WO2013155441A1 - Filovirus consensus antigens, nucleic acid constructs and vaccines made therefrom, and methods of using same - Google Patents

Filovirus consensus antigens, nucleic acid constructs and vaccines made therefrom, and methods of using same Download PDF

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WO2013155441A1
WO2013155441A1 PCT/US2013/036413 US2013036413W WO2013155441A1 WO 2013155441 A1 WO2013155441 A1 WO 2013155441A1 US 2013036413 W US2013036413 W US 2013036413W WO 2013155441 A1 WO2013155441 A1 WO 2013155441A1
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Prior art keywords
seq
acid sequence
amino acid
homologous
signal peptide
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French (fr)
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David B Weiner
Devon SHEDLOCK
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University of Pennsylvania Penn
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University of Pennsylvania Penn
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Priority to AU2013245729A priority Critical patent/AU2013245729B2/en
Priority to JP2015505951A priority patent/JP6389163B2/ja
Priority to EP22194245.1A priority patent/EP4190350A1/en
Priority to EP13775813.2A priority patent/EP2836230B1/en
Priority to KR1020227001066A priority patent/KR20220012403A/ko
Priority to KR1020247001336A priority patent/KR102877352B1/ko
Priority to CN201380030601.0A priority patent/CN104884083A/zh
Priority to IN9351DEN2014 priority patent/IN2014DN09351A/en
Priority to US14/391,952 priority patent/US9597388B2/en
Priority to CA2870293A priority patent/CA2870293C/en
Priority to KR1020147031462A priority patent/KR102146904B1/ko
Priority to KR1020257035457A priority patent/KR20250156204A/ko
Application filed by University of Pennsylvania Penn filed Critical University of Pennsylvania Penn
Priority to KR1020207023636A priority patent/KR102351881B1/ko
Publication of WO2013155441A1 publication Critical patent/WO2013155441A1/en
Anticipated expiration legal-status Critical
Priority to US15/431,203 priority patent/US10034930B2/en
Priority to US16/050,142 priority patent/US10765733B2/en
Priority to US17/004,818 priority patent/US11723969B2/en
Priority to US18/347,120 priority patent/US20240100143A1/en
Ceased legal-status Critical Current

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Definitions

  • Fragments of SEQ ID NO:4 or fragments of amino acid sequences that are homologous to SEQ ID NO:4 are typically 600 or more, 637 or more, or 670 or more amino acids.
  • the amino acid sequence of the Marburg marburgvirus second consensus envelope glycoprotein immunogen may be SEQ ID NO: 5 (MARV OZO), a fragment of SEQ ID NO:5, an amino acid sequence that is homologous to SEQ ID NO:5, or a fragment of an amino acid sequence that is homologous to SEQ ID NO:5.
  • Amino acid sequences that are homologous to SEQ ID NO:5 are typically 95% or more, 96% or more, 97%) or more, 99% or more, or 99% or more, homologous to SEQ ID NO:4.
  • Fragments of SEQ ID NO:6 or fragments of amino acid sequences that are homologous to SEQ ID NO:6 are typically 600 or more, 637 or more, or 670 or more amino acids.
  • the amino acid sequence may optionally comprise a leader sequences such as the IgE leader.
  • the composition further comprises a nucleic acid sequence that encodes the Marburg marburgvirus Angola 2005 envelope glycoprotein immunogen.
  • the amino acid sequence of the Marburg marburgvirus Angola 2005 envelope glycoprotein immunogen may be SEQ ID NO:3 (MARV ANG), a fragment of SEQ ID NO:3, an amino acid sequence that is homologous to SEQ ID NO:3, or a fragment of an amino acid sequence that is homologous to SEQ ID NO:3.
  • Amino acid sequences that are homologous to SEQ ID NO: 3 are typically 95% or more, 96% or more, 97% or more, 99% or more, or 99% or more, homologous to SEQ ID NO:3. Fragments of SEQ ID NO: 3 or fragments of amino acid sequences that are homologous to SEQ ID NO: 3 are typically 600 or more, 637 or more, or 670 or more amino acids.
  • the amino acid sequence may optionally comprise a leader sequences such as the IgE leader.
  • Nucleic acid sequences that are homologous to SEQ ID NO:66 are typically 95% or more, 96% or more, 97% or more, 99% or more, or 99% or more, homologous to SEQ ID NO: 66.
  • Fragments of SEQ ID NO: 66 or fragments of amino acid sequences that are homologous to SEQ ID NO:66 typically encode 600 or more, 630 or more, or 670 or more amino acids of the Marburg marburgvirus Angola 2005 envelope glycoprotein immunogen encoded by SEQ ID NO: 66.
  • the nucleic acid sequences may optionally include sequences that encode leader sequences such as the IgE leader linked to the sequences encoding the immunogens.
  • transfected cells were indirectly stained with mouse-derived GP-specific serum reagents followed by extensive washing and goat anti-mouse IgG and MHC class I.
  • Western immunoblotting and FACS experiments were repeated at least three times with similar results. Significance for unrooted phylogenetic trees was determined by maximum-likelihood method and verified by bootstrap analysis and significant support values (>80%; 1,000 bootstrap replicates) were determined by MEGA version 5 software.
  • Figures 3A-3C show results from Example 1 demonstrating induction of neutralizing Abs.
  • Figure 3 A shows serum GP-specific IgG responses from vaccinated (solid lines) mice or pre-bled (dotted lines) mice were measured by ELISA.
  • Figures 3B All responses from pEBOS- and pEBOZ-immunized animals were measured against sucrose- purified ZGP since SGP was not available for this study.
  • T cell responses after a single pEBOZ immunization as measured by FACS are summarized as AVE % of total CD44+/IFNy+ CD4+ (dark) or CD8+ (light) cells in Figure 5D.
  • Multivalent smallpox DNA vaccine delivered by intradermal electroporation drives protective immunity in nonhuman primates against lethal monkeypox challenge. J Infect Dis 203: 95-102). As such, each GP was genetically-optimized, subcloned into modified mammalian expression vectors, and then delivered using in vivo electroporation (EP).
  • a sequence listing provided herewith contains a list of 66 sequences including the following
  • SEQ ID NO:5 is the amino acid sequence of MARV CON2, which is the second consensus Marburg marburgvirus envelope glycoprotein immunogen.
  • DNA vaccines exhibit a multitude of advantages including rapid and inexpensive up-scale production, stability at room temperature, and ease of transport, all of which further enhance this platform from an economic and geographic perspective.
  • Ag sequences can be quickly and easily modified in response to newly emergent species and/or expanded to include additional vaccine components and/or regimen for rapid response during outbreak settings.
  • the MARV strategies herein can be easily expanded for greater coverage by the co-administration of additional plasmids encoding consensus MARV GP (MGP) immunogens for other phylogenetic clusters.
  • MGP consensus MARV GP
  • Adjuvant as used herein may mean any molecule added to the DNA plasmid vaccines described herein to enhance antigenicity of the one or more consensus filovirus immunogens encoded by the DNA plasmids and encoding nucleic acid sequences described hereinafter.
  • “Fragment” may mean a polypeptide fragment of a filovirus immunogen that is capable of eliciting an immune response in a mammal against filovirus by recognizing the particular filovirus antigen.
  • the filovirus envelope glycoprotein immunogen may optionally include a signal peptides and/or a methionine at position 1, proteins 98% or more homologous to the consensus sequences set forth herein, proteins 99% or more homologous to the consensus sequences set forth herein, and proteins 100% identical to the consensus sequences set forth herein, in each case with or without signal peptides and/or a methionine at position 1.
  • a fragment may or may not for example comprise a fragment of a filovirus immunogen linked to a signal peptide such as an immunoglobulin signal peptide for example IgE signal peptide or IgG signal peptide.
  • fragments of SEQ ID NOs: 1-6 or variants thereof may comprise 10, 15, 20, 30, 40, 50, 75, 100, 150, 200, 250, 300, 350, 400, 450, 500, 550, 600, 610, 620, 630, 640, 650, 660, 670 or more contiguous amino acids of any of SEQ ID NOs: 1-6 or variants thereof.
  • Variant may also be variants of SEQ ID NO:64, SEQ ID NO:65, or SEQ ID NO: 66 that encode protein which are variants of the proteins encoded by SEQ ID NO:64, SEQ ID NO:65, or SEQ ID NO:66 with an amino acid sequence that is substantially identical to a referenced protein with an amino acid sequence that retains at least one biological activity, typically the amino acid sequences are homologous by 95% or more, 96% or more, 97% or more, 98% or more or 99% or more.
  • Nucleic acid sequence may encode a protein homologous to fragment of a full length consensus Zaire ebolavirus envelope glycoprotein immunogen, a protein homologous to a fragment of a full length consensus Sudan ebolavirus envelope glycoprotein immunogen, a protein homologous to a fragment of a full length Marburg marburgvirus Angola 2005 envelope glycoprotein immunogen, a protein homologous to a fragment of a full length first consensus Marburg marburgvirus envelope glycoprotein immunogen, a protein homologous to a fragment of a full length second consensus Marburg marburgvirus envelope glycoprotein immunogen, or a protein homologous to a fragment of a full length third consensus Marburg marburgvirus envelope glycoprotein immunogen.
  • the plasmid may also comprise a mammalian origin of replication in order to maintain the plasmid extrachromosomally and produce multiple copies of the plasmid in a cell.
  • the plasmid may be pVAXl, pCEP4 or pREP4 from Invitrogen (San Diego, CA), which may comprise the Epstein Barr virus origin of replication and nuclear antigen EBNA-1 coding region, which may produce high copy episomal replication without integration.
  • the backbone of the plasmid may be pAV0242.
  • the plasmid may be a replication defective adenovirus type 5 (Ad5) plasmid.
  • the plasmid may also comprise a regulatory sequence, which may be well suited for gene expression in a cell into which the plasmid is administered.
  • the coding sequence may comprise a codon that may allow more efficient transcription of the coding sequence in the host cell.
  • RANTES constructs and sequences are disclosed in PCT application no. PCT/US 11/024098, which is incorporated herein by reference. Examples of RANTES and other constructs and sequences are disclosed in PCT application no. PCT/US 1999/004332 and corresponding U.S.
  • the feedback mechanism may be performed by either hardware or software.
  • the feedback mechanism may be performed by an analog closed-loop circuit.
  • the feedback occurs every 50 ⁇ , 20 ⁇ , 10 or 1 ⁇ , but is preferably a real-time feedback or instantaneous (i.e., substantially instantaneous as determined by available techniques for determining response time).
  • the neutral electrode may measure the impedance in the desired tissue and communicates the impedance to the feedback mechanism, and the feedback mechanism responds to the impedance and adjusts the pulse of energy to maintain the constant current at a value similar to the preset current.
  • the feedback mechanism may maintain the constant current continuously and instantaneously during the delivery of the pulse of energy.
  • the DNA plasmids after the final subcloning step into the mammalian expression plasmid, can be used to inoculate a cell culture in a large scale fermentation tank, using known methods in the art.
  • H-2 b mice which contained both a CD4+ and a CD8+ epitope (#89) and occurred in a highly conserved region of GP2.
  • CD4+ and CD8+ epitope #89
  • diverse epitope hierarchies were consistent and reproducible in each vaccine group.
  • the subdominant response comprised a significant proportion of the total response; the total AVE subdominant response as measured by the modified ELISPOT assay was approximately 12%, 62%, and 74% in pMARV-, pEBOS- and pEBOZ-immunized H-2 b mice, respectively, while responses in H-2 d mice were 47%, 50% and 34%, respectively.
  • CTL may be important in eliminating virus-infected cells (Warfield KL, et al. (2005). Induction of humoral and CD8+ T cell responses are required for protection against lethal Ebola virus infection. J Immunol 175: 1184-1191; Kalina WV, Warfield KL, Olinger GG, Bavari S (2009). Discovery of common marburgvirus protective epitopes in a BALB/c mouse model. VirolJ 6: 132; Olinger GG, et al. (2005). Protective cytotoxic T-cell responses induced by Venezuelan equine encephalitis virus replicons expressing Ebola virus proteins. J Virol 79: 14189-14196; Sullivan NJ, et al. (2011).
  • CD8(+) cellular immunity mediates rAd5 vaccine protection against Ebola virus infection of nonhuman primates. Nat Med 17: 1128-1131; and Geisbert TW, et al. (2010). Vector choice determines immunogenicity and potency of genetic vaccines against Angola Marburg virus in nonhuman primates. J Virol 84: 10386-10394), production of an additional effector cytokine, TNF, as well as a developmental restriction factor, T-box transcription factor TBX21 (T-bet), known to correlate with T l-type CTL immunity and cytotoxicity were measured and the results were as follows. For Total Cells: TNF 2.9 ⁇ 0.8, Tbet 13.0 ⁇ 1.1. For CD4+/CD44+/IFNy+ Cells: TNF 61.4 ⁇ 3.1, Tbet 72.6 ⁇ 2.0. For
  • DNA vaccination herein induced strong ZGP-specific T cells, a large part of which were characterized by T h l-type multifunctional CTL expressing high levels of T-bet , also shown to correlate with T cell cytotoxicity in humans. It is clear that previous stand-alone DNA vaccine platforms capable of generating mainly humoral immune responses and cellular immunity skewed towards CD4+ T cells may likely benefit from in vivo EP delivery which has been recently demonstrated to induce potent CD8+ T cells in NHPs and the clinic.
  • a five plasmid vaccine comprises a nucleic acid sequence that encodes a Zaire ebolavirus consensus immunogen which is ZEBOV CON, SEQ ID NO: l .
  • the second plasmid comprises a nucleic acid sequence that encodes a Sudan ebolavirus consensus immunogen which is SUDV CON, SEQ ID NO:2.
  • the third plasmid comprises a nucleic acid sequence that encodes SEQ IDNO:4, a Marburg marburgvirus - Ravn cluster consensus (MARV-RAV CON) using Marburg marburgvirus Ravn, Durba (09DRC99) and Kenya (02Uga07Y).
  • the first plasmid comprises a nucleic acid sequence that encodes a Zaire ebolavirus consensus immunogen which is based upon ZEBOV CON, SEQ ID NO: l, modified to include an IgE signal peptide at the N terminus of the Zaire ebolavirus consensus immunogen.
  • the second plasmid comprises a nucleic acid sequence that encodes a Sudan ebolavirus consensus immunogen which is based upon SUDV CON, SEQ ID NO:2, modified to include an IgE signal peptide at the N terminus of the Sudan ebolavirus consensus immunogen.

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US12240872B2 (en) 2016-05-05 2025-03-04 The Trustees Of The University Of Pennsylvania Filovirus consensus antigens, nucleic acid constructs and vaccines made therefrom, and methods of using same
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US20150335726A1 (en) 2015-11-26
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CN110051835A (zh) 2019-07-26
AU2013245729B2 (en) 2016-09-29
KR20240010758A (ko) 2024-01-24
US9597388B2 (en) 2017-03-21
AU2013245729A1 (en) 2014-10-30
CA2870293A1 (en) 2013-10-17
KR102351881B1 (ko) 2022-01-18
JP7164353B2 (ja) 2022-11-01
EP2836230A4 (en) 2016-03-02
US20200390880A1 (en) 2020-12-17
JP2022078289A (ja) 2022-05-24
JP2015527297A (ja) 2015-09-17
JP6389163B2 (ja) 2018-09-12
EP4190350A1 (en) 2023-06-07
IN2014DN09351A (OSRAM) 2015-07-17
US20240100143A1 (en) 2024-03-28
US10765733B2 (en) 2020-09-08
KR102877352B1 (ko) 2025-10-29
US10034930B2 (en) 2018-07-31
KR20200104917A (ko) 2020-09-04
JP2025020200A (ja) 2025-02-12
US11723969B2 (en) 2023-08-15
US20180344840A1 (en) 2018-12-06
CN104884083A (zh) 2015-09-02
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JP2021001191A (ja) 2021-01-07
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KR20220012403A (ko) 2022-02-03
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