Patent Application
20240368549
The present disclosure pertains to compositions and methods for expanding populations of hematopoietic stem cells and hematopoietic progenitor cells in vitro or ex vivo.
Hematopoietic stem and progenitor cells (HSPCs) comprise a small and heterogeneous pool of cells that are the precursors of all red blood cells (erythrocytes), platelets (thrombocytes) and major immune cells (leukocytes) in the body. HSPCs play an essential role in maintaining the homeostasis of the blood circulatory system in vertebrates though a regulated process termed hematopoiesis. Normally, most HSPCs are found in the bone marrow of vertebrates, the major site of hematopoiesis, and only small numbers of HSPCs are located in the peripheral blood. Hematopoietic stem cells (HSCs) are characterized by their unique capacity for self-renewal and multipotency. Conversely, hematopoietic progenitor cells (HPCs), which are formed from HSCs, have restricted lineage differentiation and lack the capacity to self-renew.
Hematopoietic stem cell transplantation (HSCT) has been used to re-establish bone marrow and immune function in patients with a variety of life-threatening malignant disorders (e.g, leukemia, lymphoma, multiple myeloma), including those whose malignancies are being treated with high dose chemotherapy or chemoradiotherapy, and non-malignant disorders (e.g., autoimmune diseases and hereditary diseases). There are two main types of HSCT: allogenic and autologous. Allogenic HSCT involves the transplantation of HSPCs to a patient from a healthy donor who is related or a donor who is not related but is an HLA-match for the patient. Autologous HSCT involves the extraction of HSPCs from the patient (generally prior to high dose chemotherapy or chemoradiotherapy) and their transfusion into the patient's bloodstream at a later date. Infection and graft-versus host disease are major complications of allogenic transplantation. While the risk of infection and graft rejection is reduced for autologous HSCT compared to allogenic HSCT, in cancer patients, it can increase the risk of relapse if the graft was inadvertently contaminated with cancer cells.
Graft sources for HSCT include bone marrow, peripheral blood or umbilical cord blood (UCB). HSPCs collected from different sources vary in cellular characteristics and clinical application. Despite having been used to treat a variety of diseases for the last several decades, HSCT utilizing bone marrow as a stem cell source has fallen out of favor as it suffers from the disadvantages of being inconvenient, uncomfortable and risky. Engraftment of peripheral HSPCs has become the most common HSCT practice due to quicker engraftment kinetics and ease of collection. However, harvesting HSPCs from peripheral blood requires first treating the donor with hematopoietic growth factors (e.g., granulocyte colony stimulating factor or G-CSF) in order to drive increase HSPC proliferation and mobilization from the bone marrow to the peripheral circulation. Such treatments can cause moderate to severe adverse effects in donors. Umbilical cord blood (UCB) is another important source of HSPCs used for HSCT. However, because the number of HSPCs in a single UCB graft is quite modest, HSCTs using UCB derived HSPCs are generally limited to pediatric patients.
The ability to expand and maintain functional HSPCs in vitro is critical to realizing the full potential of HSPC-based therapies. Various experimental approaches for expanding HSPCs in vitro have been developed including the use of cytokine cocktails, copper chelators, signaling molecules, stromal support, and even viral vectors. However, the development of therapies based on HSPCs expanded in vitro has been hampered by two major roadblocks: the lack of long-term engraftment and the loss of self-renewal in these cells.
The small molecules UM171, StemReginin1 (SR1), and valproic acid (VPA), have been previously shown to be capable of expanding long-term (LT) and short-term (ST) engrafting HSPCs, both alone and in combination. Additionally, recent work have suggested that L-ascorbic acid 2-phosphate magnesium salt hydrate (AA2P), UM171, SR1 and VPA can promote the expansion of ST and LT engrafting HSPCs in vitro. These small molecules are functionally divergent and are believed to promote HSPC expansion through different pathways. UM171 is a pyrimidoindole derivative that has been shown to promote proteosomal degradation of the LSD1-CoREST repressor complex, which represses H3K4me2 and H3K27qc marks in hematopoietic stem cells ex vivo. SR1 is an antagonist of the aryl hydrocarbon receptor. AA2P is a long-acting vitamin C (ascorbic acid) derivative that, like ascorbic acid, can enhance the activity of histone deacetylases and DNA hydroxylases. AA2P can also act as a cofactor and enhance the activity of ten-eleven-translocation 2 (TET2) enzyme, which catalyzes the oxidation of cytosine residues that precede DNA demethylation. VPA is a branched chain fatty acid that can inhibit histone deacetylases.
The identification of other agonists of in vitro or ex vivo expansion of HSPCs, particularly those that increase the numbers of LT engraftable cells and cells capable of self-renewal, could revolutionize stem cell graft engineering and gene editing therapeutics.
It would be highly desirable to be provided with compositions as well as methods capable of supporting the in vitro expansion of HSPCs derived from various sources.
The present disclosure concerns an agonist of a TAM receptor, a ligand of a TAM receptor and/or a compound capable of inducing the expression of a ligand of a TAM receptor for the in vitro or ex vivo expansion of normal HSPCs. The TAM receptor agonist, TAM receptor ligand and/or compound capable of inducing the expression of a TAM receptor ligand can be used alone or in combination with a cytokine and/or a stem cell agonist cocktail.
According to a first aspect, the present disclosure provides an in vitro method of expanding normal HSPCs. The method comprises contacting one or more agonist of a TAM receptor, ligand of a TAM receptor and/or compound capable of inducing the expression of a ligand of a TAM receptor with the normal HSPCs in a culture medium that supports HSPC growth to provide an expanded population of normal HSPCs. In an embodiment, the TAM receptor is a AXL receptor. In an embodiment, the one or more ligand of the AXL receptor comprises a growth arrest 6 (GAS6) polypeptide, a variant of the GAS6 polypeptide having ligand activity towards the AXL receptor or a fragment of the GAS6 polypeptide having ligand activity towards the AXL receptor. In yet another embodiment, the GAS6 polypeptide, the variant of the GAS6 polypeptide having ligand activity toward the AXL receptor or the fragment of the GAS6 polypeptide having ligand activity towards the AXL receptor is present in the culture medium at a concentration of between about 0.1 ng/ml to about 100 ng/mL. In one embodiment, the one or more compound capable of inducing the expression of a ligand of the TAM receptor comprises ascorbic acid or a derivative thereof. In another embodiment, the normal HSPCs comprise human cells. In still another embodiment, the normal HSPCs are derived from cord blood, placenta, bone marrow, peripheral blood, embryonic tissue, induced pluripotent stem cells (IPSCs), or fetal tissue. In still yet another embodiment, the one or more TAM receptor agonist, TAM ligand and/or compound capable of inducing the expression of the TAM receptor ligand, after having contacted the normal HSPCs, is capable of improving the expansion of the normal HSPCs, when compared to control cells. In an embodiment, the in vitro method further comprises contacting the normal HSPCs with a stem cell agonist or a stem cell agonist cocktail comprising StemReginin1, UM171, AA2P and/or VPA. In an embodiment, the normal HSPCs are contacted with the stem cell agonist cocktail prior to contacting the AXL receptor agonist, the AXL receptor ligand or the compound capable of inducing the expression of the AXL receptor ligand. In still another embodiment, the stem cell agonist cocktail (SCAC) comprises: a) about 100 nM to about 5025 nM of StemReginin1; b) about 0.10 nM to about 150 nM of UM171; c) about 0.1 μM to about 2 000 μM of AA2P; and/or d) about 0.01 mM to about 1 mM of valproic acid. In an embodiment, the expanded population of normal HSPCs comprise cells: a) expressing the surface proteins CD34, CD90 and/or CD49f on their cell membrane; b) failing to express the surface protein CD45RA (CD45RA−) on their cell membrane; and/or c) expressing the surface protein Endothelial protein C receptor (EPCR) on their cell membrane. In still yet another embodiment, the in vitro method comprises culturing the normal HSPCs in the presence of feeder cells. In still yet another embodiment, the normal HSPCs are cultured: a) in medium supplemented with one or more cytokine; b) in the presence of the stem cell agonist cocktail for at least 2 days; and/or c) in the presence of the GAS6 polypeptide, the variant of the GAS6 polypeptide or the fragment of the GAS6 polypeptide for at least 2 days.
In a second aspect, the present disclosure provides an expanded population of HSPCs obtainable or obtained by the method described herein.
In a third aspect, the present disclosure provides a method for treating a condition in a subject in need thereof comprising: a) providing the expanded population of normal HSPCs provided in the second aspect; and b) grafting the expanded population of normal HSPCs to the subject to treat the condition. In one embodiment, the method further comprises obtaining the normal HSPCs used to provide the expanded population of normal HSPCs from the subject. In another embodiment, the condition being treated by the method comprises: a) a cancer, b) a neural disorder, c) an immune deficiency, d) an auto-immune disorder, e) a metabolic disorder, or f) a genetic disorder. In another embodiment, the method is used to treat a subject that is a human. In another embodiment, the method is used to treat a subject that is an adult. In yet another embodiment, the method is used to treat a subject that is a child.
In a fourth aspect, the present disclosure provides the use of an expanded population of normal HSPCs described herein or prepared by the in vitro method described herein for the manufacture of a medicament for treating a condition in a subject in need thereof. In one embodiment, the normal HSPCs used to provide the expanded population of normal HSPCs are from the subject. In one embodiment, the medicament is for the treatment of: a) a cancer, b) a neural disorder, c) an immune deficiency, d) an auto-immune disorder, e) a metabolic disorder, or f) a genetic disorder. In another embodiment, the subject is a human. In another embodiment, the subject is an adult. In yet another embodiment, the subject that is a child.
In a fifth aspect, the present disclosure provides the use of an expanded population of normal HSPCs described herein or prepared by the in vitro method described herein for treating of a condition in a subject in need thereof. In one embodiment, the normal HSPCs used to provide the expanded population of normal HSPCs are from the subject. In another embodiment, the condition being treated comprises: a) a cancer, b) a neural disorder, c) an immune deficiency, d) an auto-immune disorder, e) a metabolic disorder, or f) a genetic disorder. In another embodiment, the subject is a human. In another embodiment, the method is used to treat a subject that is an adult. In yet another embodiment, the subject is a child.
In a sixth aspect, the present disclosure provides an expanded population of HSPCs described herein or prepared by the in vitro method described herein for treating of a condition in a subject in need thereof. In one embodiment, the condition being treated comprises: a) a cancer, b) a neural disorder, c) an immune deficiency, d) an auto-immune disorder, e) a metabolic disorder, or f) a genetic disorder. In another embodiment, the subject is a human. In another embodiment, the subject is an adult. In yet another embodiment, the subject is a child.
In a seventh aspect, the present disclosure provides a kit for the expansion of normal HSPCs in a culture medium. The kit comprises one or more agonist of a TAM receptor, ligand of a TAM receptor and/or compound capable of inducing the expression of a TAM receptor ligand, and at least one of StemReginin1, UM171, AA2P and valproic acid. In an embodiment, the TAM receptor is a AXL receptor. In one embodiment, the one or more ligand of the AXL receptor comprises a GAS6 polypeptide, a variant of the GAS6 polypeptide having ligand activity towards the AXL receptor or a fragment of the GAS6 polypeptide having ligand activity toward the AXL receptor. In another embodiment, the kit comprises instructions for obtaining an expanded population of normal HSPCs in a culture medium as defined in the method described herein. In another embodiment, the kit further comprises a culture medium, albumin, a buffer, a vitamin, an amino acid, a cytokine, a mineral or trace element, serum and/or a lipid. In yet another embodiment, the kit further comprises an antibiotic, an antifungal and/or a lipoprotein. In one embodiment, the kit comprises the following components that, when added to the normal HSPCs in a culture medium, have the following concentrations: about 0.1 ng/ml to about 25 ng/ml of growth arrest 6 (GAS6) polypeptide, a variant of the GAS6 polypeptide having ligand activity towards the AXL receptor or a fragment of the GAS6 polypeptide having ligand activity towards the AXL receptor; and at least one of about 1 μM to about 10 μM of StemReginin 1; about 0.10nM to about 150 nM of UM171; about 0.1 μM to about 2 000 μM of AA2P; and/or about 0.01 mM to about 1 mM of valproic acid. In another embodiment, the kit comprises components that are packaged individually. In another embodiment, the kit components are packaged together. In yet another embodiment, the kit further comprises feeders cells on which the normal HSPCs can be cultured. In a still further embodiment, the HSPCs produced express elevated levels of DNA repair genes that may increase the efficiency of gene editing within HSPC.
Having thus generally described the nature of the invention, reference will now be made to the accompanying drawings, showing by way of illustration, a preferred embodiment thereof, and in which:
The present disclosure relates to compositions capable of supporting the expansion of a population of HSPCs in vitro or ex vivo. The present disclosure also relates to a kit that comprises at least one stem cell agonist cocktail that can support the expansion of a population of HSPCs in vitro.
The present disclosure thus provides an in vitro method of expanding a population of normal HSPCs by contacting them with one or more agonist of a TAM receptor, ligand of a TAM receptor (e.g. GAS6) or compound capable of inducing expression of a TAM receptor ligand (e.g. AA2P) in a culture medium. As used herein, the term “a population of normal hematopoietic stem and progenitor cells (HSPCs)” refers to a plurality of hematopoietic stem cells and/or hematopoietic progenitor cells of any origin (murine cells, human cells, any other mammalian cells). It also includes cells that have been genetically modified and/or engineered. However, this term does not include hematopoietic stem cells and/or hematopoietic progenitor cells that are characterized, whether functionally and/or genetically, as cancer cells (such as leukemic stem cells). Normal hematopoietic stem cells can be differentiated from leukemic stem cells by certain properties, including: 1) the absence of mutations in oncogenes and/or tumour suppressor genes (e.g. DNMT3A, MLL, NPM1) in their genomes; and/or 2) the absence of a pre-defined differentiation bias/lineage bias that leads to reduced numbers of certain types of progenitor cells (e.g. myeloid-bias or lymphoid-bias).
The methods of the present disclosure concern the expansion of normal HSPCs. As used herein, the terms “expansion”, “expanding” and/or “expanded” refer to increasing the size of the cell population. In some embodiments, the one or more TAM receptor agonist, TAM receptor ligand and/or compound capable of inducing the expression of a TAM receptor ligand, after having contacted the normal HSPCs, is capable of improving the expansion the normal HSPCs when compared to control cells. As used herein, “control cells” refers to normal HSPCs in a culture medium that lacks the agonist of a TAM receptor, ligand of a TAM receptor and/or compound capable of inducing the expression of a TAM receptor ligand, but that may include any diluents, carriers or solvents (e.g. DMSO) that were used to dissolve or solubilize the one or more TAM receptor agonist, TAM receptor ligand or compound capable of inducing the expression of a TAM receptor ligand, prior to it contacting the normal HSPCs. The term “control cells” may also refer to HSPCs in a culture medium that that lacks the agonist of a TAM receptor, ligand of a TAM receptor and/or compound capable of inducing the expression of a TAM receptor ligand, but that further comprises other stem cell agonists cocktails (SCAC) described in the prior art (e.g., C6 as described in the Example). The control cells may also correspond to the normal HSPCs before they are contacted with the agonist of the TAM receptor, ligand of the TAM receptor and/or compound capable of inducing the expression of a TAM receptor ligand. A TAM receptor agonist, TAM receptor ligand and/or compound capable of inducing the expression of a TAM receptor ligand, can be said to have improved the expansion of normal HSPCs when, after having contacted the one or more TAM receptor agonist, TAM receptor ligand and/or compound capable of inducing the expression of a TAM receptor ligand, the size of the population of the normal HSPCs increases by at least about 10% compared to the control cells. As known in the art, TAM receptors include, but are not limited to TYRO3, AXL and MERTK. In an embodiment, the HSPCs that are intended to be expanded express one or more TAM receptors on their surface. For example, the HSPCs can express, prior to expansion, a TAM receptor. In another embodiment, the HSPCs can be induced to express one or more TAM receptors. In another example, the HSPCs that are intended of being expanded can be induced to express a TAM receptor.
The term “TAM receptor ligand” (also referred to as a ligand of a TAM receptor) refers to a natural ligand of a TAM receptor, such as protein S, Tubby, Tubby-like protein 1 (TULP-1), and Galectin-3. The term “a compound capable of inducing the expression of a TAM receptor ligand” (also referred to as a compound capable of inducing the expression of a ligand of a TAM receptor) refers to a small molecule or biologic that is capable of inducing the gene and/or protein expression of a TAM receptor ligand. As used herein, the term “TAM receptor agonist” (also referred to as an agonist of a TAM receptor) refers to a mimetic of a natural ligand of a TAM receptor, that binds to the same site as the natural ligand and produces a similar biological effect as the natural ligand when it binds to the TAM receptor, and/or a small molecule or biologic that can bind a TAM receptor, at any site, and cause the full or partial activation of the TAM receptor. Activation of TAM receptors by an agonist or ligand can be determined by any techniques known in the art, including, but not limited to Western blot analysis using an antibody that recognizes phosphorylation of intracellular tyrosine residues on TAM receptors (e.g. Tyr691, Tyr698, Tyr702, Tyr703, Tyr749 and/or Tyr681). Agonists and/or ligands of TAM receptors may also comprise a small molecule or biologic capable of binding to and activating one or more different TAM receptors.
Previous studies have shown that the AXL receptor in mice and humans is activated through the binding of its natural ligand, the growth arrest-specific protein 6 precursor (GAS6), and by the interaction between GAS6 and phosphatidylserine. When activated by its ligand GAS6, the AXL receptor tyrosine kinase undergoes homodimerisation, autophosphorylates and transphosphorylates its intracellular tyrosine residues (e.g., Tyr691, Tyr698, Tyr702 and/or Tyr703). Activation of the AXL receptor regulates a number of cellular pathways, including several that are critical for the development, growth, and spread of tumors. As a result, the AXL receptor has been deemed an attractive candidate for the development of prognostic biomarkers of malignancies and anticancer therapies.
The term “AXL receptor ligand” (also referred to as a ligand of a AXL receptor) refers to a natural ligand of a AXL receptor (e.g. GAS6). The term “a compound capable of inducing the expression of a AXL receptor ligand” (also referred to as a compound capable of inducing the expression of a ligand of a AXL receptor) refers to a small molecule or biologic that is capable of inducing the gene and/or protein expression of a AXL receptor ligand (e.g. AA2P). As used herein, the term “AXL receptor agonist” (also referred to as an agonist of a AXL receptor) refers to a mimetic of a natural ligand of a AXL receptor, that binds to the same site as the natural ligand and produces a similar biological effect as the natural ligand when it binds to the AXL receptor, and/or a small molecule or biologic that can bind a AXL receptor, at any site, and cause the full or partial activation of the AXL receptor. Activation of AXL receptors by an agonist or ligand can be determined by any techniques known in the art, including, but not limited to Western blot analysis using an antibody that recognizes phosphorylation of intracellular tyrosine residues on AXL receptors (e.g. Tyr691, Tyr698, Tyr702 and/or Tyr703). Agonists and ligands of a AXL receptor may also comprise a small molecule or biologic capable of binding to or activating one or more of the other members of the TAM receptor kinase family members.
In the methods described herein, the TAM receptor agonist, the TAM receptor ligand and/or the compound capable of inducing the expression of a TAM receptor ligand is contacted with the normal HSPCs. The term “contacting” as used herein refers to putting the agonist, whether in a liquid or solid form, into physical contact with the normal HSPCs in culture medium and comprises, for example, adding a soluble form of the agonist directly into the HSPC's culture medium or co-culturing the HSPCs with feeder cells that express and secrete the agonist into the culture medium. In an embodiment, the normal HSPCs are capable of expressing the TAM receptor on their cell surface and the expression of the TAM receptor may have been induced prior to the contact with the TAM receptor agonist, the TAM receptor ligand and/or the compound capable of inducing the expression of the TAM receptor ligand.
In some embodiments, the AXL receptor ligand comprises a GAS6 polypeptide, a variant of a GAS6 polypeptide having ligand activity towards the AXL receptor or a fragment of a GAS6 polypeptide having ligand activity towards the AXL receptor. As used herein, the term a “GAS6 polypeptide” refers to a full-length GAS6 protein from any organism comprising a naturally-occurring amino acid sequence (including amino acid sequences from naturally-occurring protein isoforms) from any organism. In some embodiments, the GAS6 polypeptide is derived from the human gene encoding the growth arrest-specific protein 6 precursor (locus NP 000811.1). In other embodiments, the GAS6 polypeptide may be derived from an ortholog of the human gene encoding the growth arrest-specific protein 6 precursor. A “gene ortholog” is understood to be a gene in a different species that evolved from a common ancestral gene by speciation. In some further embodiments, the GAS6 polypeptide is derived from a paralog of the human gene encoding the GAS6 precursor. A “gene paralog” is understood to be a gene related by duplication within the genome. In the context of the present disclosure, a GAS6 polypeptide would include a polypeptide expressed from a gene ortholog or paralog of the human GAS6 gene and that, when expressed, exhibits the same biological activity as the native human GAS6 polypeptide and, in particular, is capable of activating the AXL receptor.
In an embodiment, a variant of a GAS6 polypeptide can be used as the AXL receptor ligand. The term “a variant of a GAS6 polypeptide” refers to a full-length GAS6 protein, from any organism, that comprises an amino acid sequence that comprises at least one amino acid difference when compared to naturally occurring GAS6 proteins from said organism. The variant of a GAS6 polypeptide described herein may be (i) one in which one or more of the amino acid residues are substituted with a conserved or non-conserved amino acid residue (preferably a conserved amino acid residue) and such substituted amino acid residue may or may not be one encoded by the genetic code, or (ii) one in which one or more of the amino acid residues includes a substituent group, or (iii) one in which the mature polypeptide is fused with another compound, such as a compound to increase the half-life of the polypeptide (for example, polyethylene glycol), or (iv) one in which the additional amino acids are fused to the mature polypeptide for purification of the polypeptide. A variant of the GAS6 polypeptide has at least about 50%, 55%, 60%, 65%, 70%, 75%, 80%, 85%. 90%, 95%, 96%, 97%, 98% or 99% identity to a naturally occurring GAS6 polypeptide and exhibits similar biological activity, such as being capable of activating the AXL receptor. The term “percent (%) identity”, as known in the art, is a relationship between two or more polypeptide sequences or two or more polynucleotide sequences, as determined by comparing the sequences. The level of identity can be determined conventionally using known computer programs. Identity can be readily calculated by known methods, including but not limited to those described in: Computational Molecular Biology (Lesk, A. M., ed.) Oxford University Press, NY (1988); Biocomputing: Informatics and Genome Projects (Smith, D. W., ed.) Academic Press, NY (1993); Computer Analysis of Sequence Data, Part I (Griffin, A. M., and Griffin, H. G., eds.) Humana Press, NJ (1994); Sequence Analysis in Molecular Biology (von Heinje, G., ed.) Academic Press (1987); and Sequence Analysis Primer (Gribskov, M. and Devereux, J., eds.) Stockton Press, NY (1991).
In another embodiment, a fragment of a GAS6 polypeptide can be used as the AXL receptor ligand. The term “a fragment of a GAS6 polypeptide” refers to a polypeptide derived from, but shorter in length than, a full-length GAS6 polypeptide or a full-length variant of a GAS6 polypeptide. A fragment of a GAS6 polypeptide or of a full-length variant of a GAS6 polypeptide has at least about 100, 200, 300, 400, 500 or more consecutive amino acids of the GAS6 polypeptide or the variant of a GAS6 polypeptide. A fragment of a GAS6 polypetide comprises at least one less amino acid residue when compared to the amino acid sequence of the full-length GAS6 polypeptide or variant of a GAS6 polypeptide and still possess the biological activity of the full-length GAS6 polypeptide, such as being capable of activating the AXL receptor. In some embodiments, the “fragments” have at least 50%, 55%, 60%, 65%, 70%, 75%, 80%, 85%, 90%, 95%, 96%, 97%, 98% or 99% identity to the heterologous polypeptides described herein. In some embodiments, fragments of the polypeptides can be employed for producing the corresponding full-length polypeptide by peptide synthesis. Therefore, the fragment of a GAS6 polypeptide can be employed as an intermediate for producing a full-length GAS6 polypeptide. The GAS6 polypeptide, the variant of the GAS6 polypeptide or the fragment of the GAS6 polypeptide may be produced recombinantly.
In a further embodiment, the GAS6 polypeptide, the variant of the GAS6 polypeptide or the fragment of the GAS6 polypeptide is present in the culture medium at a concentration of at least about 0.01, 0.02, 0.03. 0.04, 0.05, 0.06, 0.07, 0.08, 0.08, 0.09, 0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 15, 20, 25, 30, 35, 40, 45, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95, 100 ng/ml or more. In a further embodiment, the GAS6 polypeptide, the variant of the GAS6 polypeptide or the fragment of the GAS6 polypeptide is present in the culture medium at a concentration of no more than about 100, 95, 90, 85, 80, 75, 70, 65, 60, 55, 50, 45, 40, 35, 30, 25, 20, 15, 10, 9, 8, 7, 6, 5, 4, 3, 2, 1, 0.9, 0.8, 0.7, 0.6, 0.5, 0.4, 0.3, 0.2, 0.1, 0.09, 0.08, 0.07, 0.06, 0.05, 0.04, 0.03, 0.02, 0.01 ng/ml or less. In a further embodiment, the GAS6 polypeptide, the variant of the GAS6 polypeptide or the fragment of the GAS6 polypeptide is present in the culture medium at a concentration of between about 0.01, 0.02, 0.03. 0.04, 0.05, 0.06, 0.07, 0.08, 0.08, 0.09, 0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 15, 20, 25, 30, 35, 40, 45, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95 ng/ml and about 100, 95, 90, 85, 80, 75, 70, 65,60, 55, 50, 45, 40, 35, 30, 25, 20, 15, 10, 9, 8, 7, 6, 5, 4, 3, 2, 1, 0.9, 0.8, 0.7, 0.6, 0.5, 0.4, 0.3, 0.2, 0.1, 0.09, 0.08, 0.07, 0.06, 0.05, 0.04, 0.03, 0.02, 0.01 ng/ml. In a further embodiment, the GAS6 polypeptide, the variant of the GAS6 polypeptide or the fragment of the GAS6 polypeptide is present in the culture medium at a concentration of between about 0.01 ng/ml to about 100 ng/ml. In one embodiment, the GAS6 polypeptide, the variant of the GAS6 polypeptide or the fragment of the GAS6 polypeptide is present in the culture medium at a concentration of 0.1 ng/ml. In another embodiment, the GAS6 polypeptide, the variant of the GAS6 polypeptide or the fragment of the GAS6 polypeptide is present in the culture medium at a concentration of 2.5 ng/ml. In yet another embodiment, the GAS6 polypeptide, the variant of the GAS6 polypeptide or the fragment of the GAS6 polypeptide is present in the culture medium at a concentration of 10 ng/ml. In still another embodiment, the GAS6 polypeptide, the variant of the GAS6 polypeptide or the fragment of the GAS6 polypeptide is present in the culture medium at a concentration of 25 ng/ml.
The method of the present disclosure also concerns methods in which a compound capable of inducing the expression of the ligand of the TAM receptor is contacted with the normal HSPCs to favor their expansion. As used in the context of the present disclosure, “a compound capable of inducing the expression of the ligand of the TAM receptor” refers to a compound or a biological molecule capable of increase the expression of the gene encoding the ligand of the TAM receptor. In some embodiments, the compound or biological molecule “capable of inducing the expression of the ligand of the TAM receptor” is also capable of inducing the expression of the TAM receptor recognizing such ligand. The compound or the biological molecule can induce the expression of the ligand of the TAM receptor in a specific or in a non-specific manner. In embodiments in which the TAM receptor is the AXL receptor, one compound that can be used to induce the expression of the ligand of the AXL receptor (e.g., GAS6) can be ascorbic acid or a derivative of ascorbic acid. In an embodiment, when ascorbic acid or a derivative of ascorbic acid is used to induce the expression of the ligand of the AXL receptor, it is not used in combination with other components of a SACS cocktail. However, in some alternative embodiments, when ascorbic acid or a derivative of ascorbic acid is used to induce the expression of the ligand of the AXL receptor, it can be used in combination with other components of a SCAC cocktail. Ascorbic acid derivatives include, but are not limited to, AA2P, ascorbic acid, sodium ascorbyl phosphate, ascorbyl palmitate, retinyl ascorbate, tetrahexyldecyl ascorbate, and magnesium ascorbyl phosphate. In yet another embodiment, the compound capable of inducing the expression of the ligand of the TAM receptor is used at a concentration of at least about 0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 15, 20, 25, 30, 35, 40, 45, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95, 100, 200, 300, 400, 500, 600, 700, 800, 900, 1000, 1100, 1200, 1300, 1400, 1500, 1600, 1700, 1800, 1900, 2000 μM or more. In a further embodiment, the compound capable of inducing the expression of the ligand of the TAM receptor is used at a concentration of no more than about 2000, 1900, 1800, 1700, 1600, 1500, 1400, 1300, 1200, 1100, 1000, 900, 800, 700, 600, 500, 400, 300, 200, 100, 95, 90, 85, 80, 75, 70, 65, 60, 55, 50, 45, 40, 35, 30, 25, 20, 15, 10, 9, 8, 7, 6, 5, 4, 3, 2, 1, 0.9, 0.8, 0.7, 0.6, 0.5, 0.4, 0.3, 0.2, 0.1 μM or less. In a further embodiment, the compound capable of inducing the expression of the ligand of the TAM receptor is used at a concentration of between about 0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 15, 20, 25, 30, 35, 40, 45, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95, 100, 200, 300, 400, 500, 600, 700, 800, 900, 1000, 1100, 1200, 1300, 1400, 1500, 1600, 1700, 1800, 1900, 2000 μM and about 2000, 1900, 1800, 1700, 1600, 1500, 1400, 1300, 1200, 1100, 1000, 900, 800, 700, 600, 500, 400, 300, 200, 100, 95, 90, 85, 80, 75, 70, 65, 60, 55, 50, 45, 40, 35, 30, 25, 20, 15, 10, 9, 8, 7, 6, 5, 4, 3, 2, 1, 0.9, 0.8, 0.7, 0.6, 0.5, 0.4, 0.3, 0.2, 0.1 μM.
In some embodiments, the normal HSPCs are of human origin. In some embodiments, the normal HSPCs are derived from umbilical cord blood, placenta, bone marrow, peripheral blood, embryonic tissue, induced pluripotent stem cells (iPSCs), or fetal tissue. As used herein, “derived from” means having been received from, having been obtained from or having arisen from a particular source. In some embodiments, the normal HSPCs can be obtained from umbilical cord blood, placenta, bone marrow, peripheral blood (such as mobilized stem cells), embryonic tissue, iPSCs or fetal tissue prior to contacting them with one or more agonist of a TAM receptor, a ligand of a TAM receptor and/or a compound capable of inducing the expression of a TAM receptor ligand in a culture medium in order to obtain an expanded population of normal HSPCs. In some embodiments, the normal HSPCs are pre-enriched, in order to remove mature cells, using conventional methods that are known in the art and that provide 25-95% purity.
The combination of UM171, StemReginin1 (SR1), L-ascorbic acid 2-phosphate magnesium salt hydrate (AA2P) and valproic acid (VPA) is capable of promoting HSPC expansion in vitro or ex vivo, albeit through different pathways. In some embodiments, in addition to the one or more TAM receptor agonist, TAM receptor ligand and/or compound capable of inducing the expression of a TAM receptor, the normal HSPCs are contacted with a stem cell agonist cocktail (SCAC) comprising UM171, SR1, AA2P and/or VPA. In some further embodiments, the normal HSPCs contact the SCAC prior to contacting the one or more TAM receptor agonist, TAM receptor ligand and/or compound capable of inducing the expression of a TAM receptor. In a further embodiment, the SCAC comprises a concentration of SR1 of at least about 100, 200, 300, 400, 500, 600, 700, 800, 900, 1000, 1100, 1200, 1300, 1400, 1500, 1600, 1700, 1800, 1900, 2000, 2100, 2200, 2300, 2400, 2500, 2600, 2700, 2800, 2900, 3000, 3100, 3200, 3300, 3400, 3500, 3600, 3700, 3800, 3900, 4000, 4100, 4200, 4300, 4400, 4500, 4600, 4700, 4800, 4900, 5000, 5100 nM or more. In a further embodiment, the SCAC comprises a concentration of SR1 of no more than 5100, 5000, 4900, 4800, 4700, 4600, 4500, 4400, 4300, 4200, 4100, 4000, 3900, 3800, 3700, 3600, 3500, 3400, 3300, 3200, 3100, 3000, 2900, 2800, 2700, 2600, 2500, 2400, 2300, 2200, 2100, 2000, 1900, 1800, 1700, 1600, 1500, 1400, 1300, 1200, 1100, 1000, 900, 800, 700, 600, 500, 400, 300, 200, 100 nM or less. In a further embodiment, the SCAC comprises a concentration of SR1 of between about 100, 200, 300, 400, 500, 600, 700, 800, 900, 1000, 1100, 1200, 1300, 1400, 1500, 1600, 1700, 1800, 1900, 2000, 2100, 2200, 2300, 2400, 2500, 2600, 2700, 2800, 2900, 3000, 3100, 3200, 3300, 3400, 3500, 3600, 3700, 3800, 3900, 4000, 4100, 4200, 4300, 4400, 4500, 4600, 4700, 4800, 4900, 5000, 5100 nM and about 5100, 5000, 4900, 4800, 4700, 4600, 4500, 4400, 4300, 4200, 4100, 4000, 3900, 3800, 3700, 3600, 3500, 3400, 3300, 3200, 3100, 3000, 2900, 2800, 2700, 2600, 2500, 2400, 2300, 2200, 2100, 2000, 1900, 1800, 1700, 1600, 1500, 1400, 1300, 1200, 1100, 1000, 900, 800, 700, 600, 500, 400, 300, 200, 100 nM.
In a further embodiment, the SCAC comprises a concentration of UM171 of at least about 0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 15, 20, 25, 30, 35, 40, 45, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95, 100, 105, 110, 115, 120, 125, 130, 135, 140, 145, 150 nM or more. In a further embodiment, the SCAC comprises a concentration of UM171 of no more than about 150, 145, 140, 135, 130, 125, 120, 115, 110, 105, 100, 95, 90, 85, 80, 75, 70, 65, 60, 55, 50, 45, 40, 35, 30, 25, 20, 15, 10, 9, 8, 7, 6, 5, 4, 3, 2, 1, 0.9, 0.8, 0.7, 0.6, 0.5, 0.4, 0.3, 0.2, 0.1 nM or less. In a further embodiment, the SCAC comprises a concentration of UM171 of between about 0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 15, 20, 25, 30, 35, 40, 45, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95, 100, 105, 110, 115, 120, 125, 130, 135, 140, 145, 150 nM and about 150, 145, 140, 135, 130, 125, 120, 115, 110, 105, 100, 95, 90, 85, 80, 75, 70, 65, 60, 55, 50, 45, 40, 35, 30, 25, 20, 15, 10, 9, 8, 7, 6, 5, 4, 3, 2, 1, 0.9, 0.8, 0.7, 0.6, 0.5, 0.4, 0.3, 0.2, 0.1 nM.
While the Examples have shown that AA2P could be useful in the cocktail, it is understood that any vitamin C derivatives can be used in the SCAC. Additional vitamin C derivatives include, but are not limited to ascorbic acid, sodium ascorbyl phosphate, ascorbyl palmitate, retinyl ascorbate, tetrahexyldecyl ascorbate, and magnesium ascorbyl phosphate. In a further embodiment, the SCAC comprises a concentration of AA2P of at least about 0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 15, 20, 25, 30, 35, 40, 45, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95, 100, 200, 300, 400, 500, 600, 700, 800, 900, 1000, 1100, 1200, 1300, 1400, 1500, 1600, 1700, 1800, 1900, 2000 μUM or more. In a further embodiment, the SCAC comprises a concentration of AA2P of no more than about 2000, 1900, 1800, 1700, 1600, 1500, 1400, 1300, 1200, 1100, 1000, 900, 800, 700, 600, 500, 400, 300, 200, 100, 95, 90, 85, 80, 75, 70, 65, 60, 55, 50, 45, 40, 35, 30, 25, 20, 15, 10, 9, 8, 7, 6, 5, 4, 3, 2, 1, 0.9, 0.8, 0.7, 0.6, 0.5, 0.4, 0.3, 0.2, 0.1 μM or less. In a further embodiment, the SCAC comprises a concentration of AA2P of between about 0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 15, 20, 25, 30, 35, 40, 45, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95, 100, 200, 300, 400, 500, 600, 700, 800, 900, 1000, 1100, 1200, 1300, 1400, 1500, 1600, 1700, 1800, 1900, 2000 μM and about 2000, 1900, 1800, 1700, 1600, 1500, 1400, 1300, 1200, 1100, 1000, 900, 800, 700, 600, 500, 400, 300, 200, 100, 95, 90, 85, 80, 75, 70, 65, 60, 55, 50, 45, 40, 35, 30, 25, 20, 15, 10, 9, 8, 7, 6, 5, 4, 3, 2, 1, 0.9, 0.8, 0.7, 0.6, 0.5, 0.4, 0.3, 0.2, 0.1 μM.
The TAM agonist can be used with a cocktail lacking VPA. However, in some embodiments, the TAM agonist can be used with a SCAC comprising VPA. In some further embodiments, the SCAC comprises a concentration of VPA of at least about 0.01, 0.02, 0.03, 0.04, 0.05, 0.06, 0.07, 0.08, 0.09, 0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, 1 mM or more. In some further embodiments, the SCAC comprises a concentration of VPA of no more than about 1, 0.9, 0.8, 0.7, 0.6, 0.5, 0.4, 0.3, 0.2, 0.1, 0.09, 0.08, 0.07, 0.06, 0.05, 0.04, 0.03, 0.02, 0.1 mM or less. In some further embodiments, the SCAC comprises a concentration of VPA of between about 0.01, 0.02, 0.03, 0.04, 0.05, 0.06, 0.07, 0.08, 0.09, 0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, 1 mM and about 1, 0.9, 0.8, 0.7, 0.6, 0.5, 0.4, 0.3, 0.2, 0.1, 0.09, 0.08, 0.07, 0.06, 0.05, 0.04, 0.03, 0.02, 0.1 mM.
In some embodiments, the SCAC comprises about 100 nM to about 5025 nM of SR1, about 0.10 nM to about 150 nM of UM171, about 0.1 μM to about 2000 μM of AA2 P, and about 0.01 mM to about 1 mM of VPA. In one embodiment, the SCAC comprises about 5023 nM of SR1, about 0.35 nM of UM171, about 0.502 mM of VPA and about 1000 μM of AA2P. In another embodiment, the SCAC comprises about 5023 nM of SR1, about 125.63 nM of UM171, about 0.01 mM of VPA and about 1000 μM of AA2P. In a further embodiment, the SCAC comprises about 1000 nM of SR1, about 38 nM of UM171, about 0.125 mM of VPA and about 250 μM of AA2P. In yet a further embodiment, the SCAC comprises about 2500 nM of SR1, about 62 nM of UM171, about 0.01 mM of VPA and about 1000 μM of AA2P. In still another embodiment, the SCAC comprises about 2500 nM of SR1, about 62 nM of UM171, about 0.01 mM of VPA and about 0.1 μM of AA2P.
The in vitro methods described above provide for an expanded population of normal HSPCs which share similarities with the normal HSPCs from which they are derived. Normal HSPCs can be identified and characterized based on the pattern of markers that they express on their cell surface. For example, normal human HSPCs express the cell surface protein CD34, which has been used as a marker to identify and purify the cells for various purposes including HSCT. CD90 is expressed on the surface of various types of human stem cells found in different tissues. In combination with the expression of CD34, expression of CD90 on the cell surface is a reliable marker of normal HSCs. CD49f is a protein expressed on the surface of HSCs that is associated with increased efficiency of long-term multilineage grafts. The endothelial protein C receptor (EPCR), also known as CD201, is also expressed on the surface of HSC. EPCR has been shown to help guide transplanted HSCs to stem cell niches in the bone marrow and, therefore, high expression of this marker on the cell surface of HSCs has been associated with increased retention following engraftment. The absence of or reduced expression of the cell surface marker CD45RA has been used in order to select normal HSPCs, as opposed to leukemic stem cells. The level of expression of any one of the above-mentioned cell surface markers on the surface of a given HSC or HPC may be determined, for example, by flow cytometry using a fluorescently-labeled antibody that is specific for the marker in question. In some embodiments, the expanded population of normal HSPCs comprises cells that express the surface proteins CD34, CD90 and/or CD49f on their cell membranes. In some embodiments, the expanded population of normal HSPCs comprise cells that express at least two of the surface proteins CD34, CD90 and CD49f. In other embodiments, the expanded population of normal HSPCs comprise cells that express all three of the surface proteins CD34, CD90 and CD49f. In other embodiments, the expanded population of normal HSPCs comprise cells that lack or express low levels of CD45RA. In other embodiments the expanded population of normal HSPCs comprise cells that express high levels of the surface protein EPCR. In yet other embodiments, the expanded population of normal HSPCs comprise cells that express one or more of the surface proteins CD34, CD90 and CD49f and that do not express, or that express low levels, of the surface protein CD45RA on their cells surface. In other embodiments, the expanded population of normal HSPCs comprise cells that express one or more of the surface proteins CD34, CD90 and CD49f and that express high levels of the surface protein EPCR. In some other embodiments, the expanded population of normal HSPCs comprise cells that do not express, or that express low levels, of the surface protein CD45RA on their cells surface and that express high levels of the surface protein EPCR. In yet further embodiments, the expanded population of normal HSPCs comprise cells that express one or more of the surface proteins CD34, CD90 and/or CD49f; do not express, or that express low levels, of the surface protein CD45RA on their cells surface; and express high levels of the surface protein EPCR. The in vitro methods described herein may further comprise determining the level of expression of the surface markers CD34, CD90, CD49f, CD45RA, and EPCR on the cell membranes of the cells that comprise the expanded population of normal HSPCs.
As used herein, the term “feeder cells” refers to non-proliferating cells which produce growth factors, adhesion molecules, extracellular matrix components or other factors that help support the growth and expansion of HSPCs. In some embodiments, the in vitro method of expanding a population of normal HSPCs further comprises culturing the normal HSPCs in the presence of feeder cells. In some embodiments, the feeder cells express GAS6. In other embodiments, the feeder cells do not express GAS6. In yet other embodiments, the normal HSPCs are not cultured in the presence of feeder cells (in a feeder-free method).
In some embodiments, the in vitro method of expanding a population of normal HSPCs comprises culturing the normal HSPCs in culture medium supplemented with one or more cytokines. Examples of suitable cytokines include interleukins (e.g. IL-3, IL-6 and others ILs), stem cell factors (SFO), thrombopoietin (TPO), colony stimulating factors (e.g. GM-CSF, G-CSF, M-CSF), transforming growth factors (TGF-β), flt-3/flk-2 ligand (FL), interferons (e.g. IFN-α, IFN-β, IFN-γ) leukemia inhibitory factor (LIF) and tumour necrosis factors (e.g. TNF-α, TNF-β). The concentration of the one or more cytokines can vary but it is usually in a range between about 0.1 to about 200 ng/ml. The one or more cytokines added in the culture medium should allow for the expansion of HSPCs that are engraftable and/or that maintain self-renewal capabilities. In other embodiments, the in vitro method comprises culturing the normal HSPCs in the presence of the stem cell agonist cocktail (UM171, SR1, AA2P and/or VPA) for at least 2 days. In yet other embodiments, the in vitro method comprises culturing the normal HSPCs in the presence of the GAS6 polypeptide, a variant of the GAS6 polypeptide or a fragment of the GAS6 polypeptide for at least 2 days. In some embodiments, the in vitro method comprises first culturing the normal HSPCs in medium supplemented with one or more cytokine, then culturing them in the presence of the stem cell agonist cocktail for at least 2 days and, lastly, culturing them in the presence of the GAS6 polypeptide, a variant of the GAS6 polypeptide or a fragment of the GAS6 polypeptide for at least 2 days. In other embodiments, the in vitro method comprises culturing the normal HSPCs in the presence of an individual stem cell agonist (e.g. UM171, SR1, AA2P and/or VPA etc.) and in the presence of the GAS6 polypeptide, a variant of the GAS6 polypeptide or a fragment of the GAS6 polypeptide for at least 2 days. In other embodiments, the in vitro method comprises first culturing the normal HSPCs in medium supplemented with one or more cytokine, then culturing them in the presence of the GAS6 polypeptide, a variant of the GAS6 polypeptide or a fragment of the GAS6 polypeptide for at least 2 days and, lastly, culturing them in the presence of the stem cell agonist cocktail for at least 2 days. In some other embodiments, the in vitro method comprises first culturing the normal HSPCs in a medium supplemented with one or more cytokine and then culturing the cells in the presence of both the stem cell agonist cocktail and the GAS6 polypeptide, a variant of the GAS6 polypeptide or a fragment of the GAS6 polypeptide, at the same time, for at least 2 days.
In yet another embodiment, the method is performed is the absence of a serum (e.g., serum free conditions). In still another embodiment, the method is performed at a temperature higher than 33° C. For example, the method can be performed by maintaining the cells at a temperature equal to or above 34, 35, 36, 37, 38, 39 or 40° C. In a specific example, the method can be performed at a temperature equal to about 37° C.
The expanded population of normal HSPCs obtained or obtainable by any of the above-mentioned in vitro methods exhibit unique transcriptional profiles that comprise the differential expression of hundreds of genes compared to non-expanded HSPCs or HSPCs expanded by other methods (Tables 2-5). The expanded population of normal HSPCs obtained or obtainable by any of the above-mentioned in vitro methods have also been shown to have an improved ability to repopulate human leukocytes in peripheral blood over the short-term and to increase bone marrow engraftment activity over the long-term when compared to non-expanded or HSPCs expanded by other methods.
The present disclosure also provides a method for treating a condition in a subject in need thereof that comprises providing the expanded population of normal HSPCs obtained or obtainable by any of the above-mentioned in vitro methods and grafting said population of expanded HSPCs to the subject in order to treat the condition. In some embodiments, the method of treatment further comprises obtaining the normal HSPCs used to provide the expanded population of normal HSPCs from the subject. These normal HSPCs may be obtained from the subject's umbilical cord blood, placenta, bone marrow, peripheral blood, embryonic tissue, induced pluripotent stem cells (iPSCs), or fetal tissue In some embodiments, the method is used for treating a cancer, a neural disorder, an immune deficiency, an autoimmune disorder, a metabolic disorder and or a genetic disorder in the subject in need thereof. Some examples of cancers that may be treated using the expanded population of normal HSPCs obtained or obtainable by the above mentioned in vitro method include cancers such as multiple myeloma, acute myeloid leukemia, chronic myeloid leukemia, acute lymphoblastic leukemia, Hodgkin lymphoma (relapsed, refractory), non-Hodgkin lymphoma (relapsed, refractory), neuroblastoma, Ewing sarcoma, myelodynaplastic syndromes, gliomas, and other solid tumors. For some subjects with cancer, the expanded population of normal HSPCs may be used to rebuild their immune system after they have undergone chemotherapy or chemoradiotherapy. Some examples of non-cancerous conditions that may be treated using the expanded population of normal HSPCs obtained or obtainable by the above mentioned in vitro method include thalassemia, sickle cell anemia, aplastic anemia, Fanconi anemia, malignant infantile osteopetrosis, mucopolysaccharidosis and pyruvate kinase deficiency. In some embodiments, the method for treating a condition in the subject comprises determining the need of the subject to receive an expanded population of HSPCs. In other embodiments, the method for treating a condition in the subject comprises receiving a second dose of an expanded population of normal HSPCs after having received a first dose of the same.
In some embodiments, the subject being treated using the above-mentioned method is a human being. In some embodiments, the subject is an adult. In other embodiments, the subject is a child.
In some embodiments, the kit produce a population of HSPCs programmed to express high levels of DNA repair enzymes that make the HSPCs more amenable to gene editing. Gene editing of HSPC could be used to treat genetic disorders that originate in the hematopoietic system such as but not limited to beta-globin disorders (e.g. sickle cell disease), immune disorders (e.g. XHIM), cancer (e.g. AML, ALL) and infectious diseases (e.g. HIV).
The present disclosure further provides a kit for the expansion of normal HSPCs in a culture medium. The kit comprises one or more agonist of the TAM receptor, one or more ligand of a TAM receptor and/or one or more compound capable of inducing the expression of a TAM receptor ligand, SR1, UM171, AA2P and/or VPA. In some embodiments, the TAM receptor is an AXL receptor. In a further embodiment, the kit comprises a GAS6 polypeptide, a variant of the GAS6 polypeptide or a fragment of the GAS6 polypeptide (to be added to the culture medium at a concentration of at least about 0.01, 0.02, 0.03. 0.04, 0.05, 0.06, 0.07, 0.08, 0.08, 0.09, 0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 15, 20, 25, 30, 35, 40, 45, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95, 100 ng/ml or more). In a further embodiment, the GAS6 polypeptide, the variant of the GAS6 polypeptide or the fragment of the GAS6 polypeptide is added to the culture medium at a concentration of no more than about 100, 95, 90, 85, 80, 75, 70, 65, 60, 55, 50, 45, 40, 35, 30, 25, 20, 15, 10, 9, 8, 7, 6, 5, 4, 3, 2, 1, 0.9, 0.8, 0.7, 0.6, 0.5, 0.4, 0.3, 0.2, 0.1, 0.09, 0.08, 0.07, 0.06, 0.05, 0.04, 0.03, 0.02, 0.01 ng/mL or less. In a further embodiment, the GAS6 polypeptide, the variant of the GAS6 polypeptide or the fragment of the GAS6 polypeptide is added to the culture medium at a concentration of between about 0.01, 0.02, 0.03. 0.04, 0.05, 0.06, 0.07, 0.08, 0.08, 0.09, 0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 15, 20, 25, 30, 35, 40, 45, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95 ng/mL and about 100, 95, 90, 85, 80, 75, 70, 65,60, 55, 50, 45, 40, 35, 30, 25, 20, 15, 10, 9, 8, 7, 6, 5, 4, 3, 2, 1, 0.9, 0.8, 0.7, 0.6, 0.5, 0.4, 0.3, 0.2, 0.1, 0.09, 0.08, 0.07, 0.06, 0.05, 0.04, 0.03, 0.02, 0.01 ng/mL. In a further embodiment, the kit comprises a GAS6 polypeptide, a variant of the GAS6 polypeptide or a fragment of the GAS6 polypeptide (to be added to the culture medium at a concentration of between about 0.01 ng/ml to about 100 ng/ml). In one embodiment, the kit comprises a GAS6 polypeptide, a variant of the GAS6 polypeptide or a fragment of the GAS6 polypeptide (to be added to the culture medium at a concentration of 0.1 ng/ml). In one embodiment, the kit comprises a GAS6 polypeptide, a variant of the GAS6 polypeptide or a fragment of the GAS6 polypeptide (to be added to the culture medium at a concentration of 2.5 ng/ml). In one embodiment, the kit comprises a GAS6 polypeptide, a variant of the GAS6 polypeptide or a fragment of the GAS6 polypeptide (to be added to the culture medium at a concentration of 10 ng/ml). In one embodiment, the kit comprises a GAS6 polypeptide, a variant of the GAS6polypeptide or a fragment of the GAS6 polypeptide (to be added to the culture medium at a concentration of 25 ng/ml).
In a further embodiment, the kit comprises SR1 to be added to the culture medium at a concentration of at least about 100, 200, 300, 400, 500, 600, 700, 800, 900, 1000, 1100, 1200, 1300, 1400, 1500, 1600, 1700, 1800, 1900, 2000, 2100, 2200, 2300, 2400, 2500, 2600, 2700, 2800, 2900, 3000, 3100, 3200, 3300, 3400, 3500, 3600, 3700, 3800, 3900, 4000, 4100, 4200, 4300, 4400, 4500, 4600, 4700, 4800, 4900, 5000, 5100 nM or more. In a further embodiment, the kit comprises SR1 to be added to the culture medium at a concentration of no more than 5100, 5000, 4900, 4800, 4700, 4600, 4500, 4400, 4300, 4200, 4100, 4000, 3900, 3800, 3700, 3600, 3500, 3400, 3300, 3200, 3100, 3000, 2900, 2800, 2700, 2600, 2500, 2400, 2300, 2200, 2100, 2000, 1900, 1800, 1700, 1600, 1500, 1400, 1300, 1200, 1100, 1000, 900, 800, 700, 600, 500, 400, 300, 200, 100 nM or less. In a further embodiment, the kit comprises SR1 to be added to the culture medium at a concentration of between about 100, 200, 300, 400, 500, 600, 700, 800, 900, 1000, 1100, 1200, 1300, 1400, 1500, 1600, 1700, 1800, 1900, 2000, 2100, 2200, 2300, 2400, 2500, 2600, 2700, 2800, 2900, 3000, 3100, 3200, 3300, 3400, 3500, 3600, 3700, 3800, 3900, 4000, 4100, 4200, 4300, 4400, 4500, 4600, 4700, 4800, 4900, 5000, 5100 nM and about 5100, 5000, 4900, 4800, 4700, 4600, 4500, 4400, 4300, 4200, 4100, 4000, 3900, 3800, 3700, 3600, 3500, 3400, 3300, 3200, 3100, 3000, 2900, 2800, 2700, 2600, 2500, 2400, 2300, 2200, 2100, 2000, 1900, 1800, 1700, 1600, 1500, 1400, 1300, 1200, 1100, 1000, 900, 800, 700, 600, 500, 400, 300, 200, 100 nM.
In a further embodiment, the kit comprises UM171 (to be added to the culture medium at a concentration of at least about 0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 15, 20, 25, 30, 35, 40, 45, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95, 100, 105, 110, 115, 120, 125, 130, 135, 140, 145, 150 nM or more). In a further embodiment, the kit comprises UM171 (to be added to the culture medium at a concentration of no more than about 150, 145, 140, 135, 130, 125, 120, 115, 110, 105, 100, 95, 90, 85, 80, 75, 70, 65, 60, 55, 50, 45, 40, 35, 30, 25, 20, 15, 10, 9, 8, 7, 6, 5, 4, 3, 2, 1, 0.9, 0.8, 0.7, 0.6, 0.5, 0.4, 0.3, 0.2, 0.1 nM or less). In a further embodiment, the kit comprises UM171 (to be added to the culture medium at a concentration of between about 0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 15, 20, 25, 30, 35, 40, 45, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95, 100, 105, 110, 115, 120, 125, 130, 135, 140, 145, 150 nM and about 150, 145, 140, 135, 130, 125, 120, 115, 110, 105, 100, 95, 90, 85, 80, 75, 70, 65, 60, 55, 50, 45, 40, 35, 30, 25, 20, 15, 10, 9, 8, 7, 6, 5, 4, 3, 2, 1, 0.9, 0.8, 0.7, 0.6, 0.5, 0.4, 0.3, 0.2, 0.1 nM).
While the Examples have shown that AA2P could be useful in the cocktail, it is understood that any vitamin C derivatives can be used in the SCAC. Additional vitamin C derivatives include, but are not limited to sodium ascorbyl phosphate, ascorbyl palmitate, retinyl ascorbate, tetrahexyldecyl ascorbate, and magnesium ascorbyl phosphate. In a further embodiment, the kit comprises AA2P (to be added to the culture medium at a concentration of at least about 0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 15, 20, 25, 30, 35, 40, 45, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95, 100, 200, 300, 400, 500, 600, 700, 800, 900, 1000, 1100, 1200, 1300, 1400, 1500, 1600, 1700, 1800, 1900, 2000 μM or more). In a further embodiment, the kit comprises AA2P (to be added to the culture medium at a concentration of no more than about 2000, 1900, 1800, 1700, 1600, 1500, 1400, 1300, 1200, 1100, 1000, 900, 800, 700, 600, 500, 400, 300, 200, 100, 95, 90, 85, 80, 75, 70, 65, 60, 55, 50, 45, 40, 35, 30, 25, 20, 15, 10, 9, 8, 7, 6, 5, 4, 3, 2, 1, 0.9, 0.8, 0.7, 0.6, 0.5, 0.4, 0.3, 0.2, 0.1 μM or less). In a further embodiment, the kit comprises AA2P (to be added to the culture medium at a concentration of between about 0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 15, 20, 25, 30, 35, 40, 45, 50, 55, 60, 65, 70, 75, 80, 85, 90, 95, 100, 200, 300, 400, 500, 600, 700, 800, 900, 1000, 1100, 1200, 1300, 1400, 1500, 1600, 1700, 1800, 1900, 2000 μM and about 2000, 1900, 1800, 1700, 1600, 1500, 1400, 1300, 1200, 1100, 1000, 900, 800, 700, 600, 500, 400, 300, 200, 100, 95, 90, 85, 80, 75, 70, 65, 60, 55, 50, 45, 40, 35, 30, 25, 20, 15, 10, 9, 8, 7, 6, 5, 4, 3, 2, 1, 0.9, 0.8, 0.7, 0.6, 0.5, 0.4, 0.3, 0.2, 0.1 μM). In some further embodiments, the kit comprises VPA (to be added to the culture medium at a concentration of at least about 0.01, 0.02, 0.03, 0.04, 0.05, 0.06, 0.07, 0.08, 0.09, 0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, 1 mM or more).
The TAM agonist can be used with a cocktail lacking VPA. However, in some embodiments, the TAM agonist can be used with a SCAC comprising VPA. In some further embodiments, the kit comprises VPA (to be added to the culture medium at a concentration of no more than about 1, 0.9, 0.8, 0.7, 0.6, 0.5, 0.4, 0.3, 0.2, 0.1, 0.09, 0.08, 0.07, 0.06, 0.05, 0.04, 0.03, 0.02, 0.1 mM or less). In some further embodiments, the kit comprises VPA (to be added to the culture medium at a concentration of between about 0.01, 0.02, 0.03, 0.04, 0.05, 0.06, 0.07, 0.08, 0.09, 0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, 1 mM and about 1, 0.9, 0.8, 0.7, 0.6, 0.5, 0.4, 0.3, 0.2, 0.1, 0.09, 0.08, 0.07, 0.06, 0.05, 0.04, 0.03, 0.02, 0.1 mM).
In some embodiments, the kit comprises SR1 (to be added to the culture medium at a concentration of about 1 μM to about 10 μM); UM171 (to be added to culture medium at a concentration of about 0.1 nM to about 150 nM); AA2P (to be added to the culture medium at a concentration of about 0.1 μM to about 2 000 M); VPA (to be added to the culture medium at a concentration of 0.01 mM to about 1 mM); and a GAS6 polypeptide, a variant of a GAS6 peptide or a fragment of a GAS6 peptide, (to be added to the culture medium at a concentration of about 0.1 to about 25 ng/ml). In other embodiments, the kit comprises SR1 (to be added to the cell culture medium at a concentration of about 5023 nM), UM171 (to be added to the cell culture medium at a concentration of about 0.35 nM), VPA (to be added to the cell culture medium at a concentration of about 0.502 mM), and AA2P (to be added to the cell culture medium at a concentration of about 1000 μM). In another embodiment, the kit comprises SR1 (to be added to the cell culture medium at a concentration of about 5023 nM), UM171 (to be added to the cell culture medium at a concentration of about 125.63 nM), VPA (to be added to the cell culture medium at a concentration of about 0.01 mM), and AA2P (to be added to the cell culture medium at a concentration of about 1000 μM). In a further embodiment, the kit comprises SR1 (to be added to the cell culture medium at a concentration of about 1000 nM), UM171 (to be added to the cell culture medium at a concentration of about 38 nM), VPA (to be added to the cell culture medium at a concentration of about 0.125 mM), and AA2P (to be added to the cell culture medium at a concentration of about 250 μM). In yet a further embodiment, the kit comprises SR1 (to be added to the cell culture medium at a concentration of about 2500 nM), UM171 (to be added to the cell culture medium at a concentration of about 62 nM), VPA (to be added to the cell culture medium at a concentration of about 0.01 mM), and AA2P (to be added to the cell culture medium at a concentration of about 1000 μM). In still another embodiment, the kit comprises SR1 (to be added to the cell culture medium at a concentration of about 2500 nM), UM171 (to be added to the cell culture medium at a concentration of about 62 nM), VPA (to be added to the cell culture medium at a concentration of about 0.01 mM), and AA2P (to be added to the cell culture medium at a concentration of about 0.1 μM). In some embodiments, the kit further comprises instructions for obtaining an expanded population of normal HSPCs, in a culture medium comprising SR1, UM171, AA2P, VPA and/or a GAS6 polypeptide, a variant of a GAS6 peptide or a fragment of a GAS6 peptide, using any of the in vitro methods described above.
In some embodiments, the kit of the present disclosure comprises a cell culture medium. Examples of suitable cell culture mediums include biological fluids and tissue extracts (e.g. plasma, serum, placental cord serum, amniotic fluid, embryo extracts), balanced salt solutions (e.g. PBS, DPBS, HBSS, EBSS), artificial medium (e.g. StemSpan™ SFEM, MEM, DMEM, Ham's F-12, Medium, RPMI-1640, IMDM, Medium 199) or any combinations thereof. In an embodiment, the cell culture medium is substantially free from serum (e.g., it has not been supplemented with serum). In some embodiments, the kit comprises a serum including human serum, bovine serum, fetal bovine serum, newborn calf serum and horse serum. In some embodiments, the kit comprises albumin which may, for example, be derived from a human or another mammal (e.g., human serum albumin, bovine serum albumin). In some embodiments, the kit comprises a buffer. Examples of buffers that are suitable for use in cell culture include, but are not limited to, phosphate buffers (e.g. PBS), HEPES, MOPS, MES, BES, bicarbonate buffers, bicine buffers and tricine buffers. In some embodiments, the kit may further comprise vitamin, including vitamin A, any and all B group vitamins, vitamin C, vitamin D, vitamin E and/or vitamin K. In some embodiments, the kit comprises an amino acid, an amino acid derivative or a dipeptide of an amino acid including L-arginine, L-cysteine, L-cystine, L-glutamine, L-histidine, L-isoleucine, L-leucine, L-lysine, L-methionine, L-phenylalanine, L-threonine, L-tryptophan, L-tyrosine, L-valine, glycine, L-alanine, L-asparagine, L-aspartic acid, L-glutamic acid, L-proline, L-serine, phosphor-L-tyrosine, s-sulfo-L-cysteine, L-alanyl L-tyrosine and/or L-alanyl L-glutamine. In some embodiments, the kit comprises a cytokine including interleukins (e.g. IL-1 to IL-33), stem cell factors (SFO), thrombopoietin (TPO), colony stimulating factors (e.g. GM-CSF, G-CSF, M-CSF), transforming growth factors (TGF-β), flt-3/flk-2 ligand (FL), and/or interferons (e.g. IFN-α, IFN-β, IFN-γ) leukemia inhibitory factor (LIF) and tumour necrosis factors (e.g. TNF-α, TNF-β). In some embodiments, the kit comprises a mineral or trace element including sodium, potassium, chloride, magnesium, calcium, phosphorus, selenium, zinc, iron, cooper and/or manganese. In some embodiments, the kit comprises a lipid such as arachidonic acid, cholesterol, DL-α-tocopherol acetate, linoleic acid, linolenic acid, myristic acid, oleic acid, palmitoleic acid, palmitic acid and/or stearic acid.
In yet other embodiments, the kit further comprises an antibiotic such as ampicilin, erythromycin, gentamycin, kanamycin, neomycin, nystatin, penicillin, streptomycin, polymyxin B, and/or tetracycline. In other embodiments, the kit further comprises an antifungal such as a polyene (e.g. amphotericin B), an azole (e.g. thiabendazole, miconazole, fluconazole), and/or an echinocandin (e.g. caspofungin). In some embodiments, the kit may further comprise a lipoprotein such as human low-density lipoproteins (LDL) and/or human high-density lipoproteins (HDL). In some alternative embodiments, the kit further comprises feeder cells that support the growth of HSPCs.
In some embodiments, the components included in the kit are all packaged individually. In other embodiments, some of the components included in the kit are packaged together. In some embodiments, the agonist of the TAM receptor, the ligand of the TAM receptor and/or the compound capable of inducing the expression of the TAM ligand is packaged individually and the SR1, UM171, AA2P and/or VPA are packaged together. The components of the kit may be packaged in, for example, blister packs, vials, ampoules, bottles, bags, boxes, syringes, flasks and beakers.
The present invention will be more readily understood by referring to the following examples which are given to illustrate the invention rather than to limit its scope.
Using statistical design of experiments a series of five Stem Cell Agonist Cocktails (SCACs) were developed: SMA, SM2, SM6, X2A and X2B. The composition of the cocktails are summarized in Table 1.
Umbilical cord blood (UCB) CD34+ cells were cultured in StemSpan™ SFEM (StemCell Technologies) in the presence of different SCACs for 14-days and net fold expansion of TNC, CD34+ cells CD34+CD45RA− cells, and EPCRHigh was calculated based on respective population on day-0 (e.g. net TNC day 14/TNC day 0). Control STFL cultures consisted of the same complete media without small molecules. Unless indicated otherwise, all cultures were supplemented with Stem Cell Factor, Flt-3 and Thrombopoietin at 100 ng/ml. All cultures also contained 10 μg/mL low-density lipoprotein (LDL, Stem Ce, Technologies) and 1% penicillin-streptomycin (Gibco). The capacity of the SCACs to support the growth of HSPC is presented in
The progeny of 1 250 UCB CD34+ cells cultured in presence of SCACs for 14-days were transplanted i.v. into irradiated (300 cGy) 8 weeks old NOD.Cg-Prkdcscid II2rgtm1Wjl/SzJ (NSG, Jackson Laboratory, Bar Harbor, USA) mice. Chimerism was measured using flow cytometry in peripheral blood at week-3 and -16 post-transplantation for platelets and leucocytes using methods that are known in the art. BM chimerism was measured 18-weeks post-transplantation by flow cytometry analyses of humanized bone marrow cells.
Serial multilineage engraftment analysis: sublethally irradiated secondary NSG recipients were transplanted with 80% of the bone marrow (BM) i.v. collected from individual primary recipients. Engraftment in the BM was analyzed 12 weeks post-transplant. X2A, SM6 and SMA had the best level of human BM engraftment in secondary recipients (
To investigate the impact of AA2P and/or SCACs on DNA methylation level and expression of selected genes, HSPC were cultured in STFL with or without AA2P or indicated SCAC for 14 days (
The methylation level of cytosine (5-methylcytosine, 5MC) residue in the DNA of cultured HSPC cells was significantly different in AA2P and X2A cultures compared to STFL control, X2B or C6 cultures (
The level of CpG island DNA methylation in the promoters of the AXL and GAS6 genes were investigated in the indicated culture conditions (
To investigate the impact of AA2P and/or SCACs on expression of AXL and its activation level, HSPC were culture in STFL with or without AA2P or the indicated SCAC for 14 days (
The expanded population of normal HSPCs obtained by the in vitro methods described herein do, however, differ in some respects compared to normal HSPCs. For example, it was found that SCAC-expanded HSPCs have altered epigenetic marks (e.g., loss of H3K27me3 or H3K27me2 methylation compared to controls). It was also found that approximately 9000 genes were differentially expressed in SCAC-expanded populations of normal HSPCs obtained using the in vitro methods described herein compared to controls. Notably, among the 9000 differentially expressed genes identified, AXL and GAS6 were both found to be upregulated in the expanded HSPC population compared to controls. Tables 2-5 shows the genes identified by next generation gene sequencing that are up or down regulated in CD34+CD45RA− cells by either SM6 or X2A when compared to non-cultured CD34+CD45RA− counterpart.
Further, as can be seen in
While the disclosure has been described in connection with specific embodiments thereof, it will be understood that the scope of the claims should not be limited by the preferred embodiments set forth in the examples, but should be given the broadest interpretation consistent with the description as a whole.
This is claiming priority on U.S. Ser. No. 63/224941 filed Jul. 23, 2022, the entire content of which is being incorporated by reference.
| Filing Document | Filing Date | Country | Kind |
|---|---|---|---|
| PCT/CA2022/051135 | 7/22/2022 | WO |
| Number | Date | Country | |
|---|---|---|---|
| 63224941 | Jul 2021 | US |
