EP1597354A2 - Systeme pour la commande externe de la reproduction d'un virus oncolytique - Google Patents

Systeme pour la commande externe de la reproduction d'un virus oncolytique

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Publication number
EP1597354A2
EP1597354A2 EP04775799A EP04775799A EP1597354A2 EP 1597354 A2 EP1597354 A2 EP 1597354A2 EP 04775799 A EP04775799 A EP 04775799A EP 04775799 A EP04775799 A EP 04775799A EP 1597354 A2 EP1597354 A2 EP 1597354A2
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EP
European Patent Office
Prior art keywords
gene
cell
transcriptional
adenovirus
tre
Prior art date
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EP04775799A
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German (de)
English (en)
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EP1597354A4 (fr
Inventor
Thomas Harding
De Chao Yu
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Cell Genesys Inc
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Cell Genesys Inc
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Publication of EP1597354A2 publication Critical patent/EP1597354A2/fr
Publication of EP1597354A4 publication Critical patent/EP1597354A4/fr
Withdrawn legal-status Critical Current

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    • 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
    • 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
    • A61K35/00—Medicinal preparations containing materials or reaction products thereof with undetermined constitution
    • A61K35/66—Microorganisms or materials therefrom
    • A61K35/76—Viruses; Subviral particles; Bacteriophages
    • A61K35/761—Adenovirus
    • 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
    • A61K38/19—Cytokines; Lymphokines; Interferons
    • A61K38/193—Colony stimulating factors [CSF]
    • 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
    • A61K38/43—Enzymes; Proenzymes; Derivatives thereof
    • A61K38/45—Transferases (2)
    • A—HUMAN NECESSITIES
    • A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
    • A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
    • A61P35/00—Antineoplastic agents
    • 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
    • C12N7/00—Viruses; Bacteriophages; Compositions thereof; Preparation or purification thereof
    • 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
    • C12N2710/00—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA dsDNA viruses
    • C12N2710/00011—Details
    • C12N2710/10011—Adenoviridae
    • C12N2710/10311—Mastadenovirus, e.g. human or simian adenoviruses
    • C12N2710/10332—Use of virus as therapeutic agent, other than vaccine, e.g. as cytolytic agent
    • 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
    • C12N2710/00—MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA dsDNA viruses
    • C12N2710/00011—Details
    • C12N2710/10011—Adenoviridae
    • C12N2710/10311—Mastadenovirus, e.g. human or simian adenoviruses
    • C12N2710/10341—Use of virus, viral particle or viral elements as a vector
    • C12N2710/10343—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
    • C12N2830/00—Vector systems having a special element relevant for transcription
    • C12N2830/001—Vector systems having a special element relevant for transcription controllable enhancer/promoter combination
    • C12N2830/002—Vector systems having a special element relevant for transcription controllable enhancer/promoter combination inducible enhancer/promoter combination, e.g. hypoxia, iron, transcription factor
    • C12N2830/003—Vector systems having a special element relevant for transcription controllable enhancer/promoter combination inducible enhancer/promoter combination, e.g. hypoxia, iron, transcription factor tet inducible
    • 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
    • C12N2830/00—Vector systems having a special element relevant for transcription
    • C12N2830/008—Vector systems having a special element relevant for transcription cell type or tissue specific enhancer/promoter combination

Definitions

  • Factors that make adenovirus a safe therapeutic agent include the facts that: (a) infection with adenovirus has minor clinical disease manifestations; (b) adenovirus has a stable well-described and characterized genome; (c) adenovirus typically does not integrate its viral DNA into host DNA; (d) adenovirus infection results in transient gene expression; (e) adenovirus is able to infect both dividing and non-dividing cells; (f) adenovirus can infect a variety of human cell types; (g) adenovirus is physically stable; and (h) adenovirus is amenable to high titer production. A continuing concern regarding gene therapy in patients is potential toxicity.
  • compositions comprising replication competent viruses having at least one viral gene under transcriptional control of a regulated gene expression system, as exemplified herein by replication competent adenovirus.
  • the regulated gene expression system comprises at least two levels of transcriptional regulation.
  • a transcriptional transactivator coding sequence is under the transcriptional control of a cell type-specific transcriptional response element (CT-TRE).
  • CT-TRE cell type-specific transcriptional response element
  • a viral gene is under the transcriptional control regulated by interaction of the transcriptional transactivator with a transcriptional response element (referred to herein as a transcriptional transactivator regulated response element.
  • Transactivators of interest in practicing the invention functionally interact with an inducing agent, usually a non-native inducing agent which is exogenously provided to the host cells of interest, e.g. a chemical entity such as tetracycline, ecdysone, rapamycin, synthetic progesterones, glucocorticoids, or an analog thereof, etc.
  • the inducing agent may also be a non-chemical inducer, i.e. ultra-sound, heat, external beam radiation, hypoxia, etc.
  • the transcriptional transactivator is only produced in cells where the cell type- specific TRE is active. The activity of the transcriptional transactivator is dependent upon the presence/concentration of a particular inducing agent or condition.
  • the inducing agent or condition therefore provides a means to regulate the function of the transcriptional transactivator. In the presence of the appropriate concentration of inducing agent an/or condition, an activating transcriptional transactivator will activate transcription and an inhibitory transcriptional transactivator will inhibit transcription. Expression of a gene essential for viral replication is thus regulated, thereby regulating virus replication and spread.
  • the replication and spread of an oncolytic virus may be regulated in vitro or in vivo by providing the inducing agent and/or adjusting the inducing agent concentration using the compositions and methods described herein.
  • Figure 1 is a schematic illustrating the genome of a prostate specific adenovirus vector with tetracycline regulated replication control.
  • Figure 2 is a schematic illustrating the genome of a prostate specific adenovirus vector armed with GM-CSF, with tetracycline regulated replication and transgene control.
  • Figure 3 is a schematic illustrating the genome of an adenovirus vector with dual tetracycline regulated replication control.
  • Figure 4 is a schematic illustrating the genome of an adenovirus vector with rapamycin (ARIAD system) regulated control for use in pan-cancer applications.
  • ARIAD system rapamycin
  • Regulated replication-competent viral vectors comprise a cell type-specific transcriptional regulatory element (CT-TRE) and a transactivator regulated transcriptional regulatory element, which is inducible.
  • CT-TRE cell type-specific transcriptional regulatory element
  • the virus preferentially replicates in cells that allow function of the CT-TRE, and based on the presence or absence of an inducer that regulates the transactivator regulated transcriptional regulatory element.
  • the CT-TRE controls transcription of an inducible transcriptional transactivator (TA) coding sequence.
  • the transcriptional transactivator (a) requires an inducing agent to be functional and (b) controls transcription of a viral gene.
  • the inducer is preferably an exogenous compound, not normally present in the host cells of interest, e.g.
  • the inducer may be ultra-sound, heat, ultra-sound, heat, external beam radiation, hypoxia or some other treatment.
  • An inhibitory transcriptional transactivator will inhibit transcription in the presence of the inducing agent, and an activating transcriptional transactivator will activate transcription in the presence of the inducing agent. In this way, expression of a viral gene essential for replication is regulated both by the CT-TRE and the transactivator regulated transcriptional regulatory element, and indirectly by the concentration of the inducing agent or condition.
  • replication and spread of the virus may be regulated by adjusting the inducing agent concentration.
  • the inducing agent may act to inhibit transcription, or to enhance transcription.
  • Transcription inhibitors provide a way to "shut down" viral replication by delivering the inducing agent to the host cells.
  • Transcription activators provide a way to induce viral replication by addition of the inducing agent.
  • the viral gene essential for replication is an early gene.
  • the viral vectors of this invention comprise a viral gene under the transcriptional control of a transactivator regulated transcriptional regulatory element, and at least one other gene, such as an additional viral gene or a transgene, under control of either the same transactivator regulated transcriptional regulatory element or a second transactivator regulated transcriptional regulatory element that is substantially identical to the first transactivator regulated transcriptional regulatory element.
  • the first and second genes under transcriptional control of the transactivator regulated transcriptional regulatory element(s) are both viral genes necessary for replication.
  • the invention provides viral vectors that can be used for cell-specific replication resulting in selective cytolysis of target cells, where viral replication is regulated through exposure of the target cells to an exogenous inducing agent or condition.
  • the viral vectors of the invention replicate preferentially in CT-TRE functional cells, referred to herein as target cells. This replication preference is indicated by comparing the level of replication (i.e., titer) in cells in which the CT-TRE is active to the level of replication in cells in which the CT-TRE is not active (i.e., a non-target cell).
  • Comparison of the viral titer following infection of a target cell to the titer following infection of a non-target cell provides a key indication that the overall replication preference is enhanced due to the replication in target cells and depressed replication in non-target cells. This provides a means for targeted cell killing, such that runaway infection is prevented.
  • a further level of replication control is provided by the presence or absence of an inducing agent or condition or changes in the concentration thereof.
  • the viral vectors of the invention are exemplified herein by replication competent adenovirus which exhibit target cell specific replication, the control of which is further regulated by an inducing agent.
  • a "replication competent” or “oncolytic” vector of the present invention can be in any of several forms, including, but not limited to, naked DNA; a viral vector encapsulated in a virus coat; a viral vector packaged in another viral or viral-like form (such as herpes simplex virus and AAV); a viral vector encapsulated in a liposome; a viral vector complexed with polylysine or other biocompatible polymer; a viral vector complexed with synthetic polycationic molecules; a viral vector conjugated with transferrin; a viral vector complexed with compounds such as PEG to immunologically "mask” the molecule and/or increase half-life; or a viral vector conjugated to a non-viral protein or any delivery vehicle known to those of skill in the art.
  • the polynucleotide is DNA.
  • DNA includes not only bases A, T, C, and G, but also includes any of their analogs or modified forms of these bases, such as methylated nucleotides, internucleotide modifications such as uncharged linkages and thioates, use of sugar analogs, and modified and/or alternative backbone structures, such as polyamides.
  • viral vectors are replication-competent in a target cell.
  • Exemplary replication-competent viruses included within the scope of the invention include, but are not limited to, adenoviruses, vesicular stomatitis viruses (VSV), herpes viruses (e.g., herpes simplex virus; HSV), reoviruses, paramyxoviruses, rhinoviruses, Newcastle disease viruses, polioviruses, West Nile virus, coxsackie virus, measles viruses and vaccinia viruses, etc. Any and all serotypes of replication-competent viruses can be engineered for targeted expression and regulated expression using the techniques described herein.
  • VSV vesicular stomatitis viruses
  • HSV herpes viruses
  • reoviruses paramyxoviruses
  • rhinoviruses e.g., rhinoviruses
  • Newcastle disease viruses polioviruses
  • West Nile virus polioviruses
  • measles viruses and vaccinia viruses etc.
  • adenovirus vector or “adenoviral vector” (used interchangeably herein) is a term well understood in the art and generally comprises a polynucleotide (defined herein) including all or a portion of an adenovirus genome.
  • adenovirus refers to the virus itself or derivatives thereof. The term covers all serotypes and subtypes and both naturally occurring and recombinant forms, except where otherwise indicated.
  • regulatable adenovirus vectors which contain a cell type-specific transcriptional regulatory element (CT-TRE) operably linked to an inducible transactivator gene, and an adenovirus gene operably linked to a transcriptional transactivator regulated regulatory element regulated by the inducible transactivator.
  • CT-TRE cell type-specific transcriptional regulatory element
  • the adenovirus vector may optionally contain a second adenoviral gene or a transgene operably linked to a transactivator regulated regulatory element or another type of transcriptional regulatory element, which is not cell type-specific.
  • the gene to be transduced is commonly inserted into adenovirus in the deleted E1A and E1 B region of the virus genome Bett et al. (1994), supra.
  • Adenovirus vectors for gene therapy have been described by Stratford-Perricaudet
  • transactivator By “transactivator,” “transactivating factor,” or “transcriptional activator” is meant a polypeptide that facilitates transcription from a promoter.
  • Inducible transactivators facilitate transcription in the presence (or absence) or due to a change in concentration of a specific inducing agent or condition.
  • a tet regulated inducible transactivator may facilitate transcription from the inducible tetO promoter when the transactivator is not bound to the appropriate inducer, e.g., tetracycline or an analog thereof.
  • a reverse tet transactivator retains the DNA binding specificity of a wild-type tet repressor, but is regulated in a reverse manner, i.e. it binds to a tet operator sequence only in the presence of the appropriate inducer, e.g., tetracycline or an analog thereof, rather than in the absence of the inducer.
  • Transcriptional activators generally bind directly to a transcriptional response element, however in some cases they bind indirectly to another protein, which in turn binds to or is bound to the transcriptional response element.
  • a "transcriptional regulatory element”, also referred to as a “transcriptional response element” or “TRE” is a polynucleotide sequence, preferably a DNA sequence, that regulates (i.e., controls) transcription of an operably-linked polynucleotide sequence by an RNA polymerase to form RNA.
  • a TRE increases transcription of an operably linked polynucleotide sequence in a host cell that allows the
  • the TRE comprises an enhancer element and/or promoter element, which may or may not be derived from the same gene.
  • the promoter and enhancer components of a TRE may be in any orientation and/or distance from the coding sequence of interest, and may comprise multimers of the foregoing, as long as the desired transcriptional activity is obtained.
  • a TRE may or may not lack a silencer element.
  • a TRE may be cell type specific, e.g., specific to cancer cells derived from any of a variety of tissue types (cell status specific), prostate cancer cells, bladder cancer cells, colon cancer cells, liver cancer cells, kidney cancer cells, breast cancer cells, pancreatic cancer cells, etc.) or may be active in a large number of cell types.
  • CT-TRE refers to both cell type specific and cell status specific regulatory elements.
  • the transcriptional regulatory element upon which the transactivator acts is referred to as a "transcriptional transactivator regulated regulatory element”.
  • a transcriptional transactivator regulated regulatory element regulates transcription of an operably-linked polynucleotide sequence, and is regulated by an inducible transactivator, for example by binding of an inducible transactivator protein to a specific DNA binding site within or near the promoter.
  • a transcriptional transactivator regulated regulatory element or TA-TRE alters transcription levels in the presence of the inducing agent, either by downregulating or upregulating transcription.
  • an “enhancer” is a term well understood in the art and is a nucleotide sequence derived from a gene which increases transcription of a gene that is operably-linked to a promoter to an extent which is greater than the transcription activation effected by the promoter in the absence of the enhancer when operably-linked to the gene, i.e. it increases transcription from the promoter.
  • enhancer activity is a term well understood in the art and means that when present the nucleotide sequence which has “enhancer activity” increases transcription of a gene which is operably linked to a promoter to a level which is greater than the level of transcription effected by the promoter itself when operably linked to the gene in the absence of the nucleotide sequence which has “enhancer activity", i.e., it increases transcription from the promoter.
  • "Under transcriptional control” is a term well-understood in the art and indicates that transcription of a polynucleotide sequence, usually a DNA sequence, depends on its being operably (operatively) linked to an element that contributes to the regulation of, either promotes or inhibits, transcription.
  • operably linked relates to the orientation of polynucleotide elements in a functional relationship.
  • a TRE is operably linked to a coding segment if the TRE promotes transcription of the coding sequence.
  • Operably linked means that the DNA sequences being linked are generally contiguous and, where necessary to join two protein coding regions, contiguous and in the same reading frame. However, since enhancers generally function when separated from the promoter by several kilobases and intronic sequences may be of variable length, some polynucleotide elements may be operably linked but not contiguous.
  • inducing agent and “inducing condition” may be used interchangeably and refer to a chemical entity or condition which facilitates binding of an inducible transactivator transcriptional response element to a specific DNA binding site within or near a promoter.
  • inducing agent/condition acts on a transactivator transcriptional response element, transcription levels are altered or modulated, either by downregulating or upregulating transcription.
  • exemplary “inducing agents” and “inducing conditions” include, but are not limited to chemical or non-chemical entities (such as ultra- sound, heat, external beam radiation, hypoxia, etc.).
  • a "host cell” includes an individual cell or cell culture which can be or has been a recipient of any virus and/or vector of the present invention. Host cells include progeny of a single host cell, and the progeny may not necessarily be completely identical (in morphology or in terms of total DNA complement) to the original parent cell due to natural, accidental, or deliberate mutation and/or change. A host cell includes cells transfected or infected in vivo with a virus and/or vector of the invention.
  • Host cells may be isolated from a tissue or animal host for in vitro culture.
  • the terms "neoplastic cells”, “neoplasia”, “tumor”, “tumor cells”, “cancer” and “cancer cells”, refer to cells which exhibit relatively autonomous growth, so that they exhibit an aberrant growth phenotype characterized by a significant loss of control of cell proliferation. Neoplastic cells can be malignant or benign.
  • a "heterologous" promoter or enhancer is one that is not present in wild-type virus.
  • heterologous promoter or enhancer examples include the albumin promoter or enhancer and other viral promoters and enhancers, such as SV40.
  • an "endogenous" promoter, enhancer, or TRE is native to, or derived from, the virus.
  • the term "gene” is well understood in the art and is a polynucleotide encoding a polypeptide.
  • a gene includes non-coding regions including, but not limited to, introns, transcribed but untranslated segments, and regulatory elements upstream and downstream of the coding segments.
  • a heterologous polynucleotide or “transgene” is any gene that is not present in wild-type virus.
  • the transgene will also not be expressed or present in the target cell prior to introduction by the virus (viral vector). Examples of preferred transgenes are provided below.
  • a sequence, whether polynucleotide or polypeptide, "depicted in” a SEQ ID NO, means that the sequence is present as an identical contiguous sequence in the sequence of the SEQ ID NO.
  • polynucleotide and “nucleic acid”, used interchangeably herein, refer to a polymeric form of nucleotides of any length, either ribonucleotides or deoxyribonucleotides. These terms include a single-, double- or triple-stranded DNA, genomic DNA, cDNA, RNA, DNA-RNA hybrid, or a polymer comprising purine and pyrimidine bases, or other natural, chemically, biochemically modified, non-natural or derivatized nucleotide bases.
  • polynucleotides a gene or gene fragment, exons, introns, mRNA, tRNA, rRNA, ribozymes, cDNA, recombinant polynucleotides, branched polynucleotides, plasmids, vectors, isolated DNA of any sequence, isolated RNA of any sequence, nucleic acid probes, and primers.
  • a polynucleotide may comprise modified nucleotides, such as methylated nucleotides and nucleotide analogs, uracyl, other sugars and linking groups such as fluororibose and thioate, and nucleotide branches.
  • sequence of nucleotides may be interrupted by non- nucleotide components.
  • a polynucleotide may be further modified after polymerization, such as by conjugation with a labeling component.
  • Other types of modifications included in this definition are caps, substitution of one or more of the naturally occurring nucleotides with an analog, and introduction of means for attaching the polynucleotide to proteins, metal ions, labeling components, other polynucleotides, or a solid support.
  • the polynucleotide is DNA.
  • DNA includes not only bases A, T, C, and G, but also includes any of their analogs or modified forms of these bases, such as methylated nucleotides, internucleotide modifications such as uncharged linkages and thioates, use of sugar analogs, and modified and/or alternative backbone structures, such as polyamides.
  • a polynucleotide or polynucleotide region which has a certain percentage (for example, 80%, 85%, 90%, or 95%) "sequence identity" to another sequence means that, when aligned, that percentage of bases are the same in comparing the two sequences.
  • replication involves production of viral proteins and is generally directed to reproduction of virus.
  • Replication can be measured using assays standard in the art and described herein, such as a burst assay or plaque assay.
  • Replication and “propagation” include any activity directly or indirectly involved in the process of virus manufacture, including, but not limited to, viral gene expression, production of viral proteins, nucleic acids or other components, packaging of viral components into complete viruses, and cell lysis.
  • a "gene essential for replication” is a gene whose transcription is required for the viral vector to replicate in a cell.
  • a target cell is a cell that allows (i.e., permits or induces) a cell type-specific transcriptional regulatory element (TRE) to function.
  • the target cell is a mammalian cell, preferably a human cell.
  • cytotoxicity is a term well understood in the art and refers to a state in which one or more of a cell's usual biochemical or biological functions are perturbed (i.e., inhibited or elevated). These activities include, but are not limited to, metabolism, cellular replication, DNA replication, transcription, translation, and uptake of molecules.
  • Cytotoxicity includes cell death and/or cytolysis. Assays are known in the art that indicate cytotoxicity, such as dye exclusion, 3 H-thymidine uptake, and plaque assays. The term
  • selective cytotoxicity refers to the cytotoxicity conferred by a viral vector of the present invention on a cell which allows a cell type-specific TRE to function when compared to the cytotoxicity conferred by a viral vector of the invention on a cell which does not allow, or is less permissive for, the same TRE to function.
  • cytotoxicity may be measured, for example, by plaque assays, reduction or stabilization in size of a tumor comprising target cells, or the reduction or stabilization of serum levels of a marker characteristic of the tumor cells or a tissue-specific marker, e.g., a cancer marker such as prostate specific antigen.
  • cytotoxic gene is a gene whose expression in a cell, either alone or in conjunction with virus replication, enhances the degree and/or rate of cytotoxic and/or cytolytic activity in the cell.
  • a “therapeutic” gene is a gene whose expression in a cell is associated with a desirable result. In the cancer context, this desirable result may be, for example, cytotoxicity, repression or slowing of cell growth, and/or cell death.
  • a “biological sample” encompasses a variety of sample types obtained from an individual and can be used in a diagnostic or monitoring assay. The definition encompasses blood and other liquid samples of biological origin, solid tissue samples such as a biopsy specimen or tissue cultures or cells derived therefrom and the progeny thereof.
  • the definition also includes samples that have been manipulated in any way after their procurement, such as by treatment with reagents, solubilization, or enrichment for certain components, such as proteins or polynucleotides.
  • biological sample encompasses a clinical sample, and also includes cells in culture, cell supernatants, cell lysates, serum, plasma, biological fluid, and tissue samples.
  • An "individual” is a vertebrate, preferably a mammal, more preferably a human. Mammals include, but are not limited to, rodents, primates, farm animals, sport animals, and pets.
  • An "effective amount” is an amount sufficient to effect beneficial or desired clinical results. An effective amount can be administered in one or more administrations.
  • an effective amount of a viral vector is an amount that is sufficient to palliate, ameliorate, stabilize, reverse, slow or delay the progression of the disease state.
  • treatment is an approach for obtaining beneficial or desired clinical results.
  • beneficial or desired clinical results include, but are not limited to, alleviation of symptoms, diminishment of extent of disease, stabilized (i.e., not worsening) state of disease, preventing spread (i.e., metastasis) of disease, delay or slowing of disease progression, amelioration or palliation of the disease state, and remission (whether partial or total), whether detectable or undetectable.
  • Treatment can also mean prolonging survival as compared to expected survival if not receiving treatment.
  • “Palliating" a disease means that the extent and/or undesirable clinical manifestations of a disease state are lessened and/or time course of the progression is slowed or lengthened, as compared to not administering viral vectors of the present invention.
  • the present invention utilizes transactivating proteins that are functional in mammalian cells capable of serving as host cells for viral infection.
  • transactivating proteins include synthetic, chimeric and naturally occurring transcriptional transactivating proteins or domains of proteins from eukaryotic cells including vertebrate cells, viral transactivating proteins or any synthetic amino acid sequence that is able to stimulate transcription from a vertebrate promoter.
  • Such a transactivating protein may be (1) natural (native), (2) chimeric (chimera of a DNA-binding domain of a natural protein and a regulatory (activator or repressor) domain of a natural protein, (3) synthetic, having a novel DNA-binding domain designed by structural modeling, phage display screening or other methods, and (4) may or may not take the form of a fusion protein.
  • Types of transcriptional activation domains include acidic transcription activation domains, proline-rich transcription activation domains, serine/threonine-rich transcription activation domains and glutamine-rich transcription activation domains.
  • Examples of acidic transcriptional activation domains include the VP16 regions and amino acid residues 753- 881 of Saccharomyces cerevisiae Gal4 (Braselmann et al., 1993, Proc Natl Acad Sci USA. 90 (5): 1657-1661).
  • Examples of proline-rich activation domains include amino acid residues 399-499 of CTF/NF1 and amino acid residues 31-76 of AP2.
  • Examples of serine/threonine-rich transcription activation domains include amino acid residues 1-427 of ITF1 and amino acid residues 2-451 of ITF2.
  • Examples of glutamine-rich activation domains include amino acid residues 175-269 of Oct1 and amino acid residues 132-243 of Sp1.
  • transactivating proteins also include the lymphoid specific transcription factor identified by Muller et al. (1988, Nature 336:544-551), the fos protein (Lucibello et al., 1988, Oncogene 3:43-52); v-jun protein (Bos et al., 1988, Cell 52:705-712); factor EF-C (Ostapchuk et al., 1989, Mol. Cell. Biol.
  • the transactivating protein is Herpes simplex virus VP16 (Sadowski et al., 1988, Nature 335:563-564; Triezenberg et al., 1988, Genes and Dev. 2:718-729).
  • Inducible transactivators include chimeric fusion proteins comprising (i) a functional portion of a DNA binding protein and (ii) a functional portion of a transcriptional activator protein, as described above. DNA sequences encoding the DNA binding protein and the transactivating protein are combined so as to preserve the respective binding and transactivating properties of each.
  • Regions not required for function of DNA binding proteins or transcriptional transactivating proteins may be identified by any method known in the art, including analysis of mapped mutations as well as identification of regions lacking mapped mutations, which are presumably less sensitive to mutation than other, more functionally relevant portions of the molecule.
  • the appropriate recombinant constructs may be produced using standard techniques in molecular biology, including those set forth in Maniatis (1982, Molecular Cloning: A Laboratory Manual (Cold Spring Harbor, N.Y., Cold Spring Harbor Laboratory)).
  • the DNA binding protein portion may be derived from any vertebrate, nonvertebrate, fungal, plant, or bacterial source and may be natural, engineered or synthetic.
  • the transactivator may be a repressor protein, such as, for example, the lexA repressor.
  • a chimeric transactivator protein is derived from a bacterial DNA binding protein, which then confers specificity on the transactivator protein by binding to sites engineered into the transcriptional transactivator regulated regulatory element.
  • DNA sequences homologous to bacterial DNA binding sites are unlikely to occur frequently in the mammalian genome, and therefore selectively control the expression of genes of interest.
  • Exemplary activator domains include but are not limited to VP16, NF-kappaB, TFE3, ITF1, Oct-1, Spl, Oct-2, NFY-A, ITF2, c-myc, and CTF (Seipel, et al., 1992, EMBO J 13: 4961- 4968).
  • Exempalry repressor domains include but are not limited to Kruppel (KRAB; Margolin et al., 1994, Proc Natl Acad Sci USA 91 (10): 4509-13), kox-1 (Deuschle et al., 1995), even-skipped (Licht et al., 1994), LacR, engrailed (Li et al, 1997, J Biol Chem., 274 (12): 7803-15), hairy (HES; Fisher et al., 1996, EMBO J 12 (13): 5075-82), Groucho (TLE; Fisher et al., 1996), RING1 (Satjin et al., 1997, Mol. Cell. Biol.
  • the tTs uses the repression domain of the KRAB protein.
  • the chimeric transacti vator protein may further comprise a nuclear localization sequence, so that the chimeri c transactivator protein is selectively concentrated in the cell nucleus.
  • nu e c acid sequence encoding the SV40 large T antigen nuclear localization signal Pro-Lys-Lys-Lys-Arg-Lys-Val (Kalderon et al., 1984, Cell 39:499-509) may be placed in apposition to the transactivator protein encoding sequences.
  • a number of methods for control of gene expression by inducing agents or conditions have been described, for example, those induced by tetracycline, antiprogestins, and ecdysone.
  • Inducible systems applicable to the current invention include the tet (TetTM) and reverse (RevTetTM) systems, which are described in U.S. Pat. Nos.
  • TetTM and RevTetTM systems which employ small molecules, such as tetracycline (Tc) or analogues, e.g. doxycycline, to regulate (turn on or off) transcription of the target (Knott A et al., Biotechniques 32(4):796, 798, 800 (2002)). Both the TetTM and RevTetTM systems have been demonstrated to modulate gene expression in vivo.
  • Modified vectors based on parvovirus, adenovirus, retroviruses and herpes simplex virus have been used to introduce the TET-Technology in vitro. See, for example Ho, DN. et al. (1996) Mol. Brain Res. 41:200-209; Hwang, J-J. et al. (1996) J. Virol. 70:8138-814; Hu, S-X. et al. (1997) Cancer Res. 57:3339-3343; and Maxwell, I.H. et al. (1996) Gene Ther.3:28-36. Gossen et al. (1992) Proc Natl Acad Sci U S A.
  • transcription is activated by rapamycin (or analogs thereof) which bring together two intracellular molecules, each of which is linked to either a transactivator or a DNA binding protein. When these components come together, transcription of the gene of interest is activated.
  • Rapamycin mediates the formation of heterodimers between the immunophilin FK506-binding protein (FKBP) and the lipid kinase homolog FRAP (Standaert, R. F. et al., Nature 346, 671-674 (1990); Brown, E. J. et al., Nature 369, 756-758 (1994); Rivera, V. M. et al. Nat Med. 2, 1028-1032 (1996); and Ho, S. N.
  • FKBP immunophilin FK506-binding protein
  • FRAP lipid kinase homolog
  • Rapamycin-based systems have been shown to regulate target gene transcription both in cell culture and in animal models and high dose- dependent inducibility has been demonstrated following addition of rapamycin. See, e.g., Ye et al. Science 283 (5398):88-91 , 1999; Magari et al. J Clin Invest. 100(11):2865-72, 1997; Rivera et al. Nat Med. 2(9): 1028-32, 1996.
  • the heterodimerization system is based on human FKBP12 (FK506 binding protein) and a 93 a fragment of the large human PI3K homolog, FRAP (RAFT, mTOR).
  • a DNA binding protein called ZFHD1 (a fusion protein of two human DNA binding domains) is joined to FKBP and the human NF-kappa b p65 activation domain is fused to FRAP (or if rapamycin analogs are used as inducers, instead a mutant version of FRAP).
  • FRAP a DNA binding protein that binds to both FKBP12 and FRAP
  • inducer molecule which binds to both FKBP12 and FRAP
  • FKBP12 and FRAP come together with the DNA binding protein and the activation domain. Gene transcription is therefore initiated.
  • Other examples of regulated gene expression systems or promoters include the metallothionein promoter system (Mulherkar et al. Biochem Biophys Res Commun.
  • glucocorticoid promoter systems Ko et al (1989) Gene 84(2):383-9
  • ecdysone-regulated gene switch Saez et al. Proc Natl Acad Sci U S A. 97(26): 14512-7
  • macrolide-based transgene control system Weber et al. (2002) Nat Biotechnol. 20(9):901-7.
  • ecdysone systems are the Drosophila ecdysone system (Yao and Evans, 1996, Proc. Nat. Acad.
  • Steroid based systems include a synthetic progesterone receptor system which employs RU-486 as the inducer (Wang et al., Biochim Biophys Acta, 1994, 1218 (3): 308-314; Delort and Capecchi, 1996, Hum Gene Ther 7 (7): 809-820; and Osterwalder et al., 2001, Proc Natl Acad Sci 98(22): 12596-601).
  • a "functionally-preserved" variant of a transcriptional transactivator, repressor or the response element therefor is a transcriptional transactivator, repressor or response element therefor which differs from a reference transcriptional transactivator, repressor or response element, but retains the ability to increase transcription of an operably linked polynucleotide, in particular, cell type-specific transcriptional activity.
  • the difference can be due to an altered linear sequence or conformation, arising from, for example, single or multiple base mutation(s), addition(s), deletion(s), and/or modification(s) of the bases.
  • the difference can also arise from changes in the sugar(s), and/or linkage(s) between the bases.
  • the oncolytic viruses of the invention can be used for a wide variety of purposes.
  • Suitable target cells are characterized by the transcriptional activation of the cell specific transcriptional response element in the viral vector. Regulation of transcriptional activation is the result of interaction between transcriptional activators bound to cis-regulatory elements, factors bound to basal transcriptional elements and the activity of transcriptional mediators, coactivators, and the presence of inducing agents or conditions.
  • the transactivator regulated transcriptional regulatory element may be operably linked to a viral gene that is essential for propagation, so that replication competence is only achievable in the target cell, and/or to a transgene. By transgene it is intended any gene that is not present in wild-type virus, frequently the transgene will also not be expressed in the target cell, prior to introduction by the virus.
  • transcriptional activation it is intended that transcription will be increased above basal levels in the target cell by at least about 2-fold; preferably at least about 5-fold; preferably at least about 10-fold; more preferably at least about 20-fold, 30-fold or 40-fold; more preferably at least about 50-fold, 60-fold, 70-fold, 80-fol or 90-fold; more preferably at least about 100-fold; even more preferably at least about 200-fold, even more preferably at least about 400- to about 500- fold, even more preferably, at least about 1000-fold. All of the above-described systems for control of gene expression find utility in practicing the present invention.
  • inducing agent or effective inducing conditions are readily determined from extrapolation of published results, from empirical testing, and other methods known and routinely employed by those of skill in the art.
  • the inducing agent may be administered to an animal harboring a viral vector of the present invention, and effective viral titers determined after administration of the inducing agent.
  • the genetic sequence encoding the transactivator protein is desirably placed under the transcriptional control of a suitable cell type-specific TRE.
  • a “cell type-specific TRE” is preferentially functional in a specific type of cell relative to other types of cells of different functionality.
  • Cell type is a reflection of a differentiation state of a cell which is, under normal physiological conditions, an irreversible, end-stage state.
  • a prostate-specific antigen TRE is functional in prostate cells, but is not substantially functional in other cell types such as hepatocytes, astrocytes, cardiocytes, lymphocytes, etc.
  • a cell type-specific TRE is active in only one cell type.
  • a cell type-specific TRE When a cell type-specific TRE is active in more than one cell type, its activity is restricted to a limited number of cell types, i.e., it is not active in all cell types.
  • a cell type-specific TRE may or may not be tumor cell specific. Such cell type specificity refers to a relative increase in transcription in a target host cell wherein the TRE is active relative to a cell wherein the TRE is not active.
  • a TRE derived from a specific gene is referred to by the gene from which it was derived and is a polynucleotide sequence which regulates transcription of an operably linked polynucleotide sequence in a host cell that expresses that gene.
  • enhancers may be used to provide for specific transcription.
  • lymphocytes for B cells one may use the Ig enhancer
  • T cells one may use the T cell antigen receptor promoter.
  • the different muscle cells one may use the promoters for the different myosins.
  • endothelial cells one may use the different promoters for the different selectins.
  • a "cell status-specific transcriptional regulatory element" or cell status specific TRE is a TRE that is induced or becomes active under a particular physiological state that permits or induces expression of polynucleotides under transcriptional control thereof.
  • An example of cell status is cell cycle.
  • E2F-1 a ubiquitously expressed, growth-regulated gene, which exhibits peak transcriptional activity in S phase. Johnson et al. (1994) Genes Dev. 8:1514-1525.
  • E2F-1- responsive promoters are down-regulated by RB.
  • Many tumor cells have disrupted RB function, which can lead to de-repression of E2F-1 -responsive promoters, and, in turn, deregulated cell division.
  • E2F-1-TRE a ubiquitously expressed, growth-regulated gene, which exhibits peak transcriptional activity in S phase.
  • An "E2F-1-TRE” is a polynucleotide sequence, preferably a DNA sequence, which selectively increases transcription (of an operably-linked polynucleotide sequence) in a host cell that allows an E2F-1-TRE to function, such as a cell (preferably a mammalian cell, even more preferably a human cell) that expresses E2F-1.
  • the E2F-1-TRE is responsive to transcription factors and/or co-factor(s) associated with E2F-1 -producing cells and comprises at least a portion of the E2F-1 promoter and/or enhancer. See Hemandez-Alcoceba R et al. (Hum Gene Ther 2002 Sep 20; 13(14): 1737-50); Tsukuda et al. (Cancer Res. 62:3238-3447, 2002); Johnson et al., Cancer Cell. 2002 May;1(4):325-37. (Onyx); Jakubczak JL et al., Cancer Res. 2003 Apr 1 ;63(7): 1490-9; United States Application Serial No. Serial No.
  • HRE hypoxia response element
  • hypoxia is an integral component of the tumor microenvironment that develops in most solid tumors regardless of their origin, location, or genetic alterations and arises from the rapid growth of the tumor relative to its vascular supply. Since hypoxia is a major factor in conferring resistance of cancer cells to radiotherapy and chemotherapy, selecting tumor clones of high malignancy, predisposing tumors to metastasis, the development of novel therapeutic strategies that target hypoxic areas of tumors is important.
  • Hypoxia-inducible factor is a heterodimeric transcription factor that mediates responses to hypoxia by binding to a hypoxia-response element (HRE) present within target genes and the HIF/HRE system can therefore be utilized to specifically target therapeutic gene expression to tumors.
  • replication competent vectors comprising a hypoxia responsive element or "HRE”.
  • a hypoxia responsive element is a polynucleotide sequence, preferably a DNA sequence, which selectively increases transcription (of an operably-linked polynucleotide sequence) in a host cell under conditions that allow a HRE to function, such as a cell (preferably a mammalian cell, even more preferably a human cell) that expresses hypoxia inducible factor-1 , which interacts with a hypoxia-responsive element (HRE).
  • a cell preferably a mammalian cell, even more preferably a human cell
  • hypoxia-responsive element HRE
  • the sequence of hypoxia-response elements are known in the art, e.g., an HRE from a rat enolase-1 promoter is described in Jiang et al. (1997) Cancer Res. 57:5328-5335.
  • telomerase Another exemplary gene whose expression is associated with the cell cycle is telomerase. See e.g., United States Application Serial No. 10/081969, published as 20030104625; PCT Publication WO00/46355; United States Application Serial No. 10/023,969, published as 20030095989 and United States Application Serial No. 10/206447, published as US20030099616 (Geron); and United States Application Serial No. 09/956,335 published as 20020028785 (Saint Louis University), which describe regulated expression of adenovirus using the human telomerase promoter.
  • the invention provides replication competent vectors comprising a telomerase regulatory element, e.g., a telomerase promoter.
  • telomerase promoters are known in the art, examples of which may be found in GenBank at Accession Nos. AF128893.1 and AF121948.
  • Other cell status-specific transcriptional response elements include heat-inducible (i.e., heat shock) promoters, and promoters responsive to radiation exposure, including ionizing radiation and UV radiation.
  • heat-inducible i.e., heat shock
  • promoters responsive to radiation exposure including ionizing radiation and UV radiation.
  • the promoter region of the early growth response-1 (Egr-1) gene contains an element(s) inducible by ionizing radiation. Hallahan et al. (1995) Nat. Med. 1 :786-791 ; and Tsai-Morris et al. (1988) Nucl. Acids. Res. 16:8835- 8846.
  • a cell status-specific transcriptional response elements comprises one or more elements responsive to ionizing radiation, e.g., a 5' flanking sequence of an Egr-1 gene, a heat shock responsive, or heat-inducible element.
  • the term "cell type-specific” is intended to mean that the TRE sequences to which a gene, i.e., a gene essential for viral replication, is operably linked, or to which a transgene is operably linked, functions specifically in that target cell so that transcription (and replication, if the operably linked gene is one essential for viral replication) proceeds selectively in target cells, or so that a transgene is expressed in target cells.
  • This can occur by virtue of the presence in target cells, and not in non-target cells, of transcription factors that activate transcription driven by the operably linked transcriptional control sequences. It can also occur by virtue of the absence of transcription inhibiting factors that normally occur in non-target cells and prevent transcription driven by the operably linked transcriptional control sequences.
  • cell type-specific is intended to include cell type specificity, tissue specificity, as well as specificity for a cancerous state of a given target cell. In the latter case, specificity for a cancerous state of a normal cell is in comparison to a normal, non-cancerous counterpart.
  • the invention includes oncolytic viral vectors wherein the CT- TRE is prostate cell specific.
  • TREs that function preferentially in prostate cells and can be used in the present invention to target viral replication to prostate neoplasia include, but are not limited to, TREs derived from the glandular kallikrein-1 gene (from the human gene, hKLK2-TR_), the prostate-specific antigen gene (PS/l-TRE), and the probasin gene (P ⁇ -TRE). All three of these genes are preferentially expressed in prostate cells and the expression is androgen-inducible. Generally, expression of genes responsive to androgen induction requires the presence of an androgen receptor (AR).
  • AR androgen receptor
  • Human glandular kallikrein (hKLK2, encoding the hK2 protein) is expressed exclusively in the prostate and its expression is up-regulated by androgens primarily by transcriptional activation.
  • a "human glandular kallikrein transcriptional regulatory element", or "hKLK2-TRE" may be included in a replication competent vector of the invention.
  • hKLK2-TRE is a polynucleotide sequence, preferably a DNA sequence, which increases transcription of an operably linked polynucleotide sequence in a host cell that allows an hKLK2-TRE to function, such as a cell (preferably a mammalian cell, even more preferably a human cell) that expresses androgen receptor.
  • a host cell preferably a mammalian cell, even more preferably a human cell
  • An hKLK2-TRE is thus responsive to the binding of androgen receptor and comprises at least a portion of an hKLK2 promoter and/or an hKLK2 enhancer (i.e., the ARE or androgen receptor binding site).
  • hKLK2-TREs are further described in US Application Serial No. 09/875,228.
  • the activity of the hKLK2 5' promoter has been previously described and a region up to -2256 relative to the transcription start site was previously disclosed (SEQ ID NO:3). Schedlich et al. (1987) DNA 6:429-437.
  • the hKLK2 promoter is androgen responsive and, in plasmid constructs wherein the promoter alone controls the expression of a reporter gene, expression of the reporter gene is increased approximately 10-fold in the presence of androgen.
  • hKLK2 enhancer activity is found within a polynucleotide sequence approximately nt -12,014 to nt -2257 relative to the start of transcription (depicted in SEQ ID NO:3) and, when this sequence is operably linked to an hKLK2 promoter and a reporter gene, transcription of operably-linked sequences in prostate cells increases in the presence of androgen at levels approximately 30- to approximately 100-fold over the level of transcription in the absence of androgen. This induction is generally orientation independent and position independent.
  • Enhancer activity has also been demonstrated in the following regions (all relative to the transcription start site): about nt -3993 to about nt - 3643 (nt 8021 to 8371 of SEQ ID NO:3), about nt -4814 to about nt -3643 (nt 7200 to 8371 of SEQ ID NO:3), about nt -5155 to about nt -3387 (nt 6859 to 8627 of SEQ ID NO:3), about nt -6038 to about nt -2394 (nt 5976 to 9620 of SEQ ID NO:3).
  • an hKLK2 enhancer can be operably linked to an hKLK2 promoter or a heterologous promoter to form an hKLK2 transcriptional regulatory element (hKLK2-TRE).
  • An hKLK2-TRE can then be operably linked to a heterologous polynucleotide to confer /?KLK2-TRE-specific transcriptional regulation on the linked gene, thus increasing its expression.
  • PB probasin
  • TRE is included in a replication competent vector of the invention.
  • a or "PB-TRE" is a polynucleotide sequence, preferably a DNA sequence, which selectively increases transcription of an operably-linked polynucleotide sequence in a host cell that allows a PB- TRE to function, such as a cell (preferably a mammalian cell, even more preferably a human cell) that expresses androgen receptor.
  • a PB-TRE is thus responsive to the binding of androgen receptor and comprises at least a portion of a PB promoter and/or a PB enhancer (i.e., the ARE or androgen receptor binding site).
  • PB-TREs are further described in US Pat No. 6,436,394. For example, the specificity of PB-TRE activity for prostate cell that express the androgen receptor (AR) was demonstrated as follows. The region of the PB 5'-flanking
  • DNA (nt -426 to nt +28) (SEQ ID NO:9) including the endogenous promoter sequences was inserted upstream of the firefly luciferase gene to generate a chimeric PB-TRE-luc plasmid.
  • PB-TRE expression is preferentially functional in PSA-producing, AR-producing prostate carcinoma cells as compared to PSA-deficient, AR-deficient prostate carcinoma cells and that PB-TRE is capable of mediating specific expression in cells producing the androgen receptor.
  • the rat probasin (PB) gene encodes a nuclear and secreted protein, probasin, that is only expressed in the dorsolateral prostate.
  • a PB-TRE has been shown in an approximately 0.5 kb fragment of sequence upstream of the probasin coding sequence, from about nt -426 to about nt +28 relative to the transcription start site, as depicted in (SEQ ID NO:4). This minimal promoter sequence from the PB gene appears to provide sufficient information to direct development and hormone -regulated expression of an operably linked heterologous gene specifically to the prostate in transgenic mice.
  • a "prostate-specific antigen (PSA) transcriptional regulatory element" or "PSA-TRE", or "PSE-TRE” is included in a replication competent vector of the invention.
  • a "PSA-TRE”, or "PSE-TRE” is a polynucleotide sequence, preferably a DNA sequence, which selectively increases transcription of an operably linked polynucleotide sequence in a host cell that allows a PSA-TRE to function, such as a cell (preferably a mammalian cell, even more preferably a human cell) that expresses androgen receptor.
  • a PSE-TRE is thus responsive to the binding of androgen receptor and comprises at least a portion of a PSA promoter and/or a PSA enhancer (i.e., the ARE or androgen receptor binding site).
  • PSE-TREs are further described in US Patent Nos. 5,648,478, 6,057,299 and 6,136,792.
  • the PSA promoter consists of the sequence from about nt -540 to nt +8 relative to the transcription start site. Juxtapositioning of these two genetic elements yields a fully functional, minimal prostate-specific enhancer/promoter (PSE) TRE.
  • PSE prostate-specific enhancer/promoter
  • CN706 is an adenoviral vector in which the E1 A gene in Ad5 is under transcriptional control of a PSA- TRE. CN706 demonstrates selective cytotoxicity toward PSA-expressing cells in vitro and in vivo. Rodriguez et al. (1997).
  • the enhancer region in humans is located between nt -5322 and nt -3739, relative to the transcription start site of the prostate specific antigen (PSA) gene.
  • PSA prostate specific antigen
  • the promoter consists of nt -540 to nt +8. Juxtaposition of the two genetic elements yields a fully functional, minimal prostate-specific enhancer promoter (PSE).
  • the enhancer contains three regions that bind prostate-specific DNA binding proteins, one of which contains a putative androgen response element.
  • the promoter region contains typical TATA and CAAT boxes as well as a second putative androgen response element.
  • CEA is a 180,000-Dalton glycoprotein tumor-associated antigen present on endodermally-derived neoplasia of the gastrointestinal tract, such as colorectal, gastric (stomach) and pancreatic cancer, as well as other adenocarcinomas such as breast and lung cancers.
  • a "carcinoembryonic antigen (CEA) transcriptional regulatory element", or "CEA-TRE” is included in a replication competent vector of the invention.
  • CEA-TRE is a polynucleotide sequence, preferably a DNA sequence, which selectively increases transcription of an operably linked polynucleotide sequence in a host cell that allows a CEA-TRE to function, such as a cell (preferably a mammalian cell, even more preferably a human cell) that expresses CEA.
  • the CEA-TRE is responsive to transcription factors and/or co-factor(s) associated with CEA-producing cells and comprises at least a portion of the CEA promoter and/or enhancer.
  • the 5' upstream flanking sequence of the CEA gene has been shown to confer cell-specific activity.
  • the CEA promoter region approximately the first 424 nucleotides upstream of the translational start site in the 5' flanking region of the gene, was shown to confer cell-specific activity when the region provided higher promoter activity in CEA-producing cells than in non-producing HeLa cells.
  • cell-specific enhancer regions have been found.
  • the entire 5' CEA flanking region (containing the promoter, putative silencer, and enhancer elements) appears to be contained within approximately 14.5 kb upstream from the transcription start site.
  • Two upstream regions, -13.6 to -10.7 kb or -6.1 to -4.0 kb, when linked to the multimerized promoter resulted in high-level and selective expression of a reporter construct in CEA- producing cells.
  • the promoter region is localized to nt -90 and nt +69 relative to the transcriptional start site, with region nt -41 to nt -18 as essential for expression.
  • WO95/14100 describes a series of 5' flanking CEA fragments which confer cell-specific activity, such as about nt -299 to about nt +69; about nt -90 to about nt +69; nt -14,500 to nt -10,600; nt -13,600 to nt -10,600, nt -6100 to nt -3800.
  • CEA-TREs used in the present invention are derived from mammalian cells, including but not limited to, human cells. Thus, any of the CEA-TREs may be used in the invention as long as requisite desired functionality is displayed. The cloning and characterization of CEA sequences have been described in the literature (e.g., in US Application Serial No. 10/045,116, published as 200030026792). In a further example, an "alpha-fetoprotein (AFP) transcriptional regulatory element", or "AFP-TRE" may be included in a replication competent vector of the invention.
  • AFP alpha-fetoprotein
  • AFP is an oncofetal protein.
  • the serum concentration of AFP is elevated in a majority of hepatoma patients, with high levels of AFP found in patients with advanced disease.
  • the serum AFP levels in patients appear to be regulated by AFP expression in hepatocellular carcinoma but not in surrounding normal liver.
  • the AFP gene appears associated with hepatoma cell-specific expression.
  • Cell-specific TREs from the AFP gene have been identified.
  • AFP-TRE is a polynucleotide sequence, preferably a DNA sequence, which selectively increases transcription (of an operably linked polynucleotide sequence) in a host cell that allows an AFP-TRE to function, such as a cell (preferably a mammalian cell, even more preferably a human cell) that expresses AFP.
  • the AFP-TRE is responsive to transcription factors and/or co-factor(s) associated with AFP-producing cells and comprises at least a portion of the AFP promoter and/or enhancer.
  • AFP-TREs are further described in US Application Serial No. 09/898,883, expressly incorporated by reference herein.
  • the entire 5' AFP flanking region (containing the promoter, putative silencer, and enhancer elements) is contained within approximately 5 kb upstream from the transcription start site (SEQ ID NO:5).
  • the AFP enhancer region in humans is located between about nt -3954 and about nt -3335, relative to the transcription start site of the AFP gene.
  • the human AFP promoter encompasses a region from about nt -174 to about nt +29. Juxtapositioning of these two genetic elements, yields a fully functional AFP-TRE. Ido et al. (1995) describe a 259 bp promoter fragment (nt -230 to nt +29) that is specific for HCC. Cancer Res. 55:3105-3109.
  • the AFP enhancer contains two regions, denoted A and B, located between nt -3954 and nt -3335 relative to the transcription start site.
  • the promoter region contains typical TATA and CAAT boxes.
  • the .AFP-TRE contains at least one enhancer region. More preferably, the -AFP-TRE contains both enhancer regions.
  • Suitable target cells for oncolytic viral vectors containing .AFP-TREs are any cell type that allows an -AFP-TRE to function. Preferred are cells that express, or produce, AFP, including, but not limited to, tumor cells expressing AFP.
  • hepatocellular carcinoma cells examples include gonadal and other germ cell tumors (especially endodermal sinus tumors), brain tumor cells, ovarian tumor cells, acinar cell carcinoma of the pancreas, primary gall bladder tumor, uterine endometrial adenocarcinoma cells, and any metastases of the foregoing (which can occur in lung, adrenal gland, bone marrow, and/or spleen).
  • hepatocellular carcinoma cells gonadal and other germ cell tumors (especially endodermal sinus tumors), brain tumor cells, ovarian tumor cells, acinar cell carcinoma of the pancreas, primary gall bladder tumor, uterine endometrial adenocarcinoma cells, and any metastases of the foregoing (which can occur in lung, adrenal gland, bone marrow, and/or spleen).
  • metastatic disease to the liver from certain pancreatic and stomach cancers produces AFP.
  • hepatocellular carcinoma cells and any of their metastases are especially preferred.
  • AFP production can be measured using assays standard in the art, such as RIA, ELISA or Western blots (immunoassays) to determine levels of AFP protein production or Northern blots to determine levels of AFP mRNA production.
  • assays standard in the art such as RIA, ELISA or Western blots (immunoassays) to determine levels of AFP protein production or Northern blots to determine levels of AFP mRNA production.
  • such cells can be identified and/or characterized by their ability to activate transcriptionally an AFP-TRE (i.e., allow an AFP-TRE to function).
  • a urothelial cell-specific transcriptional regulatory element is included in a replication competent vector of the invention.
  • a urothelial cell-specific transcriptional regulatory element is a polynucleotide sequence, preferably a DNA sequence which selectively increases transcription (of an operably-linked polynucleotide sequence) in a urothelial host cell.
  • a urothelial cell-specific TRE may be derived from the 5' flanking region of a uroplakin gene (i.e., a "UP-TRE") such that the TRE selectively increases transcription (of an operably-linked polynucleotide sequence) in a cell that allows a UP-TRE to function such as a cell (preferably a mammalian cell, even more preferably a human cell) that expresses uroplakin.
  • the urothelial cell-specific TRE is derived from the 5' flanking region of a UPIa gene. In other embodiments, the urothelial cell-specific TRE is derived from the 5'-flanking region of a UPIb gene. In yet other embodiments, the urothelial cell-specific TRE is derived from the 5'- flanking region of a UPII gene.
  • the UP-TRE may comprise a urothelial cell-specific promoter and a heterologous enhancer. In other embodiments, a urothelial cell-specific TRE comprises a urothelial cell-specific promoter.
  • a urothelial cell-specific TRE comprises a urothelial cell-specific enhancer and a heterologous promoter. In other embodiments, a urothelial cell-specific TRE comprises a urothelial cell-specific promoter and a urothelial cell-specific enhancer.
  • UP-TREs are further described in PCT publication WO 01/72994.
  • the protein product of the MUC1 gene (known as mucin or MUC1 protein; episialin; polymorphic epithelial mucin or PEM; EMA; DF3 antigen; NPGP; PAS-O; or CA15.3 antigen) is normally expressed mainly at the apical surface of epithelial cells lining the glands or ducts of the stomach, pancreas, lungs, trachea, kidney, uterus, salivary glands, and mammary glands.
  • mucin is overexpressed in 75-90% of human breast carcinomas. Mucin protein expression correlates with the degree of breast tumor differentiation. This overexpression appears to be controlled at the transcriptional level.
  • MUC1-TRE is a polynucleotide sequence, preferably a DNA sequence, which selectively increases transcription (of an operably-linked polynucleotide sequence) in a host cell that allows an MUC1-TRE to function, such as a cell (preferably a mammalian cell, even more preferably a human cell) that expresses MUC1.
  • the MUC1-TRE is responsive to transcription factors and/or co- factors) associated with MUC1 -producing cells and comprises at least a portion of the MUC1 promoter and/or enhancer. MUC1-TREs are further described in US Patent No.
  • a mucin gene (MUC) transcriptional regulatory element or "MUC1-TRE” is included in a replication competent vector of the invention.
  • the regulatory sequences of the MUC1 gene have been cloned, including the approximately 0.9 kb upstream of the transcription start site which contains a TRE that appears to be involved in cell-specific transcription, depicted in SEQ ID NO:8.
  • Any MUCI-TREs used in the present invention are derived from mammalian cells, including but not limited to, human cells.
  • the MUC1 -TRE is human.
  • the MUC1 -TRE may contain the entire 0.9 kb 5' flanking sequence of the MUC1 gene.
  • the MUC1-TREs comprise the following sequences (relative to the transcription start site of the MUC1 gene): about nt -725 to about nt +31 , nt - 743 to about nt +33, nt -750 to about nt +33, and nt -598 to about nt +485 (operably-linked to a promoter).
  • the c-erbB2/neu gene (HER-2/neu or HER) is a transforming gene that encodes a 185 kD epidermal growth factor receptor-related transmembrane glycoprotein.
  • the c-erbB2/neu protein is expressed during fetal development, however, in adults, the protein is weakly detectable (by immunohistochemistry) in the epithelium of many normal tissues. Amplification and/or over-expression of the c-erbB2/neu gene has been associated with many human cancers, including breast, ovarian, uterine, prostate, stomach and lung cancers.
  • a HER-2/neu transcriptional regulatory element or "HER-2/neu -TRE" is included in a replication competent vector of the invention.
  • Additional tumor- and/or cell type-specific TREs known in the art which may be included in the oncolytic vectors of the invention include the following: aromatase, mammary gland-specific promoter, mammaglobin, plasminogen activator urokinase (uPA) and its receptor gene (associated with breast, colon, and liver cancers; TREs that regulate uPA and uPAR transcription are provided in SEQ ID NO:6 and further described in Riccio et al. Nucleic Acids Res. 13:2759-2771 , 1985; Cannio et al. , Nucleic Acids Res.
  • human alpha-lactalbumin associated with breast tissue
  • BCSG1 , BRCA1 , and BRCA2 associated with breast cancer
  • human papilloma virus (HPV) cell type dependent regulatory elements associated with cervical cancer
  • BLCA4 associated with bladder cancer
  • uroplakins associated with bladder
  • NCA associated with gastric cancer
  • hypoxanthine phosphoribosyltransferase HPRT; associated with glioma
  • AVP human pulmonary surfactant protein B gene, and puromycin N-acetyltransferase associated with (associated with lung cancer)
  • tyrosinase, gp100; melanoma specific TREs such as the human MART promoter (hMART), the murine tyrosinase gene enhancer and promoter (mEP), a TRE comprising a murine tyrosinase gene enhancer and promoter (mEEP), a TRE comprising the human
  • tumor specific promoters may be derived by chimeric construction using different promoter elements as exemplified by the artificial hTERT-cHSF1/HSE promoter (described for example in Wang J et al. FEBS Lett. Jul 10;546 (2-3):315-20, 2003 or completely synthetic in construction (Li X et al Nat Biotechnol. 1999 Mar;17(3):241-5).
  • Descriptions for these cell- specific TREs can be found in various scientific publications, and numerous promoter, enhancer and regulatory sequences associated with these TREs may be found in the GenBank database available on the Internet at http://www.ncbi.nlm.nih.gov/PubMed/.
  • TREs listed above are provided as non-limiting examples of TREs that function in the instant invention. Additional cell-specific TREs are known in the art, as are methods to identify and test cell specificity of candidate TREs.
  • a TRE may or may not lack a silencer.
  • the presence of a silencer i.e., a negative regulatory element
  • may assist in shutting off transcription (and thus replication) in non-permissive cells i.e., cells in a normal cell state).
  • the presence of a silencer may confer enhanced inducible or cell-specific replication by more effectively preventing oncolytic viral vector replication in non-target cells.
  • a TRE can also comprise multimers.
  • a TRE can comprise a tandem series of at least two, at least three, at least four, or at least five TREs. These multimers may also contain heterologous promoter and/or enhancer sequences.
  • two substantially identical TREs control transcription of viral genes, e.g. adenoviral E1 A and E1 B genes. It is understood, however, that any of a number of combinations of genes may be used with these at least two TREs.
  • other preferred embodiments include those which contain substantially identical TREs that drive expression of E1A, E1B, and E4.
  • Such constructs may or may not additionally contain a transgene, which may or may not be under control of a substantially identical TRE. Preparation of these and other embodiments are provided below and in the examples. Transcriptional activation can be measured in a number of ways known in the art
  • telomere length can be determined as follows.
  • a TRE polynucleotide sequence or set of such sequences can be generated using methods known in the art, such as chemical synthesis, site-directed mutagenesis, PCR, and/or recombinant methods.
  • the sequence(s) to be tested can be inserted into a vector containing a promoter (if no promoter element is present in the TRE) and an appropriate reporter gene encoding a reporter protein, including, but not limited to, chloramphenicol acetyl transferase (CAT), beta-galactosidase (encoded by the lacZ gene), luciferase (encoded by the luc gene), alkaline phosphatase, green fluorescent protein, and horseradish peroxidase.
  • CAT chloramphenicol acetyl transferase
  • beta-galactosidase encoded by the lacZ gene
  • luciferase encoded by the luc gene
  • alkaline phosphatase green fluorescent protein
  • horseradish peroxidase e.g., horseradish peroxidase
  • Plasmids thus constructed are transfected into a suitable host cell to test for expression of the reporter gene as controlled by the putative TRE using transfection methods known in the art, such as calcium phosphate precipitation, electroporation, liposomes (lipofection), and DEAE dextran.
  • transfection methods known in the art, such as calcium phosphate precipitation, electroporation, liposomes (lipofection), and DEAE dextran.
  • TRE activity may be measured by detection and/or quantitation of reporter gene-derived mRNA or protein product(s), including in the absence of presence of a suitable inducing agent or condition.
  • the reporter gene protein can be detected directly (e.g., immunochemically) or through its enzymatic activity, if any, with an appropriate substrate.
  • the TRE-reporter gene constructs are introduced into a variety of cell types.
  • the amount of TRE activity is determined in each cell type and compared to that of a reporter gene construct without the TRE.
  • a TRE is cell specific when it is preferentially functional in a specific type of cell over a different type of cell.
  • a cell that allows a TRE to function or a cell in which the function of a TRE is “sufficiently preserved” or “functionally preserved”, or "a cell in which a TRE is functional” is a cell in which the TRE, when operably linked to a promoter (if not included in the TRE) will increase transcription above basal levels in the target cell by at least about 2- fold, preferably at least about 5-fold, preferably at least about 10-fold, more preferably at least about 20-fold, more preferably at least about 50-fold, more preferably at least about 00-fold, even more preferably at least about 200-fold, even more preferably at least about 400- to about 500-fold, even more preferably, at least about 1000-fold.
  • Basal levels are generally the level of activity, if any, in a non-target cells, or the level of activity (if any) of a reporter construct lacking the TRE of interest as tested in a target cell type. Methods for measuring levels of expression (whether relative or absolute) are known in the art and are described herein.
  • an inducible transactivator in the presence of an effective amount of inducing agent or under inducing conditions sufficient to induce gene expression, will increase expression of a gene at least about 2-fold, preferably at least about 5-fold, preferably at least about 10-fold, more preferably at least about 20-fold, more preferably at least about 50-fold, more preferably at least about 100-fold, more preferably at least about 200-fold, even more preferably at least about 400- to about 500-fold, even more preferably at least about 1000-fold, when compared to the expression of the same promoter and gene in the absence of the inducing agent.
  • a "functionally-preserved" variant of a TRE is a TRE which differs from another TRE, but still retains the ability to increase transcription of an operably linked polynucleotide, in particular, cell type-specific transcription activity.
  • the difference in a TRE can be due to differences in linear sequence or conformation, arising from, for example, single or multiple base mutation(s), addition(s), deletion(s), and/or modification(s). The difference can also arise from changes in the sugar(s), and/or linkage(s) between the bases of a TRE. Certain point mutations within sequences of TREs have been shown to decrease transcription factor binding and gene activation.
  • the vectors comprise a cell type-specific transcriptional regulatory element (CT-TRE) and an inducible transactivator regulated transcriptional regulatory element.
  • CT-TRE controls transcription of an inducible transactivator (TA) coding sequence.
  • TA inducible transactivator
  • the inducible transactivator (a) requires an inducing agent or condition to be functional and (b) controls transcription of a viral gene essential for replication. Expression of the viral gene essential for replication is regulated both by the CT-TRE and by a transactivator regulated transcriptional regulatory element, and indirectly by the concentration of the inducing agent or condition.
  • the inducing agent or condition may act to inhibit transcription, or to enhance transcription.
  • Transcription inhibitors provide a way to "shut down" viral replication by delivering the inducing agent to the host cells.
  • Transcription activators provide a way to induce virus replication by addition of the inducing agent, where the virus is otherwise inactive. Included within the scope of the invention is any oncolytic virus wherein control of a viral gene essential for replication may be accomplished using the methods of the present invention.
  • Exemplary replication-competent (oncolytic) viruses include, but are not limited to, adenoviruses, vesicular stomatitis viruses (VSV), herpes viruses (e.g., herpes simplex virus; HSV), reoviruses, paramyxoviruses, rhinoviruses, Newcastle disease viruses, polioviruses, West Nile virus, coxsackie virus, measles viruses and vaccinia viruses, etc.
  • VSV vesicular stomatitis viruses
  • HSV herpes viruses
  • reoviruses paramyxoviruses
  • rhinoviruses e.g., rhinoviruses
  • Newcastle disease viruses polioviruses
  • West Nile virus coxsackie virus
  • measles viruses and vaccinia viruses etc.
  • the invention does not require that the TREs be derived from the same gene. As long as the TRE sequences are substantially identical, and the requisite functionality is displayed
  • the oncolytic vectors of the invention comprise a first viral gene under the transcriptional control of a transactivator regulated transcriptional regulatory element and at least one other gene, such as a viral gene or a transgene, under control of another heterologous TRE which is different from the first TRE, where the heterologous TREs are functional in the same cell but do not have the same in polynucleotide sequence (i.e., have different polynucleotide sequences).
  • at least two of the heterologous TREs in the oncolytic vector are cell specific or inducible for the same cell or inducing agent or condition.
  • the viral gene is one that enhances cell death, more preferably one that is essential for viral replication.
  • At least one of the viral genes necessary for cell replication is an early gene and the genes under transcriptional control of the heterologous TRE are necessary for replication.
  • the invention provides oncolytic vectors that can effect cell-specific cytotoxic effects due to selective replication.
  • the novel system of the invention for regulated expression of oncolytic viruses is exemplified herein by regulatable adenoviral vectors.
  • the genes that are regulated by the transactivator regulated transcriptional regulatory element may be early or late adenoviral genes and/or transgenes.
  • adenovirus that can be used as a vehicle for introducing genetic capability into host target cells, as distinct from other non-target cell types.
  • the transgenes serve to modify the genotype or phenotype of the target cell, in addition to any modification of the genotype or phenotype resulting from the presence of the adenovirus.
  • proliferation of the adenovirus may be used for its cytotoxic effect. It has been demonstrated that adenovirus vectors which include at least two different heterologous TREs are more stable and provide greater cell specificity with regard to replication than previously described adenovirus vectors.
  • adenovirus vectors have been constructed in which each of the E1A and E1B genes are under transcriptional control of two different heterologous TREs. It is understood, however, that any of a number of combinations of genes may be used with any combination of at least two TREs.
  • serotypes of adenovirus such as Ad2, Ad5, Ad3, Ad35 and Ad40, which differ to minor or significant degrees.
  • adenoviral serotypes differ as to host cell tropism.
  • Ad5 is exemplified, however any and all serotypes of adenovirus are included within the scope of the invention.
  • the genes of the adenovirus that are of interest for the subject invention may be divided into two groups, the early genes and the late genes, the expression of the latter being controlled by the major late promoter.
  • the early genes there are E1A, E1B, E2, E3 and E4.
  • the E1A gene is expressed immediately after viral infection (0-2h) and before any other viral genes.
  • E1 A protein acts as a trans-acting positive-acting transcriptional regulatory factor, and is required for the expression of the other early viral genes and the promoter proximal major late genes.
  • the promoter proximal genes driven by the major late promoter are expressed during early times after Ad5 infection.
  • E1A gene In the absence of a functional E1A gene, viral infection does not proceed, because the gene products necessary for viral DNA replication are not produced.
  • the E1 B protein functions in trans and is necessary for transport of late mRNA from the nucleus to the cytoplasm. Defects in E1 B expression result in poor expression of late viral proteins and an inability to shut off host cell protein synthesis.
  • the E4 gene has a number of transcription products. Open reading frames (ORF) 3 and ORF 6 of the E4 transcription unit increase the accumulation of major late transcription unit mRNAs by binding the 55-kDa protein from E1B and heterodimers of E2F-1 and DP-1. In the absence of functional protein from ORF3 and ORF6, plaques are produced with an efficiency less than 10 6 of that of wild type virus.
  • the major late genes relevant to the subject invention are genes such as LI, L2 and L3, which encode proteins of the AD5 virus virion.
  • Regions of the adenovirus which may be deleted usually at least 500 nt, more usually at least about 1000 nt, include in the AD5 genome nucleotides 300 to 3600 in El, particularly 342 to 3523; 27000 to 31000, particularly 28133 to 30818 or 27865 to 30995 in E3.
  • the deletion will be at least sufficient for insertion of the desired construct and allow for packaging.
  • E3 sequences are included in the regulatable replication competent adenoviruses of the invention, as further described in US Application Patent No. 6,495,130.
  • internal ribosome entry sites are included in the regulatable replication competent adenoviruses of the invention, as further described in US Application Serial No. 09/814,351, published as 20030148520.
  • IVS internal ribosome entry sites
  • an adenoviral vector with a cell specific response element comprising a promoter and enhancer construct specific for prostate cells various genetic capabilities may be introduced into prostate cells expressing prostate specific antigen. Of particular interest is the opportunity to introduce cytotoxic effects that are controlled by a transcriptional initiation region specifically active in prostate cells.
  • leukocytes particularly lymphocytes, epithelial cells, endothelial cells, hepatic cells, pancreatic cells, neuronal cells, and keratinocytes. Since the adenovirus typically results in transient expression (approximately 6 to 8 weeks), one can provide transient capability to cells, for example in situations where the desired result only requires a limited period for response. In other cases, a different oncolytic vector may be preferred due the time and level of expression desired. To further increase specificity of the control mediated by an inducing agent, it may also be desirable to control expression of 2 viral genes, i.e.
  • E1A and E1B adenoviral genes are controlled by the inducer responsive promoter element as exemplified in Figure 1 , which illustrates a prostate specific oncolytic viral vector with tetracycline regulated replication control, wherein a tetracycline responsive element (TRE) promoter drives E1 A gene expression and a prostate specific Antigen (PSA) promoter drives expression of the reverse tet-responsive transactivator (rtTA).
  • TRE tetracycline responsive element
  • PSA prostate specific Antigen
  • E1A and E1B genes may be linked by an IRES between the E1A and E1 B genes.
  • the endogenous E1 B promoter elements are removed and replaced with the IRES element. Therefore both E1A and E1B expression are under the control of the inducer responsive promoter element.
  • the 2A peptide sequence derived foot and mouth disease virus (FMDV) could be used in place of the IRES sequence (as described in Furler S et al., Gene Ther. 2001 Jun;8(11):864-73) to provide efficient bicistronic expression of both E1A and a transgene.
  • Preferred adenoviral embodiments include those that contain at least two different heterologous TREs that drive expression of E1A, E1B, and E4. Such constructs may or may not additionally contain a transgene, which may or may not be under control of a TRE, wherein the TRE may or may not be a CT-TRE. See, e.g., US Patent Nos. 6,436,394 and 6,432,700. Accordingly, the invention provides an oncolytic virus vector comprising a viral gene under transcriptional control of a transactivator regulated transcriptional regulatory element, and an inducible transactivator under transcriptional control of a TRE, preferably a CT-TRE.
  • a first transactivator regulated transcriptional regulatory element controls expression of a first viral gene
  • a second transactivator regulated transcriptional regulatory element controls expression of a second viral gene.
  • the genes to be controlled under these TREs are preferably viral genes essential for propagation.
  • the genes to be controlled under these TREs may be a first viral gene essential for propagation wherein the second gene is a transgene. It is understood that there may or may not be additional TREs in the viral vectors, and that these additional TREs may or may not be substantially identical to the first and/or second TREs.
  • the invention includes use of three or more, four or more, TREs.
  • the oncolytic vectors of the invention may include one or more transgenes that have a therapeutic effect.
  • the viral vectors of this invention can further include a heterologous polynucleotide (transgene) encoding a therapeutic gene product under the control of a transactivator regulated transcriptional regulatory element.
  • the viral vector may comprise a heterologous transgene encoding a therapeutic gene product under the control of a constitutive or inducible promoter.
  • constitutive and inducible promoters are known in the art and routinely employed in transgene expression in the context of viral vectors. In this way, various genetic capabilities may be introduced into target cells. For example, in certain instances, it may be desirable to enhance the degree therapeutic efficacy by enhancing the rate of cytotoxic activity.
  • This type of transgene may also be used to confer a bystander effect.
  • Additional transgenes that may be introduced into a viral vector of the invention include a factor capable of initiating apoptosis, antisense or ribozymes, which among other capabilities may be directed to mRNAs encoding proteins essential for proliferation, such as structural proteins, transcription factors, polymerases, etc., viral or other pathogenic proteins, where the pathogen proliferates intracellularly, cytotoxic proteins, e.g., the chains of diphtheria, ricin, abrin, etc., genes that encode an engineered cytoplasmic variant of a nuclease (e.g., RNase A) or protease (e.g., trypsin, papain, proteinase K, carboxypeptidase, etc.), chemokines, such as MCP3 alpha or MIP-1 , pore-forming proteins derived from viruses, bacteria, or mammalian cells, fusgenic genes, chemotherapy sensitizing genes and radiation sensitizing genes.
  • cytotoxic proteins e.
  • genes of interest include cytokines, antigens, transmembrane proteins, and the like, such as IL-1, -2, -6, -12, GM-CSF, G-CSF, M-CSF, IFN- ⁇ , - ⁇ , -Y, TNF- ⁇ , - ⁇ , TGF- ⁇ , - ⁇ , NGF, MDA-7 (Melanoma differentiation associated gene-7, mda-7/interleukin-24), and the like.
  • cytokines such as IL-1, -2, -6, -12, GM-CSF, G-CSF, M-CSF, IFN- ⁇ , - ⁇ , -Y, TNF- ⁇ , - ⁇ , TGF- ⁇ , - ⁇ , NGF, MDA-7 (Melanoma differentiation associated gene-7, mda-7/interleukin-24), and the like.
  • proapoptotic genes such as Fas, Bax, Caspase, TRAIL, Fas ligands, and the like
  • fusion genes which can lead to cell fusion or facilitate cell fusion such as V22, VSV and the like
  • tumor suppressor gene such as p53, RB, p16, p17, W9 and the like
  • genes associated with the cell cycle and genes which encode anti-angiogenic proteins such as endostatin, angiostatin and the like.
  • Other opportunities for specific genetic modification include T cells, such as tumor infiltrating lymphocytes (TILs), where the TILs may be modified to enhance expansion, enhance cytotoxicity, reduce response to proliferation inhibitors, enhance expression of lymphokines, etc.
  • TILs tumor infiltrating lymphocytes
  • the adenovirus death protein (ADP), encoded within the E3 region, is maintained (i.e., contained) in the adenovirus vector.
  • the ADP gene under control of the major late promoter (MLP), appears to code for a protein (ADP) that is important in expediting host cell lysis. Tollefson et al. (1996) J. Virol. 70(4):2296; Tollefson et al. (1992) J. Virol. 66(6):3633.
  • adenoviral vectors containing the ADP gene may render the adenoviral vector more potent, making possible more effective treatment and/or a lower dosage requirement.
  • the invention provides adenovirus vectors in which an adenovirus gene is under transcriptional control of a first transactivator regulated transcriptional regulatory element and a polynucleotide sequence encoding an ADP under control of a second transactivator regulated transcriptional regulatory element, and wherein preferably the adenovirus gene is essential for replication.
  • a DNA sequence encoding an ADP and the amino acid sequence of an ADP are depicted in SEQ ID NO: 10 and SEQ ID NO:11 , respectively.
  • an ADP coding sequence is obtained preferably from Ad2 (since this is the strain in which ADP has been more fully characterized) using techniques known in the art, such as PCR.
  • the Y leader (which is an important sequence for correct expression of late genes) is also obtained and ligated to the ADP coding sequence.
  • the ADP coding sequence (with or without the Y leader) can then be introduced into the adenoviral genome, for example, in the E3 region (where the ADP coding sequence will be driven by the MLP).
  • the ADP coding sequence could also be inserted in other locations of the adenovirus genome, such as the E4 region.
  • the ADP coding sequence could be operably linked to a different type of TRE, including, but not limited to, another viral TRE. It is understood that the present invention does not exclude oncolytic vectors containing additional genes under control of transactivator regulated transcriptional regulatory elements. Accordingly, the invention provides viral vectors comprising a third gene under transcriptional control of a third TRE.
  • the third TRE may or may not be substantially identical to the first and/or second TA- TREs, with all three TREs functional in the same cell.
  • the third gene is one that contributes to cytotoxicity (whether direct and/or indirect), more preferably one that contributes to and/or enhances cell death.
  • the oncolytic vectors can be used in a variety of forms, including, but not limited to, naked polynucleotide (usually DNA) constructs; polynucleotide constructs complexed with agents to facilitate entry into cells, such as cationic liposomes or other compounds such as polylysine; packaged into infectious adenovirus particles (which may render the adenoviral vector(s) more immunogenic); packaged into other particulate viral forms such as HSV or AAV; complexed with agents to enhance or dampen an immune response; complexed with agents that facilitate in vivo transfection, such as DOTMATM, DOTAPTM, and polyamines.
  • naked polynucleotide usually DNA
  • polynucleotide constructs complexed with agents to facilitate entry into cells such as cationic liposomes or other compounds such as polylysine
  • infectious adenovirus particles which may render the adenoviral vector(s) more immunogenic
  • packaged into other particulate viral forms such as H
  • an oncolytic vector is packaged into a virus
  • the virus itself may be selected to further enhance targeting.
  • adenoviral vector adenovirus fibers mediate primary contact with cellular receptor(s) aiding in tropism. See, e.g., Arnberg et al. (1997) Virol. 227:239-244.
  • a particular subgenus of an adenovirus serotype displayed tropism for a target cell type and/or reduced affinity for non-target cell types, such a subgenus (or subgenera) could be used to further increase cell-specificity of cytotoxicity and/or cytolysis.
  • Adenovirus fiber, hexon or other surface proteins may be modified to enhance the specificity of uptake by target cells.
  • the modified oncolytic vectors may be delivered to the target cell in a variety of ways, depending upon whether the cells are in culture, ex vivo or in vivo. In situations where in vivo delivery is desired, delivery can be achieved in a variety of ways, employing liposomes, direct injection, subcutaneous injection, intramuscular injection, catheters, intravenous inhalation, topical applications, intravenous infusion, etc. Due to the high efficiency of transfection of various oncolytic vectors, one can achieve a large number of modified cells. In the case of neoplasia, where toxins are produced, the toxins may be released locally, so as to affect cells that may not have been transfected.
  • the adenovirus may be administered in an appropriate physiologically acceptable carrier at a dose of about 10 4 to 10 11 .
  • the multiplicity of infection will generally be in the range of about 0.001 to 100.
  • the virus may be administered one or more times, depending upon the immune response potential of the host. If necessary, the immune response may be diminished by employing a variety of immunosuppressants or treatments to decrease the level of circulating antibody, so as to permit repetitive administration, without a strong immune response. If administered as a polynucleotide construct (i.e., not packaged as a virus) about 0.01 micrograms to 1000 micrograms of viral vector can be administered.
  • the oncolytic vector may be administered one or more times, or may be administered as multiple simultaneous injections.
  • virus to be administered depends upon the type of replication competent virus employed, such as herpes simplex virus (HSV), reovirus, vesicular stomatitis virus (VSV), Newcastle Disease virus, vacinia virus, West Nile virus, coxsackie virus, poliovirus and measles virus
  • HSV herpes simplex virus
  • VSV vesicular stomatitis virus
  • Newcastle Disease virus vacinia virus
  • vacinia virus West Nile virus
  • coxsackie virus coxsackie virus
  • poliovirus and measles virus the amount of virus to be administered is based on standard knowledge about that particular virus (which is readily obtainable from, for example, published literature) and can be determined empirically.
  • a packaged viral vector(s) is complexed to a hydrophilic polymer to create a masked virus.
  • the hydrophilic polymer is attached (covalently or non- covalently) to the capsid proteins of the virus, in the case of adenovirus, particularly the hexon and fiber proteins.
  • the viral vectors of the instant invention are complexed with masking agents to create masked viral vectors.
  • masked viruses are advantageous due to (a) the masking of the adenovirus surface to adenovirus neutralizing antibodies or opsonins which are in circulation and (b) increasing the systemic circulation time of adenovirus particles by reduction of non-specific clearance mechanisms in the body (i.e. macrophages, etc.).
  • the systemic delivery of a masked virus results in a longer circulation of virus particles, less immunogenicity, and increased biodistribution with a decrease in clearance by the liver and spleen.
  • Host Cells and Target Cells The present invention also provides host cells and target cells comprising (i.e., transformed with) the viral vectors described herein.
  • Host cells include both prokaryotic and eukaryotic host cells as long as sequence requisite for maintenance in that host, such as appropriate replication origin(s), are present.
  • Prokaryotic host include bacterial cells, for example, E. coli and mycobacteria.
  • eukaryotic host cells are yeast, insect, avian, amphibian, plant and mammalian host cells. Numerous host cells are known in the art and need not be described in detail herein.
  • Suitable target cells for the viral vectors of the invention include any eukaryotic cell type that allows function of the TREs and transactivator regulated transcriptional regulatory elements, preferably mammalian, more preferably human, even more preferably neoplastic cells. Suitable target cells also include any cells that produce proteins and other factors necessary for expression of the gene under control of the TREs, such factors necessary for said expression are produced naturally or recombinantly.
  • the TRE(s) used is prostate cell-specific, the cells are preferably prostate cells.
  • the prostate cells used may or may not be producing an androgen receptor, depending on whether the promoter used is androgen-inducible.
  • non-androgen receptor producing cells such as HLF, HLE, and 3T3 and the non-AR-producing prostate cancer cells PC3 and DU145 can be used, provided an androgen receptor-encoding expression vector is introduced into the cells along with the adenovirus.
  • the oncolytic vector comprises a TRE derived from the AFP gene
  • suitable host cells include any cell type that produces AFP, including but not limited to, Hep3B, HepG2, HuH7, HuH1/C12.
  • Activity of a given TRE in a given cell can be assessed by measuring the level of expression of an operably-linked reporter gene using standard assays.
  • the comparison of expression between cells in which the TRE is suspected of being functional and the control cell indicates the presence or absence of transcriptional enhancement. Comparisons between or among various TREs can be assessed by measuring and comparing levels of expression within a single target cell line. It is understood that absolute transcriptional activity of a TRE will depend on several factors, such as the nature of the target cell, delivery mode and form of a TRE, and the coding sequence that is to be selectively transcriptionally activated. To compensate for various plasmid sizes used, activities can be expressed as relative activity per mole of transfected plasmid. Alternatively, the level of transcription (i.e., mRNA) can be measured using standard Northern analysis and hybridization techniques.
  • transfection efficiencies are measured by co-transfecting a plasmid encoding a different reporter gene under control of a different TRE, such as the CMV immediate early promoter. This analysis can also indicate negative regulatory regions, i.e., silencers.
  • compositions including pharmaceutical compositions, containing the viral vectors described herein.
  • Such compositions are useful for administration in vivo, for example, when measuring the degree of transduction and/or effectiveness of cell killing in an individual.
  • these compositions further comprise a pharmaceutically acceptable excipient.
  • These compositions, which comprise an effective amount of a viral vector of the invention in a pharmaceutically acceptable excipient are suitable for systemic administration to individuals in unit dosage forms, sterile parenteral solutions or suspensions, sterile non-parenteral solutions or oral solutions or suspensions, oil in water or water in oil emulsions and the like.
  • compositions also include lyophilized and/or reconstituted forms of the viral vectors (including those packaged as a virus, such as adenovirus) of the invention.
  • Other compositions are used, and are useful for, detection methods described herein.
  • the viral vector usually is suspended in an appropriate solvent or solution, such as a buffer system.
  • solvent systems are well known in the art.
  • Kits The present invention also encompasses kits containing an oncolytic vector of the invention. These kits can be used for diagnostic and/or monitoring purposes, preferably monitoring. Procedures using these kits can be performed by clinical laboratories, experimental laboratories, medical practitioners, or private individuals. Kits embodied by this invention allow one to detect the presence of target cells in a suitable biological sample, such as biopsy specimens.
  • the kits of the invention comprise an oncolytic vector as described herein in suitable packaging.
  • the kit may optionally provide additional components that are useful in the procedure, including, but not limited to, buffers, developing reagents, labels, reacting surfaces, means for detection, control samples, instructions, and interpretive information.
  • the viral vectors of this invention can be prepared using recombinant techniques that are standard in the art.
  • TREs are inserted 5' to the adenoviral and transactivator genes of interest, preferably one or more early genes (although late gene(s) may be used).
  • TREs can be prepared using oligonucleotide synthesis (if the sequence is known) or recombinant methods (such as PCR and/or restriction enzymes). Convenient restriction sites, either in the natural DNA sequence or introduced by methods such as PCR or site-directed mutagenesis, provide an insertion site for the TREs.
  • telomeres convenient restriction sites for annealing (i.e., inserting) TREs can be engineered onto the 5' and 3' ends of the TRE using standard recombinant methods, such as PCR.
  • Polynucleotides used for making the oncolytic viral vectors of the invention may be obtained using standard methods in the art such as chemical synthesis recombinant methods and/or obtained from biological sources.
  • the vectors are typically prepared by employing two plasmids, one plasmid providing for the left-hand region of adenovirus and the other plasmid providing for the right hand region, where the two plasmids share at least about 500nt of middle region for homologous recombination.
  • each plasmid may be independently manipulated, followed by cotransfection in a competent host, providing complementing genes as appropriate, or the appropriate transcription factors for initiation of transcription from the PSE for propagation of the adenovirus.
  • plasmids are available that provide the necessary portions of the adenovirus.
  • Plasmid pXC.1 (McKinnon (1982) Gene 19:33-42) contains the wild-type left- hand end of Ad5.
  • pBHG10 provides the right-hand end of Ad5, with a deletion in E3.
  • the deletion in E3 provides room in the virus to insert the 2kb minimal PSE without deleting the wild-type enhancer-promoter.
  • the gene for E3 is located on the opposite strand from E4 (r- strand).
  • the transcription start site of Ad5 E1A is at nt 560 and the ATG start site of the E1A protein is at nt 610 in the virus genome.
  • This region can be used for insertion of the cell specific element, e.g., PSE.
  • a restriction site may be introduced by employing the polymerase chain reaction (PCR), where the primer that is employed may be limited to the Ad5 genome, or may involve a portion of the plasmid carrying the Ad5 genomic DNA.
  • the primers may use the EcoRI site in the pBR322 backbone and the Xpal site at nt 1339 of Ad5.
  • the primers may use the EcoRI site in the pBR322 backbone and the Xpal site at nt 1339 of Ad5.
  • the resulting adenovirus will be dependent upon the cell specific transcription factors for expression of both E1 A and E1 B.
  • E1A initiation codon Ad5 nucleotide 547
  • Eagl site was created upstream of the E1B start site by inserting a G residue at Ad5 nt 1682 by oligonucleotide directed mutagenesis.
  • the endogenous Eagl site in CN95 was removed by digestion with Eagl, treatment with mung bean nuclease, and religation to construct CN114.
  • CN114 the endogenous Eagl site in CN95 was removed by digestion with Eagl, treatment with mung bean nuclease, and religation to construct CN114.
  • a TRE which has engineered Agel or Eagl sites, thus simplifying construction of recombinant adenovirus vectors.
  • the invention includes an adenoviral vector comprising a unique Agel site 5' of the E1A initiation codon and a unique Eagl site 5' of E1B.
  • a TRE may be inserted upstream of the E2 gene.
  • the E2 early promoter, mapping in Ad5 from 27050-27150, consists of a major and a minor transcription initiation site, the latter accounting for about 5% of the E2 transcripts, two non-canonical TATA boxes, two E2F transcription factor binding sites and an ATF transcription factor binding site (for a detailed review of the E2 promoter architecture see Swaminathan et al., Curr. Topics in Microbiol. and Immunol.
  • the E2 late promoter overlaps with the coding sequences of a gene encoded by the counterstrand and is therefore not amenable to genetic manipulation.
  • the E2 early promoter overlaps only for a few base pairs with sequences coding for a 33-kD protein on the counterstrand.
  • the Spel restriction site (Ad5 position 27082) is part of the stop codon for the above mentioned 33 kD protein and conveniently separates the major E2 early transcription initiation site and TATA-binding protein site from the upstream transcription factor biding sites E2F and ATF.
  • mutants in the E4 region the co- transfection and homologous recombination are performed in W162 cells (Weinberg et al. (1983) Proc. Natl. Acad. Sci. USA 80:5383-5386) which provide E4 proteins in trans to complement defects in synthesis of these proteins.
  • Methods of packaging adenovirus polynucleotides into adenovirus particles are known in the art and are described in the Examples.
  • the subject oncolytic vectors can be used for a wide variety of purposes, which will vary with the desired or intended result. Accordingly, the present invention includes methods using the oncolytic viral vectors described above.
  • methods for using oncolytic vectors comprise introducing the vector into a cell, preferably a eukaryotic cell, more preferably a mammalian cell, in vitro or in vivo.
  • an oncolytic vector of the invention is administered in vivo for treatment of cancer.
  • Purposes for introducing transient expression include indications that may be treated involving undesired proliferation other than tumors, such as psoriatic lesions, restenosis, wound healing, tissue repair, enhanced immune response, resistance to infection, production of factors, enhanced proliferation, investigation of metabolic or other physiological pathways, comparison of activity of cells in the presence and absence of the virus introduced transgene, by comparing the activity of the cell before, during and after the modification with the virus, etc.
  • the subject vectors can be used to free a mixture of cells of a particular group of cells, where the group of cells is the target cells. By having the oncolytic virus be selectively competent for propagation in the target cells, only those cells will be killed on proliferation of the oncolytic virus.
  • the oncolytic virus By combining the virus with the mixture of cells, for example, in culture or in vivo, the oncolytic virus will only be capable of proliferation in the target cells, and will be regulated by the presence of the inducing agent. In this way cells other than the target cells will not be affected by the oncolytic virus, while the target cells will be killed. The expansion of the oncolytic virus due to propagation in the target cells will ensure that the mixture is substantially freed of the target cells. Once the target cells are destroyed, the oncolytic virus will no longer be capable of propagation, but in culture may be retained so as to continually monitor the mixture for recurrence of the target cell, e.g., a mutated cell or neoplastic cell.
  • the target cell e.g., a mutated cell or neoplastic cell.
  • methods for using oncolytic virus vectors comprise introducing an oncolytic virus vector into a target cell, preferably a neoplastic cell.
  • methods for using oncolytic virus vectors comprise introducing an oncolytic virus vector into a prostate cell.
  • methods for using oncolytic virus vectors comprise introducing an oncolytic virus vector into a liver cell.
  • methods for using oncolytic virus vectors comprise introducing an oncolytic virus vector into a breast cancer cell.
  • methods for using oncolytic virus vectors comprise introducing an oncolytic virus vector into a colon cancer cell.
  • methods are provided for conferring selective cytotoxicity in cells which allow function of the TRE, comprising contacting cells with an oncolytic virus vector described herein, such that the oncolytic virus vector(s) enters, i.e., transduces the cell(s). Cytotoxicity can be measured using standard assays in the art, such as dye exclusion, 3 H-thymidine incorporation, and/or lysis.
  • methods for propagating an oncolytic virus specific for cells which allow function of the cell type-specific and transactivator regulated transcriptional regulatory element(s), preferably eukaryotic cells, more preferably mammalian cells.
  • These methods entail combining an oncolytic virus vector with mammalian cells that allow function of the TREs, whereby said oncolytic virus is propagated.
  • Another embodiment provides methods of killing cells that allow a TRE to function (i.e., target cells) comprising combining the mixture of cells with an oncolytic virus vector of the present invention.
  • the mixture of cells is generally a mixture of cancerous cells in which the TREs are functional and normal cells, and can be an in vivo mixture or in vitro mixture.
  • the invention also includes methods for detecting cells in which a CT-TRE and/or transactivator regulated transcriptional regulatory element is functional in a biological sample. These methods are particularly useful for monitoring the clinical and/or physiological condition of an individual (i.e., mammal), whether in an experimental or clinical setting.
  • cells of a biological sample are contacted with an oncolytic virus vector, and replication of the oncolytic viral vector is detected.
  • a suitable biological sample is one in which target cells may be or are suspected to be present.
  • a suitable clinical sample is one in which target cancerous cells are suspected to be present.
  • Such cells can be obtained, for example, by needle biopsy or other surgical procedure. Cells to be contacted may be treated to promote assay conditions such as selective enrichment and/or solubilization.
  • target cells can be detected using in vitro assays that detect proliferation, which are standard in the art.
  • standard assays include, but are not limited to, burst assays (which measure virus yields) and plaque assays (which measure infectious particles per cell).
  • propagation can be detected by measuring specific oncolytic viral DNA replication, which are also standard assays.
  • the invention also provides methods of modifying the genotype of a target cell, comprising contacting the target cell with an oncolytic virus vector described herein, wherein the oncolytic viral vector enters the cell.
  • the invention further provides methods of suppressing tumor cell growth, comprising contacting a tumor cell with an oncolytic viral vector of the invention such that the oncolytic viral vector enters the tumor cell and exhibits selective cytotoxicity for the tumor cell.
  • Tumor cell growth can be assessed by any means known in the art, including, but not limited to, measuring tumor size, determining whether tumor cells are proliferating using a 3 H- thymidine incorporation assay, or counting tumor cells.
  • "Suppressing" tumor cell growth means any or all of the following states: slowing, delaying, and stopping tumor growth, as well as tumor shrinkage.
  • Tumor cell markers include, but are not limited to, PSA, CEA and hK2.
  • Methods of measuring the levels of a tumor cell marker are known to those of ordinary skill in the art and include, but are not limited to, immunological assays, such as enzyme- linked immunosorbent assay (ELISA), using antibodies specific for the tumor cell marker.
  • ELISA enzyme- linked immunosorbent assay
  • a biological sample is obtained from the individual to be tested, and a suitable assay, such as an ELISA, is performed on the biological sample.
  • the invention also provides methods of treatment, in which an effective amount of an oncolytic viral vector described herein is administered to an individual.
  • an oncolytic viral vector in which at least one cell type-specific TRE is specific for prostate cells e.g., PSE-TRE, PB-TRE, and/or hKLK2-TRE
  • treatment using an oncolytic viral vector in which at least one cell type-specific TRE is specific for prostate cells is indicated in individuals with prostate-associated diseases as described above, such as hyperplasia and cancer.
  • individuals who are considered to be at risk for developing prostate-associated diseases such as those who have had disease which has been resected and those who have had a family history of prostate-associated diseases.
  • oncolytic viral vector(s) of the invention Determination of suitability of administering oncolytic viral vector(s) of the invention will depend, inter alia, on assessable clinical parameters such as serological indications and histological examination of tissue biopsies.
  • a pharmaceutical composition comprising an oncolytic viral vector is administered.
  • Pharmaceutical compositions are described above. The following examples are offered by way of illustration and not by way of limitation.
  • EXAMPLE 1 Tetracycline Regulated Oncolytic Virus Replication Specific for Prostate Tissue
  • a prostate-specific oncolytic adenovirus is provided in which replication is regulated using the Tet-On system to control expression of at least one adenoviral gene.
  • the expression of the immediate early adenoviral E1 A gene region is placed under the control of the chimeric promoter element - the tetracycline responsive element (Fig. 1) by removal of the endogenous adenoviral promoter elements and insertion of the tetracycline responsive element.
  • a TA-TRE tissue/tumor specific promoter
  • expression of the rtTA transactivator (a TA-TRE) is limited to the tissue/or tumor in which the PSA promoter is active e.g. prostate-derived tissue.
  • the rtTA transactivator Upon the addition of tetracycline (or a derivative thereof) the rtTA transactivator binds to the tetracycline responsive element and switches on E1 A transcription and thus expression. From expression of the E1A protein, the adenovirus replication process continues, resulting in the eventual death of the host cell and release of further adenoviral progeny. In comparison, in the absence of the inducer or the virus entering a non-target cell, rtTA cannot bind to the tetracycline responsive element, E1A proteins are not expressed and viral replication does not continue.
  • the E1A gene region is described in this example, however, any essential ORF of adenovirus can be regulated in this manner, i.e.
  • the tetracycline responsive element can control the E1a, E1b, E2 or E4 region.
  • multiple ORFs may be placed under tetracycline regulated control i.e. E1 and E4, E1 and E2, to increase the control of the system.
  • Plasmid CN71 contains a minimal PSE (from-5322 bp to - 3875bp relative to the transcription start site of the PSA gene) and -532 to +11 of the PSA promoter.
  • CN71 was cut with Xhol/Hindlll which removes the PSA promoter.
  • a shorter promoter, from -230 to +7 was amplified by PCR.
  • the PCR product was cut with Xhol/Hindlll and ligated back into Xhol/Hindlll cut CN71 creating CN105.
  • the plasmid, pUHrt62-1(2) (a generous gift from W. Hillen) was then cut with EcoRI, the site blunted by klenow fragment, and then cut with Xho I to remove the CMV promoter from the construct.
  • the PSA promoter fragment from above was then placed 5' of the rtTA2(s)-M2 transgene (in pUHrt62-1(2)) in place of CMV to create pUH-PSA-rt62-1(2).
  • the PSA-rtTA2(s)-M2 fragment (incorporating the SV40 Late polyA) was then liberated from pUH-PSA-rt62-1(2) using Xho I / Hind III digestion and then ligated /inserted via Xba I restriction sites into of pABS4 (Microbix, Toronto), a shuttle plasmid containing the kanamycin-resistance, gene to create pABS4-PSA-rtTA.
  • Ad5 E1 A was purchased from Microbix Biosystems Inc. (Toronto).
  • pXC.1 contains Adenovirus 5 sequences from bp22 to 5790.
  • An Agel site was introduced 12 bp 5' to the E1A initiation codon (Ad5 nucleotide 547) by oligo-directed mutagenesis and linked PCR.
  • the plasmid pXC.1 was PCR amplified using primers containing an extra A to introduce an Agel site. This created a segment from the EcoRI site in the pBR322 backbone to Ad5 nt 560.
  • a second segment of pXC.1 from Ad nucleotide 541 to the Xbal site at Ad nucleotide 1339 was amplified using primers containing an extra T to introduce an Agel site.
  • a mixture of these two PCR amplified DNA segments was mixed and amplified with primers 3 and 4 to create a DNA segment from the EcoRI site to the Xbal site of pXC.1.
  • This DNA segment encompasses the leftmost 1317 bases of Adenovirus sequence and contained an Agel site at Ad nucleotide 547.
  • This DNA segment was used to replace the corresponding segment of pXC.1 to create CN95.
  • a Tetracycline responsive element with Agel ends was PCR amplified from the plasmid pTRE2 (purchased from BD Biosciences Clontech) to create pXC-TRE-E1 a . 1C.
  • the virus created by homologous recombination - CG1974 An Ad5 recombinant virus containing the PSA promoter driving rtTA(2)s-M2 gene in the E3 region and the tetracycline responsive element driving E1a in the E1 region was thus constructed. Virus was generated by homologous recombination in low passage 293 cells, a human kidney cell line that expresses Ad E1A and E1B proteins. This was accomplished by co-transfection of pXC-TRE-E1a and BHG11-PSA-rtTA. Genomic integrity of the resulting recombinant virus construct was verified using Hind III digestion and was designated CG1974 ( Figure 1).
  • an oncolytic vector is "armed" with a therapeutic transgene to increase efficacy, e.g., granulocyte macrophage colony stimulating factor (GMCSF) or thymidine kinase (TK).
  • a therapeutic transgene to increase efficacy
  • GMCSF granulocyte macrophage colony stimulating factor
  • TK thymidine kinase
  • the expression of these therapeutic transgenes may be placed under the control of the regulated gene expression system.
  • the inducer used within the regulated gene expression system switches on both virus replication and therapeutic gene expression at the same time.
  • FIG 2 illustrates a prostate specific oncolytic viral vector armed with GMCSF with tetracycline regulated replication and expression control.
  • a tetracycline responsive element (TRE) drives E1 and GMCSF expression.
  • IRES allows 2 coding sequences to be expressed from a single promoter and a prostate specific antigen (PSA) promoter dri ves expression of the reverse tet-responsive transactivator (rtTA).
  • PSA prostate specific antigen
  • rtTA reverse tet-responsive transactivator
  • IRES internal ribosome entry site
  • 2A sequence allows 2 coding regions to be expression using a single promoter.
  • EXAMPLE 3 A number of variant tetracycline regulated gene control systems for use in the manner described above.
  • the tetracycline controlled transcriptional silencer (tTS) system (Freundling et al 1999) in conjunction with the Tet-On system described above may be used to more tightly control gene expression (see Figure 3 which illustrates an oncolytic viral vector with dual tetracycline regulated replication control for use in bladder cancer).
  • a tetracycline responsive element (TRE) drives E1 gene expression
  • a human uroplakin II (hUPII) promoter drives expression of the reverse tet- responsive transactivator (rtTA) and tet-controlled transcriptional silencer (tTS).
  • rtTA reverse tet- responsive transactivator
  • tTS tet-controlled transcriptional silencer
  • tTS repressor molecule in addition to the rtTA transactivator, decreases basal or "leaky” gene expression in the "off' state to increase the degree of gene regulation.
  • the system in Figure 3 expresses both the Tet-on transactivator and tTs repressor from the human uroplakin II promoter using an internal ribosome entry site (IRES).
  • IRS internal ribosome entry site
  • expression of the rtTA and tTS are specific to the bladder tissue cell type.
  • the expression of the essential E1 gene is again under the control of the TRE. In the absence of Tet the tTS molecule binds to the TRE element and actively represses E1 gene expression.
  • This active repression by the tTS molecule may be required since adenovirus has a number of transcription enhancer elements present within its genome which could cause "leaky” expression of the E1 promoter, even in the absence of its endogenous promoter, leading to a limited amount of virus formation in the absence of the inducer.
  • a conformational change in the tTS molecule will prevent binding to and active repression of expression from the TRE.
  • the rtTA, Tet-On transactivator would then be able to induce expression of E1 by the resulting ability to bind to the TRE, such that replication proceeds.
  • FIG. 4 represents an example of an oncolytic viral vector with rapamycin (ARIAD system) regulated replication control for use in pan-cancer applications.
  • This system relies on a chimeric promoter encompassing 8 copies of the recognition site for ZFHD1 upstream of a minimal IL-2 promoter driving E1 gene expression and a human E2F promoter (E2F) driving expression of the "activation domain” (the rapamycin binding domain of FRAP (FRB) fused to the activation domain of p65 sub-unit of NF-KB) and "DNA binding domain” (which encodes a chimeric DNA-binding molecule with ZFHD1 fused to 3 copies of FKBP).
  • activation domain the rapamycin binding domain of FRAP (FRB) fused to the activation domain of p65 sub-unit of NF-KB
  • DNA binding domain which encodes a chimeric DNA-binding molecule with ZFHD1 fused to 3 copies of FKBP.
  • regulatable replication-competent viruses can be provided as vehicles specific for particular host cells, where the viruses selectively replicate in particular target cells and viral replication may be regulated.

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Abstract

L'invention concerne des compositions, des procédés et un système permettant la régulation externe de la reproduction d'un virus oncolytique. Le virus oncolytique contient un élément régulateur transcriptionnel spécifique à un type cellulaire (CT-TRE) ainsi qu'un élément régulateur transcriptionnel régulé par un gène transactivateur inducible. Le virus se reproduit de préférence dans des cellules qui permettent à CT-TRE de fonctionner. En outre, la concentration d'un agent ou d'une condition d'induction est utilisée pour réguler un élément régulateur transcriptionnel régulé par un gène transactivateur, ce qui permet d'obtenir au moins deux niveaux de commande de la reproduction virale oncolytique.
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See also references of WO2005007832A2 *
SMITH-ARICA J R ET AL: "Cell-type-specific and regulatable transgenesis in the adult brain: adenovirus-encoded combined transcriptional targeting and inducible transgene expression" MOLECULAR THERAPY, ACADEMIC PRESS, SAN DIEGO, CA, US, vol. 2, no. 6, 1 December 2000 (2000-12-01), pages 579-587, XP002311879 ISSN: 1525-0016 *

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