at least 95%, at least 99%, or 100% identity to SEQ ID NO: 4.
• the in vivo function and stability of the fusion proteins of the present disclosure may be optimized by adding small peptide linkers, e g., to prevent potentially unwanted domain interactions or for other reasons. Further, a glycine-rich linker may provide some structural flexibility such that the proinsulin portion can interact productively with the insulin receptor on target cells.
• the C-terminus of the proinsulin and the N-terminus of the fusion domain of the fusion protein are, in one embodiment, fused via a linker.
• the linker includes 1, 2, 3.. or n repeats of a G-rich peptide linker having the sequence (GGGGS)n.
• the linker includes 1, 1.5 or 2 repeats of a G-rich peptide linker having the sequence GGGGSGGGGSGGGGS (SEQ ID NO: 19).
• the linker includes repeats of a G-rich peptide linker having the sequence GGGGSGGGGSGGGS (SEQ ID NO 8).
• the vector genome may comprise a monocistronic or polycistronic transcript.
• the viral particles of the present disclosure comprise a polynucleotide sequence encoding, in 5' to 3':
• CB7 promoter element comprising a cytomegalovirus (CMV) enhancer and a chicken b- actin promoter
• the recombinant AAV vectors comprise an AAV capsid and a vector genome comprising: a 5’ AAV ITR, a promoter, an enhancer, an optional mtron, an open reading frame which is a nucleic acid sequence encoding a fusion protein comprising a canine insulin signal peptide, a canine proinsulin, a linker, and canine serum albumin, a poly A, and a 3’ AAV ITR.
• the canine proinsulin is the engineered canine proinsulin (K29R, R31K and L62R).
• the recombinant AAV vectors comprise an AAV capsid and a vector genome comprising: a 5’ AAV TTR, a promoter, an enhancer, an optional intron, an open reading frame which is a nucleic acid sequence encoding a fusion protein comprising a feline insulin signal peptide, a feline proinsulin, a linker, and feline serum albumin, a poly A, and a 3’ AAV ITR.
• the feline proinsulin is the engineered feline proinsulin (K29R, R31K and L62R).
• the viral particle comprises a nucleic acid sequence that shares at least 75%, at least 80%, at least 85%, at least 90%, at least 95%, at least 99%, or 100% identity to SEQ ID NO: 26 (CB7.CI.cINS2-l_3xGSsp.ALB.rBG) or 28 (CB7.CI.cINS2- 1 3xGSsp.TfrBG).
• the vector genome of the production plasmid includes a shortened 5’ and/or 3’ AAV ITR of 130 base pairs, wherein the external A elements is/are deleted.
• the shortened ITR reverts back to the wild type length of 145 base pairs during vector DNA amplification using the internal A element as a template.
• the final viral particles generated from a production plasmid comprising the shorted ITRs contains the full-length 145 ITRs (by adding 15 nucleotides to the extreme 3’ and/or 15 nucleotides to the extreme 5’ end of the vector genome).
• the full- length AAV 5’ and 3’ ITRs are used.
• the ITRs are selected such that they are transcomplemented by the rep protein expressed during production (e.g., in a trans plasmid).
• the source of the ITRs is from AAV2 and the AAV capsid is from another AAV source, the resulting rAAV may be termed pseudotyped.
• pseudotyped the pseudotyped.
• other configurations of these elements may be suitable.
• AAV Adeno-associated virus
• virions comprising polynucleotides which encode the leader sequences, proinsulin, and insulin polypeptides as described herein, are provided.
• the virion is an adeno-associated virus (AAV) or a recombinant AAV (rAAV).
• AAV adeno-associated virus
• rAAV recombinant AAV
• the term “recombinant AAV” or “rAAV” as used herein refers to naturally occurring adeno-associated viruses, adeno-associated viruses available to one of skill in the art and/or in light of the composition(s) and method(s) described herein, as well as artificial AAVs.
• An adeno-associated virus (AAV) virion is an AAV DNase-resistant viral particle having an AAV protein capsid into which is packaged an expression cassette flanked by AAV inverted terminal repeat sequences (ITRs) (together referred to as the “vector genome”) for delivery to target cells.
• AAV inverted terminal repeat sequences ITRs
• An AAV capsid is composed of 60 capsid (cap) protein subunits, VP1, VP2, and VP3, that are arranged in an icosahedral symmetry in a ratio of approximately 1:1 :10 to 1 : 1:20, depending upon the selected AAV.
• Various AAVs may be selected as sources for capsids of AAV viral particles as identified above.
• the AAV capsid is an AAVrh91 capsid or variant thereof. See, e,g, WO2020/223232 (for AAVrh91 predicted amino acid sequence and deamidation pattern of assembled AAVrh91 capsid) and W02022/036220.
• the capsid protein is designated by a number or a combination of numbers and letters following the term “AAV” in the name of the rAAV virion.
• AAV capsid, ITRs, and other selected AAV components described herein may be readily selected from among any AAV, including, without limitation, the AAVs identified as AAV1, AAV2, AAV3, AAV4, AAV5, AAV6, AAV7, AAV8, AAV9, AAVrhlO, AAVhu37, AAVrh32.33, AAVAnc80, AAV10, AAV11, AAV12, AAVrh8, AAVrh74, AAV- DJ8, AAV-DJ, AAVhu37, AAVrh64Rl, and AAVhu68.
• AAV virions are described in e.g, US Published Patent Application No. 2007-0036760-Al, US Published Patent Application No. 2009-0197338-Al, EP 1310571, WO 2003/042397 (AAV7 and other simian AAV), US Patent 7790449, US Patent 7282199 (AAV8), WO 2005/033321, US 7,906,111 (AAV9), WO 2006/110689, WO 2003/042397 (rhlO), WO 2005/033321, WO 2018/160582 (AAVhu68), which are incorporated herein by reference.
• suitable AAVs may include, without limitation, AAVrh90, AAVrh91, AAVrh92, AAVrh93, AAVrh91.93.
• suitable AAVs include AAV3B variants which are described in International Patent Application No. PCT/US20/56511, filed October 20, 2020, describing AAV3B.AR2.01, AAV3B.AR2.02, AAV3B.AR2.03, AAV3B.AR2.04, AAV3B.AR2.05, AAV3B.AR2.06, AAV3B.AR2.07, AAV3B.AR2.08, AAV3B.AR2.10, AAV3B.AR2.
• AAV3B.AR2.12, AAV3B.AR2.13, AAV3B.AR2.14, AAV3B.AR2.15, AAV3B.AR2.16, or AAV3B.AR2.17 which are incorporated herein by reference.
• These documents also describe other AAV capsids which may be selected for generating rAAV and are incorporated by reference.
• the term “variant” means any AAV sequence which is derived from a known AAV sequence, including those with a conservative amino acid replacement, and those sharing at least 90%, at least 95%, at least 97%, at least 99% or greater sequence identity over the amino acid or nucleic acid sequence.
• the AAV capsid includes variants which may include up to about 10% variation from any described or known AAV capsid sequence. That is, the AAV capsid shares about 90% identity to about 99.9 % identity, about 95% to about 99% identity or about 97% to about 98% identity to an AAV capsid provided herein and/or known in the art.
• the AAV capsid shares at least 95% identity with an AAV capsid.
• the comparison may be made over any of the variable proteins (e.g., vpl, vp2, or vp3).
• the virion is an rAAV having the capsid of AAVrh91 or a functional variant thereof. In one embodiment, the virion is an rAAV having the capsid of AAV3.AR.2.12 or a functional variant thereof. In one embodiment, the virion is an rAAV having the capsid of AAV8 or a functional variant thereof. In one embodiment, the virion is an rAAV having a capsid selected from AAV9, AAVrh64Rl, AAVhu37, or AAVrhlO. In one embodiment, the virion is an rAAV having the capsid of AAVhu68 or a functional variant thereof.
• the viral vector has an AAVrh91 capsid.
• a nucleic acid sequence encoding the AAVrh91 capsid is provided in SEQ ID NO: 21 and the encoded amino acid sequence is provided in SEQ ID NO: 22.
• an rAAV comprising at least one of the vpl, vp2 and the vp3 of AAVrh91 (SEQ ID NO: 22).
• rAAV comprising an AAV capsid encoded by at least one of the vpl, vp2 and the vp3 of AAVrh91 (SEQ ID NO: 21).
• anucleic acid sequence encoding the AAVrh91 amino acid sequence is provided in SEQ ID NO: 22 and the encoded amino acid sequence is provided in SEQ ID NO: 22.
• rAAV comprising an AAV capsid encoded by at least one of the vpl, vp2 and the vp3 of AAVrh91eng (SEQ ID NO: 23).
• the vpl, vp2 and/or vp3 is the full-length capsid protein of AAVrh91 (SEQ ID NO: 22).
• the vpl, vp2 and/or vp3 has an N-terminal and/or a C-terminal truncation (e g., truncation(s) of about 1 to about 10 amino acids)
• an AAVrh91 capsid is characterized by one or more of the following: (1) AAVrh91 capsid proteins comprising: a heterogeneous population of AAVrh91 vpl proteins selected from: vpl proteins produced by expression from a nucleic acid sequence which encodes the predicted amino acid sequence of 1 to 736 of SEQ ID NO: 22, vpl proteins produced from SEQ ID NO: 21, or vpl proteins produced from a nucleic acid sequence at least 70% identical to SEQ ID NO: 21 which encodes the predicted amino acid sequence of 1 to 736 of SEQ ID NO: 22, a heterogeneous population of AAVrh91 vp2 proteins selected from: vp2 proteins produced by expression from a nucleic acid sequence which encodes the predicted amino acid sequence of at least about amino acids 138 to 736 of SEQ ID NO: 22, vp2 proteins produced from a sequence comprising at least nucleotides 412 to 2208 of SEQ ID NO: 21, or v
• an AAVrh91 capsid is characterized by one or more of the following: (1) AAVrh91 capsid proteins comprising: a heterogeneous population of AAVrh91 vpl proteins selected from: vpl proteins produced by expression from a nucleic acid sequence which encodes the predicted amino acid sequence of 1 to 736 of SEQ ID NO: 22, vpl proteins produced from SEQ ID NO: 21, or vpl proteins produced from a nucleic acid sequence at least 70% identical to SEQ ID NO: 21 which encodes the predicted amino acid sequence of 1 to 736 of SEQ ID NO: 22, a heterogeneous population of AAVrh91 vp2 proteins selected from: vp2 proteins produced by expression from a nucleic acid sequence which encodes the predicted amino acid sequence of at least about amino acids 138 to 736 of SEQ ID NO: 22, vp2 proteins produced from a sequence comprising at least nucleotides 412 to 2208 of SEQ ID NO: 21, or v
• the AAVrh91 vpl, vp2 and vp3 proteins contain subpopulations with amino acid modifications comprising at least two highly deamidated asparagines (N) in asparagine - glycine pairs in SEQ ID NO: 22 and optionally further comprising subpopulations comprising other deamidated amino acids, wherein the deamidation results in an amino acid change.
• N highly deamidated asparagines
• subpopulations comprising other deamidated amino acids
• AAVrh91 may have other residues deamidated, e.g., typically at less than 10% and/or may have other modifications, including phosphorylation (e.g., where present, in the range of about 2 to about 30%, or about 2 to about 20%, or about 2 to about 10%) (e.g., at S149), or oxidation (e.g, at one or more of ⁇ W22, ⁇ M211, W247, M403, M435, M471, W478, W503, -M537, -M541, -M559, -M599, M635, and/or, W695).
• the W may oxidize to kynurenine.
• an AAVrh91 capsid is modified in one or more of the positions identified in the preceding table, in the ranges provided, as determined using mass spectrometry with a trypsin enzyme.
• one or more of the positions, or the glycine following the N is modified as described herein. Residue numbers are based on the AAVrh91 sequence provided herein. See, SEQ ID NO: 22.
• an AAVrh91 capsid comprises: a heterogeneous population of vpl proteins which are the product of a nucleic acid sequence encoding the amino acid sequence of SEQ ID NO: 22, a heterogeneous population of vp2 proteins which are the product of a nucleic acid sequence encoding the amino acid sequence of at least about amino acids 138 to 736 of SEQ ID NO: 22, and a heterogeneous population of vp3 proteins which are the product of a nucleic acid sequence encoding at least amino acids 203 to 736 of SEQ ID NO: 22.
• the modified AAVrh91 nucleic acid sequence is be used to generate a mutant rAAV having a capsid with lower deamidation than the native AAVrh91 capsid.
• Such mutant rAAV may have reduced immunogenicity and/or increase stability on storage, particularly storage in suspension form.
• an AAV68 capsid is further characterized by one or more of the following.
• AAV hu68 capsid proteins comprise: AAVhu68 vpl proteins produced by expression from a nucleic acid sequence which encodes the predicted amino acid sequence of 1 to 736 of SEQ ID NO: 37, vpl proteins produced from SEQ ID NO: 35 or 36, or vpl proteins produced from a nucleic acid sequence at least 70% identical to SEQ ID NO: 35 or 36 which encodes the predicted amino acid sequence of 1 to 736 of SEQ ID NO: 37;
• an AAV capsid which comprise a heterogenous population of vpl proteins optionally comprising a valine at position 157, a heterogenous population of vp2 proteins optionally comprising a valine at position 157, and a heterogenous population of vp3 proteins, wherein at least a subpopulation of the vpl and vp2 proteins comprise a valine at position 157 and optionally further comprising a glutamic acid at position 67 based on the numbering of the vpl capsid of SEQ ID NO: 37.
• an AAVhu68 capsid which comprises a heterogenous population of vpl proteins which are the product of a nucleic acid sequence encoding the amino acid sequence of SEQ ID NO: 37, a heterogenous population of vp2 proteins which are the product of a nucleic acid sequence encoding the amino acid sequence of at least about amino acids 138 to 736 of SEQ ID NO: 37, and a heterogenous population of vp3 proteins which are the product of a nucleic acid sequence encoding at least amino acids 203 to 736 of SEQ ID NO: 37, wherein: the vpl, vp2 and vp3 proteins contain subpopulations with amino acid modifications
• the AAVhu68 vpl, vp2 and vp3 proteins are typically expressed as alternative splice variants encoded by the same nucleic acid sequence which encodes the full-length vpl amino acid sequence of SEQ ID NO: 37 (amino acid 1 to 736).
• the vpl-encoding sequence is used alone to express the vpl, vp2 and vp3 proteins.
• this sequence may be co-expressed with one or more of a nucleic acid sequence which encodes the AAVhu68 vp3 amino acid sequence of SEQ ID NO: 37 (about aa 203 to 736) without the vpl -unique region (about aa 1 to about aa 137) and/or vp2-unique regions (about aa 1 to about aa 202), or a strand complementary thereto, the corresponding mRNA or tRNA (about nt 607 to about nt 2211 of SEQ ID NO: 35 or 36), or a sequence at least 70% to at least 99% (e.g., at least 85%, at least 90%, at least 95%, at least 97%, at least 98% or at least 99%) identical to SEQ ID NO: 35 or 36 which encodes aa 203 to 736 of SEQ ID NO: 37.
• a nucleic acid sequence which encodes the AAVhu68 vp3 amino acid sequence of SEQ ID NO: 37
• the vpl-encoding and/or the vp2-encoding sequence may be co-expressed with the nucleic acid sequence which encodes the AAVhu68 vp2 amino acid sequence of SEQ ID NO: 37 (about aa 138 to 736) without the vp 1 -unique region (about aa 1 to about 137), or a strand complementary thereto, the corresponding mRNA or tRNA (nt 412 to 2212 of SEQ ID NO: 35 or 36), or a sequence at least 70% to at least 99% (e.g., at least 85%, at least 90%, at least 95%, at least 97%, at least 98% or at least 99%) identical to SEQ ID NO: 35 or 36 which encodes about aa 138 to 736 of SEQ ID NO: 37.
• a rAAVhu68 has a rAAVhu68 capsid produced in a production system expressing capsids from an AAVhu68 nucleic acid which encodes the vpl ammo acid sequence of SEQ ID NO: 37, and optionally additional nucleic acid sequences, e.g., encoding a vp3 protein free of the vpl and/or vp2-unique regions.
• the rAAVhu68 resulting from production using a single nucleic acid sequence vpl produces the heterogenous populations of vpl proteins, vp2 proteins and vp3 proteins.
• the AAVhu68 capsid contains subpopulations within the vpl proteins, within the vp2 proteins and within the vp3 proteins which have modifications from the predicted amino acid residues in SEQ ID NO: 37.
• These subpopulations include, at a minimum, deamidated asparagine (N or Asn) residues.
• asparagines in asparagine - glycine pairs are highly deamidated.
• the AAVhu68 vpl nucleic acid sequence has the sequence of SEQ ID NO: 35 or 36, or a strand complementary thereto, e.g., the corresponding mRNA or tRNA.
• the vp2 and/or vp3 proteins may be expressed additionally or alternatively from different nucleic acid sequences than the vpl, e.g., to alter the ratio of the vp proteins in a selected expression system.
• nucleic acid sequence which encodes the AAVhu68 vp3 amino acid sequence of SEQ ID NO: 37 (about aa 203 to 736) without the vpl-unique region (about aa 1 to about aa 137) and/or vp2-unique regions (about aa 1 to about aa 202), or a strand complementary thereto, the corresponding mRNA or tRNA (about nt 607 to about nt 221 1 of SEQ ID NO: 35 or 36).
• Tn certain embodiments, also provided is a nucleic acid sequence which encodes the AAVhu68 vp2 amino acid sequence of SEQ ID NO: 37 (about aa 138 to 736) without the vpl-unique region (about aa 1 to about 137), or a strand complementary thereto, the corresponding mRNA or tRNA (nt 412 to 2211 of SEQ ID NO: 35 or 36).
• nucleic acid sequences which encode the amino acid sequence of SEQ ID NO: 37 may be selected for use in producing rAAVhu68 capsids.
• the nucleic acid sequence has the nucleic acid sequence of SEQ ID NO: 35 or 36 or a sequence at least 70% to 99% identical, at least 75%, at least 80%, at least 85%, at least 90%, at least 95%, at least 97%, at least 99%, identical to SEQ ID NO: 35 or 36 which encodes SEQ ID NO: 37.
• the nucleic acid sequence has the nucleic acid sequence of SEQ ID NO: 35 or 36 or a sequence at least 70% to 99 %, at least 75%, at least 80%, at least 85%, at least 90%, at least 95%, at least 97%, at least 99%, identical to about nt 412 to about nt 2211 of SEQ ID NO: 35 or 36 which encodes the vp2 capsid protein (about aa 138 to 736) of SEQ ID NO: 37.
• the nucleic acid sequence has the nucleic acid sequence of about nt 607 to about nt 2211 of SEQ ID NO: 35 or 36 or a sequence at least 70% to 99.%, at least 75%, at least 80%, at least 85%, at least 90%, at least 95%, at least 97%, at least 99%, identical to nt SEQ ID NO: 35 or 36 which encodes the vp3 capsid protein (about aa 203 to 736) of SEQ ID NO: 37.
• the AAVhu68 capsid is characterized, by having, capsid proteins in which at least 45% of N residues are deamidated at least one of positions N57, N329, N452, and/or N512 based on the numbering of amino acid sequence of SEQ ID NO: 37. In certain embodiments, at least about 60%, at least about 70%, at least about 80%, or at least 90% of the N residues at one or more of these N-G positions (i.e. , N57, N329, N452, and/or N512, based on the numbering of amino acid sequence of SEQ ID NO: 37) are deamidated.
• an AAVhu68 capsid is further characterized by having a population of proteins in which about 1 % to about 20% of the N residues have deamidations at one or more of positions: N94, N253, N270, N304, N409, N477, and/or Q599, based on the numbering of amino acid sequence of SEQ ID NO: 37.
• the AAVhu68 comprises at least a subpopulation of vpl, vp2 and/or vp3 proteins which are deamidated at one or more of positions N35, N57, N66, N94, N113, N252, N253, Q259, N270, N303, N304, N305, N319, N328, N329, N336, N409, N410, N452, N477, N515, N598, Q599, N628, N651, N663, N709, N735, based on the numbering of amino acid sequence of SEQ ID NO: 37, or combinations thereof.
• the capsid proteins may have one or more amidated amino acids.
• a recombinant adeno-associated virus having an AAVhu68 capsid and a vector genome, wherein (a) the AAV hu68 capsid comprises a heterogenous population of AAVhu68 vpl proteins, a heterogenous population of AAVhu68 vp2 proteins; and a heterogenous population of AAVhu68 vp3 proteins, wherein the heterogenous AAVhu68 vpl, AAVhu68 vp2 and AAVhu68 vp3 proteins contain subpopulations with amino acid modifications comprising 50% to 100% deamidation in at least two asparagines (N) in asparagine - glycine pairs in two or more of N57, N329, N452, N512 of SEQ ID NO: 37 as determined using mass spectrometry and optionally further comprising subpopulations comprising other deamidated amino acids, wherein the deamidation results in an amino
• a vector genome in the AAVhu68 capsid comprising a nucleic acid molecule comprising AAV inverted terminal repeat sequences and a non-AAV nucleic acid sequence encoding a PTH fusion as described herein operably linked to sequences which direct expression of PTH fusion in a target cell.
• a recombinant AAV includes an AAV capsid from adeno-associated virus rh91, and a vector genome packaged in the AAV capsid, said vector genome comprising AAV inverted terminal repeats (ITRs), a coding sequence for the canine proinsulin-serum albumin fusion of SEQ ID NO: 1, and regulatory sequences which direct expression of the canine proinsulin fusion.
• ITRs AAV inverted terminal repeats
• the rAAV includes an AAV capsid from adeno-associated virus rh91, and a vector genome packaged in the AAV capsid, said vector genome comprising AAV inverted terminal repeats (ITRs), a coding sequence for the canine proinsulin-transferrin fusion of SEQ ID NO: 3, and regulatory sequences which direct expression of the canine proinsulin fusion.
• ITRs AAV inverted terminal repeats
• SEQ ID NO: 3 regulatory sequences which direct expression of the canine proinsulin fusion.
• the rAAV includes an AAV capsid from adeno-associated virus rh91, and a vector genome packaged in the AAV capsid, said vector genome comprising AAV inverted terminal repeats (ITRs), a coding sequence for the feline proinsulin-serum albumin fusion of SEQ ID NO: 32, and regulatory sequences which direct expression of the feline proinsulin fusion.
• ITRs AAV inverted terminal repeats
• a recombinant AAV includes an AAV capsid from adeno-associated virus hu68, and a vector genome packaged in the AAV capsid, said vector genome comprising AAV inverted terminal repeats (ITRs), a coding sequence for the canine proinsulin-serum albumin fusion of SEQ ID NO: 1, and regulatory sequences which direct expression of the canine proinsulin fusion.
• ITRs AAV inverted terminal repeats
• the rAAV includes an AAV capsid from adeno-associated virus hu68, and a vector genome packaged in the AAV capsid, said vector genome comprising AAV inverted terminal repeats (ITRs), a coding sequence for the canine proinsulin-transferrin fusion of SEQ ID NO: 3, and regulator)' sequences which direct expression of the canine proinsulin fusion.
• ITRs AAV inverted terminal repeats
• regulator regulator
• the rAAV includes an AAV capsid from adeno-associated virus hu68, and a vector genome packaged in the AAV capsid, said vector genome comprising AAV inverted terminal repeats (ITRs), a coding sequence for the feline proinsulin-serum albumin fusion of SEQ ID NO: 32, and regulatory sequences which direct expression of the feline proinsulin fusion.
• ITRs AAV inverted terminal repeats
• the nucleic acid sequences encoding the proinsulin fusion constructs described herein are engineered into any suitable genetic element, e.g., naked DNA, phage, transposon, cosmid, RNA molecule (e.g., mRNA), episome, etc., which transfers the proinsulin fusion sequences carried thereon to a host cell, e.g., for generating nanoparticles carrying DNA or RNA, virions in a packaging host cell and/or for delivery to a host cell in a subject.
• the genetic element is a plasmid.
• the selected genetic element may be delivered by any suitable method, including transfection, electroporation, liposome delivery, membrane fusion techniques, high velocity DNA-coated pellets, viral infection and protoplast fusion.
• suitable method including transfection, electroporation, liposome delivery, membrane fusion techniques, high velocity DNA-coated pellets, viral infection and protoplast fusion.
• the methods used to make such constructs are known to those with skill in nucleic acid manipulation and include genetic engineering, recombinant engineering, and synthetic techniques. See, e.g., Green and Sambrook, Molecular Cloning: A Laboratory Manual, Cold Spring Harbor Press, Cold Spring Harbor, NY (2012).
• the proinsulin fusion constructs descnbed herein may be delivered via virions other than rAAV.
• virions may include any virus suitable for gene therapy may be used, including but not limited to adenovirus; herpes virus: lentivirus; retrovirus; etc.
• adenovirus adenovirus
• herpes virus lentivirus
• retrovirus lentivirus
• one of these other virions is generated, it is produced as a replication-defective virion.
• a “replication-defective virus” or “virion” refers to a synthetic or artificial viral particle in which an expression cassette containing a gene of interest is packaged in a viral capsid or envelope, where any viral genomic sequences also packaged within the viral capsid or envelope are replication-deficient: i.e., they cannot generate progeny virions but retain the ability to infect target cells.
• the genome of the virion does not include genes encoding the enzymes required to replicate (the genome can be engineered to be “gutless”- containing only the transgene of interest flanked by the signals required for amplification and packaging of the artificial genome), but these genes may be supplied during production. Therefore, it is deemed safe for use in gene therapy since replication and infection by progeny virions cannot occur except in the presence of the viral enzyme required for replication.
• the expression cassette refers to a nucleic acid molecule which comprises the proinsulin fusion construct coding sequences, promoter, and may include other regulatory sequences therefor.
• the expression cassette may be engineered into a genetic element and/or packaged into the capsid of a virion (e.g, a viral particle).
• a virion e.g, a viral particle
• such an expression cassette for generating a virion contains the proinsulin fusion construct sequences described herein flanked by packaging signals of the viral genome and other expression control sequences such as those described herein. Any of the expression control sequences can be optimized for a specific species using techniques known in the art including, e.g., codon optimization, as described herein.
• the expression cassette typically contains a promoter sequence as part of the expression control sequences.
• a constitutive promoter is used.
• a CB7 promoter may be used.
• CB7 is a chicken B-actin promoter with cytomegalovirus enhancer elements.
• liver-specific promoters may be used, including but not limited to alpha 1 anti-trypsin (A1AT), human albumin (Miyatake et al., J. Virol. 71 :5124 32 (1997)) [humAlb], hepatitis B vims core promoter (Sandig et al., Gene Ther.
• liver-specific promoter (TBG) is used.
• Other promoters such as viral promoters, constitutive promoters, regulatable promoters (see, e.g., WO 2011/126808 and WO 2013/04943), or a promoter responsive to physiologic cues may be used may be utilized in the expression vectors described herein.
• an expression cassette comprises a CB7 promoter, a chicken beta actin intron, a canine mutant pre-insulin with a canine insulin leader fused via a linker to a feline albumin, and a rabbit beta globin poly is provided, e.g., in SEQ ID NO: 26.
• SEQ ID NO: 27 illustrates a vector genome comprising a shortened AAV 5’ ITR, spacer sequences, SEQ ID NO: 27, spacer sequences, and a shortened AAV 3’ ITR.
• an expression cassette comprises a CB7 promoter, a chicken beta actin intron, a canine mutant pre-insulin with a canine insulin leader fused via a linker to a feline transferrin, and a rabbit beta globin poly is provided, e.g., in SEQ ID NO: 28.
• SEQ ID NO: 29 illustrates a vector genome comprising a shortened AAV 5’ ITR, spacer sequences, SEQ ID NO: 28, spacer sequences, and a shortened AAV 3’ ITR.
• an inducible promoter is used.
• An example of an inducible promoter useful herein includes that described in International Patent Application No. PCT/US2021/043219, entitled “Canine and Feline Inducible Expression Constructs for Gene Therapy Applications”, published February 3, 2022, which is incorporated herein by reference.
• the inducible promoter comprises a promoter; an activation domain comprising a canine or feline transactivation domain and a FKBP12-rapamycin binding (FRB) domain of canine or feline FKBP12-rapamycin-associated protein (FRAP); a DNA binding domain comprising a zinc finger homeodomain (ZFHD) and one, two or three FK506 binding protein domain (FKBP) subunit genes; and at least 8 copies of the binding site for ZFHD (8XZFHD) followed by a minimal IL2 promoter.
• ZFHD zinc finger homeodomain
• FKBP FK506 binding protein domain
• an expression cassette and/or an expression vector may contain other appropriate transcription initiation, termination, enhancer sequences, efficient RNA processing signals such as splicing and polyadenylation (poly A) signals; sequences that stabilize cytoplasmic mRNA; sequences that enhance translation efficiency (i.e., Kozak consensus sequence); sequences that enhance protein stability; and when desired, sequences that enhance secretion of the encoded product.
• suitable polyA sequences include, e.g., rabbit beta globin, SV40, bovine growth hormone (bGH), and TK polyA.
• Suitable enhancers include, e.g., the alpha fetoprotein enhancer, the TTR minimal promoter/enhancer, LSP (TH-binding globulin promoter/alphal- microglobulin/bikunin enhancer), amongst others.
• the polyA is a rabbit globin polyA. In one embodiment, the polyA has the sequence of SEQ ID NO: 20.
• control sequences are “operably linked” to the proinsulin fusion construct sequences.
• operably linked refers to both expression control sequences that are contiguous with the gene of interest and expression control sequences that act in trans or at a distance to control the gene of interest.
• a rAAV which includes a 5' ITR, CB7 promoter, chicken beta-actin intron, coding sequence for the protein of SEQ ID NO: 1, a rabbit globin poly A, and a 3’ ITR.
• a rAAV is provided which includes a 5' ITR, CB7 promoter, chicken beta-actin intron, coding sequence for the protein of SEQ ID NO: 3, a rabbit globin poly A, and a 3’ ITR.
• a rAAV which includes a 5' ITR, CB7 promoter, chicken beta-actin intron, coding sequence for the protein of SEQ ID NO: 3, a rabbit globin poly A, and a 3’ ITR.
• the minimal sequences required to package the expression cassette into an AAV viral particle are the AAV 5' and 3' ITRs, which may be of the same AAV origin as the capsid, or of a different AAV origin (to produce an AAV pseudotype).
• the ITRs are the only AAV components required in cis in the same construct as the gene
• the coding sequences for the replication (rep) and/or capsid (cap) are removed from the AAV genome and supplied in trans or by a packaging cell line in order to generate the AAV virion.
• a pseudotyped AAV may contain ITRs from a source which differs from the source of the AAV capsid.
• a chimeric AAV capsid may be utilized. Still other AAV components may be selected.
• AAV sequences are described herein and may also be isolated or obtained from academic, commercial, or public sources (e.g., the American Type Culture Collection, Manassas, VA).
• the AAV sequences may be obtained through synthetic or other suitable means by reference to published sequences such as are available in the literature or in databases such as, e.g., GenBank, PubMed, or the like.
• Methods for generating and isolating AAV virions suitable for delivery to a subject are known in the art. See, e.g., US Patent 7,790,449; US Patent 7,282,199; WO 2003/042397; WO 2005/033321, WO 2006/110689; and US 7,588,772.
• a producer cell line is transiently transfected with a construct that encodes the transgene flanked by ITRs and a construct(s) that encodes rep and cap.
• a packaging cell line that stably supplies rep and cap is transiently transfected with a construct encoding the transgene flanked by ITRs.
• AAV virions are produced in response to infection with helper adenovirus or herpesvirus, requiring the separation of the rAAVs from contaminating virus.
• helper adenovirus or herpesvirus More recently, systems have been developed that do not require infection with helper virus to recover the AAV - the required helper functions (i.e., adenovirus El, E2a, VA, and E4 or herpesvirus UL5, UL8, UL52, and UL29, and herpesvirus polymerase) are also supplied, in trans, by the system.
• helper functions can be supplied by transient transfection of the cells with constructs that encode the required helper functions, or the cells can be engineered to stably contain genes encoding the helper functions, the expression of which can be controlled at the transcriptional or posttranscriptional level.
• the transgene flanked by ITRs and rep/cap genes are introduced into insect cells by infection with baculovirus-based expression vectors.
• the rAAV described herein comprise a selected capsid with a vector genome packaged inside.
• the vector genome (or rAAV genome) comprises 5' and 3' AAV inverted terminal repeats (ITRs), the polynucleotide sequence encoding the insulin protein, and regulatory sequences which direct insertion of the polynucleotide sequence encoding the insulin protein to the genome of a host cell.
• ITRs inverted terminal repeats
• compositions which include the virion constructs described herein.
• the pharmaceutical compositions described herein are designed for delivery to canine or feline subjects in need thereof by any suitable route or a combination of different routes.
• Direct delivery to the liver (optionally via intravenous, via the hepatic artery, or by transplant), direct delivery to the pancreas, oral, inhalation, intranasal, intratracheal, intraarterial, intraocular, intravenous, intramuscular, subcutaneous, intradermal, and other parental routes of administration.
• the virions descnbed herein may be delivered in a single composition or multiple compositions.
• two or more different AAV may be delivered, or multiple viruses [see, e.g., WO 2011/126808 and WO 2013/049493],
• the pharmaceutical compositions described herein are designed for delivery to canine or feline subjects in need thereof by intramuscular administration.
• multiple viruses may contain different replication-defective viruses (e.g., AAV and adenovirus).
• administration is intramuscular. In another embodiment, administration is intravenous.
• a course of treatment may involve repeat administration of the same virion (e.g., an AAVrh91 virion) or a different vinon (e.g., an AAVrh91 and an AAV3B. AR2.12). Still other combinations may be selected using the virions described herein.
• the composition described herein may be combined in a regimen involving other diabetic drugs or protein-based therapies (including e g., insulin analogues, insulin, oral antihyperglycemic drugs (sulfonylureas, biguanides, thiazolidinediones, and alpha-glucosidase inhibitors).
• the composition described herein may be combined in a regimen involving lifestyle changes including dietary and exercise regimens.
• proinsulin construct As used herein the terms “proinsulin construct”, “proinsulin expression construct” and synonyms include the proinsulin sequence as described herein in combination with a leader (whether native or heterologous).
• the terms “proinsulin construct”, “proinsulin expression construct” and synonyms can be used to refer to the nucleic acid sequences encoding the proinsulin fusion protein or the expression products thereof.
• the proinsulin sequence with the leader is also referred to as a “pre-proinsulin”.
• the “proinsulin construct” may also encompass the fusion proteins described herein.
• the replication-defective viruses can be formulated with a physiologically acceptable carrier for use in gene transfer and gene therapy applications.
• quantification of the genome copies (“GC” or “gc”) may be used as the measure of the dose contained in the formulation.
• Any method known in the art can be used to determine the genome copy (GC) number of the replication-defective vims compositions of the invention.
• One method for performing AAV GC number titration is as follows: purified AAV vector genome samples are first treated with DNase to eliminate un-encapsidated AAV genome DNA or contaminating plasmid DNA from the production process. The nuclease resistant particles are then subjected to heat treatment to release the genome from the capsid.
• the released genomes are then quantitated by real-time PCR using pnmer/probe sets targeting specific region of the viral genome (usually poly A signal).
• Another suitable method for determining genome copies is the quantitative-PCR (qPCR), particularly the optimized qPCR or digital droplet PCR.
• the replication-defective vims compositions can be formulated in dosage units to contain an amount of replication-defective virus that is in the range of about 1.0 x 10 9 GC to about 1.0 x 10 15 GC. In another embodiment, this amount of viral genome may be delivered in split doses. In one embodiment, the dose is about 1.0 x 10 10 GC to about 3.0 x 10 13 GC for an average canine or feline subject of about 5-10 kg. In another embodiment, the dose is about 1 x 10 9 GC.
• the dose of AAV virus may be about 1 x IO 10 GC, 1 x 10 11 GC, about 5 x 10 11 GC, about 1 x 10 12 GC, about 5 x 10 12 GC, or about 1 x 10 13 GC.
• the dosage is about 1.0 x 10 9 GC/kg to about 3.0 x 10 13 GC/kg body mass for a canine or feline subject.
• the dose about I x lO 9 GC/kg.
• the dose about 1 x 10 10 GC/kg.
• the dose of AAV virus may be about 1 x IO 10 GC/kg, 1 x 10 11 GC/kg, about 5 x 10 11 GC/kg, about 1 xlO 12 GC/kg, about 5 x 10 12 GC/kg, or about 1 x 10 13 GC/kg.
• a method of sustained expression of a proinsulin fusion protein in a canine or feline subject includes administering a composition as described herein to a subject in need thereof.
• the composition includes a virion containing a proinsulin-serum albumin fusion protein expression cassette, as described herein.
• the method provided herein results in expression of the proinsulin fusion protein in the subject for at least one week, at least two weeks, at least four weeks, at least 6 weeks, at least 8 weeks, at least 10 weeks, at least 12 weeks, at least 16 weeks, at least 20 weeks, at least 30 weeks, at least 40 weeks, at least 50 weeks, or at least 60 weeks.
• the method provided herein results in expression of the proinsulin fusion protein in the subject for at least eight weeks. In some embodiments, the method provided herein results in expression of the proinsulin fusion protein in the subject at a therapeutically effective concentration for at least one month, at least three months, at least six months, or at least twelve months.
• the constructs may be delivered in volumes from IpL to about 100 rnL for a veterinary subject. See, e.g., Diehl et al, J. Applied Toxicology, 21 : 15-23 (2001) for a discussion of good practices for administration of substances to various veterinary animals. This document is incorporated herein by reference.
• the term “dosage” can refer to the total dosage delivered to the subject in the course of treatment, or the amount delivered in a single (of multiple) administration.
• the composition is administered in combination with an effective amount of insulin.
• insulin Various commercially available insulin products are known in the art, including, without limitation, protamine zinc recombinant human insulin (ProZinc®), porcine insulin zinc suspension (Vetsulin®), and insulin glargine (Lantus®).
• ProZinc® protamine zinc recombinant human insulin
• Vetsulin® porcine insulin zinc suspension
• Lantus® insulin glargine
• combination of the rAAV described herein with insulin decreases insulin dose requirements in the subject, as compared to prior to treatment with the AAV virion. Such dose requirements may be reduced by 10% or more, 20% or more, 30% or more, 40% or more, 50% or more, 60% or more, 70% or more, 80% or more, or 90% or more.
• the treating physician may determine the correct dosage of insulin needed by the subject. For example, the subject may be being treated using insulin or other therapy, which the treating physician may continue upon administration of the AAV virion. Such insulin
• a composition comprising the expression cassette, vector genome, rAAV, or other composition described herein for gene therapy is delivered as a single dose per subject.
• the subject is delivered a therapeutically effective amount of a composition described herein.
• a “therapeutically effective amount” refers to the amount of the expression cassette or virion, or a combination thereof that delivers and expresses in the target cells an amount of proinsulin-serum albumin sufficient to reach the therapeutic goal.
• the therapeutic goal is to ameliorate or treat one or more of the symptoms of type I diabetes, type II diabetes or metabolic syndrome.
• a therapeutically effective amount may be determined based on an animal model, rather than a canine or feline subject.
• the therapeutic goal is remission of the metabolic disease in the subject.
• the above-described recombinant AAV virions may be delivered to host cells according to published methods.
• the rAAV preferably suspended in a physiologically compatible carrier, may be administered to a desired subject including a canine.
• Suitable carriers may be readily selected by one of skill in the art in view of the indication for which the transfer virus is directed.
• one suitable carrier includes saline, which may be formulated with a variety of buffering solutions (e.g., phosphate buffered saline).
• Other exemplary carriers include sterile saline, lactose, sucrose, calcium phosphate, gelatin, dextran, agar, pectin, peanut oil, sesame oil, and water.
• compositions of the invention may contain, in addition to the rAAV and/or variants and carrier(s), other conventional pharmaceutical ingredients, such as preservatives, or chemical stabilizers.
• preservatives include chlorobutanol, potassium sorbate, sorbic acid, sulfur dioxide, propyl gallate, the parabens, ethyl vanillin, glycerin, phenol, and parachlorophenol.
• chemical stabilizers include gelatin and albumin.
• the recombinant virions and constructs described herein may be used in preparing a medicament for delivering a proinsulin fusion protein construct to a subject in need thereof, supplying insulin having an increased half-life to a subject, and/or for treating type I diabetes, type II diabetes, or metabolic syndrome in a subject.
• a method of treating diabetes includes administering a composition as described herein to a canine or feline subject in need thereof.
• the composition includes a virion containing a proinsulin fusion protein expression cassette, as described herein.
• a method for treating type 2 diabetes in a canine or feline includes administering a virion comprising a nucleic acid molecule comprising a sequence encoding a proinsulin fusion protein as described herein.
• a method for treating type 1 diabetes in a canine or feline includes administering a virion comprising a nucleic acid molecule comprising a sequence encoding a proinsulin fusion protein as described herein.
• a method of treating a metabolic disease in a canine or feline includes administering a composition as described herein to a canine or feline subject in need thereof.
• the composition includes a virion containing a proinsulin fusion protein expression cassette, as described herein.
• the metabolic disease is Type I diabetes.
• the metabolic disease is Type II diabetes.
• the metabolic disease is metabolic syndrome.
• a method for treating diabetes in a canine or feline includes administering a virion comprising a nucleic acid molecule comprising a sequence encoding a proinsulin-serum albumin fusion protein as described herein, wherein the virion is administered after insulin is administered in a subject.
• the virion is administered at least 1 day, at least 3 days, at least 5 days, at least one week, at least 2 weeks, at least 3 weeks, or at least 4 weeks after insulin is administered to a subject.
• a method for preventing cataract formation in diabetic canines or felines includes administering a virion comprising a nucleic acid molecule comprising a sequence encoding a proinsulin-serum albumin fusion protein as described herein.
• the virion is administered after insulin is administered to a subject.
• a method for reducing the blood glucose concentration in diabetic canines or felines includes administering a virion comprising a nucleic acid molecule comprising a sequence encoding a proinsulin-serum albumin fusion protein as described herein.
• treatment is defined encompassing administering to a subject one or more compounds or compositions described herein for the purposes of amelioration of one or more symptoms of type I diabetes, type II diabetes (T2DM) or metabolic syndrome. “Treatment” can thus include one or more of reducing progression of type I diabetes, type II diabetes or metabolic syndrome, reducing the severity of the symptoms, removing the disease symptoms, delaying progression of disease, or increasing efficacy of therapy in a given subject.
• the term “remission” refers to the ability to cease insulin treatment when the cat or dog no longer exhibits clinical signs of diabetes and has normal blood glucose levels.
• a method for treating T2DM in a feline or canine includes administering a virion comprising a nucleic acid molecule comprising a sequence encoding a fusion protein as described herein.
• a method of treating a metabolic disease in a feline or canine includes administering a composition as described herein to a feline or canine subject in need thereof.
• the composition includes a virion containing a proinsulin fusion protein expression cassette, as described herein.
• a method of reducing fasting blood sugar in a canine or feline subject is provided. The method includes administering a composition as described herein to a subject in need thereof.
• the composition includes a virion containing a proinsulin-serum albumin fusion protein expression cassette, as described herein.
• the method provided herein decreases fasting blood glucose in the subject by at least about 10%, at least about 15%, at least about 20%, at least about 25%, at least about 30%, at least about 35%, at least about 40%, at least about 45%, or at least about 50%. In some embodiments, the method provided herein decreases fasting blood glucose in the subject by about 20%. In some embodiments, the method provided herein decreases fasting blood glucose in the subject by about 30%. In some embodiments, the method provided herein decreases fasting blood glucose in the subject by about 40%.
• a reference to “one embodiment” or “another embodiment” in describing an embodiment does not imply that the referenced embodiment is mutually exclusive with another embodiment (e.g., an embodiment described before the referenced embodiment), unless expressly specified otherwise.
• nucleic acids or polypeptide sequences refer to two or more sequences or subsequences that are the same or have a specified percentage of amino acid residues or nucleotides that are the same (i.e. , share at least about 80% identity, for example, at least about 85%, 90%, 91 %, 92%, 93%, 94%, 95%, 96%, 97%, 98%, 99% identity over a specified region to a reference sequence, when compared and aligned for maximum correspondence over a comparison window, or designated region as measured using one of the following sequence comparison algorithms or by manual alignment and visual inspection.
• sequences are then said to be “substantially identical.” This definition also refers to the compliment of a test sequence. In some embodiments, the identity exists over a region that is at least about 25 amino acids or nucleotides in length, for example, over a region that is 50, 100, 200, 300, 400 amino acids or nucleotides in length, or over the full-length of a reference sequence.
• sequence comparison typically one sequence acts as a reference sequence, to which test sequences are compared.
• test and reference sequences are entered into a computer, subsequence coordinates are designated, if necessary, and sequence algorithm program parameters are designated. Default program parameters can be used, or alternative parameters can be designated.
• sequence comparison algorithm then calculates the percent sequence identities for the test sequences relative to the reference sequence, based on the program parameters. In some embodiments, BLAST and BLAST 2.0 algorithms and the default parameters are used.
• Percent (%) identity refers to the residues in the two sequences which are the same when aligned for correspondence. Percent identity may be readily determined for amino acid sequences over the full-length of a protein, polypeptide, about 70 amino acids to about 100 amino acids, or a peptide fragment thereof or the corresponding nucleic acid sequence coding sequences.
• a suitable amino acid fragment may be at least about 8 ammo acids in length and may be up to about 150 ammo acids.
• identity identity
• homoology or “similarity” between two different sequences
• similarity is determined in reference to “aligned” sequences.
• Alignments refer to multiple nucleic acid sequences or protein (amino acids) sequences, often containing corrections for missing or additional bases or amino acids as compared to a reference sequence. Alignments are performed using any of a variety of publicly or commercially available Multiple Sequence Alignment Programs. Sequence alignment programs are available for amino acid sequences, e.g., the “Clustal X”, “MAP”, “PIMA”, “MSA”, “BLOCKMAKER”, “MEME”, and “Match-Box” programs. Generally, any of these programs are used at default settings, although one of skill in the art can alter these settings as needed. Alternatively, one of skill in the art can utilize another algorithm or computer program which provides at least the level of identity or alignment as that provided by the referenced algorithms and programs.
• amino acid substitution and its synonyms are intended to encompass modification of an amino acid sequence by replacement of an amino acid with another, substituting, amino acid.
• the substitution may be a conservative substitution. It may also be a non-conservative substitution.
• conservative in referring to two amino acids, is intended to mean that the amino acids share a common property recognized by one of skill in the art. For example, amino acids having hydrophobic nonaci die side chains, amino acids having hydrophobic acidic side chains, amino acids having hydrophilic nonacidic side chains, amino acids having hydrophilic acidic side chains, and ammo acids having hydrophilic basic side chains.
• Common properties may also be amino acids having hydrophobic side chains, amino acids having aliphatic hydrophobic side chains, amino acids having aromatic hydrophobic side chains, amino acids with polar neutral side chains, amino acids with electncally charged side chains, amino acids with electrically charged acidic side chains, and amino acids with electrically charged basic side chains.
• Both naturally occurring and non- naturally occurring amino acids are known in the art and may be used as substituting amino acids in embodiments.
• Methods for replacing an amino acid are well known to the skilled in the art and include, but are not limited to, mutations of the nucleotide sequence encoding the amino acid sequence. Reference to “one or more” herein is intended to encompass the individual embodiments of, for example, 1, 2, 3, 4, 5, 6, or more.
• the coding sequences may be designed for optimal expression using codon optimization.
• Codon-optimized coding regions can be designed by various different methods. This optimization may be performed using methods which are available on-line, published methods, or a company which provides codon optimizing services.
• One codon optimizing method is described, e.g., in International Patent Application Pub. No. WO 2015/012924, which is incorporated by reference herein.
• the nucleic acid sequence encoding the product is modified with synonymous codon sequences.
• the entire length of the open reading frame (ORF) for the product is modified. However, in some embodiments, only a fragment of the ORF may be altered. By using one of these methods, one can apply the frequencies to any given polypeptide sequence, and produce a nucleic acid fragment of a codon-optimized coding region which encodes the polypeptide.
• the insulin-serum albumin fusion is caninized or felinized.
• the fusion protein comprises an amino acid sequence that is compatible with canine, such that the amino acid sequence is unlikely to be seen as foreign by the immune system of a canine subject.
• the term for a polypeptide preceded by the prefix “ca” refers to a variant of the human polypeptide in which the human fusion domain is replaced with the canine homolog of that fusion domain and, where the proinsulin is a fragment or variant of a human protein, the proinsulin is replaced with the canine homolog of that fragment or variant.
• the fusion protein comprises an amino acid sequence that is compatible with feline, such that the amino acid sequence is unlikely to be seen as foreign by the immune system of a feline subject.
• the term for a polypeptide preceded by the prefix “fe” refers to a variant of the human polypeptide in which the human fusion domain is replaced with the feline homolog of that fusion domain and, where the proinsulin is a fragment or variant of a human protein, the proinsulin is replaced with the feline homolog of that fragment or variant.
• the present disclosure extends to fusion proteins that are compatible with species other than canine or feline.
• the fusion proteins can be referred to as "speciesized”, referring to the target species to which the molecule will be administered.
• the compositions and methods described herein are intended to be for use in feline animals.
• feline family Felidae refers to any of 37 cat species that among others include the cheetah, puma, jaguar, leopard, lion, lynx, tiger, and domestic cat.
• the subject is a domestic cat.
• the compositions and methods described herein are intended to be for use in canine animals.
• canine refers to any of species found in the Canidae family that among others includes domestic dogs, wolves, and foxes.
• the subject is a domestic dog, also known as Canis lupus familiaris or Canis familiaris.
• the phrase “consisting essentially of’ refers to the genera or species of active pharmaceutical agents recited in a method or composition, and further can include other agents that, on their own do not have substantial activity for the recited indication or purpose.
• regulation refers to the ability of a composition to inhibit one or more components of a biological pathway.
• disease As used herein, “disease”, “disorder” and “condition” are used interchangeably, to indicate an abnormal state in a subject.
• the terms “subject,” “individual,” and “patient” interchangeably refer to a mammal, a human or a non-human primate, domesticated mammals (e.g., canine or feline), laboratory mammals, and agricultural mammals.
• the subject can be a human (e.g., adult male, adult female, adolescent male, adolescent female, male child, female child).
• the subject is a companion animal.
• Illustrative companion animals include, but are not limited to, dogs, cats, horses, rabbits, ferrets, birds, and guinea pigs.
• the subject is a canine.
• the subject is a feline.
• the subject is a mammal.
• viral particle refers a macromolecular complex capable of delivering a foreign nucleic acid molecule into a cell independent of another agent.
• a particle can be a viral particle or non-viral particle.
• Viral particle includes retroviral particle, lenti viral particle, and Ad enoassociated viral particle.
• adeno-associated viral particle may be used interchangeably with "recombinant adeno-associated virus (rAAV) vector” and indicates the presence of a nuclease-resistant AAV capsid having packaged therein a replication-defective vector genome.
• Non-viral particles are limited to liposomes, nanoparticles, and other encapsulation systems for delivery of polynucleotides into cells.
• transgene refers to the transferred nucleic acid itself
• the transgene may be a naked nucleic acid molecule (such as a plasmid) or RNA.
• the transgene may include a polynucleotide encoding one or more polypeptides (e.g., an insulin fusion protein).
• the transgene may include a polynucleotide encoding one or more heterologous protein (e.g., an insulin fusion protein), one or more capsid proteins, and other proteins necessary for transduction of the polynucleotide into a target cell.
• transduce refers to introduction of a nucleic acid into a cell or host organism by way of a particle (e.g., an Adeno-associated viral particle). Introduction of a transgene into a cell by a viral particle can therefore be referred to as “transduction” of the cell.
• the transgene may or may not be integrated into the genomic nucleic acid of a transduced cell. If an introduced transgene becomes integrated into the nucleic acid (genomic DNA) of the recipient cell or organism it can be stably maintained in that cell. Alternatively, the introduced transgene may exist in the recipient cell or host organism extra-chromosomally, or only transiently.
• a “transduced cell” is therefore a cell into which the transgene has been introduced by way of transduction.
• a “transduced” cell is a cell into which, a polynucleotide has been introduced.
• the term “host cell” may refer to the packaging cell line in which a virion (e.g., a recombinant AAV or rAAV) is produced from a production plasmid. Tn the alternative, the term “host cell” may refer to any target cell in which expression of a gene product described herein is desired.
• a “host cell,” refers to a prokaryotic or eukaryotic cell (e.g., bacterial cell, human cell or insect cell) that contains exogenous or heterologous DNA that has been introduced into the cell by any means, e.g., electroporation, calcium phosphate precipitation, microinjection, transformation, viral infection, transfection, liposome delivery, membrane fusion techniques, high velocity DNA-coated pellets, viral infection and protoplast fusion.
• the term “host cell” refers to cultures of cells of various mammalian species for in vitro assessment of the compositions described herein.
• the term “host cell” refers to the cells employed to generate and package the virion or recombinant virus.
• the term “host cell” is an intestine cell, a small intestine cell, a pancreatic cell, a liver cell.
• target cell refers to any target cell in which expression of a heterologous nucleic acid sequence or protein is desired.
• the target cell is a liver cell.
• the target cell is a muscle cell.
• an “expression cassette” or “vector genome” refers to a nucleic acid molecule which comprises a biologically useful nucleic acid sequence (e.g., a gene cDNA encoding a protein, enzyme or other useful gene product, mRNA, etc.) and regulatory sequences operably linked thereto which direct or modulate transcription, translation, and/or expression of the nucleic acid sequence and its gene product.
• a biologically useful nucleic acid sequence e.g., a gene cDNA encoding a protein, enzyme or other useful gene product, mRNA, etc.
• regulatory sequences operably linked thereto which direct or modulate transcription, translation, and/or expression of the nucleic acid sequence and its gene product.
• “operably linked” sequences include both regulatory sequences (also referred to as elements) that are contiguous or non- contiguous with the nucleic acid sequence and regulatory sequences that act in trans or cis nucleic acid sequence.
• Such regulatory' sequences typically include, e.g., one or more of a promoter, an enhancer, a transcription factor, transcription terminator, an intron, sequences that enhance translation efficiency (i.e., a Kozak consensus sequence), efficient RNA processing signals such as slicing and a polyadenylation sequence, sequences that stabilize cytoplasmic mRNA, for example Woodchuck Hepatitis Virus (WHP) posttranslational Regulatory Element (WPRE), and a TATA signal.
• a promoter e.g., one or more of a promoter, an enhancer, a transcription factor, transcription terminator, an intron, sequences that enhance translation efficiency (i.e., a Kozak consensus sequence)
• efficient RNA processing signals such as slicing and a polyadenylation sequence
• sequences that stabilize cytoplasmic mRNA for example Woodchuck Hepatitis Virus (WHP) posttranslational Regulatory Element (WPRE)
• WPRE Woodchuck
• the expression cassette may contain regulatory sequences upstream (5' to) of the gene sequence, e.g., one or more of a promoter, an enhancer, an intron, etc., and one or more of an enhancer, or regulatory' sequences downstream (3' to) a gene sequence, e.g., 3' untranslated region (3' UTR) comprising a polyadenylation site, among other elements.
• the regulatory sequences are operably linked to the nucleic acid sequence of a gene product, wherein the regulatory sequences are separated from nucleic acid sequence of a gene product by an intervening nucleic acid sequence, i.e., 5' -untranslated regions (5' UTR).
• the expression cassette comprises nucleic acid sequence of one or more of gene products.
• the expression cassette can be a monocistronic or a bicistronic expression cassette.
• the term “transgene” refers to one or more DNA sequences from an exogenous source which are inserted into a target cell.
• such an expression cassette can be used for generating a virion and contains the coding sequence for the gene product described herein flanked by packaging signals of the viral genome and other expression control sequences such as those described herein.
• a vector genome may contain two or more expression cassettes.
• administering refers to local and systemic administration, e.g., including enteral, parenteral, pulmonary, and topical/transdermal administration.
• Routes of administration for pharmaceutical ingredients that find use in the methods described herein include, e.g., oral (per os (P.O.)) administration, nasal or inhalation administration, administration as a suppository, topical contact, transdermal delivery (e.g., via a transdermal patch), intrathecal (IT) administration, intravenous (“iv”) administration, intraperitoneal (“ip”) administration, intramuscular (“im”) administration, intralesional administration, or subcutaneous (“sc”) administration, or the implantation of a slow-release device e.g., a mini-osmotic pump, a depot formulation, etc.
• a slow-release device e.g., a mini-osmotic pump, a depot formulation, etc.
• Parenteral administration includes, e.g., intravenous, intramuscular, intraarterial, intrarenal, intraurethral, intracardiac, intracoronary', intramyocardial, intradermal, epidural, subcutaneous, intraperitoneal, intraventricular, ionophoretic and intracranial.
• systemic administration and “systemically administered” refer to a method of administering a pharmaceutical ingredient or composition to a mammal so that the pharmaceutical ingredient or composition is delivered to sites in the body, including the targeted site of pharmaceutical action, via the circulatory system.
• Systemic administration includes, but is not limited to, oral, intranasal, rectal and parenteral (e.g, other than through the alimentary tract, such as intramuscular, intravenous, intra-arterial, transdermal and subcutaneous) administration.
• phrases “effective amount” or “pharmaceutically effective amount” refer to the amount and/or dosage, and/or dosage regime of one or more pharmaceutical ingredients (e.g., virions) necessary to bring about the desired result.
• treating and “treatment” refer to delaying the onset of, retarding or reversing the progress of, reducing the severity of, or alleviating or preventing either the disease or condition to which the term applies, or one or more symptoms of such disease or condition.
• the terms “treating” and “treatment” also include preventing, mitigating, ameliorating, reducing, inhibiting, eliminating and/or reversing one or more symptoms of the disease or condition.
• mitigating refers to reduction or elimination of one or more symptoms of that pathology or disease, and/or a reduction in the rate or delay of onset or severity of one or more symptoms of that pathology or disease, and/or the prevention of that pathology or disease.
• the reduction or elimination of one or more symptoms of pathology or disease can include, e.g., measurable and sustained decrease of fasting blood glucose.
• Example 1 Generation of a Half-Life Extended Canine Insulin-Serum Albumin Fusion and Evaluation of in vitro Potency of Canine Insulin Fusion Proteins
• a canine insulin-serum albumin fusion protein designed to be administered via an AAV virion has been developed for the management of hyperglycemia and hyperglycemia- associated clinical signs of diabetes mellitus in dogs.
• a canine preproinsulin-serum albumin fusion protein (cINS-Alb) was generated by constructing a fusion polypeptide containing the following elements (FIG. 1A) (SEQ ID NO: 1):
• SP Native canine insulin signal peptide
• Canine proinsulin where the native sequence has been modified at 3 amino acid positions (K29R, R31K and L62R) to incorporate 2 furin cleavage sites at existing protease cleavage sites (B-Chain, C-Peptide, A-Cham)
• a canine preproinsulin fusion protein was made with the same elements as above except the canine serum albumin sequence was replaced with canine transferrin (cINS-Tf) (FIG. IB) (SEQ ID NO: 3).
• the expression cassette for the albumin fusion is provided in SEQ ID NO: 26 and the vector genome of the production plasmid is in SEQ ID NO: 27.
• a control canine preproinsulin sequence (no fusion), with the 3 amino acid modifications (K29R, R31K and L62R) was also generated in an AAV virion as a control (cINS-2-1) (FIG. 1C) (SEQ ID NO: 5; expression cassete for control is in SEQ ID NO: 30 and vector genome is in SEQ ID NO: 31).
• SEQ ID NO: 28 provides the expression cassette for a canine proinsulin-transferrin fusion protein.
• the vector genome is provided in SEQ ID NO: 29.
• Example 2 Generation of AAV Virions Comprising Canine Insulin Fusion Protein Transgenes and Evaluation of in vivo Efficacy
• AAVrh9 Leins.2-1 codon-optimized transgenes encoding a control with the 3 amino acid modification without a fusion partner (AAVrh9 Leins.2-1) and two insulin fusion proteins (SEQ ID NOs: 1, 3, and 5) were cloned into a plasmid containing a CB7 promoter element (comprising a hybrid cytomegalovirus enhancer and chicken b-actin promoter).
• the expression constructs were flanked by shortened 130 bp 5' and 3' AAV inverted terminal repeats (ITR) in the plasmid and were packaged in an AAV serotype rh91 capsid (AAVrh91) virion by triple transfection with a trans plasmid expressing the AAVrh91 capsid and a helper plasmid expressing adenoviral helper functions necessary for replication and production, which adenoviral helper functions are not provided by the HEK 293 packaging cells which express El adenoviral functions.
• ITR AAV serotype rh91 capsid
• NOD-SCTD mice that had been treated with streptozotocin to induce diabetes were allocated to one of four groups as shown below in Table 1.
• a 5 th group of non-diabetic NOD-SCID mice were included as a control.
• mice were administered virion (1 x 10 11 GC/mouse) via intramuscular (IM) injection. Twice per week food was removed from the cages 6 hours prior to sampling for fasting blood glucose. Two mice from Group 2 were euthanized (at Day 45 and Day 52 respectively) due to hypoglycemia. One mouse from Group 3 was euthanized at Day 28 due to a poor body condition score and high blood glucose. Fasting blood glucose was measured by glucometer, which had an upper limit of 600 mg/dL.
• mice administered the AAV containing the cINS-Alb fusion tended to gain more weight than diabetic animals in the other groups, although it was not statistically significant.
• a study will be conducted to evaluate the expression, immunogenicity , and effect on blood glucose following administration of an AAVrh91 virion expressing calNS-Alb in healthy dogs.
• Two groups of healthy dogs weighing approximately 10 kg to 15 kg will be administered an intramuscular dose of AAV-calNS-Alb at a dose of IxlO 11 or IxlO 12 GC/kg.
• a series of health screening measures including veterinary examinations, serum fructosamine analysis as well as hematology, clinical chemistry analysis, and urinalysis will be performed. Serum samples will then be collected weekly for up to 8 weeks to determine the level of circulating calNS-Alb protein using a sandwich ELISA protocol as described below.
• calNS-Alb Potential immunogenicity to calNS-Alb will be determined by measuring anti-calNS- Alb antibodies in a bridging assay. Blood glucose levels will be measured twice daily and a continuous glucose monitoring system (FreeStyle LibreTM, Abbott) will be used to record interstitial glucose concentrations at regular intervals. Animals will be observed daily for signs of anaphylaxis, lethargy, and hypoglycemia.
• calNS-Alb To measure serum concentrations of calNS-Alb, a sandwich ELISA is used. ELISA plates are coated with 0.2 Lig/ml of mouse anti-human insulin (clone 7F8, Life Technologies) and blocked with PBS/0.05% Tween 20/1% casein. Coated wells are incubated for 1 h at room temperature with 100 pL of appropriately diluted serum samples, diluted in PBS/0.05% Tween 20/1% casein. Purified calNS-Alb standards ranging from 200 ng/ml to 0. 19 ng/ml are used to establish a standard curve.
• TMB Tetramethylbenzidine
• Example 4 Evaluation of AAV-calNS-Alb Efficacy in a Canine Streptozotocin (STZ) Induced Diabetes Model
• Prior to administration of the AAV-calNS-Alb a series of health screening measures including veterinary examinations, serum fructosamine analysis as well as hematology, clinical chemistry analysis, and urinalysis will be performed. Throughout the study, 3x daily blood glucose measurements via glucometer and 2x daily clinical observations will be performed. On Day -1, subjects will be acclimated to placement of continuous glucose monitors and 3x daily interstitial glucose concentrations will be collected.
• a study will be conducted to evaluate the efficacy of a single administration of an AAVrh91 virion expressing calNS -Alb to adequately maintain blood glucose levels in diabetic dogs.
• Dogs with previously diagnosed diabetes mellitus on stable insulin treatment with moderate to good glycemic control will be treated with either placebo or AAV- calNS-Alb (administered intramuscularly).
• Newly diagnosed dogs with diabetes mellitus will be treated with either placebo or AAV-calNS -Alb (administered intramuscularly).
• Pnorto administration of the AAV-calNS-Alb a series of health screening measures including veterinary examinations, serum fructosamine analysis as well as hematology, clinical chemistry analysis, and urinalysis will be performed.
• Glycemic control will be assessed prior to AAV administration and throughout the study by measuring interstitial glucose concentrations continuously with a continuous glucose monitor or twice daily using a glucometer.
• a study will be conducted to evaluate the efficacy of a single administration of an AAVrh91 virion expressing felNS-Alb to adequately maintain blood glucose levels in diabetic cats.
• Cats with previously diagnosed diabetes mellitus on stable insulin treatment with moderate to good glycemic control will be treated with either placebo or AAV-felNS-Alb (administered intramuscularly).
• Newly diagnosed cats with diabetes mellitus will be treated with either placebo or AAV-felNS-Alb (administered intramuscularly).
• Prior to administration of the AAV-felNS-Alb a series of health screening measures including veterinary examinations, serum fructosamine analysis as well as hematology, clinical chemistry analysis, and urinalysis will be performed.
• Glycemic control will be assessed prior to administration and throughout the study by measuring interstitial glucose concentrations continuously by a continuous glucose monitor or twice daily using a glucometer. Throughout the study, cats will be fed a consistent diet and body weight will be monitored. Over the course of study, in addition to the blood glucose monitoring, blood collections for fructosamine analysis, hematology, clinical chemistry and circulating felNS-Alb protein will be analyzed regularly. Serum levels of felNS-Alb will be measured using a bespoke sandwich ELISA. The requirement for supplementary insulin, insulin dose, body weight and glycemic control as well as improvement in clinical signs and remission rates and time to remission will be used to evaluate the efficacy of the test product.
• ELISA plates are coated with 0.2 pg/ml of mouse anti-human insulin (clone 7F8, Life Technologies) and blocked with PBS/0.05% Tween 20/1% casein. Coated wells are incubated for 1 h at room temperature with 100 pL of appropriately diluted serum samples, diluted in PBS/0.05% Tween 20/1% casein. Purified felNS-Alb standards ranging from 200 ng/ml to 0.19 ng/ml are used to establish a standard curve.
• the plates are incubated for 1 h with a 1/2000 dilution of goat anti-cat albumin (Bethyl Laboratories) in PBS/0.05% Tween 20/1% casein. Plates are then washed five times with PBS/0.05% Tween 20 and developed by the addition of TMB substrate. Development is stopped by the addition of 2M H2SO4 and absorbance is read at 450 nm.
• goat anti-cat albumin Bethyl Laboratories

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