Fibronectin-binding peptides for use in tumor or fibrosis diagnosis and therapy
11649268 · 2023-05-16
Assignee
Inventors
- Mamta Chabria (Zurich, CH)
- Alessandra Moscaroli (Zurich, CH)
- Simon Arnoldini (Zurich, CH)
- Samuel Hertig (San Francisco, CA, US)
- Viola Vogel (Baden, CH)
- Martin Behe (Gelterkinden, CH)
- Roger Schibli (Baden, CH)
Cpc classification
A61P29/00
HUMAN NECESSITIES
A61K47/64
HUMAN NECESSITIES
A61P9/10
HUMAN NECESSITIES
A61K49/221
HUMAN NECESSITIES
A61P43/00
HUMAN NECESSITIES
A61K47/549
HUMAN NECESSITIES
A61P37/06
HUMAN NECESSITIES
A61K51/0497
HUMAN NECESSITIES
A61P1/16
HUMAN NECESSITIES
A61P35/00
HUMAN NECESSITIES
International classification
A61K47/64
HUMAN NECESSITIES
A61K49/22
HUMAN NECESSITIES
Abstract
The present invention is directed to a composition comprising at least one fibronectin binding polypeptide (FnBP) linked to at least one diagnostic or therapeutic agent, a nucleic acid encoding a fusion polypeptide comprising at least one fibronectin binding polypeptide (FnBP) linked to at least one diagnostic or therapeutic polypeptide agent as well as a corresponding recombinant vector and host cell comprising such a nucleic acid and preferably expressing said fusion polypeptide. The invention also relates to a kit of parts comprising at least one fibronectin binding polypeptide (FnBP), at least one diagnostic or therapeutic agent, and optionally one or more chemical agents for linking the fibronectin binding polypeptide (FnBP) to the diagnostic or therapeutic agent. In addition, the present invention intends said composition, nucleic acid, vector, host cell and kit for use in the therapeutic or prophylactic treatment of a disease, preferably a disease associated with abnormal fibronectin accumulation such as cancer, fibrosis or immune diseases.
Claims
1. A composition comprising at least one fibronectin binding polypeptide (FnBP) linked to at least one diagnostic or therapeutic agent, wherein the at least one FnBP is a polypeptide consisting of SEQ ID NO: 295.
2. The composition according to claim 1, wherein the FnBP binds specifically to at least one of fibronectin subunits FnI.sub.1-6, FnII.sub.1-2, FnI.sub.7-9 or FnIII.sub.7-15.
3. The composition according to claim 1, wherein the diagnostic agent is at least one of a radionuclide, magnetic resonance imaging (MRI) active compound, ultrasound contrast agent, fluorophore, positron emission tomography (PET) marker, single-photon emission computed tomography (SPECT) marker, fluorophore in the far red/near-infrared (IR) spectral region, Gd-based particle based MRI contrast agent, or Fe-oxide particle based MRI contrast agent.
4. The composition according to claim 1, wherein the therapeutic agent is at least one of a cytostatic agent, cytotoxic agent, cytokine, transcription factor inhibitor, proteasome inhibitor, protease inhibitor, apoptosis modulator, cell cycle modulator, angiogenesis inhibitor, hormone, hormone derivative, photodynamic therapy molecule, nanoparticles for thermoablation therapy, microparticles for thermoablation therapy, radionuclide, miRNA, siRNA, immunomodulatory antigen molecule, Doxorubicin, Paclitaxel, Chlorambucil, Topotecan, Vincristine, Interleukin-2, Interleukin-7, Interferon-γ, tumor necrosis factor, Curcumin, Ribavirin, Genistein, Imatinib, Erlotinib, Bryostatin, Flavopiridol, Roscovitine, Endostatin, Celexocib, ADH-1 (exherin), Sunitinib, Flutamide, Fosfestrol, Tamoxifen, Relaxin, .sup.64Cu, .sup.90Y, .sup.111In, .sup.131I, .sup.161Tb, .sup.169Er, .sup.177Lu, miRNAs specific for CD40, miRNA specific for CD80, miRNA specific for CD86, siRNAs specific for CD40, siRNA specific for CD80, siRNA specific for CD86, insulin-associated antigens, P31, whole gliadin, myelin oligodendrocyte glycoprotein, amino acids 35-55 of myelin oligodendrocyte glycoprotein (SEQ ID NO.: 297), proteolipid protein 1, amino acids 139-151 of proteolipid protein 1 (SEQ ID NO.: 298), amino acids 178-191 of proteolipid protein 1 (SEQ ID NO.: 299), Factor V, amino acids 75-89 of Factor V (SEQ ID NO.: 300), amino acids 1723-1737 of Factor V (SEQ ID NO.: 301, or amino acids 2191-2210 of Factor V (SEQ ID NO.: 302).
5. The composition according to claim 1, wherein the therapeutic agent is at least one of an antifibrotic agent, integrin inhibitor, bone morphogenic protein 7 (BMP-7), relaxin and relaxin-like peptides, lysyl oxidase (LOX) inhibitor beta-aminoproprionitrile (BAPN), or Interleukin-7 (IL-7).
6. The composition according to claim 1, wherein the therapeutic agent is at least one of an immune modulating agent, Interleukin 12, inhibitors that target the EGFR signalling cascade, myelin oligodendrocyte glycoprotein peptide sequence 35-55, a miRNA, an siRNA, PSA-TRICOM, Ipilimumab, anti-CTLA-4 antibody, anti-PD1 antibody, anti-PD-L1 antibody, or HDAC inhibitor.
7. A kit comprising the composition of claim 1.
8. The kit of claim 7, wherein the composition further comprises one or more chemical agents for linking the FnBP to the diagnostic or therapeutic agent.
9. A method for treating a subject suffering from a disease associated with pathological fibronectin accumulation, the method comprising: (a) providing the composition of claim 1, wherein the FnBP is linked to at least one therapeutic agent, and (b) administering the composition to the subject in need thereof, wherein the composition is effective for treating the disease associated with pathological fibronectin accumulation, wherein the disease is selected from the group consisting of fibrosis and cancer associated with pathological fibronectin accumulation.
10. A method for diagnosing a disease associated with pathological fibronectin accumulation in a subject, the method comprising: (a) providing the composition of claim 1, wherein the FnBP is linked to at least one diagnostic agent, (b) administering the composition to the subject in need thereof, and (c) identifying pathological fibronectin accumulation by detecting accumulation of the FnBP in said subject.
11. The method according to claim 9, wherein the disease is selected from the group consisting of pulmonary fibrosis, liver fibrosis, kidney fibrosis, breast cancer, and prostate cancer.
12. The method according to claim 10, wherein the disease is selected from the group consisting of fibrosis and cancer associated with pathological fibronectin accumulation.
13. The composition according to claim 5, wherein the relaxin peptide is selected from relaxin-1 and relaxin-2.
14. The composition according to claim 6, wherein the miRNA is selected from a miRNA specific for CD40, miRNA specific for CD80, and miRNA specific for CD86.
15. The composition according to claim 6, wherein the siRNA is selected from an siRNA specific for CD40, siRNA specific for CD80, and siRNA specific for CD86.
16. The method according to claim 12, wherein the disease is selected from the group consisting of pulmonary fibrosis, liver fibrosis, kidney fibrosis, breast cancer and prostate cancer.
Description
BRIEF DESCRIPTION OF THE DRAWINGS
(1)
(2)
(3)
(4)
(5)
(6)
(7)
(8)
DETAILED DESCRIPTION OF THE INVENTION
Examples
Example 1: General Material and Methods
(9) Fn Isolation and Labelling
(10) Fn was isolated from human plasma (Zürcher Blutspendedienst SRK Switzerland) using gelatin sepharose chromatography, as previously described (E. Engvall and E. Ruoslahti, “Binding of soluble form of fibroblast surface protein, fibronectin, to collagen,” Int. J. Cancer, vol. 20, no. 1, pp. 1-5, July 1977). Plasma was thawed and passed through a PD-10 column (GE Healthcare, Little Chalfont, UK) to remove aggregates. Effluent was collected and run through a gelatin sepharose column. After washing the column Fn was eluted from the gelatin column with a 6 M urea solution. Unlabelled Fn was then rebuffered to PBS before usage. For single labelling Fn was denatured in a 4 M guanidinium hydrochloride (GdnHCI, Applichem, Darmstadt, Germany) solution to open up cryptic cysteines at FnIII7 and FnIII15. Fn was incubated with an excess of Cy5 maleimide dye (GE Healthcare, Little Chalfont, UK) and separated from the dye using a PD-10 column.
(11) Synthesis and Labelling of FnBPA5 and Derivatives
(12) Peptides were commercially synthesized (Pichem, Graz, Austria) with a spacer of three glycines and a cysteine residue at the N-terminus of the original peptide sequence from S. aureus for further labelling with a radioligand or fluorophore. FnBPA5 was labelled using a fluorophore attached to a maleimide residue or conjugated with a maleimide NODAGA complexing unit for further radiolabeling with .sup.111In. Peptides were HPLC purified after conjugation to remove remaining free binding residues. A negative control of FnBPA5 with scrambled sequence was designed to investigate whether FnBPA5 binding to Fn is sequence specific. All peptide sequences are shown in
(13) In Vitro Fn Fiber Assay
(14) Manually pulled Fn fibers were used as a model system for fibrillar Fn as described previously (W. C. Little, M. L. Smith, U. Ebneter, and V. Vogel, “Assay to mechanically tune and optically probe fibrillar fibronectin conformations from fully relaxed to breakage,” Matrix Biology, vol. 27, no. 5, pp. 451-461, June 2008). Fibers containing 5% of photolabeled Fn-Cy5 were deposited onto a stretchable silicone sheet, relaxed to half of their original length, corresponding to a total 7% molecular strain and after a blocking step with 4% bovine serum albumin in PBS, they were incubated with different concentrations of Alexa488 fluorescently labeled FnBPA5 to obtain a binding curve.
(15) Confocal Microscopy
(16) Manually pulled Fn fiber samples were imaged with an Olympus FV1000 confocal microscope using a 40× water immersion objective with a numerical aperture of 0.9. Alexa488-FnBPA5 and Fn-Cy5 channels were imaged with a 512×512 pixel resolution and photomultiplier tube voltage and laser powers were kept constant within an experiment.
(17) Fibroblast ECM samples (
(18) Image Analysis
(19) Images were analyzed using Fiji-ImageJ and Matlab (MathWorks, Natick, Mass., USA). For the Fn fiber affinity study the pixelwise ratio of FnBPA5-Alexa488 signal intensity divided by Fn-Cy5 intensity was calculated for each fiber using a custom made Matlab script. Dark current values were subtracted from images and pixels with intensities below a cutoff threshold and at saturation were excluded from analysis. Approximately 10 fibers were imaged per experimental condition and each of these conditions was done in triplicate. Binding ratio of 10 μM FnBPA5-Alexa488 concentration was set to 1 and all other points were normalized to this reference point. Data points were fit using the Hill model assuming non-cooperative binding (using the below equation) and plot using Origin.
(20)
(21) Radiolabelling of FnBPA5-NODAGA and Scrambled FnBPA5-NODAGA
(22) The fibronectin binding peptide (FnBPA5) and its scrambled derivative (scraFnBPA5) were purchased from Peptide Specialty Laboratories GmbH (Heidelberg, Germany) conjugated with a malemide NODAGA. The compounds were dissolved in TraceSELECT® Water (Sigma Aldrich) to a final concentration of 0.25 mM. For the labelling, 14 nmol of each peptide were radiolabelled in 0.5 M ammonium acetate pH 5.5 by adding 80 MBq .sup.111InCl.sub.3 (Mallincrodt, Wollerau, Switzerland) followed by a 30 minute incubation step at 50° C. Quality control was performed by radio-HPLC (Varian Prostar, Santa Clara, USA); column Dr. Maisch Reprospher (Ammerbuch, Germany) 300 C18-TN, 4.6 cm×150 mm; 5 m with acetonitrile/water gradient starting with 15% acetonitrile up to 95% over 15 minutes with a flow rate of 1 mL/min.
(23) Tumor Model
(24) PC-3 cells (human prostate carcinoma cell line, ACC-465, DSMZ, Braunschweig, Germany) were cultured in Roswell Park Memorial Institute 1640 medium (Amimed, Bioconcept, Switzerland). Cells were cultured as monolayers at 37° C. in a humidified atmosphere containing 5% CO.sub.2.
(25) In vivo experiments were approved by the local veterinarian department and conducted in accordance with the Swiss law for animal protection. The 3-5 weeks-old female CD1 nude mice were purchased from Charles River (Germany). After 5-7 days acclimatisation period, the tumor cells were subcutaneously inoculated in both shoulders of the mice (3*106-1*107 cells in 100-150 μL PBS per side). Experiments were performed 3-4 weeks after inoculation.
(26) Statistical Analysis
(27) Statistical analysis was performed using two-tailed type 3 t-test (Microsoft Excel). Statistical significance was assumed for p-values smaller than 0.05.
Example 2: Manually Pulled Fn Fiber System to Assess Binding Specificity and Binding Affinity of FnBPA5 or Other FnBPs
(28) To assess binding constant of Alexa488-FnBPA5 and of its scrambled analogue to Fn fibers a fiber stretch assay as described above and before (Little et al., Matrix Biology, vol. 27, no. 5, pp. 451-461, June 2008) was used. Fn fibers are manually pulled from a Fn solution containing 5% fluorophore labeled Fn and deposited onto a silicone membrane. Silicone membranes can then be stretched or relaxed to desired mechanical strain state. Confocal microscopy images of manually pulled Fn fibers exposed to FnBPA5 peptide in solution are shown in
(29) To measure a quantitative binding curve Fn fibers of equal mechanical strain were incubated with different concentrations of FnBPA5-Alexa488. Peptide fluorescence intensity normalized against the Cy5-intensity from the Fn-fibers for different peptide concentrations was assessed. Intensity ratio of 10 μM FnBPA5-488 was defined as saturated and all other intensity ratios were normalized with this factor. In
(30) To assess whether the presence of the chelator for the radiolabeled .sup.111In-isotope impairs FnBPA5 binding to manually pulled Fn fibers, a displacement assay was performed using .sup.natIn-FnBPA5 (cold labeled) against FnBPA5-Alexa488. Extrapolated IC.sub.50 value for .sup.natIn-FnBPA5 of 49 nM (
Example 3: Assessment of Binding of FnBPA5 or Other FnBPs to Fibrillar Fn in Cell Culture Matrices
(31) To ensure that such tight binding can be observed also in native extracellular matrix, Fn-rich ECM assembled by fibroblasts for 2 days was incubated for 1 hour with native or scrambled FnBPA5 prior to fixation and showed specific binding of FnBPA5 to fibrillar Fn, but not of the scrambled derivative (
Example 4: Plasma Stability of FnBPA5
(32) To assess in vitro plasma stability 12 MBq .sup.111In-[FnBPA5-NODAGA] and .sup.111In-[scraFnBPA5-NODAGA] were incubated with 400 μL human blood plasma at 37° C. At different time points (0, 0.25, 0.5, 1, 2, 48 and 72 hours) 40 μL of plasma was taken out and precipitated by the addition of 200 μL EtOH, acetonitrile, 0.1% TFA. After filtrating the sample (MiniPrep, Qiagen, Valencia, Calif., USA) the supernatant was analysed by radio-HPLC (Varian Prostar, USA); column D-Bio Discovery C18, 25×4.6; 5 m with acetonitrile/water gradient starting with 5% acetonitrile up to 95% over 30 minutes with a flow rate of 1 mL/min. .sup.111In-FnBPA5 peptide was still intact after 72 hours (
Example 5: Fluorescence Polarization Experiments
(33) The binding affinities of Fn to FnBPA5 were determined in three independent measurements by anisotropy titrations in a Cary Eclipse Fluorescence Spectrophotometer (Agilent Technologies) equipped with automated polarizers. FnBPA5 and its scrambled derivative were synthesized with an N-terminal Alexa-488 dye. The anisotropy of 100 nM Alexa-488 labelled peptide was measured in PBS at Fn concentrations ranging from 0 to 1.4 μM. Excitation and emission were at λ.sub.ex 480 nm and λ.sub.em 520 nm respectively with both slit 10 nm, 20° C., 5 s signal acquisition and g=1.4. The K.sub.d values were determined by fitting the data to a one-site-binding model using Origin 7 (OriginLab Northampton, Mass., USA).
(34) With higher Fn concentration an increasing amount of peptide is bound to Fn leading to a shift in fluorescence anisotropy. Anisotropy values for each sample was plotted against the corresponding Fn concentration yielding to a binding curve from which a dissociation constant K.sub.d of 75 nM for Alexa 488-FnBPA5 was extrapolated. In contrast, the scrambled control did not show significant binding (
Example 6: Radiotracing of .SUP.111.In-FnBPA5 Injected into Living Mice
(35) SPECT/CT experiments were performed using a 4-head multiplexing multipinhole camera (NanoSPECT/CTplus, Bioscan Inc., Washington D.C., USA). CT scans were performed with a tube voltage of 45 kV and a tube current of 145 IA. SPECT scans at 24, 72 and 96 hours post injection were obtained with an acquisition time of 20-90 sec. per view resulting in a total scanning time of 20-45 min per mouse.
(36) The distribution of .sup.111In-radiolabeled FnBPA5 peptide injected into the tail vein of a living mouse was monitored by means of SPECT/CT for a period of 96 hours. Since Fn is upregulated in cancer stroma, PC-3-bearing CD1 nu/nu mice, a subcutaneous model for prostate carcinoma, were injected 33 days from the inoculation of the tumor cells, with 12 MBq .sup.111In-[FnBPA5-NODAGA] resp. .sup.111In-[scrambled FnBPA5-NODAGA] (2.4 nmol, 100 μL PBS) into the tail vein. The specific activity of both peptides was 6.2 MBq/nmol and the samples were scanned 96 hours post injection (p.i. and post mortem) with an acquisition time of approximately 20 seconds (.sup.111In-[FnBPA5-NODAGA]) and 200 seconds (.sup.111In-[scraFnBPA5-NODAGA]) resulting in a total scanning time of 2.5 h for .sup.111In-[scraFnBPA5]. SPECT images were reconstructed using HiSPECT software (Scivis GmbH, Goettingen, Germany). The images were reconstituted and processed with InVivoScope® software (BioscanInc., Washington D.C., USA) and zoom in videos were generated using Adobe Flash.
(37) As typically observed also for other peptides 1111n-FnBPA5 (
Example 7: Pharmacokinetics of .SUP.111.In-FnBPA5 Injected into Living Mice Shows Prolonged Accumulation in Mouse Prostate Tumor Xenografts
(38) The tissue-specific peptide pharmacokinetics, particularly in cancer stroma, were assessed in groups of 4 PC-3-bearing mice that were injected with approximately 150 kBq .sup.111In-FnBPA5 respectively .sup.111In-scraFnBPA5 (2.4 nmol/100 L PBS) into the tail vein and biodistribution of peptides was analyzed at different time points (1, 4, 24 and 96 hours post injection (p.i. and after sacrification)) by means of percentage of injected activity per gram tissue (% IA/g). An equal accumulation of both peptides was observed in the kidneys (