VIRAL VECTOR FOR THE TARGETED TRANSFER OF GENES IN THE BRAIN AND SPINAL CORD
20170029464 · 2017-02-02
Inventors
Cpc classification
A61P25/14
HUMAN NECESSITIES
C12N7/00
CHEMISTRY; METALLURGY
C12N2750/14143
CHEMISTRY; METALLURGY
C12N2750/14122
CHEMISTRY; METALLURGY
A61K48/00
HUMAN NECESSITIES
A61P43/00
HUMAN NECESSITIES
A61P25/28
HUMAN NECESSITIES
C12N2710/14144
CHEMISTRY; METALLURGY
C12N2750/14133
CHEMISTRY; METALLURGY
C12N15/86
CHEMISTRY; METALLURGY
International classification
C12N7/00
CHEMISTRY; METALLURGY
Abstract
The invention relates to novel peptides, polypeptides or proteins which bind specifically to brain cells and/or to the spinal cord. The peptides, polypeptides, or proteins can be components of a viral capsid and can be used to lead a recombinant viral vector selectively to the brain and/or spinal cord after systemic administration to a subject and to ensure tissue-specific expression of one or more transgenes there. The invention also relates to a recombinant viral vector, preferably an AAV vector, which comprises a capsid containing at least one of the claimed peptides, polypeptides, or proteins and which comprises at least one transgene packaged in the capsid. Said viral vector can be used, in particular for the therapeutic treatment of a disease or disorder of the brain and/or spinal cord. The invention further relates to cells and pharmaceutical compositions that comprise the viral vector according to the invention.
Claims
1. A peptide, polypeptide, or protein that specifically binds to cells of the brain and/or spinal cord, characterized in that it comprises the following: (a) the amino acid sequence of SEQ ID NO: 1, (b) an amino acid sequence which differs from the amino acid sequence of SEQ ID NO:1 by modification of one amino acid, or (c) the amino acid sequence of SEQ ID NO:6.
2. (canceled)
3. A peptide, polypeptide, or protein according to claim 12 that specifically binds to cells of the brain and/or spinal cord, characterized in that it comprises one of the amino acid sequences of SEQ ID NO:2-5.
4. The protein according to claim 1, which is a capsid protein of a viral vector, preferably a capsid protein of an adeno-associated virus (AAV).
5. The protein according to claim 4, which is a capsid protein of an AAV of a serotype selected from the group consisting of serotypes 2, 4, 6, 8, and 9.
6. The protein according to claim 5, which is a capsid protein of an AAV of serotype 2.
7. The protein according to claim 6, which is a VP1 protein of an AAV of serotype 2.
8. The protein according to claim 4, wherein the peptide is present in the region of amino acids 550-600 of the capsid.
9. The protein according to claim 1, comprising the following: (a) the amino acid sequence of SEQ ID NO:10; (b) an amino acid sequence having at least 80% identity to the amino acid sequence of SEQ ID NO:10 that comprises the sequence of SEQ ID NO:1 or an amino acid sequence which differs from the amino acid sequence of SEQ ID NO:1 by modification of one amino acid; or (c) a fragment of one of the amino acid sequences defined in (a) or (b).
10. A viral capsid which comprises a peptide, polypeptide, or protein according to claim 1.
11. A nucleic acid which encodes a peptide, polypeptide, or protein that specifically binds to cells of the brain and/or spinal cord, characterized in that it comprises the following: (a) the amino acid sequence of SEQ ID NO:1, (b) an amino acid sequence which differs from the amino acid sequence of SEQ ID NO:1 by modification of one amino acid, or (c) the amino acid sequence of SEQ ID NO:6.
12. A plasmid which comprises a nucleic acid according to claim 11.
13. A recombinant viral vector which comprises a capsid and a transgene packaged therein, wherein the capsid comprises at least one capsid protein comprising a peptide, polypeptide, or protein that specifically binds to cells of the brain and/or spinal cord, characterized in that it comprises the following: (a) the amino acid sequence of SEQ ID NO:1, (b) an amino acid sequence which differs from the amino acid sequence of SEQ ID NO:1 by modification of one amino acid, or (c) the amino acid sequence of SEQ ID NO:6
14. The recombinant viral vector according to claim 13, which is a recombinant AAV vector.
15. The recombinant AAV vector according to claim 14, which is an AAV vector of a serotype selected from the group consisting of serotypes 2, 4, 6, 8, and 9.
16. The recombinant AAV vector according to claim 15, which is an AAV vector of serotype 2.
17. The recombinant AAV vector according to claim 13, wherein the transgene encodes one of the following proteins: a membrane or tight junction protein, such as a claudin or occludin, a neuraminidase such as neuraminidase 1, glucuronidase, a chemokine antagonist, such as CCL2-7ND, neurotrophic factor of glia cells (GDNF), neprilysine, cholesterol 24 hydroxylase, aromatic L-amino acid decarboxylase, the tyrosine hydroxylase, GTP cyclohydrolase I and survival of motor neuron (SMN) protein.
18. The recombinant AAV vector according to claim 17, wherein the transgene encodes a neuraminidase.
19. The recombinant AAV vector according to claim 13, wherein the transgene is in the form of an ssDNA or a dsDNA.
20. A method of treatment of a functional disorder or a disease of the brain and/or spinal cord in a subject, comprising administering a recombinant AAV vector according to claim 13 to the subject.
21. The method according to claim 20, wherein the disease of the brain and/or spinal cord is selected from the group consisting of genetically caused leukodystrophies, such as adrenoleukodystrophy, Cananvan disease, Krabbe disease, metachromatic leukodystrophy, Pelizaeus-Merzbacher disease and Alexander disease; neurodegenerative diseases, such as amyotrophic lateral sclerosis, Alzheimer's disease, Parkinson's disease, Huntington's disease and Pick's disease; chronic-inflammatory diseases of the central nervous system such as Multiple Sclerosis and Guillain-Barr syndrome; and lysosomal storage diseases, such as ceroid lipofuscinosis and Fabry disease.
22. The method according to claim 20, wherein the subject is a mammal, preferably a human.
23. The method according to claim 20, wherein the vector is formulated for intravenous administration.
24. A cell which comprises a peptide, polypeptide, or protein according to claim 1.
25. A pharmaceutical composition which comprises a peptide, polypeptide, or protein according to claim 1.
26. A method for the treatment of a functional disorder or a disease of the brain and/or spinal cord in a subject, comprising administering a peptide, polypeptide, or protein according to claim 1 to the subject.
27. The method according to claim 26, wherein the disease of the brain and/or spinal cord is selected from the group consisting of genetically caused leukodystrophies, such as adrenoleukodystrophy, Cananvan disease, Krabbe disease, metachromatic leukodystrophy, Pelizaeus-Merzbacher disease and Alexander disease; neurodegenerative diseases, such as amyotrophic lateral sclerosis, Alzheimer's disease, Parkinson's disease, Huntington's disease and Pick's disease; chronic-inflammatory diseases of the central nervous system such as Multiple Sclerosis and Guillain-Barr syndrome; and lysosomal storage diseases, such as ceroid lipofuscinosis and Fabry disease.
Description
BRIEF DESCRIPTION OF THE FIGURES
[0067]
[0068] 1.: Randomized AAV peptide library with approx. 110.sup.8 different capsid variants;
[0069] 2.: Withdrawal of the target organ, 8 days after injection;
[0070] 3.: DNA isolation and amplification of viral DNA fragments via real time PCR;
[0071] 4.: Cloning into peptide library plasmids for sequencing and production of a secondary peptide library;
[0072] 5.: Co-transfection of HEK293T cells; Production. of a secondary peptide library;
[0073] 6.: secondary AAV peptide library for further rounds of selection; contains pre-selected capsid variants;
[0074] 7.: intravenous injection of the peptide library into the mouse.
[0075]
[0076]
[0077]
[0078]
EXAMPLES
[0079] All data was determined as mean values + standard deviation (SD). The statistical analysis was performed using the
[0080] GraphPad Prism 3.0 program (GraphPad Software, San Diego, USA). Data was analyzed by one-way ANOVA followed by multiple comparison tests as per Bonferroni. P values>0.05 were considered significant.
Example 1: Selection of 2AV2 Peptide Libraries
[0081] For the selection of tissue-specific AAV2 capsids, a random peptie Library was prepared and selected in five rounds. A random X.sub.7-AAV peptide library with a theoretical diversity of 110.sup.8 individually occurring clones was prepared using a two-stage protocol as previously described. [26-27]. A. degenerate oligonucleotide was first produced which codes for seven randomized amino acids at nucleotide position 3967 in the AAV genome, which corresponds to the amino acid position R588 in VP1. The oligonucleotide had the sequence: 5-CAGTCGGCCAGAGAGGC(NNK).sub.7GCCCAGGCGGCTGACGAG-3 (SEQ ID NO: 12) The second strand was produced using a Sequenase (Amersham, Freiburg, Germany) and the primer with the sequence 5-CTCGTCAGCCGCCTGG-3 (SEQ ID NO:13). The double-stranded insert was cut with BglI, purified with the QiAquick Nucleotide Removal Kit (Qiagen, Hilden, Germany) and ligated into library plasmid pMT187-0-3 that had been digested with SfiI [26]. The diversity of the plasmid library was determined by the number of clones grown from a representative aliquot of transformed, electrocompetent DHY5 bacteria on agar containing 150 mg/ml ampicillin. Library plasmids were harvested and purified by using the Plasmid Preparation Kit from Qiagen. The AAV library genomes were packaged into chimeric wild-type and library AAV capsids (AAV transfer shuttle) by transfecting 210.sup.8 2931 cells in 10 cell culture dishes (15 cm) with the plasmid pVP3cm (containing the wild-type cap genes with modified codon usage without the inverted terminal repeats) [27], the library plasmids and the pXX6 helper plasmid [28], wherein the ratio between the plasmids was 1:1:2. The resulting AAV library transfer shuttles were used to infect 210.sup.8 2931 cells in cell culture dishes (15 cm) with an MOI of 0.5 replication units per cell. Cells were superinfected with Ad5 (provided by the Laboratoire de Therapie Genique, France), with an MOT of 5 plaque-forming units (pfu/cell). The final AAV display library was harvested from the supernatants after 48 hours. The supernatants were concentrated using VivaSpin columns (Viva Science, Hannover, Germany) and purified by iodixanol density gradient ultracentrfugaton as previously described [29], and titrated by real-time PCR using the cap-specific primers 5-GCAGTATGGITCTGTATCTACCAACC-3 (SEQ ID NO:14) and 5-GCCTGGAAGAACGCCTTGTGTG-3 (SEQ ID NO: 15) with the LightCycler system (Roche Diagnostics, Mannheim, Germany).
[0082] For the in vivo selection 110.sup.11 particles of the qenomic library were injected into the tail vein of FVB/N mice. The particles were given 8 days for the distribution and the infection of the target cells. After 8 days, the mice were killed and the brains were removed. The total DNA of the tissue was extracted using the DNeasy Tissue Kit (Qiagen). The random oligonucleotides that were included in AAV particles of the library and had accumulated in the tissue of interest were amplified by nested PCP using the primers ATGGCAAGCCACAAGGACGATG-3 (SEQ ID NO:16) and CGTGGAGTACTGIGTGATGAAG-3 (SEQ ID NO:17) for the first PCR and the primers 5-GGTTCTCATCTTTGGGAAGCAAG-3 (SEQ ID NO:18) and 5-TGATGAGAATCTGTGGAGGAG-3 (SEQ ID NO:19) for the second PCR. The PCR-amplified oligonucleotides were used to prepare secondary libraries for three additional rounds of selection. The secondary libraries were generated like the primary libraries (see above), but without the additional step of producing transfer shuttles. The secondary plasmid library was used to transfect 210.sup.8 2931 cells in cell culture dishes (15 cm) at a ratio of 25 library plasmids per cell, wherein the transfection reagent Polyfect (Qiagen) was used. After each round of selection, several clones were sequenced. The applied selection method is shown in
[0083] Results: After five rounds of selection, several brain-binding capsids were selected. Capsids comprising the peptide sequences NRGTEWD (SEQ ID NO: 1) were found to bind particularly strong to cells of the brain and spinal cord (see below). A further group of peptides, which also showed specificity for the brain and spinal cord comprised the peptide ADGVQWT (SEQ ID NO:2), DDGVSWK (SEQ ID NO:3), SDGLTWS (SEQ ID NO:4) and SDGLAWV (SEQ ID NO:5). These peptides comprised the general motif XDGXXWX (SEQ ID NO: 6) The peptides obtained in the various rounds of selection are shown in
Example 2: Preparation and Quantification of Recombinant AAV Vectors in HEK293T Cells
[0084] The clones enriched. in Example 1 were produced as recombinant AAV vectors and tested for their transduction profile. Recombinant AAV vectors were produced by triple transfection of HEK293T cells. The cells were incubated at 37 C., 5% CO.sub.2 in Dulbecco's modified Eagle Medium (invitrogen, Carlsbad, USA), supplemented with 1% penicillin/streptomycin and 10% fetal calf serum. Plasmid DNA was transfected. into 293T cells with the transfection agent Polyfect (Qiagen, Hilden, Germany). Four days after transfection, the cells were harvested and lysed, and the vectors were purified by means of iodixanol density gradient ultracentrifugation as previously described [29]. For the transfections, pXX6 was used as adenoviral helper plasmid. [28], which encodes the luciferase gene pUF2-CMV-luc [27] or the GOP gene pTR-CMV-GFP [30], as was a plasmid encoding the AAV capsid of interest. The plasmids encoding the AAV capsid mutants which had been previously selected from the AAV library, and wild-type controls, were modified pXX2-187 or pXX2 [28]. The inserts were processed as described into library inserts (see above). To quantify the recombinant vectors, the genomic titer was determined by the LightCycler system, as previously described. [32], by real-time PCR using the CMV-specific primers 5-GGCGGAGTTGTTACGACAT-3 (SEQ ID NO: 20) and 5-GGGACTTTCCCTACTTGGCA-3 (SEQ ID NO: 21)
[0085] Results: it was found that the yield with respect to virus titer for recombinant viruses with luciferase reporter gene was comparable to that of vectors which comprised a wild type AAV2 capsid which indicates that the accumulated peptides do not affect the assembly of the capsid or the packaging of the gene.
Example 3: Examination of the Tropism of the Recombinant AAV Vectors in Vivo
[0086] To be able to examine the tropism of the enriched peptides in vivo, the peptides were introduced into the capsid of a recombinant vector comprising a luciferase reporter gene. Vectors with mutated capsids were injected into mice along with control vectors. The AAV vectors were administered intravenously at a dose of 510.sup.10 vector genomes (vg)/mouse (n=3 animals per injected AAV clone). On day 14, the animals were anesthetized with isoflurane. The luciferase expression was analyzed using a Xenogen IVIS200 Imaging System (Caliper Lifescience, Hopkinton, USA) with the Living Image 4.0 (Caliper) software, following intraperitoneal injection of 200 l of luciferin substrate (150 mg/kg, Xenogen) per mouse. Representative, in vivo bioluminescence images of the expression of the transgene at different positions (ventral, dorsal, lateral) were taken when the luminescence in relative light units (photons/sec/cm.sup.2) reached the highest intensity.
[0087] Then the animals were sacrificed, the organs of interest were removed quickly, and images of the expression of the transgene in individual organs were immediately taken. The organs were then frozen in liquid nitrogen and stored at 80 C. To quantify the luciferase expression, the organs were homogenized in reporter lysis buffer (RIB, Promega, Madison, USA). The determination of the luciferase reporter gene activity was carried out in a luminometer (Mithras LB9 40, Berthold Technologies, Bad Wildbad, Germany) at 10-second intervals after the addition of 100 L luciferase assay reagent (LAR, Promega), with a 2-second delay between each of the measurements. The values were normalized in each sample with respect to the total amount of protein using the Roti NanoQuant protein assay (Roth, Karlsruhe, Germany).
[0088] Results: The in vivo measurement of bioluminescence after 14 days showed that the peptide NRGTEWD led to an expression of the transgene in the brain (10.sup.4 p/sec/cm.sup.2/r). These results were confirmed by the control experiments carried out ex vivo with explanted organs. A randomly selected control clone of the non-selected library (CVGSPCG) led to a weak gene expression that occurred primarily in the heart and in some parts of the abdomen, but not in the brain (not shown). Wild-type AAV2 caused a weak gene expression in the heart, liver and skeletal muscle, but not in the brain (
[0089] The examination of the luciferase activity of tissue lysates from representative organs revealed that the vectors which comprised the brain-specific NRGTEWD capsid led to a strong and specific gene expression in the brain (1.110.sup.7 RLU/mg protein, see
[0090] The results further showed that the brain-specific expression of the transgene mediated by the NRGTEWD vector remained organ-specific over a long period. After intravenous administration of the AAV2 NRGTEWD luciferase vectors, the expression of the transgene was measured over a period of 168 days. The radiation emitted in the brain region was determined quantitatively. Over the entire period of time, the expression of the transgene was stable at a high level, and was limited to the brain (
Example 4: Analysis of the Vector Distribution
[0091] In order to check whether the brain-specific expression of the transgene of intravenously injected NRGTEWD vectors is based on a specific homing, first the distribution of vectors was investigated 14 days after intravenous administration of 510.sup.10 gp/mouse. The quantification of the vector genomes was performed by real-time PCR. First, the total DNA was extracted from the organ concerned at various time points after intravenous administration of 510.sup.10 vg/mouse using a tissue homogenizer (Precellys 24, Peqlab, Erlangen, Germany) and the DNeasy Tissue Kit ((Diagen, Hilden, Germany) according to the manufacturer's instructions. The DNA was quantified using a spectrophotometer (NanoDrop ND-2000C, Peqlab). The analysis of the AAV vector DNA in the tissues was performed by quantitative real-time PCR using the above-described CMV-specific primer, wherein 40 ng of template were used, normalized with respect to the total DNA.
[0092] Results: The quantification of the vector genomes by real-time PCR showed a brain-specific homing of NRGTEWD. The amount of vector genomes which could be detected in the brain (1.610.sup.47.110.sup.3 vg/100 ng total DNA) was significantly higher than the amount of vector genomes which was detected in another organ (
Example 5: Immunohistochemistry and Histology
[0093] Immunohistochemistry was used to visualize the expression of the transgene at the cellular level in the brain, as well as in a control organ, 14 days after the intravenous administration of the rAAV-GFP vector having the peptide NRGTEWD and/or the wild-type AAV capsid as control. The brains of the animals were fixed. with 4% (w/v) paraformaldehyde. The tissues were embedded in paraffin. Sections with a thickness of 2 m were removed from wax, rehydrated and used for immunohistochemistry. An immunohistochemical procedure was performed using polyclonal antibodies for GFP (A-11122, invitrogen) or CD31 (AB28364, Abcam, Cambridge, USA). The activity of the endogenous peroxidase was inactivated with 1% H.sub.2O.sub.2 in methanol for 30 minutes. Prior to staining with CD31, the sections were heated in citrate buffer (pH 6.0) for 20 minutes at 100 C.. After washing in PBS, the sections were incubated for 30 minutes with PBS, 10% goat serum (Vector Lab, Burlingame, USA) and 2% milk powder (Roth). Primary antiboddes were allowed to bind for 1 hour at 37 C. After washing in. PBS, the sections were incubated for 30 minutes with a secondary, biotinylated goat anti-rabbit antibody (Vector Lab). Bound antibodies were visualized by using the VECTASTAIN-Elite ABC kit (Vector Lab) and 3,3-diaminobenzidene (DAB, Sigma-Aldrich, St. Louis, USA). Selected sections were counterstained with Hemalum.
[0094] Results: In the brains of mice injected with rAAV-NRGTEWD, a microscopic examination showed intensive staining of the endothelial cells over the entire microvasculature and to a slightly lesser extent in the large vessels (data not shown). In contrast, brain tissue of mice which was injected with. wild-type AAV2 vector showed no staining. To confirm the tissue specificity, the liver was analyzed as a control organ (a tissue which is known to frequently demonstrate high expression of a transgene after injection of wild-type AAV2 vector). In the liver, hepatocyte staining was observed after administration of wild-type rAAV2 vector; but no staining was observed after administration of rAAV2-NRGTEWD vector. The endothelial lineage of cells transduced with the vectors was confirmed by CD31 staining, wherein the pattern obtained by the GFP staining was confirmed in serial sections of the brains of mice injected with rAAV2-NRGTEWD (data not shown).
[0095] The examination of the spinal cord of mice which have been injected with rAAV-NRGTEWD also revealed an intensive staining of the endothelial cells of the microvasculature which shows that not only the endothelial cells of the brain but rather the endothelial cells of the complete central nervous system are transducable with the peptides of the invention (data not shown).
Example 6: Production and Quantification of Recombinant AAV Vectors Using the Baculovirus Expression System in Sf9 Insect cells.
[0096] For the production of recombinant AAV vectors in Sf9 insect cells [33-35] the modified AAV2 genome having the oligonucleotide insert in the cap gene which encodes the peptide insertion (see above) was cloned into the donor plasmid pFASTBAC Dual (Life Technologies, Darmstadt, Germany). In addition, an artificial intron was inserted into the donor plasmid which included the polh promoter, thereby giving plasmid pFBD-Rep.sub.in/Cap.sub.in [35]. For establishing the donor plasmid pFB-CAG-eGFP, the CAG promoter and the eGFP gene were cloned together with the SV40 polyadenylation signal and the AAV2 ITRs into plasmid pFASTBAC1 (Life Technologies). The donor plasmids were used for transforming DH10Bac E. coli cells which were subsequently used for isolating recombinant bacmids that comprised the recombinant AAV genome or the eGFP transgene cassette, respectively. The bacmids (9 g) were used for transfection of 110.sup.6 Sf9 cells using the Fectofly-Transfektionreagenz (Poly-plus Transfection/VWR International GmbH, Darmstadt, Germany) in a 6-well format. After 3 days of incubation of the transfected Sf9 insect cells at 27 C. in insect X-Press Medium (Lonza, Cologne, Germany) with 1% Gentamycin (Lonza), 500 l of the recombinant baculoviruses present in cell culture supernatants were used for the amplification of 2.510.sup.7 fresh Sf9 cells in T175 cell culture flasks for additional 3 days at 27 C. in Insect X-Press Medium (Lonza) with 1% Gentamycin. The baculoviruses amplified in this way were used for infecting fresh Sf9 cells for producing recombinant AAV vectors. For this purpose, recombinant baculovirus with inserted AAV genome and recombinant baculovirus with inserted eGFP transgene cassette were mixed and used together in 400 ml Insect X-Press Medium with 1% Gentamycin in a 1 L Erlenmeyer flask for infecting 610.sup.8 insect cells. The cells were subsequently incubated at 27 C. under agitation (110 rpm). 4 days after infection, the cells were harvested, lysed, and the AAV vectors were purified via iodixanol gradient ultra centrifugation as described before [29]. For quantification of the recombinant vectors, the genomic titer was determined by quantitative real time PCR using the CMV specific primer of SEQ ID NO:20 and SEQ ID NO:21 in the LightCycler system as described before [32].
[0097] Results: By using the baculovirus expression system, higher titers of recombinant AAV vectors were achieved in Sf9 insect cells compared to the production in HEK293T cells after triple transfection. While the yield of virus production in HEK293T cells had a maximum of 1.910.sup.4 genomic particles per cell, a yield of up to 7.910.sup.4 genomic particles per cell were observed in Sf9 insect cells. It could further be observed that rAAV2-NRGTEWD vectors produced in Sf9 insect cells had a higher affinity for neurons than comparable recombinant vectors, which have been produced in HEK2931 cells (data not shown). Thus, the choice of the specific production process for the recombinant vectors provides the possibility of increasing the specificity of the vectors for the neuron or endothelial cells, respectively.
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