IL290953A

Cftr mrna compositions and related methods and uses

Abstract

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IL290953A, drawing sheet 1
Sheet 1 of 78

Term

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  2. Filed
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  4. Today

47 claims: 34 independent, 13 dependent

  1. 1
    We Claim:1. A method of inducing CFTR expression in epithelial cells in a lung of a mammal, the method comprising contacting the epithelial cells in the lung of the mammal with a composition, wherein: the composition is a pharmaceutical composition comprising an in vitro transcribed mRNA;the in vitro transcribed mRNA comprises a coding sequence which encodes SEQ ID NO: 1.
  2. 2
    A method of inducing CFTR expression in a mammalian target cell, the method comprising contacting the mammalian target cell with a composition, the composition comprising an in vitro transcribed mRNA encoding the amino acid sequence of SEQ ID NO:1.
  3. 4
    A non-naturally occurring mRNA molecule comprising a coding sequence, a 5’- UTR, and a 3’-UTR, wherein the coding sequence encodes the amino acid sequence of SEQ ID NO:1 and the coding sequence is at least 80% identical to SEQ ID NO: 3.
  4. 5
    A non-naturally occurring mRNA molecule comprising a coding sequence, a 5’- UTR, and a 3’-UTR, wherein the coding sequence encodes the amino acid sequence of SEQ ID NO:1 and the coding sequence comprises at least 50%, at least 60%, at least 70%, at least 80%, at least 90%, or at least 95% of the nonwild-type bases listed in Table 1 at the positions of the coding sequence listed in Table 1 relative to the wild-type coding sequence of SEQ ID NO: 2.
  5. 6
    A non-naturally occurring mRNA molecule comprising a coding sequence, a 5’- UTR, and a 3’-UTR, wherein the coding sequence encodes the amino acid sequence of SEQ ID NO:1 and the coding sequence comprises at least 50%, at least 60%, at least 70%, at least 80%, at least 90%, or at least 95% of the nonwild-type bases listed in Table 2 at the corresponding positions of the coding sequence listed in Table 2 relative to the wild-type coding sequence of SEQ ID NO: 2.
  6. 7
    The mRNA molecule of any one of claims 4 to 6, wherein the coding sequence is at least 85%, at least 90%, at least 95%, at least 98%, or at least 99% identical to SEQ ID NO:3.
  7. 9
    The mRNA molecule of any one of claims 4 to 8, wherein the 5’-UTR comprises SEQ ID NO:4 and/or the 3’-UTR comprises SEQ ID NO: 5.
  8. 10
    The mRNA molecule of any one of claims 4 to 9, further comprising a poly-A tail of at least 70, 100, 120, 150, 200, or 250 residues in length.
  9. 11
    The mRNA molecule of any one of claims 4 to 10, further comprising a 5’ cap.
  10. 12
    The mRNA molecule of any one of claims 4 to 11, wherein at least one constituent nucleotide is a locked nucleic acid residue.
  11. 13
    The mRNA molecule of any one of claims 4 to 12, wherein the mRNA comprises at least one nonstandard nucleobase.
  12. 15
    The mRNA molecule of any one of claims 4 to 14, for use in inducing functional CFTR expression in a mammal or a mammalian cell.
  13. 16
    A polynucleotide comprising a sequence complementary to the sequence of the mRNA of any one of claims 4 to 15.
  14. 19
    A pharmaceutical composition comprising the mRNA of any one of claims 4 to 15.
  15. 23
    The pharmaceutical composition of any one of claims 21 or 22, wherein the neutral lipid is present in the composition and is chosen from DSPC (1,2distearoyl-sn-glycero-3-phosphocholine), DPPC (1,2-dipalmitoyl-sn-glycero-3phosphocholine), DOPE (1,2-dioleyl-sn-glycero-3-phosphoethanolamine), DPPE (1,2-dipalmitoyl-sn-glycero-3-phosphoethanolamine), DMPE (1,2-dimyristoyl-sn glycero-3-phosphoethanolamine), and DOPG (,2-dioleoyl-sn-glycero-3-phospho(1'-rac-glycerol)).
  16. 24
    The pharmaceutical composition of any one of claims 21 to 23, wherein the pegylated lipid is present in the composition and comprises one or more alkyl chain(s) of C6-C20 length covalently attached to a poly(ethylene) glycol chain of up to 5 kDa in length.
  17. 26
    A nebulization or aerosolization apparatus loaded with the pharmaceutical composition of any one of claims 19 to 25.
  18. 27
    A cultured cell comprising the mRNA of any one of claims 4 to 15 and functional CFTR expressed from the mRNA.
  19. 29
    Use of the pharmaceutical composition of any one of claims 19 to 25 for the induction of expression of functional CFTR.
  20. 30
    A method of inducing CFTR expression in epithelial cells in a lung of a mammal, the method comprising contacting the epithelial cells with a composition, wherein the composition is a pharmaceutical composition comprising the mRNA of any one of claims 4 to 15.
  21. 31
    A method of inducing CFTR expression in a mammalian target cell, the method comprising contacting the mammalian target cell with a composition, the composition comprising the mRNA of any one of claims 4 to 15.
  22. 32
    The method of any one of claims 1 to 3 or 29 to 31, wherein the composition further comprises an organic cation chosen from polyethyleneimine (PEI) or a cationic lipid, wherein the organic cation is non-covalently complexed with the in vitro transcribed mRNA.
  23. 33
    The method of any one of claims 1 to 3 or 29 to 32, wherein the composition does not comprise a mucolytic agent.
  24. 34
    The method of any one of claims 1 to 3 or 29 to 33, wherein the organic cation is a cationic lipid and the composition further comprises a neutral lipid, a pegylated lipid, and/or cholesterol.
  25. 35
    The method of any one of claims 1 to 3 or 29 to 34, wherein the cationic lipid is chosen from chosen from DOTAP (1,2-dioleyl-3-trimethylammonium propane), DODAP (1,2-dioleyl-3-dimethylammonium propane) , DOTMA (1,2-di-Ooctadecenyl-3-trimethylammonium propane), DLinDMA, DLin-KC2-DMA, C12200, HGT4003, HGT5000, HGT5001, MC3, ICE, a cationic lipid comprising a dialkylamino moiety, a cationic lipid comprising an imidazole moiety, and a cationic lipid comprising a guanidinium moiety.
  26. 36
    The method of any one of claims 1 to 3 or 29 to 35, wherein the neutral lipid is present in the composition and is chosen from DSPC (1,2-distearoyl-sn-glycero-3 phosphocholine), DPPC (1,2-dipalmitoyl-sn-glycero-3-phosphocholine), DOPE (1,2-dioleyl-sn-glycero-3-phosphoethanolamine), DPPE (1,2-dipalmitoyl-snglycero-3-phosphoethanolamine), DMPE (1,2-dimyristoyl-sn-glycero-3phosphoethanolamine), and DOPG (,2-dioleoyl-sn -glycero-3-phospho-(1'-rac glycerol)).
  27. 37
    The method of any one of claims 1 to 3 or 29 to 36, wherein the pegylated lipid is present in the composition and comprises one or more alkyl chain(s) of C6-C20 length covalently attached to a poly(ethylene) glycol chain of up to 5 kDa in length.
  28. 38
    The method of any one of claims 1 to 3 or 29 to 37, wherein the organic cation is branched PEI with a molecular weight ranging from 10 kDa to 40 kDa.
  29. 39
    The method of any one of claims 1 to 3 or 29 to 38, wherein the composition is administered via nebulization or aerosolization.
  30. 40
    A method of making CFTR mRNA in vitro, comprising contacting an isolated polynucleotide with an RNA polymerase in the presence of nucleoside triphosphates, wherein:the isolated polynucleotide and RNA polymerase are not contained within a cell;the isolated polynucleotide is a template for the RNA polymerase;the isolated polynucleotide comprises a promoter operably linked to a template sequence;the template sequence comprises a coding sequence complement which is complementary to a sequence encoding SEQ ID NO: 1;and: (a) the template sequence comprises fewer cryptic promoters than the complement of SEQ ID NO: 2, (b) the template sequence comprises fewer direct and/or inverted repeats than SEQ ID NO: 2, (c) the template sequence comprises complements of fewer disfavored codons than SEQ ID NO: 2, or (d) the GC content of the coding sequence complement is lower than the GC content of SEQ ID NO: 2.
  31. 41
    A method of making CFTR mRNA in vitro, comprising contacting the isolated polynucleotide of any one of claims 16 or 17 with an RNA polymerase in the presence of nucleoside triphosphates, wherein:the isolated polynucleotide and RNA polymerase are not contained within a cell;the isolated polynucleotide is a template for the RNA polymerase;and the isolated polynucleotide comprises a promoter operably linked to a template sequence, and the RNA polymerase synthesizes mRNA comprising a coding sequence encoding SEQ ID NO: 1.
  32. 42
    The method of any one of claims 40 to 41, wherein the RNA polymerase is T7 RNA polymerase.
  33. 43
    The method of any one of claims 40 to 42, wherein the nucleoside triphosphates comprise one or more of pseudouridine triphosphate, 5-methyl-cytidine triphosphate, and 2-thio-uridine triphosphate.
  34. 44
    The method of any one of claims 40 to 43, further comprising isolating the mRNA comprising a coding sequence encoding SEQ ID NO:1.
Independent claims34