US20220218836A1

US20220218836A1 - Endosialin-binding antibody

Info

Publication number: US20220218836A1
Application number: US17/707,838
Authority: US
Inventors: Stefano Iacobelli; Annalisa Di Risio; Enza Piccolo; Gianluca Sala; Emily Capone
Original assignee: Fusion Pharmaceuticals Inc
Current assignee: Fusion Pharmaceuticals Inc
Priority date: 2016-02-05
Filing date: 2022-03-29
Publication date: 2022-07-14
Also published as: JP2019512262A; AU2017216284A1; US11318210B2; EP3202788A1; EP3411405A1; US20190160180A1; JP7094893B2; WO2017134234A1; CA3012270A1

Abstract

The present disclosure relates to the generation of an antibody that specifically recognizes and binds Endosialin, a cell surface antigen characteristic of tumor pericytes and cells of tumor stroma. The antibody has the ability to become internalized in Endosialin expressing cells and to block the activation of MAPK in PDGF stimulated human pericytes. The antibody is able to block angiogenesis induced by LGALS3BP, a known Endosialin interactor and to inhibit tumor growth alone and in combination with 1959, a humanized antibody against LGALS3BP in human osteosarcoma xenograft. Furthermore, upon conjugation of the hu manized version of the anti-Endosialin antibody with a duocarmycin derivative, the resulting ADC displays potent and antigen de pendent in vitro tumor cell cytotoxicity and effective antitumor efficacy in vivo. The disclosure is also related to nucleotides encoding the antibodies of the disclosure and cell expressing the antibodies.

Description

The present invention relates to the development of a murine, chimeric (mouse/human) and humanized antibodies that specifically bind to Endosialin, a cell surface antigen characteristic of tumor pericytes and cells of tumor stroma. The antibody has the ability to become internalized in Endosialin expressing cells and to block the activation of MAPK in PDGF stimulated human pericytes. The antibody is able to block angiogenesis induced by LGALS3BP, a known Endosialin interactor and to inhibit growth of human sarcoma xenografts. The in vivo growth inhibitory effect is potentiated when the antibody is administered in combination with 1959, a humanized monoclonal antibody against LGALS3BP.
The invention is also related to the development of an Antibody-Drug Conjugate (ADC) based on a humanized monoclonal antibody specifically binding Endosialin coupled to a payload consisting of a duocarmycin derivative by means of a cleavable linker.
Finally, the invention is related to nucleotides encoding the antibodies of the invention and to cells expressing the antibodies.

DESCRIPTION

The present invention relates to an antibody, particularly a monoclonal antibody, which binds to the tumor endothelial marker Endosialin (also known also as TEM-1 and CD248), wherein said binding induces antibody internalization and reduces MAPK activation in PDGF stimulated human pericytes, and compositions comprising such an antibody as well as methods using such an antibody.
Cancer is a disease characterized by a series of somatic changes affecting the structure and/or expression of oncogenes and tumor suppressor genes. It is well known that tumor growth beyond diameters of 1-2 mm depends on formation of new blood vessels, a process known as angiogenesis, as well as on transformation of stromal fibroblasts and extracellular matrix proteins¹. In vitro and in vivo studies have demonstrated that tumor stroma and vasculature are characterized by a different expression of proteins and receptors if compared to the normal counterparts. Thereby, an approach to get better specificity to treat cancer or/and neoangiogenesis is the use of antibodies that can target specific antigens expressed in cancer or neo-endothelial cells or precursors that are not expressed or are expressed at a lower level on normal cells. These targets can be exploited using antibodies to kill antigen-bearing cells by inhibiting the biological activity of the antigen or by delivering immuno- or radio-conjugates that, when reach the antigen-bearing cells, specifically kill these target cells.
An example of such target is the cell membrane protein, named Endosialin.
Endosialin^2-4, is a highly restricted 165-kDa cell surface glycoprotein expressed by tumor pericytes and fibroblasts in a broad range of human cancers but not detected in the respective cell types in many normal tissues. The Endosialin cDNA encodes a type I membrane protein of 757 amino acids with a predicted molecular mass of 80.9 kDa. Bioinformatic evaluation classifies Endosialin as a C-type lectin-like protein, composed of a signal leader peptide, five globular extracellular domains (including a C-type lectin domain, one domain with similarity to the Sushi/ccp/scr pattern, and three EGF repeats), followed by a mucin-like region, a transmembrane segment, and a short cytoplasmic tail. Carbohydrate analysis shows that the Endosialin core protein carries abundantly sialylated, O-linked oligosaccharides and is sensitive to O-sialoglycoprotein endopeptidase, placing it in the group of sialomucin-like molecules. Endosialin was demonstrated to interact with proteins of the extracellular matrix (Fibronectin, Collagen I)⁵mediating cell adhesion and migration; another important Endosialin interactor is the tumor secreted protein, LGALS3BP⁶, a protein involved in cell adhesion and migration, acting also as a pro-angiogenic factor⁷.
The tumor vascular marker Endosialin/TEM1 is emerging as an attractive molecule for diagnostics and therapeutics because of its expression across the stroma of many human tumors, the low to absent expression in normal tissues, and accessibility from the vascular circulation. Smaller scFv constructs have also been reported for Endosialin targeting of drug-delivery vehicles⁸or diagnostics for fluorescence imaging techniques⁹.
Endosialin is broadly expressed in human cancer¹⁰. Its frequency, extent, and intensity vary among cancer subtypes as well as among individual tumors within subtypes. Endosialin was detected in almost all sarcoma suggesting that the protein is a very frequent feature of sarcoma. In sarcoma, Endosialin was detected in several cellular compartments including malignant sarcoma cells, stromal cells, and vasculature. Sarcoma subtypes with the greatest frequency, extent, and intensity of Endosialin expression and potentially the most promising therapeutic potential were synovial sarcoma, fibrosarcoma, malignant fibrous histiocytoma (MFH), liposarcoma, and osteosarcoma. In addition to sarcoma, high Endosialin expression rate was observed in vasculature of carcinomas, with bladder cancer emerging as an outstanding carcinoma subtype for Endosialin expression. The restriction of Endosialin expression in carcinomas to vasculature and stromal has implications for potential Endosialin-directed therapeutics, which could be expected to have an antiangiogenic or vascular-disrupting mechanism of action. In contrast, in sarcomas, an Endosialin-targeted therapeutic could have both a direct anticancer effect on malignant sarcoma cells, and an indirect anticancer effect due to antiangiogenic and/or vascular disrupting effects. Furthermore, for tumors expressing Endosialin directly by cancer cells, a diagnostic assay that measures the intensity of Endosialin expression in malignant tissues would assist in selecting patients that could benefit from an anti-Endosialin therapy. Thus, Endosialin holds potential value both as a biomarker for certain human cancers, like sarcoma^10-11and as a targeted therapeutic agent.
While several investigators have shown that Endosialin plays an important role in tumor growth and stromal expansion^12-14with expression levels that have been correlated with tumor progression^15,16, the mechanisms by which Endosialin functions are substantially unknown. Mala. et a1¹⁷reported that the cytoplasmic domain of Endosialin is a key regulator of tumor growth and that tumor growth of mice lacking this domain are significantly reduced, if compared to the response in CD248WT/WT mice. In addition, they found that Endosialin present in fibroblasts expressing the cytoplasmatic domain of Endosialin also had impaired PDGF-BB-induced migration.
Tomkowicz B et a1¹⁸demonstrated that Endosialin mediates proliferation of primary human pericytes through a PDGF (platelet derived growth factor) receptor signaling pathway. Normal pericytes expressing high levels of Endosialin were able to proliferate, to respond to PDGF stimulation by phosphorylating both the PDGF receptor and the MAPK Erk1/2, and to induce the expression of the immediate early transcription factor c-Fos. In Endosialin knocked-down pericytes, PDGF-induced proliferation, Erk1/2 phosphorylation, and c-Fos expression were significantly impaired. These results indicated that Endosialin controls proliferation of human pericytes together with PDGF pathway and suggest that targeting this protein could represent a novel modality for mitigating tumor angiogenesis and suppressing cancer.
Altogether, experimental and clinical data indicate that Endosialin plays an essential role in tumor progression and angiogenesis, suggesting that agents targeting Endosialin could be useful as therapeutic and diagnostic tools for some cancers^19-23.
In spite of scientific progress and introduction into clinical practice of new chemotherapeutic agents and targeted therapies, cancer remains a disease difficult to cure, responsible for about 13% of deaths worldwide^24-26.
Consequently, there is an urgent need to develop new antitumor therapies, more effective and possibly less toxic.
The inventors have found that specific Endosialin inhibitors are able to inhibit tumor growth. In particular, the murine mMP-E-8.3, the chimeric cMP-E-8.3 and humanized hMP-E-8.3 monoclonal antibodies, have been used as anti-Endosialin inhibitors.
A first aspect of the invention is an antibody or functional fragment thereof which is directed against an epitope between amino acids 477-488 of human Endosialin according to SEQ ID NO: 1.
The invention also provides conjugates based on an antibody as herein described. In particular, an Antibody-Drug Conjugate (ADC) based on hMP-E-8.3 monoclonal antibody is an additional subject matter of the present invention.
The monoclonal antibody hMP-E-8.3 and the ADC thereof are suitable for use in medicine, particularly human medicine, more particularly for the diagnosis, prevention and/or treatment of neoplastic disorders and cancer.
ADC and Cancer Therapy
Despite extensive research, most anticancer drugs have important nonspecific toxicity. By targeting the cell cycle and thereby killing rapidly proliferating cells, they do not explicitly discriminate between healthy and tumor tissues and only gain a limited selectivity for malignant cells. Due to a lack of selectivity, drug concentrations that would eradicate the tumor can often not be used. In addition, tumors can develop resistance against anticancer drugs after prolonged treatment. Therefore, achieving improved tumor selectivity through targeting of cytotoxic drugs to the cancer cells is needed.
Antibody-drug conjugates (ADCs) are ideal candidates for easing this need. ADCs are monoclonal antibodies (mAbs) linked to cell-killing drugs. Thanks to their high binding specificity for tumor-specific antigens, mAbs can be used as vehicles to target lethal payloads to tumor cells (^27-28) [1, 2]. Naked mAbs can also be used for the treatment of cancer, thanks to their ability to interrupt cell-survival signals and/or induce an immunological response against the target cancer cell. However, the therapeutic efficacy of naked mAbs is often limited. This can be circumvented by arming the immunoglobulin with cytotoxic drugs or radioactive isotopes, yielding highly specific ADCs.
This invention relates to an innovative ADC based on the humanized monoclonal antibody hMP-E-8.3, which specifically binds Endosialin, coupled to a payload consisting of a duocarmycin derivative by means of a cleavable linker. This payload belongs to DNA damaging agents, specifically to Minor Grove Binders.
The choice of Endosialin as the target for an ADC is justified by experimental and clinical data indicating that this glycosylated receptor is overexpressed in some tumors, such as sarcoma and neuroblastoma, but not in normal tissue.
A further aspect of the invention is a nucleic acid molecule encoding the antibody, optionally in operative linkage to an expression control sequence.
A further aspect of the invention is a host, in particular a recombinant cell which comprises the nucleic acid molecule. The cell may be used for the preparation of the antibody.
Still a further aspect of the invention is pharmaceutical composition comprising the antibody, the nucleic acid molecule or the host, optionally, together with a pharmaceutical acceptable carrier.
Still a further aspect of the invention is a method for the prevention or treatment of neoplastic diseases and cancer.
The term “antibody” particularly refers to molecules comprising at least one immunoglobulin heavy chain and at least one immunoglobulin light chain. Each heavy and light chain may comprise a variable and a constant domain. The antigen binding site may be formed from the variable domains of a heavy and light chain. A variable region (also referred to as variable domain) comprises complementarity determining regions (CDRs), e.g. a CDR1, a CDR2 and a CDR3 region and framework regions (FRs) flanking the CDRs. The term “complementarity determining region” is readily understood by the skilled person (see for example Harlow and Lane (eds.), Antibodies: A Laboratory Manual, CSHL press, Cold Spring Harbor, N.Y., 1988) and refers to the stretches of amino acids within the variable domain of an antibody that primarily make contact with the antigen and determined antibody specificity. This region is also known as the hypervariable region.
The invention also encompasses fragments of antibodies, e.g. portions of the above-mentioned antibodies which comprise at least one antigen binding site. Examples of antibody fragments include Fab fragments, Fab′ fragments, F(ab′)2 fragments, Fv fragments, diabodies, ScFv fragments, single chain antibody molecules, small modular immunopharmaceuticals (SMIPs), affibodies, avimers, nanobodies, domain antibodies and other fragments as long as they exhibit the desired capability of binding to human Endosialin. For a review of certain antibody fragments see Hudson et al., Nat. Met. 9: 129-134 (2003).
“Avimer” relates to a multimeric binding protein or peptide engineered using, for example, in vitro exon shuffling and phage display. Multiple binding domains are linked, resulting in greater affinity and specificity compared to single epitope immunoglobin domains.
“Nanobody” or single domain antibody relates to an antibody fragment consisting of a single monomeric variable antibody domain.
“Affibody” molecules are small high affinity proteins being engineered to bind specifically to a large number of target proteins.
“Diabodies” are antibody fragments with two antigen binding sites that may be bivalent or bispecific. See for example Hudson et al., (2003). Single-chain antibodies are antibody fragments comprising all or a portion of the heavy chain variable domain or all, or a portion of the light chain variable domain of an antibody. Antibody fragments can be made by various techniques including but not limited to proteolytic digestion of an intact antibody as well as production by recombinant hosts (e.g. E. coli or phage) as described herein.
In certain embodiments, an antibody provided herein is a multispecific antibody, e.g. a bispecific antibody. Multispecific antibodies are monoclonal antibodies that have binding specificities for at least two different sites.
In certain embodiments, one of the binding specificities is for human Endosialin as described above and the other is for LGALS3BP. The use of such a bi-specific antibody should be useful in order to inhibit to a greater extent tumor angiogenesis if compared to the effect of the single antibody treatments. The bi-specific antibody will act at the same time on endothelial cells angiogenesis (antibody against LGALS3BP) and/or tumor cells and pericytes (antibody against Endosialin).
Techniques for making multispecific antibodies include but are not limited to recombinant co-expression of two immunoglobulin heavy chain-light chain pairs having different specificities and “knob in hole” engineering. Multispecific antibodies may also be made by engineering electrostatic steering effects for making antibody Fc-heterodimeric molecules; crosslinking two or more antibodies or fragments; using leucine zippers to produce bispecific antibodies; using “diabody” technology for making bispecific antibodies and using single-chain Fv and preparing trispecific antibodies as described. Engineered antibodies with three or more functional antigen binding sites including “octopus antibodies” are also included herein.
In certain embodiments, amino acid sequence variants of the antibodies provided herein are contemplated as long as they exhibit the desired capability of binding to human Endosialin. For example, it may be desirable to improve the binding affinity and/or other biological properties of the antibody. Amino acid sequence variants of an antibody may be prepared by introducing appropriate modifications into the nucleotide sequence encoding the antibody, or by peptide synthesis. Such modifications include, for example, deletions from and/or insertions into and/or substitutions of residues within the amino acid sequences of the antibody. Any combination of deletion, insertion and substitution can be made to arrive at the final construct, provided that the final construct possesses the desired characteristics, e.g. antigen binding.
The term “bind” or “binding” of an antibody means an at least temporary interaction or association with or to a target antigen, i.e. human Endosialin comprising fragments thereof containing an epitope, in particular an epitope between amino acids 477-488 of human Endosialin according to SEQ ID NO: 1.
In certain embodiments, an antibody provided herein has a dissociation constant (Kd) of ≤5 1 μM,≤5 100 nM,≤5 10 nM,≤1 nM,≤5 0.1 nM,≤5 0.01 nM, or 5 0.001 nM (e.g. 10⁻⁸M or less, e.g. from 10⁻⁸M to 10⁻¹³M, e.g. 10⁻⁹M to 10⁻¹³M).
In one embodiment, Kd is measured by a radio-labeled antigen binding assay (Radioimmunoassay, RIA) performed with the Fab version of an antibody of interest and its antigen.
According to another embodiment, Kd is measured using surface plasmon resonance assays with immobilized antigen. According to a preferred embodiment of the present invention, the antibodies are human monoclonal antibodies directed against an epitope of human Endosialin as described herein.
The antibody may be any antibody of natural and/or synthetic origin, e.g. an antibody of mammalian origin. Preferably, the constant domain—if present-is a human constant domain. The variable domain is preferably a mammalian variable domain, e.g. a humanized or a human variable domain.
Antibodies according to the invention are preferably monoclonal antibodies. In particular, antibodies of the present invention are preferably recombinant murine antibodies, chimeric, humanized or fully human antibodies, multispecific antibodies, in particular bispecific antibodies, or fragments thereof.
Monoclonal antibodies may be produced by any suitable method such as that of Köhler and Milstein²⁷or by recombinant DNA methods. Monoclonal antibodies may also be isolated from phage antibody libraries using techniques described in Clackson et al²⁸.
According to a preferred aspect of the invention, the antibodies of the invention are humanized antibodies, in particular fully human antibodies.
Humanized forms of the antibodies may be generated according to the methods known in the art such as chimerization or CDR grafting. Alternative methods for the production of humanized antibodies are well known in the art and are described in, e.g., EP-Al 0 239 400 and WO 90/07861. Human antibodies can also be derived by in vitro methods. Suitable examples include but are not limited to phage display, yeast display, and the like.
According the present invention “chimeric antibody” relates to antibodies comprising polypeptides from different species, such as, for example, mouse and human. The production of chimeric antibodies is described, for example, in WO 89/09622.
The antibody of the invention may be preferably of the IgG1, IgG2, IgG3, IgG4, IgM, IgA1, IgA2, IgAsec, IgD, and IgE antibody-type. It will be appreciated that antibodies that are generated need not initially possess such an isotype but, rather the antibody as generated can possess any isotype and that the antibody can be isotype-switched.
The antibodies or antibody fragments of the invention are optionally deimmunized for therapeutic purposes.
It will be apparent to those skilled in the art that the antibodies of the invention can be further coupled to other moieties for, e.g., drug targeting and imaging applications. Antibodies coupled to other moieties are also called “antibody conjugates”. Coupling may be conducted chemically after expression of the antibody or antigen to site of attachment or the coupling product may be engineered into the antibody or antigen of the invention at the DNA level.
For diagnostic purposes, the antibody or antibody fragment of the invention may be labelled, i.e. coupled to a labelling group. Suitable labels include radioactive labels, fluorescent labels, suitable dye groups, enzyme labels, chromogenes, chemiluminescent groups, biotinyl groups, predetermined polypeptide epitopes recognized by a secondary reporter etc. Preferably, the labels are covalently bound to the antibody.
Those labelled antibodies or antibody fragments (also referred to as “antibody conjugates”) may in particular be used in immunohistochemistry assays or for molecular imaging in vivo.
For therapeutic purposes, the antibody or antibody fragment of the invention may be conjugated with an effector group, in particular a therapeutic effector group such as a cytotoxic agent or a radioactive group agent.
The antibody of the present invention may optionally be coupled to a labeling group and/or to an effector group, preferably a therapeutic group. According to a preferred aspect of the invention, the antibody is linked to a paramagnetic, radioactive or fluorogenic ion that is detectable upon imaging. This type of antibody is particularly suitable for diagnostic use.
According to another aspect of the invention, the antibody is linked to an anticellular agent, preferably in the form of anti-mitotic or DNA damaging agents capable of killing or suppressing the growth or cell division of tumor cells. The anticellular agent may, for example, comprise a chemotherapeutic agent, radioisotope or cytotoxin. Examples of anticellular agents comprise an antimetabolite, an anthracycline, a vinca alkaloid, an antibiotic, an alkylating agent or a plant-, fungus- or bacteria-derived toxin. An exemplary DNA damaging agent that may be linked to the antibody of the invention is a Minor Grove Binder duocarmycin derivative. Cytotoxins suitable to be linked to the antibody of the invention may, for example, comprise an A chain toxin, a ribosome inactivating protein, a-sarcin, aspergillin, restrictocin, a ribonuclease, diphtheria toxin or Pseudomonas exotoxin. Further, the cytotoxin may comprise deglycosylated ricin A chain.
Labelling groups or effector groups may be attached by linkers (spacer arms) of various lengths to reduce potential steric hindrance. Effector groups may be also attached directly to the antibody.
The inventors of the present application found that antibodies directed against an epitope between amino acids 477-488 of human Endosialin according to SEQ ID NO: 1 or functional fragments or functional derivatives thereof are particularly useful for therapeutic and diagnostic applications. The epitope recognized by the antibody of the invention is located in the extracellular domain of human Endosialin.
It was surprisingly found that the antibodies of the present invention show advantageous properties with respect to their biological activity. It was found that binding of antibodies to Endosialin inhibits PDGF-signalling in pericytes. Further, antibodies of the invention have the ability to internalize in Endosialin-positive cell lines. They have the ability to block in vitro tube formation induced by LGALS3BP. Moreover, they are able to inhibit tumor growth in sarcoma xenografts alone or in combination with an antibody against LGALS3BP. It was found that these properties are especially distinct with the antibodies described in the following that are characterized by certain complementarity determining regions.
In certain embodiments of the present invention, the antibody may comprise specific heavy chain complementarity determining regions CDRH1, CDRH2 and/or CDRH3 as described herein below.
In one embodiment, the human antibody comprises a heavy chain complementarity determining region 1 (CDRH1) having the amino acid sequence as shown in SEQ ID NO: 2, or an amino acid sequence differing in 1 or 2 amino acids therefrom.
According to a preferred embodiment, CDRH1 has a sequence as shown in SEQ ID NO: 26 or an amino acid sequence differing in 1 or 2 amino acids therefrom.
In a further embodiment, the antibody comprises a heavy chain complementarity determining region 2 (CDRH2) having the amino acid sequence as shown in SEQ ID NO: 3, or an amino acid sequence differing in 1 or 2 amino acids therefrom.
In yet a further embodiment, the antibody comprises a heavy chain complementarity determining region 3 (CDRH3) having the amino acid sequence as shown in SEQ ID NO: 4, or an amino acid sequence differing in 1 or 2 amino acids therefrom.
The antibody according to the invention may also comprise specific light chain complementarity determining regions CDRL1, CDRL2 and/or CDRL3.
Accordingly, in one embodiment, the antibody comprises a light chain complementarity determining region 1 (CDRL1) having the amino acid sequence as shown in SEQ ID NO: 5, or an amino acid sequence differing in 1 or 2 amino acids therefrom.
In a further embodiment, the antibody comprises a light chain complementarity determining region 2 (CDRL2) having the amino acid sequence as shown in SEQ ID NO: 6, or an amino acid sequence differing in 1 or 2 amino acids therefrom.
In yet a further embodiment, the antibody comprises a light chain complementarity determining region 3 (CDRL3) having the amino acid sequence as shown in SEQ ID NO: 7, or an amino acid sequence differing in 1 or 2 amino acids therefrom.
The antibody of the present invention may preferably comprise a specific combination of CDRs (i.e. of CDRH1, CDRH2 and CDRH3) within one heavy chain.
Accordingly, in one preferred embodiment, the antibody comprises a heavy chain comprising complementarity determining regions CDRH1, CDRH2 and CDRH3, wherein CDRH1 has the amino acid sequence as shown in SEQ ID NOs: 2, or an amino acid sequence differing in 1 or 2 amino acids therefrom, CDRH2 has the amino acid sequence as shown in SEQ ID NOs: 3, or an amino acid sequence differing in 1 or 2 amino acids therefrom, and CDRH3 has the amino acid sequence as shown in SEQ ID NOs: 4, or an amino acid sequence differing in 1 or 2 amino acids therefrom.
According to the present invention, it is further preferred that the antibody comprises a specific combination of CDRs within one light chain (i.e. of CDRL1, CDRL2 and CDRL3).
Thus, in one preferred embodiment, the antibody comprises a light chain comprising complementarity determining regions CDRL1, CDRL2 and CDRL3, wherein CDRL1 has the amino acid sequence as shown in SEQ ID NOs: 5, or an amino acid sequence differing in 1 or 2 amino acids therefrom, CDRL2 has the amino acid sequence as shown in SEQ ID NO: 6, or an amino acid sequence differing in 1 or 2 amino acids therefrom, and CDRL3 has the amino acid sequence as shown in SEQ ID NO: 7, or an amino acid sequence differing in 1 or 2 amino acids therefrom.
As described above, the complementarity determining regions (CDRs) of an antibody may be flanked by framework regions. A heavy or light chain of an antibody containing three CDRs contains e.g. four framework regions.
Additionally, the present invention also encompasses those antibodies that recognize the same epitope on human Endosialin as a specific antibody characterized by the above heavy and/or light chain CDRs. Functional fragments and functional derivatives of those antibodies are also within the scope of the invention.
To determine the epitope on Endosialin recognized by the antibody, chemically prepared arrays of protein sequence derived short peptides derived from the amino acid sequence of the extracellular domain of human Endosialin can be used to locate and identify antibody epitopes (Reinicke W., Methods Mol. Biol. 2004, 248: 443-63). A further method to map the epitopes in the Endosialin extracellular domain bound by the antibodies of the invention comprises Snaps/SELDI (Wang et al., Int. J. Cancer, 2001, June 15; 92 (6): 871-6) or a routine cross-blocking assay such as described in Antibodies, A Laboratory Manual, Cold Spring Harbor Laboratory, Ed Harlow and David Lane (1988) can be performed.
According to a particularly preferred embodiment of the present invention, the antibody comprises:

- (i) a heavy chain comprising:
- a heavy chain complementarity determining region 1 (CDRH1) having the amino acid sequence as shown in SEQ ID No: 2 or an amino acid sequence differing in 1 or 2 amino acids therefrom, a heavy chain complementarity determining region 2 (CDRH2) having the amino acid sequence as shown in SEQ ID No: 3 or an amino acid sequence differing in 1 or 2 amino acids therefrom, and a heavy chain complementarity determining region 3 (CDRH3) having the amino acid sequence as shown in SEQ ID No: 4 or an amino acid sequence differing in 1 or 2 amino acids therefrom, and
- (ii) a light chain comprising:
- a light chain complementarity determining region 1 (CDRL1) having the amino acid sequence as shown in SEQ ID No: 5 or an amino acid sequence differing in 1 or 2 amino acids therefrom, a light chain complementarity determining region 2 (CDRL2) having the amino acid sequence as shown in SEQ ID No: 6 or an amino acid sequence differing in 1 or 2 amino acids therefrom, and a light chain complementarity determining region 3 (CDRL3) having the amino acid sequence as shown in SEQ ID No: 7 or an amino acid sequence differing in 1 or 2 amino acids therefrom, or a monoclonal antibody recognizing the same epitope on human Endosialin.

Preferably, the CDR sequences are selected from those shown in SEQ ID NOs: 2-7 without any variation.
In particular, the antibody may comprise the heavy chain complementary determining regions CDRH1-3 as shown in SEQ ID NOs: 2, 3 and 4, and the light chain complementarity determining regions CDRL1-3 as shown in SEQ ID NOs: 5, 6 and 7.
In a preferred embodiment of the invention, the antibody comprises a heavy chain variable region (VH) as shown in SEQ ID N08, or a sequence differing in one or two amino acids therefrom. Further, the antibody of the invention preferably comprises a light chain variable region (VL) as shown in SEQ ID NO: 9, or a sequence differing in one or two amino acids therefrom. Further, the present invention also encompasses those antibodies that comprise an amino acid sequence having a sequence identity of at least 90% to the heavy chain variable region as shown in SEQ ID NO: 8 and/or to the light chain variable region as shown in SEQ ID NO: 9, preferably at least 95% sequence identity over the whole length. Particularly preferred are antibodies comprising a heavy chain variable region as shown in SEQ ID NO: 8 and a light chain variable region as shown in SEQ ID NO: 9.
According to a particularly preferred embodiment of the invention, the antibody of the invention comprises a heavy chain comprising an amino acid sequence as shown in SEQ ID NO: 10 or 11, or an amino acid sequence having a sequence identity of at least 90% thereto over the whole length, and a light chain comprising an amino acid sequence as shown in SEQ ID NO: 12 or 13, or an amino acid sequence having a sequence identity of at least 90% thereto over the whole length. The sequence identity of the heavy chain and the light chain amino acid sequence is preferably at least 95% to the sequences shown in SEQ ID NOs: 10, 11, 12 and 13, respectively. Most preferred is an antibody comprising the heavy chain amino acid sequence as shown in SEQ ID NO: 10 and the light chain amino acid sequence as shown in SEQ ID NO: 12, as well as an antibody comprising the heavy chain amino acid sequence as shown in SEQ ID NO: 11 and the light chain amino acid sequence as shown in SEQ ID NO: 13.
In particular, preferred are humanized antibodies, especially monoclonal humanized antibodies.
A particular preferred embodiment of the present invention relates to an antibody comprising
a heavy chain variable region comprising an amino acid sequence as shown in SEQ ID NO: 18, SEQ NO: 19, SEQ ID NO: 20 or SEQ ID NO: 21 or an amino acid sequence having a sequence identity of at least thereto, and/or
a light chain variable region comprising a human acid sequence as shown in SEQ ID NO: 22, SEQ ID NO: 23, SEQ ID NO: 24 or SEQ ID NO: 25 or an amino acid sequence having a sequence identity of at least 90% thereto.
According to a further preferred embodiment, the present invention relates to a humanized antibody having a heavy chain variable region comprising the amino acid according to SEQ ID NO: 18 or an amino acid sequence having a sequence identity of at least 90% thereto, and a light variable chain region comprising an amino acid sequence as shown in SEQ ID NO: 22 or an amino acid sequence having a sequence identity of at least 90% thereto.
In another preferred embodiment, the present invention relates to a humanized antibody having a heavy chain variable region comprising the amino acid according to SEQ ID NO: 19 or an amino acid sequence having a sequence identity of at least 90% thereto, and a light variable chain region comprising an amino acid sequence as shown in SEQ ID NO: 23 or an amino acid sequence having a sequence identity of at least 90 VD thereto.
Also a preferred embodiment of the invention is a humanized antibody having a heavy chain variable region comprising the amino acid according to SEQ ID NO: 20 or an amino acid sequence having a sequence identity of at least 90% thereto, and a light variable chain region comprising an amino acid sequence as shown in SEQ ID NO: 24 or an amino acid sequence having a sequence identity of at least 90% thereto.
According to a further preferred embodiment, the present invention relates to a humanized antibody having a heavy chain variable region comprising the amino acid according to SEQ ID NO: 21 or an amino acid sequence having a sequence identity of at least 90% thereto, and a light variable chain region comprising an amino acid sequence as shown in SEQ ID NO: 25 or an amino acid sequence having a sequence identity of at least 90% thereto.
According to a preferred embodiment of the present invention, the antibody recognizes human Endosialin expressed on the cell surfaces of tumor vascular cells to a greater degree than on the surfaces of normal endothelial cells. Preferably, the antibody is further defined as a bispecific antibody that recognizes the human tumor-associated antigen LGALS3BP (aka Mac-2 BP or 90K).
According to another aspect, the present invention relates to a nucleic acid molecule encoding the antibody of the invention or fragment thereof or a nucleic acid capable of hybridizing thereto under stringent conditions. The nucleic acid molecule of the invention encoding the above-described antibody, antibody fragment or derivative thereof may be, e.g. DNA, cDNA, RNA or synthetically produced DNA or RNA or recombinantly produced chimeric nucleic acid molecule comprising any of those nucleic acid molecules either alone or in combination. The nucleic acid molecule may also be genomic DNA corresponding to the entire gene or a substantial portion thereof or to fragments and derivatives thereof. The nucleotide sequence may correspond to the naturally occurring nucleotide sequence or may contain single or multiple nucleotide substitutions, deletions or additions. In a particular preferred embodiment of the present invention, the nucleic acid molecule is a cDNA molecule.
According to the present invention, an isolated nucleic acid molecule of the present invention is particularly selected from the group consisting of:

- (a) a nucleic acid sequence encoding an antibody, antibody fragment or a derivative thereof as disclosed herein, preferably a nucleic acid sequence as shown in any one of SEQ ID NOs: 14-15 and SEQ ID NOs. 16-17 or SEQ ID NOs: 18-25,
- (b) a nucleic acid sequence complementary to any of the sequences in (a); and
- (c) a nucleic acid sequence capable of hybridizing to (a) or (b) under stringent conditions.

The term “hybridizing under stringent conditions” means that two nucleic acid fragments hybridize with one another under standardized hybridization conditions as described for example in Sambrook et al., “Expression of cloned genes in E. coli” in Molecular Cloning: A laboratory manual (1989), Cold Spring Harbor Laboratory Press, New York, USA. Such conditions are for example hybridization in 6.0×SSC at about 45° C. followed by a washing step with 2.0×SSC at 50° C., preferably 2.0×SSC at 65° C., or 0.2×SSC at 50° C., preferably 0.2×SSC at 65° C.
Another aspect of the invention relates to a vector comprising a nucleic acid molecule of the invention. Said vector may be, for example, a phage, plasmid, viral or retroviral vector. Retroviral vectors may be replication competent or replication defective. Preferably, the vector of the invention is an expression vector wherein the nucleic acid molecule is operatively linked to one or more control sequences allowing the transcription and optionally expression in prokaryotic and/or eukaryotic host cells.
The invention further relates to a host comprising the vector of the invention. Said host may be a prokaryotic or eukaryotic cell or a non-human transgenic animal. The polynucleotide or vector of the invention which is present in the host may either be integrated into the genome of the host or it may be maintained extra chromosomally.
The host can be any prokaryotic or eukaryotic cell, such as a bacterial, insect, fungal, plant, animal, mammalian or, preferably, human cell. Preferred fungal cells are, for example, those of the genus Saccharomyces, in particular those of the species S. cerevisiae.
The invention additionally relates to a method for the preparation of an antibody, comprising culturing the host of the invention under conditions that allow synthesis of said antibody and recovering said antibody from said culture.
A further aspect of the present invention relates to a pharmaceutical composition comprising the antibody of the invention or a fragment thereof, the nucleic acid molecule, the vector, the host of the invention or an antibody obtained by a method of the invention. The term “composition” as employed herein comprises at least one compound of the invention. Preferably, such a composition is a therapeutic/pharmaceutical or a diagnostic composition.
The diagnostic composition of the invention may be used for assessing the onset or the disease status of a cancer.
The composition preferably comprises a pharmaceutically acceptable carrier, diluent and/or excipient.
Examples of suitable pharmaceutical carriers, excipients and/or diluents are well known in the art and include phosphate buffered saline solutions, water, emulsions, such as oil/water emulsions, various types of wetting agents, sterile solutions etc. Compositions comprising such carriers, excipients and/or diluents can be formulated by well-known conventional methods.
Administration of the suitable compositions may be effected by different ways, e.g., by intravenous, intraperitoneal, subcutaneous, intramuscular, topical, intradermal, intranasal or intra-bronchial administration. Preferred is an intravenous, intramuscular and/or subcutaneous administration.
These pharmaceutical compositions can be administered to the subject at a suitable dose. The dosage regimen can be determined by the attending physician and clinical factors.
The compositions of the invention may be administered locally or systemically. Preparations for parenteral administration include sterile aqueous or non-aqueous solutions, suspensions, and emulsions. Examples of non-aqueous solvents are propylene glycol, polyethylene glycol, vegetable oils such as olive oil, and injectable organic esters such as ethyl oleate. Aqueous carriers include water, alcoholic/aqueous solutions, emulsions or suspensions, including saline and buffered media. Parenteral vehicles include sodium chloride solution, Ringer's dextrose, dextrose and sodium chloride, lactated Ringer's, or′ fixed oils. Intravenous vehicles include fluid and nutrient replenishers, electrolyte replenishers (such as those based on Ringer's dextrose), and the like. Preservatives and other additives may also be present such as, for example, antimicrobials, anti-oxidants, chelating agents, and inert gases and the like. Furthermore, the pharmaceutical composition of the invention may comprise further agents depending on the intended use of the pharmaceutical composition.
According to an especially preferred embodiment the composition comprises a further active agent, such as a further antibody or antibody fragment.
Preferably the composition of the invention is used in combination with at least one further antineoplastic agent. Said combination is effective, for example, in inhibiting abnormal cell growth. Many antineoplastic agents are presently known in the art. In general the term includes all agents that are capable of prevention, alleviation and/or treatment of hyperproliferative disorders, especially cancer.
Preferably the antineoplastic agent is selected from the group consisting of antibodies, small molecules, antimetabolites, alkylating agents, topo-isomerase inhibitors, microtubule-targeting agents, kinase inhibitors, protein synthesis inhibitors, immuno-therapeutics, hormones or analogs thereof.
Specific examples of antineoplastic agents which can be used in combination with the antibodies provided herein include, for example, chemotherapeutic agents such as Paclitaxel, Anthracyclines, Fluoropirimidine, vinca alkaloids, platinum salts, in particular capecitabine, daunorubicin, daunomycin, dactinomycin, doxorubicin, epirubicin, idarubicin, esorubicin, bleomycin, mafosfamide, ifosfamide, cytosine arabinoside, bis-chloroethylnitrosurea, busulfan, mitomycin C, actinomycin
D, mithramycin, prednisone, hydroxyprogesterone, testosterone, tamoxifen, dacarbazine, procarbazine, hexamethylmelamine, pentamethylmelamine, mitoxantrone, amsacrine, chlorambucil, methylcyclohexylnitrosurea, melphalan, cyclophosphamide, 6-mercaptopurine, 6-thioguanine, cytarabine (CA), 5-azacytidine, hydroxyurea, deoxycoformycin, 4-hydroxyperoxycyclophosphoramide, 5-fluorouracil (5-FU), 5-fluorodeoxyuridine (5-FUdR), methotrexate (MTX), colchicine, taxol, vincristine, vinblastine, etoposide, trimetrexate, teniposide, cisplatin and diethylstilbestrol (DES).
According to an especially preferred embodiment, the further active agent is an inhibitor or LGALS3BP, e.g. an anti-LGALS3BP antibody or functional fragment thereof. This combination is particularly effective for inhibiting tumor angiogenesis.
The compositions of the invention may be administered in combination with a further therapeutic composition comprising an active agent as described above and/or irradiation and/or radiotherapy.
According to a preferred embodiment, the compositions of the invention are for the use in treating and/or preventing neoplastic diseases or cancer. The compositions may also be used for the manufacture of a medicament for treating and/or preventing neoplastic diseases or cancer.
The neoplastic diseases is preferably selected from disorders associated with, accompanied by Endosialin expression in tumor stroma and vasculature, or in cancer cells itself, in particular sarcoma (synovial sarcoma, fibrosarcoma, MFH, liposarcoma, osteosarcoma), neuroblastoma, high-grade glioma, brain tumors, carcinoma (bladder cancer, breast cancer, colorectal cancer, renal cancer, gastric cancer, endometrial cancer, lung cancer, ovarian cancer) and for all tumors expressing Endosialin in tumor vasculature and stroma and/or in tumor cells.
The invention further relates to a method of treating a disease wherein the antibody of the invention is administered to a mammal and wherein said disease is correlated directly or indirectly with an expression of Endosialin in tumor stroma or vasculature and/or tumor cell.

BRIEF DESCRIPTION OF THE DRAWINGS

FIG. 1 shows: (A) protein sequence of the target protein. (B) sequence of the different peptides use for immunization of the mice.

FIG. 2 shows that mMP-E-8.3, cMP-E-8.3 and the selected humanized antibody hMP-E-8.3 recognize human recombinant Endosialin by ELISA (2A) and flow cytometer (2B); and for mMP-E-8-3, also by laser scanning confocal microscopy (2C).

FIG. 3 shows that mMP-E-8.3 internalizes in Sjsa-1 Endosialin positive cells by flow cytometer (3A) and by laser scanning confocal microscopy (3B).

15

FIG. 4 shows that mMP-E-8.3 inhibits the phosphorylation of MAPK Erk1/2 in PDGF stimulated human pericytes.

FIG. 5 shows that Endosialin status (positive versus negative) identifies patients with shorter DFS (A) and OS rate (B). The prognostic role of Endosialin status on survival (DFS and OS) was also examined in the context of LGALS3BP status (high versus low) (C,D).

FIG. 6 shows that cMP-E-8.3 inhibits LGALS3BP-induced tube formation by pericytes on matrigel.

FIG. 7 shows that cMP-E-8.3 restrains growth of the human osteosarcoma Sjsa-1 xenograft in nude mice. Also, the figure shows that the inhibitory effect of cMP-E-8.3 is potentiated by 1959, a humanized antibody against the tumor secreted protein, LGALS3BP.

FIG. 8 shows hMP-E-8.3 humanized sequences.

FIG. 9 shows hMP-E-8.3/ADC characterization

FIG. 10 shows hMP-E-8.3/ADC internalization in Sjsa-1 Endosialin positive cells by flow cytometer (2A) and by laser scanning confocal microscopy (2B).

FIG. 11 shows the correlation of hMP-E-8.3/ADC in vitro antitumor activity and Endosialin surface expression

FIG. 12 shows hMP-E-8.3/ADC in vitro antitumor activity is lost/reduced in SjSa cells knocked down for Endosialin surface expression by

CRISPR/Cas9 technology.

FIG. 13 shows hMP-E-8.3/ADC in vivo antitumor activity in SjSA-1 cells.

FIG. 14 shows that hMP-E-8.3/ADC in vivo antitumor activity is superior to the naked antibody in SjSA-1 cells.

EXAMPLES

Example 1: Production of the Monoclonal Antibody mMP-E-8.3

Four-weeks old Balb/c mice were immunized by intraperitoneal injection as emulsions in Complete Freund's Adjuvant (CFA) or Incomplete Freund's Adjuvant (IFA). Seven days later, mice were given an additional intraperitoneal injection of the immunogen. After additional seven days, mice were boosted intravenously with the immunogen, and spleens were removed for cell fusion 3 days later. Somatic cell hybrids were prepared by fusion of immune splenocytes with the murine non-secreting myeloma cell line NS-1. Hybridoma supernatants were selected with Elisa assay towards the respective peptide. All positive hybridoma cell colonies were cloned twice by limiting dilution and further characterized.
In FIG. 1A shows the sequence of the target protein; in FIG. 1B, a list of the peptides used for immunization (sequence of peptide of mMP-E-8.3 highlighted). All positive hybridoma supernatants were checked in ELISA for antigen affinity, and mMP-E-8.3 was selected as the antibody that recognised the antigen with higher affinity.

Example 2: mMP-E-8.3, cMP-E-8.3 and hMP-E-8.3 are Able to Recognize Endosialin by ELISA; mMP-E-8.3 by Flow Cytometer and Confocal Microscopy

Materials and Methods: (FIG. 2). (A) Ninety-six well plates (NUNC Maxisorp modules) were pre-coated with human recombinant Endosialin (1 pg/ml) overnight at 4° C. After blocking with 1% BSA in PBS+0.1% Tween-20 for 1 hour at 4° C., mMP-E-8.3, cMP-E-8.3, hMP-E-8.3 and a commercial antibody against Endosialin at the indicated concentration were added and incubated for 2 hours at room temperature. After several washes with PBS+0.1% Tween-20, a goat anti-mouse or anti-human IgG-HRP solution was added to each well and incubated for 1 hour at 37° C. After washes, stabilized chromogen was added to each well for at least 10 minutes in the dark, then the reaction was stopped with the addition of 1 N H₂SO4 and the absorbance was read at 450 nm with an ELISA reader. (B) Sjsa-1 human osteosarcoma cell line were stained with 1 μg/ml of mMP-E-8.3 antibody, or cMP-E-8.3 and hMP-E-8.3 at 100 ng/ml (blue line) and 1 ug/ml (green line) or with 1 μg/ml of a commercial antibody against Endosialin on ice for 30 minutes after incubation with a Goat anti-mouse/anti-human Alexa-488 conjugated antibodies for 1 hour on ice, cells were analyzed by flow cytometer (FACS). (C) Sjsa-1 human osteosarcoma cells were grown on glass coverslips for 24 hours. Cells were then fixed in 4% paraformaldehyde for 15 minutes at room temperature, permeabilized with 0.25% Triton X-100 for 5 minutes, and blocked with 0.1% BSA for 1 hour at room temperature. Coverslips were incubated for 2 hours at room temperature with mMP-E-8.3 or a commercial antibody, followed by goat anti-mouse secondary antibody Alexa Fluor 488 conjugated. DRAQ5 was used to visualize nuclei. Images were acquired with a Zeiss LSM 510 meta-confocal microscope using 488and 633-nm lasers. The yellow arrows indicate that mMP-E-8.3 recognize Endosialin present on the cell plasma membrane.
Results: mMP-E-8.3, cMP-E-8.3 and the selected humanized variant hMP-E-8.3 recognize Endosialin by ELISA and flow-cytometer; murine, antibody was able to recognize human Endosialin expressed by Sjsa-1 cells by laser scanning confocal microscopy (FIG. 2C)

Example 3:mMP-E-8.3 Internalization in Sisa-1 Human Osteosarcoma Cell Line

Materials and Methods: (FIG. 3). Sjsa-1 cells were plated in 12 well-plates and grown in 10% FBS RPMI-1640 for 24 hours. Cells were then incubated with 10 μg/ml of mMP-E-8.3, for 30 minutes on ice and returned at 37° C. for 6 hours. (A) After 6 hours, cells were stained with a goat anti-mouse Alexa 488-conjugated secondary antibody and analysed by FACS. (B) After 6 hours, cells were fixed in 4% paraformaldehyde, permeabilized with 0.2% Triton-X100 in PBS and then stained with a fluorescein-labeled goat anti-mouse/anti-human antibody (green staining). Cell nuclei were counterstained in blue. The yellow and the white arrows indicate antibody localization at the cell membrane and the cytoplasm, respectively.
Results: (A) Sjsa-1 cells show goat anti mouse membrane positivity after 30 minutes of mMP-E-8.3 incubation on ice indicating that the antibody is completely localized on the plasma membrane. After 6 hours at 37° C., the goat anti-mouse signals is reduced by 60% indicating that mMP-E-8.3 has been internalized by cells. (B) Sjsa-1 cells show goat anti-mouse membrane positivity (yellow arrows) after 30 minutes of mMP-E-8.3 incubation on ice indicating that the antibody is completely localized on the plasma membrane. After 6 hours at 37° C., the goat anti mouse signals present inside the cells, in particular in the peri-nuclear region (white arrows).

Example 4: mMP-E-8.3 Blocked PDGF Signaling in Human Pericytes

Materials and methods: (FIG. 4). T/G HA-VSMC, a human vascular smooth muscular cell line were seeded for 24 hours in 12 well-plates, then were serum starved for 2 hours in pericyte's culture medium lacking serum and growth factors. Cells were then incubated with 10 μg/ml of mMP-E-8.3 antibody or a negative control antibody for 2 hours and then stimulated for 15 minutes with PDGF-BB (100 ng/mL). Cells were lysed directly with RIPA buffer and 30 pg of total lysates were subjected to western blot analysis to detect Endosialin, the phosphorylated form of Akt and MAPK. Actin was using as a loading control.
Results: Cells pre-treated with mMP-E-8.3 exhibit an inhibition of MAPK phosphorylation induced by PDGF treatment (FIG. 4)

Example 5: Production of Chimerized and Humanized Versions of the mMP-E-8.3 Antibody

Methods for humanizing non-human antibodies are well known in the art. Preferably, a humanized antibody has one or more amino acid residues introduced into it from a source which is non-human. These non-human amino acid residues are often referred to as “import” residues, which are typically taken from an “import” variable domain. Humanization can be essentially performed following the method of Winter and co-workers^29-32, by substituting rodent CDRs or CDR sequences for the corresponding sequences of a human antibody. Accordingly, such “humanized” antibodies are chimeric antibodies (U.S. Pat. No. 4,816,567), wherein substantially less than an intact human variable domain has been substituted by the corresponding sequence from a non-human species. In practice, humanized antibodies are typically human antibodies in which some CDR residues and possibly some framework region (FR) residues are substituted by residues from analogous sites in rodent antibodies.
To produce the chimerized version of mMP-E-8.3 antibody (called cMP-E-8.3), hybridoma cells producing the mMP-E-8.3 were expanded, total RNA extracted and RT-PCR performed to clone and sequence the variable regions of the antibody using conventional procedures (e.g., by using oligonucleotide probes that are capable of binding specifically to genes encoding the heavy and light chains of murine antibodies).
For antibody chimerization, the murine constant regions were replaced with the human constant regions. It is a G1m17 IgG1 allotype with a human km3 kappa LC.
For antibody humanization, Complementarity Determining Regions (CDRs) from the murine were grafted in to a human antibody framework. Four humanized version of the heavy chain (HC) and light chain (LC) were designed and combined, obtaining the following antibody variants:
8.3-LIBR-H1L1 (No. E02999)
8.3-LIBR-H1L2 (No. E03000)
8.3-LIBR-H1L3 (No. E03001)
8.3-LIBR-H1L4 (No. E03002)
8.3-LIBR-H2L1 (No. E03003)
8.3-LIBR-H2L2 (No. E03004)
8.3-LIBR-H2L3 (No. E03005)
8.3-LIBR-H2L4 (No. E03006)
8.3-LIBR-H3L1 (No. E03007)
8.3-LIBR-H3L2 (No. E03008)
8.3-LIBR-H3L3 (No. E03009)
8.3-LIBR-H3L4 (No. E03010)
8.3-LIBR-H4L1 (No. E03011)
8.3-LIBR-H4L2 (No. E03012)
8.3-LIBR-H4L3 (No. E03013)
8.3-LIBR-H4L4 (No. [03014)
8.3-LIBR-H1L2 (No. E03000) was chosen as the best candidate based on affinity, antibody titer and stability.

Example 6. Prognostic Value of Endosialin in Human Colorectal Cancer

Materials and methods: Endosialin expression was analyzed in human primary colorectal cancer, diagnosed without lymph-node or distant metastases, from 175 patients by immunohistochemistry on Tissue Micro Arrays (TMAs). Results were correlated with patients outcome. One hundred forty-two (81.1%) patients had colon cancer and 33 (18.9%) had rectal cancer. One hundred twelve patients were males (64.0%) and 63 patients were females (36.0%). The median age of the patients at the time of diagnosis was 70 years (range 36-90). The median follow-up time was 54.0 months (range 3-238). Five-micron TMA sections were prepared for immunohistochemical staining. Staining was made by using anti-endosialin (TEM1) rabbit polyclonal antibody (Novus Biological) and anti-LGALS3BP mouse monoclonal antibody 1A422. Antigen retrieval was performed by microwave treatments at 750 W (10 min) in citrate buffer (pH 6.0). The anti-rabbit or anti-mouse EnVision kit (Dako) was used for signal amplification. To exclude unspecific staining, non-immune serum was included. The relationship between Endosialin expression and clinicopathologic characteristics of the patients was assessed by χ2 test. Survival analysis was done by the Kaplan-Meier method and the groups were compared with the log-rank test. Statistical procedures were done using SPSS version 15.0 (SPSS Inc.). P<0.05 was considered as statistically significant.
Results: Thirty-seven out of 175 (21.1%) cases expressed Endosialin in the cytoplasm of tumor cells which also coexisted with a specific positive staining of stromal cells in 11 out of 37 (29.7%) positive cases. The proportion of Endosialin positive tumor cells was in the range of 4 to 100%, with a mean±SE of 45.4±5.3. All these cases were considered Endosialin positive. Statistical analysis revealed no relationship between Endosialin protein expression and any of the clinicopathological parameters evaluated. A disease relapse was observed in 37.8% (14/37) of patients with Endosialin positive, and in 21.0% (29/138) of those with Endosialin negative tumors. Death occurred in 29.7% and 13.9% of patients with positive and negative Endosialin tumors, respectively. At Kaplan-Meier analyses, expression of Endosialin was significantly associated with a lower OS (P=0.037) (FIG. 5A) and DFS (P=0.038) (FIG. 5B).
As LGALS3BP is an Endosialin binding partner⁶and the inventors developed a humanized monoclonal antibody against LGALS3BP (Use of anti-90k monoclonal antibodies for the prevention and treatment of tumors and metastases thereof WO 2010097825 Al), the prognostic role of Endosialin expression on survival (DFS and OS) was also examined in the context of LGALS3BP status. LGALS3BP was found to be a negative prognostic factor in the majority of human cancers, except in colon carcinoma where LGALS3BP lower expression in CRC tissues was found as a marker of poor prognosis.
Endosialin positivity identified patients with lower OS and DFS rate (FIGS. 5C and D) in LGALS3BP low expression cases (P=0.015 and P=0.040, respectively). Conversely, LGALS3BP high expression identified patients at significantly lower probability of relapse and death in Endosialin negative cases.

Example 7: Effect of cMP-E-8.3 on Tube Formation on Matrigel

Materials and methods: (FIG. 6). T/G HA-VSMC human vascular smooth muscular cells were seeded at a density of 5×10⁴cells/well in F12K serum free medium. Cells were maintained in F12K serum free medium containing 10 μg/ml recombinant LGALS3BP in the absence or presence of cMP-E-8.3 at the concentrations of 20 or 40 μg/ml. PDGF (100 ng/ml) was used as a positive control. (A) Representative phase-contrast photographs of capillary-like tube formation by T/G HA-VSMC on Cultrex (Matrigel)-coated chamber slides. (B) Histograms show quantitative determination of tube formation by counting number of branch points in 4 different fields. Data are represented as mean±SEM of three independent experiments. *p<0.05.
Results: The chimeric antibody cMP-E-8.3 is able to inhibit pericyte's tube formation on matrigel induced by LGALS3BP in a dose dependent manner.

Example 8: Effect of cMP-E-8.3 on Osteosarcoma Cancer Xenografts

Materials and Methods: (FIG. 7) Human osteosarcoma cancer xenografts were established by injecting subcutaneously 5×10⁶Sjsa-1 cells in 5-week old CD1 female nude mice. Three days after cell injection, mice randomly divided into four groups of 10 animals. One group received intraperitoneal injection twice per week of 15 mg/kg of 1959 (a humanized antibody against LGALS3BP) in PBS buffer, or cMP-E-8.3 antibody at 15 mg/kg or a combination of both antibodies, each at 15 mg/kg. One group received PBS only (control group). Tumor volume was monitored two times a week by a caliper.
Results: cMP-E-8.3 treated mice show up to 40% reduction of tumor volume compared to the control mice, while the group receiving 1959 and cMP-E-8.3 show up to 70% reduction of tumor volume. *p≤0.05; **p≤0.01.

Example 9: Production and Characterization of hMP-E-8.3/ADC

ADC preparation: The hMP-E-8.3/ADC was generated by partially reducing the hMP-E-8.3 antibody and conjugating the drug, a potent Minor Grove Alkylating Agent derivative of duocarmycin bearing an enzymatically cleavable linker (valine-citrulline) to the available reduced inter-chain cysteine residues. The produced hMP-E-8.3/ADC was characterized by SDS-PAGE under reducing and non reducing conditions. Three pg of naked mAb or ADC both for reducing (R) and non reducing (NR) were loaded (FIG. 9A). Size Exclusion Chromatography (SEC) was performed to determine the aggregation state. Signal was detected at two different wavelengths 220 (Blue) and 320 nm (Red) to monitor antibody and drug, respectively (FIG. 9B). Hydrophobic interaction chromatography (HIC) was performed to evaluate the presence of differently loaded isoforms in native conditions; PLRP LC/MS in reducing conditions was performed to determine the Drug Antibody Ratio (DAR). Results:No antibody degradation or aggregation was detected in the tested preparation (FIGS. 9A and B). The calculated DAR was 3.6 (FIG. 9C).

Example 10: hMP-E-8.3/ADC is Internalized by SjSA-1 Cells

Materials and Methods: (FIG. 10) Sjsa-1 cells were plated in 12 well-plates and grown in 10% FBS RPMI-1640 for 24 hours. Cells were then incubated with 10 μg/ml of hMP-E-8.3/ADC, for 30 minutes on ice and returned at 37° C. for 6 hours. (A) After 2 hours, cells were stained with a goat anti-human Alexa 488-conjugated secondary antibody and analysed by FACS. (B) After 2 hours, cells were fixed in 4% paraformaldehyde, permeabilized with 0.2% Triton-X100 in PBS and then stained with a fluorescein-labeled goat anti-human antibody (green staining). Cell cytoplasm was counterstained in red using Alexa Fluor phalloidin. The white arrows indicate antibody localization in the cytoplasm in cells returned at 37° C.
Results: (A) Sjsa-1 cells show goat anti human membrane positivity after 30 minutes of mMP-E-8.3 incubation on ice indicating that the antibody is completely localized on the plasma membrane. After 2 hours at 37° C., the goat anti-human signals is reduced by 80% indicating that hMP-E-8.3 has been internalized by cells. (B) Sjsa-1 cells show goat anti-human membrane positivity after 30 minutes of hMP-E-8.3 incubation on ice indicating that the antibody is completely localized on the plasma membrane. After 2 hours at 37° C., the goat anti human signals present inside the cells, in particular in the peri-nuclear region (white arrows).

Example 11: hMP-E-8.3/ADC in vitro antitumor activity correlates with Endosialin Surface Expression Level

Materials and Methods: Human Osteosarcoma Cancer (SjSa-1), Ewing's sarcoma (A673), neuroblastoma (SKNAS) and melanoma (A375) cells were plated in 24 wells (1×10³per well) and growth in media supplemented with 10% serum in the presence or not of increasing amount of hMP-E-8.3/ADC (0.03 to 1.6 μg/ml). After 144 hrs from the beginning of treatment cells were harvested and processed for MTT staining. Results are shown as % of control (PBS treated cells). Results: hMP-E-8.3/ADC shows a strong and dose-dependent ability to inhibit cell growth. Moreover, this in vitro antitumor activity of hMP-E-8.3/ADC correlates with the amount of Endosialin receptor expression on cell surface (FIG. 11).

Example 12: hMP-E-8.3/DC54 Activity is Nearly Lost in Endosialin Knocked Down SjSa-1 Cells

Materials and Methods: TEM-1 expression was ablated in SJSA-1 cells by means of CRISPR-Cas9 system of genome editing, in accordance with the protocol developed by Zhang and co-workers³³. After transient transfection Endosialin not-expressing cells were sorted by FACS and single cell clones isolated and propagated. Using FACS and WB clones were analyzed for Endosilain expression. Clone #3 resulted with a complete knock down for Endosialin expression. Gene destruction of both alleles was confirmed by genomic DNA sequencing.
Results: loss of Endosialin expression on surface of SjSa-1 cells dramatically reduced hMP-E-8.3/ADC killing activity, indicating that ADC efficacy is target-dependent (FIG. 12) 30

Example 13: hMP-E-8.3/ADC Shows a Potent and Durable Antitumor Activity in Human Osteosarcoma Cancer (SjSa-1) Xenograft

Materials and Methods: Human osteosarcoma cancer xenografts were established by injecting subcutaneously 2.5×10⁶Sjsa-1 cells in 5-week old CD1 female nude mice. Once tumor become palpable (Tumor Volume range 100 mm³), mice were randomly divided into two groups of 6 animals. One group received intravenous injection once/weekly for two weeks of 10 mg/kg of hMP-E-8.3/ADC in PBS buffer, whereas the control group received PBS only. Tumor volume was monitored every week by a caliper. For Kaplan Meier survival curve the cut-off value for this study was volume of 1500 mm³.
Results: hMP-E-8.3/ADC treated mice show a significant and durable reduction of tumor growth. Moreover, two complete remission were observed in treated mice up to 100 days form starting of treatment. Kaplan Mayer survival curve demonstrate a significant increase of survival in hMP-E-8.3/ADC treated mice (Log-rank (Mantel-Cox) Test p=0.02) (FIG. 12). Of note, hMP-E-8.3/ADC at the dosage used in this study resulted well tolerated by the animals, as no toxicity was observed in terms of weight loss.

Example 14: hMP-E-8.3/ADC Shows Superior Antitumor Activity Over the Naked Antibody in Human Osteosarcoma Cancer (SjSa-1) Xenograft

Materials and Methods: Human osteosarcoma cancer xenografts were established by injecting subcutaneously 2.5×10⁶Sjsa-1 cells in 5-week old CD1 female nude mice. Once tumor become palpable (Tumor Volume range 100 mm³), mice were randomly divided into three groups of 6 animals. One group received intravenous injection twice/weekly for two weeks of 10 mg/kg of hMP-E-8.3/ADC or naked hMP-E-8.3 antibody in PBS buffer, whereas the control group received PBS only. Tumor volume was monitored every week by a caliper. For Kaplan Meier survival curve the cut-off value for this study was volume of 1500 mm³.
Results: The naked antibody slightly reduced tumor growth, although the reduction in tumor size was not statistically significant. On the other hand, a significant and durable tumor growth inhibition was observed in mice treated with the ADC, demonstrating that the cytotoxic compound confers a far superior antitumor activity to the hMP-8.3 mAb (FIG. 13). Kaplan Mayer survival curve demonstrate a significant increase of survival in hMP-E-8.3/ADC treated mice (Log-rank (Mantel-Cox) Test p=0.002). Of note, hMP-E-8.3/ADC at the dosage used in this study resulted well tolerated by the animals, as no toxicity was observed in terms of weight loss.

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Claims

1. An antibody or functional fragment thereof, which is directed against an epitope between amino acids 477-488 of human Endosialin according to SEQ ID No: 1.

2. The antibody of claim 1 which comprises

(i) a heavy chain comprising:

a heavy chain complementarity determining region 1 (CDRH1) having the amino acid sequence as shown in SEQ ID No: 2 or a sequence differing in 1 or 2 amino acids therefrom,

a heavy chain complementarity determining region 2 (CDRH2) having the amino acid sequence as shown in SEQ ID No: 3 or a sequence differing in 1 or 2 amino acids therefrom, and/or

a heavy chain complementarity determining region 3 (CDRH3) having the amino acid sequence as shown in SEQ ID No: 4 or a sequence differing in 1 or 2 amino acids therefrom, and/or

(ii) a light chain comprising:

a light chain complementarity determining region 1 (CDRL1) having the amino acid sequence as shown in SEQ ID No: 5 or a sequence differing in 1 or 2 amino acids therefrom,

a light chain complementarity determining region 2 (CDRL2) having the amino acid sequence as shown in SEQ ID No: 6 or a sequence differing in 1 or 2 amino acids therefrom, and/or

a light chain complementarity determining region 3 (CDRL3) having the amino acid sequence as shown in SEQ ID No: 7 or a sequence differing in 1 or 2 amino acids therefrom,

or an antibody recognizing the same epitope on human FGRF4.

3. The antibody of claim 1 or 2 which comprises

(i) a heavy chain comprising a CDRH1 as shown in SEQ ID NO: 2, a CDRH2 as shown in SEQ ID NO: 3 and a CDRH3 as shown in SEQ ID NO: 4, and

(ii) a light chain comprising a CDRL1 as shown in SEQ ID NO: 5, a CDRL2 as shown in SEQ ID NO: 6 and a CDRL3 as shown in SEQ ID NO: 7.

4. The antibody of any one of the previous claims comprising:

a heavy chain variable region comprising an amino acid sequence as shown in SEQ ID No: 8, or an amino acid sequence having a sequence identity of at least 90% thereto, and/or

a light chain variable region comprising an amino acid sequence as shown in SEQ ID No: 9, or an amino acid sequence having a sequence identity of at least 90% thereto.

5. The antibody of any one of the previous claims, which is a Fab fragment, a Fab′ fragment, a F(ab′) fragment, a Fv-fragment, a diabody, ScFv, SMIP, single chain antibody, affibody, avimer, nanobody and/or a domain antibody.

6. The antibody of any one of the previous claims, which is of the IgG1-, IgG2-, IgG3-or IgG4-type or an IgM, IgA1, IgA2, IgAsec, IgD or IgE-type antibody.

7. The antibody of any one of the previous claims, which is a monoclonal antibody, in particular a murine antibody, a humanized antibody, a chimeric antibody, a multispecific antibody, in particular a bispecific antibody, or a fragment thereof.

8. The antibody of any of the previous claims comprising a heavy chain variable region comprising an amino acid sequence as shown in SEQ ID NO: 18, SEQ ID NO: 19, SEQ ID NO: 20 or SEQ ID NO: 21 or an amino acid sequence having a identity of at least 90% thereto, and/or

a light light chain variable region comprising an amino acid sequence as shown in SEQ ID NO: 22, SEQ ID NO: 23, SEQ ID NO: 24 or SEQ ID NO: 25 or an amino acid sequence having a sequence identity of at least 90% thereto.

9. The antibody of any one of the previous claims, wherein a labeling group and/or to an effector group, preferably a therapeutic group is coupled to the antibody.

10. The antibody of claim 9, wherein the antibody is linked to a paramagnetic, radioactive or fluorogenic ion that is detectable upon imaging.

11. The antibody according to claim 9, wherein the antibody is linked to an anticellular agent, in particular an anti-mitotic or DNA damaging agent capable of killing or suppressing growth or cell division of endothelial cells.

12. The antibody of claim 11, wherein the anticellular agent comprises a chemotherapeutic agent, radioisotope or cytotoxin.

13. The antibody of claim 12, wherein the anticellular agent comprises an antimetabolite, an anthracycline, a vinca alkaloid, an antibiotic, an alkylating agent or a plant-, fungus- or bacteria-derived toxin.

14. The antibody of claim 12, wherein the anticellular agent comprises a DNA damaging agent, in particular a Minor Grove Binder duocarmycin derivative.

15. The antibody of claim 12, wherein the cytotoxin comprises an A chain toxin, a ribosome inactivating protein, a-sarcin, aspergillin, restrictocin, a ribonuclease, diphtheria toxin or Pseudomonas exotoxin.

16. The antibody of claim 12, wherein the cytotoxin comprises deglycosylated ricin A chain.

17. The antibody of any one of claims 1-16, wherein the antibody recognizes human Endosialin that is expressed on the cell surfaces of tumor vascular cells to a greater degree than on the surfaces of normal endothelial cells.

18. The antibody of any one of claims 1-17, wherein the antibody is a bispecific antibody that recognizes the human tumor-associated antigen LGALS3BP (aka Mac-2 BP or 90K).

19. An isolated nucleic acid molecule selected from the group consisting of:

(a) a nucleic acid sequence encoding an antibody, antibody fragment or a derivative thereof of any of claims 1-18, preferably a nucleic acid sequence as shown in any one of SEQ ID NO: 14 to SEQ ID NO. 25

(b) a nucleic acid sequence complementary to any of the sequences in (a), and

(c) a nucleic acid sequence capable of hybridizing to (a) or (b) under stringent conditions.

20. A vector comprising the nucleic acid sequence of claim 19, preferably an expression vector, wherein the nucleic acid sequence is operably linked to a control sequence.

21. A host comprising the nucleic acid of claim 19 or the vector of claim 20, which is preferably a human, bacteria, animal, fungal, amphibian or plant cell, or a non-human transgenic animal.

22. A process of manufacturing a monoclonal antibody according to anyone of claims 1-18 comprising the step of obtaining said antibody from the host of claim 21.

23. A pharmaceutical composition comprising an antibody of anyone of claims 1-18, a nucleic acid molecule of claim 19, a vector of claim 20, a host of claim 21, or an antibody generated by the process of claim 22, optionally in combination with a pharmaceutically acceptable carrier, diluent, and/or excipient.

24. The pharmaceutical composition according to claim 23, comprising a further active agent, such as a further antibody or antibody fragment, in particular an anti-neoplastic agent, preferably selected from the group consisting of antibodies, small molecules, antimetabolites, alkylating agents, topoisomerase inhibitors, microtubule-targeting agents, kinase inhibitors, protein synthesis inhibitors, immuno-therapeutics, hormones or analogs thereof.

25. A compound selected from the antibody according to any one of claims 1-18, the nucleic acid molecule of claim 19, the vector of claim 20, the host of claim 21 and the pharmaceutical composition according to claim 24, for use in the prevention or treatment of a neoplastic disease or cancer.

26. The compound for the use of claim 25, wherein the disease is neuroblastoma, sarcoma (synovial sarcoma, fibrosarcoma, MFH, liposarcom, osteosarcoma), high-grade glioma, brain tumor, carcinoma (bladder, breast, colon, renal, gastric cancer, endometrial cancer, lung cancer, ovarian cancer) and/or a tumor expressing Endosialin in tumor vasculature and stroma and/or in tumor cells.

27. The compound for the use of claim 25 or 26, which is to be administered intravenously, intramuscularly, and/or subcutaneously.

28. The compound for the use of any one of claims 25-27, for administration in combination with a further therapeutic composition and/or irradiation.