WO2005025590A2 - Use of a dg280 protein product for preventing and treating metabolic disorders - Google Patents
Use of a dg280 protein product for preventing and treating metabolic disorders Download PDFInfo
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- WO2005025590A2 WO2005025590A2 PCT/EP2004/010271 EP2004010271W WO2005025590A2 WO 2005025590 A2 WO2005025590 A2 WO 2005025590A2 EP 2004010271 W EP2004010271 W EP 2004010271W WO 2005025590 A2 WO2005025590 A2 WO 2005025590A2
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- C12N15/00—Mutation or genetic engineering; DNA or RNA concerning genetic engineering, vectors, e.g. plasmids, or their isolation, preparation or purification; Use of hosts therefor
- C12N15/09—Recombinant DNA-technology
- C12N15/11—DNA or RNA fragments; Modified forms thereof; Non-coding nucleic acids having a biological activity
- C12N15/113—Non-coding nucleic acids modulating the expression of genes, e.g. antisense oligonucleotides; Antisense DNA or RNA; Triplex- forming oligonucleotides; Catalytic nucleic acids, e.g. ribozymes; Nucleic acids used in co-suppression or gene silencing
- C12N15/1138—Non-coding nucleic acids modulating the expression of genes, e.g. antisense oligonucleotides; Antisense DNA or RNA; Triplex- forming oligonucleotides; Catalytic nucleic acids, e.g. ribozymes; Nucleic acids used in co-suppression or gene silencing against receptors or cell surface proteins
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- A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
- A61P—SPECIFIC THERAPEUTIC ACTIVITY OF CHEMICAL COMPOUNDS OR MEDICINAL PREPARATIONS
- A61P3/00—Drugs for disorders of the metabolism
- A61P3/04—Anorexiants; Antiobesity agents
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- C07—ORGANIC CHEMISTRY
- C07K—PEPTIDES
- C07K14/00—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof
- C07K14/435—Peptides having more than 20 amino acids; Gastrins; Somatostatins; Melanotropins; Derivatives thereof from animals; from humans
- C07K14/705—Receptors; Cell surface antigens; Cell surface determinants
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- G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
- G01N33/00—Investigating or analysing materials by specific methods not covered by groups G01N1/00 - G01N31/00
- G01N33/48—Biological material, e.g. blood, urine; Haemocytometers
- G01N33/50—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing
- G01N33/74—Chemical analysis of biological material, e.g. blood, urine; Testing involving biospecific ligand binding methods; Immunological testing involving hormones or other non-cytokine intercellular protein regulatory factors such as growth factors, including receptors to hormones and growth factors
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- A—HUMAN NECESSITIES
- A61—MEDICAL OR VETERINARY SCIENCE; HYGIENE
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- G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
- G01N2333/00—Assays involving biological materials from specific organisms or of a specific nature
- G01N2333/435—Assays involving biological materials from specific organisms or of a specific nature from animals; from humans
- G01N2333/705—Assays involving receptors, cell surface antigens or cell surface determinants
- G01N2333/72—Assays involving receptors, cell surface antigens or cell surface determinants for hormones
- G01N2333/726—G protein coupled receptor, e.g. TSHR-thyrotropin-receptor, LH/hCG receptor, FSH
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- G—PHYSICS
- G01—MEASURING; TESTING
- G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
- G01N2500/00—Screening for compounds of potential therapeutic value
- G01N2500/04—Screening involving studying the effect of compounds C directly on molecule A (e.g. C are potential ligands for a receptor A, or potential substrates for an enzyme A)
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- G—PHYSICS
- G01—MEASURING; TESTING
- G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
- G01N2800/00—Detection or diagnosis of diseases
- G01N2800/04—Endocrine or metabolic disorders
- G01N2800/042—Disorders of carbohydrate metabolism, e.g. diabetes, glucose metabolism
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- G—PHYSICS
- G01—MEASURING; TESTING
- G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
- G01N2800/00—Detection or diagnosis of diseases
- G01N2800/04—Endocrine or metabolic disorders
- G01N2800/044—Hyperlipemia or hypolipemia, e.g. dyslipidaemia, obesity
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- G—PHYSICS
- G01—MEASURING; TESTING
- G01N—INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES
- G01N2800/00—Detection or diagnosis of diseases
- G01N2800/32—Cardiovascular disorders
- G01N2800/324—Coronary artery diseases, e.g. angina pectoris, myocardial infarction
Definitions
- This invention relates to the use of nucleic acid sequences encoding a G- protein coupled receptor (DG280) protein, to the use of polynucleotides encoding this, and to the use of modulators/effectors of the protein and polynucleotides in the diagnosis, study, prevention, and treatment of diseases and disorders related to body-weight regulation, for example, but not limited to, metabolic diseases or dysfunctions such as obesity, metabolic syndrome, diabetes mellitus, eating disorder, cachexia, pancreatitis, hypertension, coronary heart disease, hypercholesterolem ⁇ a, dyslipidemia, osteoarthritis, gallstones, or liver fibrosis.
- metabolic diseases or dysfunctions such as obesity, metabolic syndrome, diabetes mellitus, eating disorder, cachexia, pancreatitis, hypertension, coronary heart disease, hypercholesterolem ⁇ a, dyslipidemia, osteoarthritis, gallstones, or liver fibrosis.
- G protein-coupled receptors comprise a large and diverse family of molecules that play essential roles in signal transduction.
- GPCRs G protein-coupled receptors
- the receptors which are membrane-bound proteins, have potential as therapeutic or diagnostic agents.
- Obesity is defined as a body weight more than 20% in excess of the ideal body weight, frequently resulting in a significant impairment of health. Obesity may be measured by body mass index, an indicator of adiposity or fatness. Further parameters for defining obesity are waist circumferences, skinfold . thickness and bioimpedance. Obesity is associated with an increased risk for cardiovascular disease, hypertension, diabetes, hyperlipidaemia and an increased mortality rate. Besides severe risks of illness, individuals suffering from obesity are often isolated socially.
- Obesity is influenced by genetic, metabolic, biochemical, psychological, and behavioral factors, and can be caused by different reasons such as non-insulin dependent diabetes, increase in triglycerides, increase in carbohydrate bound energy and low energy expenditure. As such, it is a complex disorder that must be addressed on several fronts to achieve lasting positive clinical outcome. Since obesity is not to be considered as a single disorder but as a heterogeneous group of conditions with (potential) multiple causes, it is also characterized by elevated fasting plasma insulin and an exaggerated insulin response to oral glucose intake (Koltermann O.G., (1980) J. Clin. Invest 65: 1272-1284). A clear involvement of obesity in type 2 diabetes mellitus can be confirmed (Kopelman P.G., (2000) Nature 404: 635-643).
- the technical problem underl/ing the present invention was to provide for means and methods for modulating/effecting (pathological) metabolic conditions influencing body-weight regulation and/or energy homeostatic circuits.
- the solution to said technical problem is achieved by providing the embodiments characterized in the claims.
- the present invention relates to novel functions of proteins and nucleic acids encoding these in body-weight regulation, energy homeostasis, metabolism, and obesity.
- the proteins discloses herein and polynucleotides encoding these are thus suitable to investigate metabolic diseases and disorders.
- Further new compositions are provided that are useful in diagnosis, treatment, and prognosis of metabolic diseases and disorders as described.
- the present invention discloses that the DG280 protein (herein referred to as “protein of the invention”) is regulating the energy homeostasis and fat metabolism, and polynucleotides, which identify and encode the protein disclosed in this invention.
- the invention also relates to vectors, host cells, and recombinant methods for producing the polypeptides and polynucleotides of the invention.
- the invention also relates to the use of these compounds and effectors/modulators thereof, e.g.
- antibodies biologically active nucleic acids, such as antisense molecules, RNAi molecules or ribozymes, aptamers, peptides or low-molecular weight organic compounds recognizing said polynulceotides or polypeptides, in the diagnosis, study, prevention, and treatment of metabolic diseases or dysfunctions, including metabolic syndrome, obesity, and/or diabetes as well as related disorders such as eating disorder, cachexia, hypertension, coronary heart disease, hypercholesterolemia, dyslipidemia, osteoarthritis, gallstones, or liver fibrosis.
- metabolic diseases or dysfunctions including metabolic syndrome, obesity, and/or diabetes as well as related disorders such as eating disorder, cachexia, hypertension, coronary heart disease, hypercholesterolemia, dyslipidemia, osteoarthritis, gallstones, or liver fibrosis.
- DG280 (Frizzled 4) belongs to the frizzled/smoothened gene family of seven- pass transmembrane proteins, sharing significant structural homology with the superfamily of G-protein-coupled receptors. Frizzled proteins are highly conserved throughout the animal kingdom and are characterized in all major model organisms and in humans. Frizzled proteins constitute the receptors for the members of the Wnt-family of secreted signalling molecules (Bhanot et al., 1996, Nature 382: 225-30; for a review, see Strutt D., 2003, Development 130: 4501-13 and Bejsovec A., 2000, Curr. Biol.
- Frizzled receptors are able to elicit distinct intracellular signalling outcomes.
- three major pathways downstream of Frizzled recptors are postulated: 1) the Wnt beta-catenin pathway, also referred to as the canonical Wnt/Frizzled pathway, 2) the Wnt/JNK pathway, also referred to as the planar cell polarity (PCP) pathway, and 3) the Wnt/Ca2+ pathway (for a review, see Huelsken J. and Birchmeier W., 2001 , Curr. Opin. Genet. Dev. 11 :547-553 and Veeman M. et al., 2003, Dev. Cell 5: 357-77).
- Frizzled 4 signals via G proteins (K ⁇ hl M. et al., 2000, J. Biol. Chem. 275: 12701-11 and Robitaille J. et al., 2002, Nat Genet. 32: 326-330).
- Wnt/Frizzled signalling has also been implicated in the control of preadipocyte differentiation into mature adipopc/tes. It was demonstrated that Wnt/Frizzled signalling to beta-catenin potently inhibits adipogenesis in the murine 3T3-L1 model system (Ross S et al., 2000, Science 289: 950-3). It was suggested that Wnt10B is likely to mediate this inhibition by activating Frizzled 1 , 2, and/ 5, all of which are highly expressed in 3T3-L1 preadipocytes and become downregulated during adipocyte differentiation.
- Frizzled 4 is not expressed during adipogenic differentiation in 3T3-L1 cells, however it was noted that Frizzled 4 is expressed in mature murine adipocytes (Bennett C. et al., 2002, J. Biol. Chem. 277: 30998-31004 and Soukas et al., 2001 , J. Biol. Chem. 276: 34167-74).
- mice carrying a targeted deletion of the Frizzled 4 gene was described as progressive cerebellar, auditory, and esophageal dysfunction, mainly attributed to neuronal defects in the affected tissues (Wang Y. et al., 2001 , J Neurosci. 21 : 4761-4771 , see also JP2000093186). Further, a function for human Frizzled 4 in retinal angiogenesis was suggested (Robitaille J. et al., 2002, Nat Genet. 32: 326-330; see also WO03/004045).
- Frizzled 4 after ligand binding was shown to be dependent on the interaction with beta-arrestin 2 and the cytoplasmic signalling molecule Dishevelled 2 (Chen W. et al., 2003, Science 301 : 1391-4).
- DG280 protein or homologous proteins and nucleic acid molecules coding therefore are obtainable from vertebrate species, e.g. mammals or birds.
- Particularly preferred are nucleic acids, particularly nucleic acids encoding a human protein as described in Example 1.
- the invention particularly relates to a nucleic acid molecule encoding a polypeptide contributing to regulating the energy homeostasis, wherein said nucleic acid molecule comprises
- nucleotide sequence encoding human DG280 nucleic acids particularly nucleic acids encoding a human protein as described in Example 1 , and/or a sequence complementary thereto
- (h) having a length of 15-25 bases, preferably 25-35 bases, more preferably 35-50 bases and most preferably at least 50 bases.
- the invention is based on the finding that DG280 and/or homologous proteins and the polynucleotides encoding these, are involved in the regulation of energy homeostasis.
- the invention describes the use of these compositions for the diagnosis, study, prevention, or treatment of metabolic diseases or dysfunctions, including metabolic syndrome, obesity, and/or diabetes, as well as related disorders as mentioned above.
- DG280 expression in human adipocytes is significantly upregulated during the differentiation from preadiopocytes to mature adipocytes (see Figure 1 A for abdominal-derived adipocytes, Figure 1 B for mammary gland-derived adipocytes).
- high expression of DG280 is observed in different human adipose tissues, for example, in visceral and subcutane adipose tissues (see Figure 2).
- DG280 protein has to be significantly increased in order for the preadipocyctes to differentiate into mature adipocycte.
- DG280 expression in preadipocyctes has the potential to enhance adipose differentiation. Therefore, the DG280 protein might play an essential role in the regulation of human metabolism, in particular in the regulation of adipogenesis and thus it might play an essential role in obesity, diabetes, and/or metabolic syndrome.
- the DG280 polypeptide and a nucleic acid coding therefor and modulators/effectors of the polypeptide or nucleic acid are useful for regulating, e.g.
- DG280 is a strong candidate for the manufacture of a pharmaceutical composition and a medicament for the treatment of conditions related to human metabolism, such as obesity, diabetes, and/or metabolic syndrome.
- the invention also encompasses polynucleotides that encode the protein of the invention or a homologous protein. Accordingly, any nucleic acid sequence, which encodes the amino acid sequence of the protein of the invention or a homologous protein, can be used to generate recombinant molecules that express the protein of the invention or a homologous protein.
- the invention encompasses a nucleic acid encoding human DG280 as described in Example 1 ; referred to herein as the protein of the invention.
- nucleotide sequences encoding the proteins may be produced.
- the invention contemplates each and every possible variation of nucleotide sequence that can be made by selecting combinations based on possible codon choices.
- polynucleotide sequences that are capable of hybridizing to the claimed nucleotide sequences, and in particular, those of the polynucleotides encoding human DG280, or a homologous protein as described in Example 1 , under various conditions of stringency.
- Hybridization conditions are based on the melting temperature (Tm) of the nucleic acid binding complex or probe, as taught in Wahl G.M. et al., (1987) Methods Enzymol. 152: 399-407 and Kimmel A.R., (1987) Methods Enzymol. 152: 507-511 , and may be used at a defined stringency.
- hybridization under stringent conditions means that after washing for 1 h with 1 x SSC and 0.1% SDS at 50 °C, preferably at 55 °C, more preferably at 62 °C and most preferably at 68 °C, particularly for 1 h in 0.2 x SSC and 0.1 % SDS at 50 °C, preferably at 55 °C, more preferably at 62 °C and most preferably at 68 °C, a positive hybridization signal is observed.
- Altered nucleic acid sequences encoding the proteins which are encompassed by the invention include deletions, insertions or substitutions of different nucleotides resulting in a polynucleotide that encodes the same or a functionally equivalent protein.
- the encoded proteins may also contain deletions, insertions or substitutions of amino acid residues, which produce a silent change and result in functionally equivalent proteins. Deliberate amino acid substitutions may be made on the basis of similarity in polarity, charge, solubility, hydrophobicity, hydrophilicity, and/or the amphipathic nature of the residues as long as the biological activity of the protein is retained.
- the invention relates to peptide fragments of the proteins or derivatives thereof such as cyclic peptides, retro-inverso peptides or peptide mimetics having a length of at least 4, preferably at least 6 and up to 50 amino acids.
- an 'allele' or 'alleiic sequence' is an alternative form of the gene, which may result from at least one mutation in the nucleic acid sequence. Alleles may result in altered mRNAs or polypeptides whose structures or function may or may not be altered. Any given gene may have none, one or many alleiic forms. Common mutational changes, which give rise to alleles, are generally ascribed to natural deletions, additions or substitutions of nucleotides. Each of these types of changes may occur alone or in combination with the others, one or more times in a given sequence.
- nucleic acid sequences encoding the protein of the invention or a homologous protein may be extended utilizing a partial nucleotide sequence and employing various methods known in the art to detect upstream sequences such as promoters and regulatory elements.
- one method which may be employed, 'restriction-site' PCR uses universal primers to retrieve unknown sequence adjacent to a known locus (Sarkar G. et al., (1993) PCR Methods Applic. 2: 318-322).
- Inverse PCR may also be used to amplify or extend sequences using divergent primers based on a known region (Triglia T. et al., (1988) Nucleic Acids Res. 16: 8186).
- Another method which may be used is capture PCR which involves PCR amplification of DNA fragments adjacent to a known sequence in human and yeast artificial chromosome DNA (Lagerstrom M. et al., (1991 ) PCR Methods Applic. 1 : 111 -119). Another method which may be used to retrieve unknown sequences is that of Parker J.D. et al., (1991 ) Nucleic Acids Res. 19: 3055-3060. Additionally, one may use PCR, nested primers, and PROMOTERFINDER libraries to walk in genomic DNA (Clontech, Palo Alto, Calif.). This process avoids the need to screen libraries and is useful in finding intron/exon junctions.
- nucleotide sequences encoding the proteins or functional equivalents may be inserted into appropriate expression vectors, i.e., a vector which contains the necessary elements for the transcription and translation of the inserted coding sequence.
- appropriate expression vectors i.e., a vector which contains the necessary elements for the transcription and translation of the inserted coding sequence.
- Methods which are well known to those skilled in the art, may be used to construct expression vectors containing sequences encoding the proteins and the appropriate transcriptional and translational control elements. These methods include in vitro recombinant DNA techniques, synthetic techniques, and in vivo genetic recombination. Such techniques are described in Sambrook, J. et al. (1989) Molecular Cloning, A Laboratory Manual, Cold Spring Harbor Press, Plainview, N.Y. and Ausubel, F.M. et al. (1989) Current Protocols in Molecular Biology, John Wiley & Sons, New York, N.Y.
- natural, modified or recombinant nucleic acid sequences encoding the protein of the invention or a homologous protein may be ligated to a heterologous sequence to encode a fusion protein.
- Heterologous sequences are preferably located at the N-and/or C-terminus of the fusion protein.
- a variety of expression vector/host systems may be utilized to contain and express sequences encoding the proteins or fusion proteins. These include, but are not limited to, micro-organisms such as bacteria transformed with recombinant bacteriophage, plasmid or cosmid DNA expression vectors; yeast transformed with yeast expression vectors; insect cell systems infected with virus expression vectors (e.g., baculovirus, adenovirus, adeno-associated virus, lentiverus, retrovirus); plant cell systems transformed with virus expression vectors (e.g., cauliflower mosaic virus, CaMV; tobacco mosaic virus, TMV) or with bacterial expression vectors (e.g., Ti or PBR322 plasmids); or animal cell systems.
- micro-organisms such as bacteria transformed with recombinant bacteriophage, plasmid or cosmid DNA expression vectors; yeast transformed with yeast expression vectors; insect cell systems infected with virus expression vectors (e.g., baculovirus, aden
- nucleic acid amplification based assays involve the use of oligonucleotides or oligomers based on the sequences specific for the gene to detect transformants containing DNA or RNA encoding the corresponding protein.
- 'oligonucleotides' or 'oligomers' refer to a nucleic acid sequence of at least about 10 nucleotides and as many as about 60 nucleotides, preferably about 15 to 30 nucleotides, and more preferably about 20-25 nucleotides, which can be used as a probe or amplimer.
- Means for producing labeled hybridization or PCR probes for detecting polynucleotide sequences include oligo-labeling, nick translation, end-labeling of RNA probes, PCR amplification using a labeled nucleotide, or enzymatic synthesis. These procedures may be conducted using a variety of commercially available kits (Pharmacia & Upjohn, (Kalamazoo, Mich.); Promega (Madison Wis.); and U.S. Biochemical Corp., (Cleveland, Ohio).
- Suitable reporter molecules or labels which may be used for nucleic acid and protein assays, include radionuclides, enzymes, fluorescent, chemiluminescent or chromogenic agents as well as substrates, co-factors, inhibitors, magnetic particles, and the like.
- Host cells transformed with nucleotide sequences encoding the protein of the invention may be cultured under conditions suitable for the expression and recovery of said protein from cell culture.
- the protein produced by a recombinant cell may be secreted or contained intracellularly depending on the sequence and/or the vector used.
- expression vectors containing polynucleotides, which encode the protein may be designed to contain signal sequences, which direct secretion of the protein through a prokaryotic or eukaryotic cell membrane.
- Other recombinant constructions may be used to join sequences encoding the protein to nucleotide sequence encoding a polypeptide domain, which will facilitate purification of soluble proteins.
- Such purification facilitating domains include, but are not limited to, metal chelating peptides such as histidine-tryptophan modules that allow purification on immobilized metals, protein A domains that allow purification on immobilized immunoglobulin, and the domain utilized in the FLAG extension/affinity purification system (Immunex Corp., Seattle, Wash.)
- metal chelating peptides such as histidine-tryptophan modules that allow purification on immobilized metals
- protein A domains that allow purification on immobilized immunoglobulin
- the domain utilized in the FLAG extension/affinity purification system Immunex Corp., Seattle, Wash.
- cleavable linker sequences such as those specific for Factor XA or Enterokinase (Invitrogen, San Diego, Calif.) between the purification domain and the desired protein may be used to facilitate purification.
- nucleic acids and proteins of the invention and effectors/modulators thereof are useful in diagnostic and therapeutic applications implicated, for example but not limited to, metabolic diseases or dysfunctions, including metabolic syndrome, obesity, and/or pancreatic diseases e.g. diabetes mellitus such as insulin dependent diabetes mellitus or non insulin dependent diabetes mellitus, as well as related disorders such as eating disorder, cachexia, hypertension, coronary heart disease, hypercholesterolemia, dyslipidemia, osteoarthritis, gallstones, or liver fibrosis.
- the proteins, nucleic acids and effectors/ modulators are useful in applications associated with, accompanied by or caused by disturbances in the differentiation of preadipocytes to adipocytes.
- diagnostic and therapeutic uses for the proteins and nucleic acids of the invention are, for example but not limited to, the following: (i) small molecule drug target, (ii) antibody target (therapeutic, diagnostic, drug targeting/cytotoxic antibody), (iii) tissue regeneration in vitro and in vivo (regeneration for all these tissues and cell types composing these tissues and cell types derived from these tissues), (iv) diagnostic and/or prognostic marker, (v) protein therapy, (vi) gene therapy (gene delivery/gene ablation), and (vii) research tools.
- nucleic acids and protein of the invention and modulators/effectors thereof are useful in diagnostic and therapeutic applications implicated in various applications as described below.
- cDNAs encoding the protein of the invention may be useful in gene therapy, and the protein of the invention may be useful when administered to a subject in need thereof.
- the compositions of the present invention will have efficacy for treatment of patients suffering from, for example, but not limited to, metabolic disorders as described above.
- nucleic acids encoding the protein of the invention may further be useful in diagnostic applications, wherein the presence or amount of the nucleic acids or the proteins are to be assessed. These materials are further useful in the generation of antibodies that bind immunospecifically to the novel substances of the invention may be used in therapeutic or diagnostic methods.
- antibodies which are specific for the protein of the invention or a homologous protein, may be used directly as a modulator/effector, e.g. an antagonist or agonist or indirectly as a targeting or delivery mechanism for bringing a pharmaceutical agent to cells or tissue which express the protein.
- the antibodies may be generated using methods that are well known in the art. Such antibodies may include, but are not limited to, polyclonal, monoclonal, chimeric single chain, Fab fragments, and fragments produced by a Fab expression library.
- Neutralising antibodies i.e., those which inhibit dimer formation are especially preferred for therapeutic use.
- various hosts including goats, rabbits, rats, mice, humans, and others, may be immunized by injection with the protein or any fragment or oligopeptide thereof which has immunogenic properties.
- various adjuvants may be used to increase immunological response. It is preferred that the peptides, fragments or oligopeptides used to induce antibodies to the protein have an amino acid sequence consisting of at least five amino acids, and more preferably at least 10 amino acids.
- Monoclonal antibodies to the proteins may be prepared using any technique that provides for the production of antibody molecules by continuous cell lines in culture. These include, but are not limited to, the hybridoma technique, the human B-cell hybridoma technique, and the EBV-hybridoma technique (K ⁇ hler G. and Milstein C. (1975) Nature 256: 495-497; Kozbor D. et al. (1985) J. Immunol. Methods 81 : 31 -42; Cote R.J. et al., (1983) Proc. Natl. Acad. Sci. 80: 2026-2030; Cole S.P. et al., (1984) Mol Cell Biochem. 62: 109-120).
- Antibodies with related specificity, but of distinct idiotypic composition may be generated by chain shuffling from random combinatorial immunoglobulin libraries (Kang A.S. et al., (1991) Proc. Natl. Acad. Sci. 88: 11120-11123). Antibodies may also be produced by inducing in vivo production in the lymphocyte population or by screening recombinant immunoglobulin libraries or panels of highly specific binding reagents as disclosed in the literature (Orlandi R. et al., (1989) Proc. Natl. Acad. Sci. 86: 3833-3837; Winter G. and Milstein C, (1991) Nature 349: 293-299).
- Antibody fragments which contain specific binding sites for the proteins may also be generated.
- fragments include, but are not limited to, the F(ab') 2 fragments which can be produced by Pepsin digestion of the antibody molecule and the Fab fragments which can be generated by reducing the disulfide bridges of F(ab') 2 fragments.
- Fab expression libraries may be constructed to allow rapid and easy identification of monoclonal Fab fragments with the desired specificity (Huse W.D. et al., (1989) Science 246: 1275-1281 ).
- immunoassays may be used for screening to identify antibodies having the desired specificity.
- Numerous protocols for competitive binding and immunoradiometric assays using either polyclonal or monoclonal antibodies with established specificities are well known in the art.
- Such immunoassays typically involve the measurement of complex formation between the protein and its specific antibody.
- a two-site, monoclonal-based immunoassay utilizing monoclonal antibodies reacive to two non-interfering protein epitopes are preferred, but a competitive binding assay may also be employed (Maddox D.E. et al., (1983) J. Exp. Med. 158: 1211 -1216).
- the polynucleotides of the invention or fragments thereof or nucleic acid modulator/effector molecules such as aptamers, antisense molecules, RNAi molecules, or ribozymes may be used for therapeutic purposes.
- nucleic acid modulator/effector molecules such as aptamers, antisense molecules, RNAi molecules, or ribozymes
- aptamers i.e. nucleic acid molecules, which are capable of binding to the protein of the invention and modulating its activity, may be generated by a screening and selection procedure involving the use of combinatorial nucleic acid libraries.
- antisense molecules may be used in situations in which it would be desirable to block the transcription of the mRNA.
- cells may be transformed with sequences complementary to polynucleotides encoding the protein of the invention or a homologous protein.
- antisense molecules may be used to modulate/effect protein activity or to achieve regulation of gene function.
- sense or antisense oligomers or larger fragments can be designed from various locations along the coding or control regions of sequences encoding the proteins.
- Expression vectors derived from retroviruses, adenovirus, herpes or vaccinia viruses or from various bacterial plasmids may be used for delivery of nucleotide sequences to the targeted organ, tissue or cell population. Methods, which are well known to those skilled in the art, can be used to construct recombinant vectors, which will express antisense molecules complementary to the polynucleotides of the genes encoding the protein of the invention or a homologous protein. These techniques are described both in Sambrook et al. (supra) and in Ausubel et al. (supra).
- Genes encoding the protein of the invention or a homologous protein can be turned off by transforming a cell or tissue with expression vectors, which express high levels of polynucleotides that encode the protein of the invention or a homologous protein or a functional fragment thereof.
- Such constructs may be used to introduce untranslatable sense or antisense sequences into a cell. Even in the absence of integration into the DNA, such vectors may continue to transcribe RNA molecules until they are disabled by endogenous nucleases. Transient expression may last for a month or more with a non-replicating vector and even longer if appropriate replication elements are part of the vector system.
- antisense molecules e.g. DNA, RNA or PNA
- RNA or PNA DNA, RNA or PNA
- Oligonucleotides derived from the transcription initiation site e.g., between positions -10 and +10 from the start site, are preferred.
- inhibition can be achieved using "triple helix" base-pairing methodology. Triple helix pairing is useful because it cause inhibition of the ability of the double helix to open sufficiently for the binding of polymerases, transcription factors or regulatory molecules. Recent therapeutic advances using triplex DNA have been described in the literature (Gee, J. E.
- the antisense molecules may also be designed to block translation of mRNA by preventing the transcript from binding to ribosomes.
- Ribozymes enzymatic RNA molecules, may also be used to catalyze the specific cleavage of RNA.
- the mechanism of ribozyme action involves sequence-specific hybridization of the ribozyme molecule to complementary target RNA, followed by endonucleolytic cleavage. Examples, which may be used, include engineered hammerhead motif ribozyme molecules that can be specifically and efficiently catalyze endonucleolytic cleavage of sequences encoding the protein of the invention or a homologous protein.
- Specific ribozyme cleavage sites within any potential RNA target are initially identified by scanning the target molecule for ribozyme cleavage sites which include the following sequences: GUA, GUU, and GUC.
- RNA sequences of between 15 and 20 ribonucleotides corresponding to the region of the target gene containing the cleavage site may be evaluated for secondary structural features which may render the oligonucleotide inoperable.
- the suitability of candidate targets may also be evaluated by testing accessibility to hybridization with complementary oligonucleotides using ribonuclease protection assays.
- Nucleic acid effector/modulator molecules e.g. antisense molecules and ribozymes of the invention may be prepared by any method known in the art for the synthesis of nucleic acid molecules. These include techniques for chemically synthesizing oligonucleotides such as solid phase phosphoramidite chemical synthesis.
- RNA molecules may be generated by in vitro and in vivo transcription of DNA sequences. Such DNA sequences may be incorporated into a variety of vectors with suitable RNA polymerase promoters such as T7 or SP6.
- these cDNA constructs that synthesize antisense RNA constitutively or inducibly can be introduced into cell lines, cells or tissues. RNA molecules may be modified to increase intracellular stability and half-life.
- flanking sequences at the 5' and/or 3' ends of the molecule or modifications in the nucleobase, sugar and/or phosphate moieties, e.g. the use of phosphorothioate or 2' O-methyl rather than phosphodiesterase linkages within the backbone of the molecule.
- vectors may be introduced into stem cells taken from the patient and clonally propagated for autologous transplant back into that same patient. Delivery by transfection and by liposome injections may be achieved using methods, which are well known in the art. Any of the therapeutic methods described above may be applied to any suitable subject including, for example, mammals such as dogs, cats, cows, horses, rabbits, monkeys, and most preferably, humans.
- compositions may consist of the nucleic acids or protein of the invention or homologous nucleic acids or proteins, antibodies to the protein of the invention or a homologous protein, mimetics, agonists, antagonists or inhibitors of the protein of the invention or homologous proteins or nucleic acids.
- the compositions may be administered alone or in combination with at least one other agent, such as stabilizing compound, which may be administered in any sterile, biocompatible pharmaceutical carrier, including, but not limited to, saline, buffered saline, dextrose, and water.
- compositions may be administered to a patient alone or in combination with other agents, drugs or hormones.
- the pharmaceutical compositions utilized in this invention may be administered by any number of routes including, but not limited to, oral, intravenous, intramuscular, intra-arterial, intramedullary, intrathecal, intraventricular, transdermal, subcutaneous, intraperitoneal, intranasal, enteral, topical, sublingual or rectal means.
- these pharmaceutical compositions may contain suitable pharmaceutically-acceptable carriers comprising excipients and auxiliaries, which facilitate processing of the active compounds into preparations, which can be used pharmaceutically. Further details on techniques for formulation and administration may be found in the latest edition of Remington's Pharmaceutical Sciences (Maack Publishing Co., Easton, Pa.).
- compositions of the present invention may be manufactured in a manner that is known in the art, e.g., by means of conventional mixing, dissolving, granulating, dragee-making, levigating, emulsifying, encapsulating, entrapping or lyophilizing processes.
- the pharmaceutical composition may be provided as a salt and can be formed with many acids. After pharmaceutical compositions have been prepared, they can be placed in an appropriate container and labeled for treatment of an indicated condition. For administration of proteins, such labeling would include amount, frequency, and method of administration.
- compositions suitable for use in the invention include compositions wherein the active ingredients are contained in an effective amount to achieve the intended purpose.
- the determination of an effective dose is well within the capability of those skilled in the art.
- the therapeutically effective dose can be estimated initially either in cell culture assays, e.g., of preadipocyte cell lines or in animal models, usually mice, rabbits, dogs or pigs.
- the animal model may also be used to determine the appropriate concentration range and route of administration. Such information can then be used to determine useful doses and routes for administration in humans.
- a therapeutically effective dose refers to that amount of active ingredient, for example the nucleic acid or protein of the invention or a functional fragment thereof, or an antibody, which is sufficient for treating a specific condition.
- Therapeutic efficacy and toxicity may be determined by standard pharmaceutical procedures in cell cultures or experimental animals, e.g., ED50 (the dose therapeutically effective in 50% of the population) and LD50 (the dose lethal to 50% of the population).
- the dose ratio between therapeutic and toxic effects is the therapeutic index, and it can be expressed as the ratio, LD50/ED50.
- Pharmaceutical compositions, which exhibit large therapeutic indices, are preferred.
- the data obtained from cell culture assays and animal studies is used in formulating a range of dosage for human use.
- the dosage contained in such compositions is preferably within a range of circulating concentrations that include the ED50 with little or no toxicity. The dosage varies within this range depending upon the dosage from employed, sensitivity of the patient, and the route of administration.
- Dosage and administration are adjusted to provide sufficient levels of the active moiety or to maintain the desired effect. Factors, which may be taken into account, include the severity of the disease state, general health of the subject, age, weight, and gender of the subject, diet, time and frequency of administration, drug combination(s), reaction sensitivities, and tolerance/response to therapy.
- Long-acting pharmaceutical compositions may be administered every 3 to 4 days, every week or once every two weeks depending on half-life and clearance rate of the particular formulation. Normal dosage amounts may vary from 0.1 to 100,000 micrograms, up to a total dose of about 1 g, depending upon the route of administration.
- Diagnostic assays include methods which utilize the antibody and a label to detect the protein in human body fluids or extracts of cells or tissues.
- the antibodies may be used with or without modification, and may be labeled by joining them, either covalently or non-covalently, with a reporter molecule.
- reporter molecules which are known in the art may be used several of which are described above.
- a variety of protocols including ELISA, RIA, and FACS for measuring proteins are known in the art and provide a basis for diagnosing altered or abnormal levels of gene expression.
- Normal or standard values for gene expression are established by combining body fluids or cell extracts taken from normal mammalian subjects, preferably human, with antibodies to the protein under conditions suitable for complex formation. The amount of standard complex formation may be quantified by various methods, but preferably by photometry, means. Quantities of protein expressed in control and disease, samples from biopsied tissues are compared with the standard values. Deviation between standard and subject values establishes the parameters for diagnosing disease.
- the polynucleotides specific for the protein of the invention or a homologous protein may be used for diagnostic purposes.
- the polynucleotides, which may be used include oligonucleotide sequences, antisense RNA and DNA molecules, and PNAs.
- the polynucleotides may be used to detect and quantitate gene expression in biopsied tissues in which gene expression may be correlated with disease.
- the diagnostic assay may be used to distinguish between absence, presence, and excess gene expression, and to monitor regulation of protein levels during therapeutic intervention.
- hybridization with probes which are capable of detecting polynucleotide sequences, including genomic sequences, encoding the protein of the invention or a homologous protein or a closely related molecule may be used to identify nucleic acid sequences which encode the respective protein.
- the hybridization probes of the subject invention may be DNA or RNA and derived from the nucleotide sequence of the polynucleotide encoding the protein of the invention or from a genomic sequence including promoter, enhancer elements, and introns of the naturally occurring gene.
- Hybridization probes may be labeled by a variety of reporter groups, for example, radionuclides such as 32 P or 35 S or enzymatic labels, such as alkaline phosphatase coupled to the probe via avidin/biotin coupling systems, and the like.
- reporter groups for example, radionuclides such as 32 P or 35 S or enzymatic labels, such as alkaline phosphatase coupled to the probe via avidin/biotin coupling systems, and the like.
- Polynucleotide sequences specific for the protein of the invention or homologous nucleic acids may be used for the diagnosis of conditions or diseases, which are associated with the expression of the protein. Examples of such conditions or diseases include, but are not limited to, metabolic diseases and disorders, including obesity and diabetes. Polynucleotide sequences specific for the protein of the invention or a homologous protein may also be used to monitor the progress of patients receiving treatment for metabolic diseases and disorders, including obesity and diabetes. The polynucleotide sequences may be used qualitative or quantitative assays, e.g.
- nucleotide sequences specific for the protein of the invention or homologous nucleic acids may be useful in assays that detect activation or induction of various metabolic diseases or dysfunctions, including metabolic syndrome, obesity, and/or diabetes as well as related disorders such as eating disorder, cachexia, hypertension, coronary heart disease, hypercholesterolemia, dyslipidemia, osteoarthritis, gallstones, or liver fibrosis.
- the nucleotide sequences may be labeled by standard methods, and added to a fluid or tissue sample from a patient under conditions suitable for the formation of hybridization complexes. After a suitable incubation period, the sample is washed and the signal is quantitated and compared with a standard value. If the amount of signal in the biopsied or extracted sample is significantly altered from that of a comparable have hybridized with nucleotide sequences in the sample, and the presence of altered levels of nucleotide sequences encoding the protein of the invention or a homologous protein in the sample indicates the presence of the associated disease.
- Such assays may also be used to evaluate the efficacy of a particular therapeutic treatment regimen in animal studies, in clinical trials or in monitoring the treatment of an individual patient.
- a normal or standard profile for expression is established. This may be accomplished by combining body fluids or cell extracts taken from normal subjects, either animal or human, with a sequence or a fragment thereof, which is specific for the nucleic acids encoding the protein of the invention or homologous nucleic acids, under conditions suitable for hybridization or amplification. Standard hybridization may be quantified by comparing the values obtained from normal subjects with those from an experiment where a known amount of a substantially purified polynucleotide is used. Standard values obtained from normal samples may be compared with values obtained from samples from patients who are symptomatic for disease.
- Deviation between standard and subject values is used to establish the presence of disease. Once disease is established and a treatment protocol is initiated, hybridization assays may be repeated on a regular basis to evaluate whether the level of expression in the patient begins to approximate that, which is observed in the normal patient. The results obtained from successive assays may be used to show the efficacy of treatment over a period ranging from several days to months.
- the presence of an unusual amount of transcript in biopsied tissue from an individual may indicate a predisposition for the development of the disease or may provide a means for detecting the disease prior to the appearance of actual clinical symptoms.
- a more definitive diagnosis of this type may allow health professionals to employ preventative measures or aggressive treatment earlier thereby preventing the development or further progression of the metabolic diseases and disorders.
- oligonucleotides designed from the sequences encoding the protein of the invention or a homologous protein may involve the use of PCR.
- Such oligomers may be chemically synthesized, generated enzymatically or produced from a recombinant source.
- Oligomers will preferably consist of two nucleotide sequences, one with sense orientation (5'.fwdarw.3') and another with antisense (3'.rarw.5'), employed under optimized conditions for identification of a specific gene or condition.
- the same two oligomers, nested sets of oligomers or even a degenerate pool of oligomers may be employed under less stringent conditions for detection and/or quantification of closely related DNA or RNA sequences.
- Methods which may also be used to quantitate the expression of the protein of the invention or a homologous protein include radiolabeling or biotinylating nucleotides, coamplification of a control nucleic acid, and standard curves onto which the experimental results are interpolated (Melby P.C. et al., (1993) J. Immunol. Methods, 159: 235-244; Duplaa C. et al., (1993) Anal. Biochem. 212: 229-236).
- the speed of quantification of multiple samples may be accelerated by running the assay in an ELISA format where the oligomer of interest is presented in various dilutions and a spectrophotometric or colorimetric response gives rapid quantification.
- the nucleic acid sequences may also be used to generate hybridization probes, which are useful for mapping the naturally occurring genomic sequence.
- the sequences may be mapped to a particular chromosome or to a specific region of the chromosome using well known techniques.
- Such techniques include FISH, FACS or artificial chromosome constructions, such as yeast artificial chromosomes, bacterial artificial chromosomes, bacterial P1 constructions or single chromosome cDNA libraries as reviewed in Price CM., (1993) Blood Rev. 7: 127-134, and Trask B.J., (1991) Trends Genet. 7: 149-154.
- FISH is described in Verma R.S.
- the nucleotide sequences of the subject invention may be used to detect differences in gene sequences between normal, carrier or affected individuals. For example, an analysis of polymorphisms, e.g. single nucleotide polymorphisms may be carried out. Further, in situ hybridization of chromosomal preparations and physical mapping techniques such as linkage analysis using established chromosomal markers may be used for extending genetic maps. Often the placement of a gene on the chromosome of another mammalian species, such as mouse, may reveal associated markers even if the number or arm of a particular human chromosome is not known. New sequences can be assigned to chromosomal arms or parts thereof, by physical mapping.
- any sequences mapping to that area may represent associated or regulatory genes for further investigation.
- the nucleotide sequences of the subject invention may also be used to detect differences in the chromosomal location due to translocation, inversion, etc. among normal, carrier or affected individuals.
- the protein of the invention in another embodiment, can be used for screening libraries of compounds in any of a variety of drug screening techniques.
- modulators/effectors e.g. receptors, ligands or substrates that bind to, modulate or mimic the action of the protein of the invention.
- the protein or fragment thereof employed in such screening may be free in solution, affixed to a solid support, borne on a cell surface, or located intracellularly. The formation of binding complexes, between the protein of the invention and the agent tested, may be measured. Agents could also, either directly or indirectly, influence the activity of the protein of the invention.
- DG280 or homologous proteins against their physiological substrate(s) or derivatives thereof could be measured in cell-based or cell-free assays.
- Agents may also interfere with posttranslational modifications of the protein of the invention, such as phosphorylation and dephosphorylation, farnesylation, palmitoylation, acetylation, alkylation, ubiquitination, proteolytic processing, subcellular localization or degradation.
- agents could influence the dimerization or oligomerization of the protein of the invention or, in a heterologous manner, of the protein of the invention with other proteins, for example, but not exclusively, docking proteins, enzymes, receptors, ion channels, uncoupling proteins, or translation factors.
- Agents could also act on the physical interaction of the proteins of this invention with other proteins, which are required for protein function, for example, but not exclusively, their downstream signaling.
- binding of a fluorescently labeled peptide derived from the protein of the invention to the interacting protein could be detected by a change in polarisation.
- binding partners which can be either the full length proteins as well as one binding partner as the full length protein and the other just represented as a peptide are fluorescently labeled
- binding could be detected by fluorescence energy transfer (FRET) from one fluorophore to the other.
- FRET fluorescence energy transfer
- the interaction of the protein of the invention with cellular proteins could be the basis for a cell-based screening assay, in which both proteins are fluorescently labeled and interaction of both proteins is detected by analysing cotranslocation of both proteins with a cellular imaging reader, as has been developed for example, but not exclusively, by Cellomics or EvotecOAI.
- the two or more binding partners can be different proteins with one being the protein of the invention, or in case of dimerization and/or oligomerization the protein of the invention itself.
- the protein of the invention, for which one target mechanism of interest, but not the only one, would be such protein/protein interaction is the DG280 protein.
- GPCRs G protein- coupled receptors
- secondary assays suitable for detection of agonist and antagonist activities on GPCRs measure levels of cAMP produced upon modulation of adenylate cyclase activity by GPCRs.
- the assays are based on the competition between endogenous cAMP and exogenously added labeled cAMP. (e.g. AlphaScreen; PerkinElmer).
- a number of response element-based reporter systems have been developed that enable the study of GPCR function. For example, a colorimetric assay for measuring activation of Gs- and Gq-coupled signaling pathways was described by Chen W. et al. (1995, Anal Biochem. 226: 349- 354). The assay utilizes a beta-galactosidase (lacZ) gene fused to five copies of the cyclic AMP response element (CRE) to detect the activation of CRE- - binding protein that results from an increase in intracellular cAMP or calcium. Alternatively, but comparable assay systems are well known in the art, e.g. luciferase reporter genes linked to CREs.
- lacZ beta-galactosidase
- CRE cyclic AMP response element
- the calcium signalling could be the basis for a screening assay, in which calcium ion flux can be measured as an end point for GPCR stimulated signal transduction.
- a screening assay in which calcium ion flux can be measured as an end point for GPCR stimulated signal transduction.
- widely applicated is a fluorescence-based assay system for the measurement of intracellular calcium developed by Molecular Devices. This application is, for example, described in Chambers C. et al., (2003) Comb Chem High Throughput Screen. 6: 355-362.
- a further assay system uses the secondary regulation of the receptor by binding to a secondary regulatory molecule, particularly on a cytoplasmic domain of the receptor (e.g., Beta arrestin).
- the GPCR activity can be monitored by detecting movement of Beta arrestin in a cell (e.g. Transfluor assay; Cellomics).
- Screen assays for agents that have a low toxicity for mammalian cells are included in the term "agent” as used herein describes any molecule, e.g. protein or pharmaceutical, with the capability of altering or mimicking the physiological function of the protein of the invention.
- Candidate agents encompass numerous chemical classes, though typically they are organic molecules, preferably small organic compounds having a molecular weight of more than 50 and less than about 2,500 Daltons.
- Candidate agents comprise functional groups necessary for structural interaction with proteins, particularly hydrogen bonding, and typically include at least an amine, carbonyl, hydroxyl or carboxyl group, preferably at least two of the functional chemical groups.
- the candidate agents often comprise carbocyclic or heterocyclic structures and/or aromatic or polyaromatic structures substituted with one or more of the above functional groups.
- Candidate agents are also found among biomolecules including peptides, saccharides, fatty acids, steroids, purines, pyrimidines, nucleic acids and derivatives, structural analogs or combinations thereof.
- Candidate agents are obtained from a wide variety of sources including libraries of synthetic or natural compounds. For example, numerous means are available for random and directed synthesis of a wide variety of organic compounds and biomolecules, including expression of randomized oligonucleotides and oligopeptides.
- libraries of natural compounds in the form of bacterial, fungal, plant and animal extracts are available or readily produced.
- natural or synthetically produced libraries and compounds are readily modified through conventional chemical, physical and biochemical means, and may be used to produce combinatorial libraries.
- pharmacological agents may be subjected to directed or random chemical modifications, such as acylation, alkylation, esterification, amidification, etc. to produce structural analogs.
- the screening assay is a binding assay
- one or more of the molecules may be joined to a label, where the label can directly or indirectly provide a detectable signal.
- Another technique for drug screening which may be used, provides for high throughput screening of compounds having suitable binding affinity to the protein of interest as described in published PCT application WO84/03564. In this method, as applied to the protein of the invention large numbers of different small test compounds, e.g.
- aptamers, peptides, low-molecular weight compounds etc. are provided or synthesized on a solid substrate, such as plastic pins or some other surface.
- the test compounds are reacted with the proteins or fragments thereof, and washed. Bound proteins are then detected by methods well known in the art. Purified proteins can also be coated directly onto plates for use in the aforementioned drug screening techniques. Alternatively, non-neutralizing antibodies can be used to capture the peptide and immobilize it on a solid support.
- the nucleic acids encoding the protein of the invention can be used to generate transgenic animals or site-specific gene modifications in cell lines. These transgenic non-human animals are useful in the study of the function and regulation of said protein in vivo. Transgenic animals, particularly mammalian transgenic animals, can serve as a model system for the investigation of many developmental and cellular processes common to humans. A variety of non-human models of metabolic disorders can be used to test modulators/effectors of the protein of the invention. Misexpression (for example, overexpression or lack of expression) of the protein of the invention, particular feeding conditions, and/or administration of biologically active compounds can create models of metablic disorders.
- such assays use mouse models of insulin resistance and/or diabetes, such as mice carrying gene knockouts in the leptin pathway (for example, ob (leptin) or db (leptin receptor) mice).
- leptin pathway for example, ob (leptin) or db (leptin receptor) mice.
- Such mice develop typical symptoms of diabetes, show hepatic lipid accumulation and frequently have increased plasma lipid levels (see Bruning J.C. et al, (1998) Mol. Cell. 2: 559-569).
- Susceptible wild type mice for example C57BI/6) show similiar symptoms if fed a high fat diet.
- mice could be used to test whether administration of a candidate modulator/effector alters for example lipid accumulation in the liver, in plasma, or adipose tissues using standard assays well known in the art, such as FPLC, colorimetric assays, blood glucose level tests, insulin tolerance tests and others.
- standard assays well known in the art, such as FPLC, colorimetric assays, blood glucose level tests, insulin tolerance tests and others.
- Transgenic animals may be made through homologous recombination in non-human embryonic stem cells, where the normal locus of the gene encoding the protein of the invention is altered.
- a nucleic acid construct encoding the protein of the invention is injected into oocytes and is randomly integrated into the genome.
- Vectors for stable integration include plasmids, retroviruses and other animal viruses, yeast artificial chromosomes (YACs), and the like.
- the modified cells or animal are useful in the study of the function and regulation of the protein of the invention. For example, a series of small deletions and/or substitutions may be made in the gene that encodes the protein of the invention to determine the role of particular domains of the protein, functions in pancreatic differentiation, etc.
- variants of the gene of the invention like specific constructs of interest include anti-sense molecules, which will block the expression of the protein of the invention, or expression of dominant negative mutations.
- a detectable marker such as for example lac-Z or luciferase may be introduced in the locus of the gene of the invention, where up regulation of expression of the gene of the invention will result in an easily detected change in phenotype.
- genes of the invention or variants thereof in cells or tissues where it is not normally expressed or at abnormal times of development.
- by providing expression of the protein of the invention in cells in which they are not normally produced one can induce changes in cell behavior.
- DNA constructs for homologous recombination will comprise at least portions of the genes of the invention with the desired genetic modification, and will include regions of homology to the target locus. DNA constructs for random integration do not need to contain regions of homology to mediate recombination. Conveniently, markers for positive and negative selection are included. DNA constructs for random integration will consist of the nucleic acids encoding the protein of the invention, a regulatory element (promoter), an intron and a poly-adenylation signal. Methods for generating cells having targeted gene modifications through homologous recombination are known in the art. For non-human embryonic stem (ES) cells, an ES cell line may be employed, or embryonic cells may be obtained freshly from a host, e.g. mouse, rat, guinea pig, etc. Such cells are grown on an appropriate fibroblast-feeder layer and are grown in the presence of leukemia inhibiting factor (LIF).
- LIF leukemia inhibiting factor
- non-human ES or embryonic cells or somatic plu ipotent stem cells When non-human ES or embryonic cells or somatic plu ipotent stem cells have been transfected, they may be used to produce transgenic animals. After transfection, the ceils are plated onto a feeder layer in an appropriate medium. Cells containing the construct may be selected by employing a selective medium. After sufficient time for colonies to grow, they are picked and analyzed for the occurrence of homologous recombination or integration of the construct. Those colonies that are positive may then be used for embryo transfection and morula aggregation. Briefly, morulae are obtained from 4 to 6 week old superovulated females, the Zona Pellucida is removed and the morulae are put into small depressions of a tissue culture dish.
- the ES cells are trypsinized, and the modified cells are placed into the depression closely to the morulae.
- the aggregates are transfered into the uterine horns of pseudopregnant females.
- Females are then allowed to go to term.
- Chimeric offsprings can be readily detected by a change in coat color and are subsequently screened for the transmission of the mutation into the next generation (F1 -generation).
- Offspring of the F1 -generation are screened for the presence of the modified gene and males and females having the modification are mated to produce homozygous progeny. If the gene alterations cause lethality at some point in development, tissues or organs can be maintained as allogenic or congenic grafts or transplants, or in vitro culture.
- the transgenic animals may be any non-human mammal, such as laboratory animal, domestic animals, etc., for example, mouse, rat, guinea pig, sheep, cow, pig, and others.
- the transgenic animals may be used in functional studies, drug screening, and other applications and are useful in the study of the function and regulation of the protein of the invention in vivo.
- the invention also relates to a kit comprising at least one of (a) a nucleic acid molecule coding for the protein of the invention or a functional fragment thereof;
- the kit may be used for diagnostic or therapeutic purposes or for screening applications as described above.
- the kit may further contain user instructions.
- Figure 1 shows the expression of DG280 during human preadipocyte to adipocyte differentiation.
- Figure 1 A shows the real-time PCR analysis of DG280 expression in human abdominal-derived (pre-) adipocytes during differentiation. DG280 expression is clearly upregulated at an early stage of development. X-axis: days of differentiation, Y-axis: fold expression relative to delta CT(36).
- Figure 1 B shows the real-time PCR analysis of DG280 expression in human mammary gland-derived (pre-) adipocytes during differentiation. Shown are DG280 expression on day 0, day 6, and day 12 of adipocyte differentiation.
- Figure 2 shows the real-time PCR analysis of DG280 expression in different human adipocyte tissues (visceral and subcutane adipocyte tissues).
- Figure 3 shows the expression of DG280 in human tissue. Shown is the microarray analysis of DG280 expression in human primary abdominal adipocyte cells (PAAT; columns 1 and 2), in human primary adipose mammary gland cells (PAMG; columns 3 and 4) and in a human preadipocyte cell line (SGBS; columns 5 and 6) during the differentiation from preadipocytes to mature adipocytes.
- PAAT human primary abdominal adipocyte cells
- PAMG human primary adipose mammary gland cells
- SGBS human preadipocyte cell line
- Example 1 Identification of mammalian genes and proteins
- polynucleotide comprising the nucleotide sequence as shown in GenBank Accession number relates to the expressible gene of the nucleotide sequences deposited under the corresponding GenBank Accession number.
- GenBank Accession number relates to NCBI GenBank database entries (Ref.: Benson D.A. et al., (2000) Nucleic Acids Res. 28: 15-18).
- DG280 relates to GenBankAccession Number NM_012193 (nucleic acid) and the protein encoded by this sequence, e.g. GenBankAccession number NP_036325 (protein) (Kirikoshi et al., 1999, Biochem. Biophys. Res. Commun. 264 (3), 955-961).
- DG280 or homologous proteins and nucleic acid molecules coding therefore are obtainable from other vertebrate species, e.g. mammals or birds.
- Example 2 Expression of the polypeptides in human tissues - TaqMan analysis
- human adipose tissue (subcutaneous abdominal- and mammary gland-derived) obtained from elective surgery was used to isolate preadipocytes. Human preadipocyte isolation and differentiation was carried out as described previously (Hauner et al., 2001 , Meth. Mol. Biol. 155:239-247). In brief, subcutanous adipose tissue was used to crudely prepare fat pads by liberating from connecting tissue and blood vessels. After collagenase (Collagenase Typl CLS; Biochrom KG; approx.
- Preadipocytes were grown in serum-containingo medium until reaching confluency (defined as day 0: dO). To induce differentiation to mature adipocytes cells were washed with PBS buffer and then cultered in serum-free basal medium supplemented with 20 nM insulin (Sigma), 0.01 mg/ml transferrin (Sigma), 100 nM hydrocortisone (Sigma), and 0.2 nM T3 (Sigma) for up to 14 days.
- Initiation of differentiation was achieved5 adding 25 nM dexamethasone, 250 ⁇ M 1 -methyl-3-isobutylxanthine (IBMX; Sigma), and 3 ⁇ M ciglitizone (Sigma) during the first four days of differentiation (d0-d4). Media changes were performed on dO and d4. At various time points of the differentiation procedure, beginning with day 0 (day of confluence; hormone addition) suitable aliquots of cells were taken ando analyzed.
- Trizol Reagent for example, from Invitrogen, Düsseldorf, Germany
- RNeasy Kit for example, from Qiagen, Germany
- Taqman analysis was performed preferably using the following primer/probe pairs:
- Human DG280 forward primer (SEQ ID NO: 1): 5'- CAC TGT CAT CCT AGA AGG CTT CTG -3'; human DG280 reverse primer (SEQ ID NO: 2): 5'- AAC CTC GGA GAG AAG ATG GAC C -3'; human DG280 Taqman probe (SEQ ID NO: 3): (5/6-FAM)- AAG AGC CAC TCT GCG CCA CAA AGG T -(5/ 6-TAMRA).
- DG280 The function of DG280 in human metabolism was validated by analyzing the expression of the transcripts in human tissues and by analyzing the role in human adipocyte differentiation.
- DG280 expression is significanly up-regulated during differentiation from human preadipocytes to mature adipocytes (adipogenesis) in abdominal-derived ( Figure 1 A) and in mammary gland-derived ( Figure 1 B) cells.
- adipogenesis early-derived adipocytes
- Figure 1 A abdominal-derived adipocytes
- Figure 1 B mammary gland-derived
- RNA preparation from human primary adipose tissues and preadipacyte cell line was done as described in Example 2.
- the target preparation, hybridization, and scanning was performed as described in the manufactures manual (see Affymetrix Technical Manual, 2002, obtained from Affymetrix, Santa Clara, USA).
- the X-axis represents the time axis, shown are day 0 and day 12 of adipocyte differentiation.
- the Y-axis represents the fluorescent intensity.
- the expression analysis (using Affymetrix GeneChips) of the DG280 gene using primary human abdominal-derived adipocyctes (PAAT), primary human mammary gland-derived adipocytes (PAMG), and a human preadipocyte cell line (Simpson-Golabi-Behmel Syndrome; SGBS) differentiation, clearly shows differential expression of the human DG280 gene in adipocytes.
- PAAT primary human abdominal-derived adipocyctes
- PAMG primary human mammary gland-derived adipocytes
- SGBS human preadipocyte cell line
- the DG280 protein has to be significantly increased in order for the preadipocyctes to differentiate into mature adipocycte. Therefore, DG280 expression in preadipocyctes has the potential to enhance adipose differentiation. Therefore, the DG280 protein might play an essential role in the regulation of human metabolism, in particular in the regulation of adipogenesis and thus it might play an essential role in obesity, diabetes, and/or metabolic syndrome.
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Abstract
The present invention discloses novel uses for energy homeostasis regulating proteins and polynucleotides encoding these in the diagnosis, study, prevention, and treatment of metabolic diseases and disorders.
Description
Use of a DG280 protein product for preventing and treating metabolic disorders.
Description
This invention relates to the use of nucleic acid sequences encoding a G- protein coupled receptor (DG280) protein, to the use of polynucleotides encoding this, and to the use of modulators/effectors of the protein and polynucleotides in the diagnosis, study, prevention, and treatment of diseases and disorders related to body-weight regulation, for example, but not limited to, metabolic diseases or dysfunctions such as obesity, metabolic syndrome, diabetes mellitus, eating disorder, cachexia, pancreatitis, hypertension, coronary heart disease, hypercholesterolemϊa, dyslipidemia, osteoarthritis, gallstones, or liver fibrosis.
Many human proteins serve as pharmaceutically active compounds. Several classes of human proteins that serve as such active compounds include receptors and ligands. G protein-coupled receptors (GPCRs) comprise a large and diverse family of molecules that play essential roles in signal transduction. In addition to a constantly expanding pharmacological repertoire, recent advances in the ability to manipulate GPCR expression in vivo have provided another valuable approach in the stud/ of GPCR function and mechanism of action. The receptors, which are membrane-bound proteins, have potential as therapeutic or diagnostic agents.
It is, therefore, important for developing new pharmaceutical compounds to identify GPCRs that can be tested for activity in a variety of animal models. Thus, in light of the pervasive role of GPCRs in human physiology, a need exists for identifying and characterizing novel functions for human GPCRs and the genes that encode them. This knowledge will allow one to detect, to treat, and to prevent medical diseases, disorders, and/or conditions by using GPCRs or the genes that encode them.
There are several metabolic diseases of human and animal metabolism, e.g., obesity and severe weight loss, that relate to energy imbalance where caloric intake versus energy expenditure is imbalanced. Obesity is one of the most prevalent metabolic disorders in the world. It is still a poorly understood human disease that becomes more and more relevant for western society. Obesity is defined as a body weight more than 20% in excess of the ideal body weight, frequently resulting in a significant impairment of health. Obesity may be measured by body mass index, an indicator of adiposity or fatness. Further parameters for defining obesity are waist circumferences, skinfold . thickness and bioimpedance. Obesity is associated with an increased risk for cardiovascular disease, hypertension, diabetes, hyperlipidaemia and an increased mortality rate. Besides severe risks of illness, individuals suffering from obesity are often isolated socially.
Obesity is influenced by genetic, metabolic, biochemical, psychological, and behavioral factors, and can be caused by different reasons such as non-insulin dependent diabetes, increase in triglycerides, increase in carbohydrate bound energy and low energy expenditure. As such, it is a complex disorder that must be addressed on several fronts to achieve lasting positive clinical outcome. Since obesity is not to be considered as a single disorder but as a heterogeneous group of conditions with (potential) multiple causes, it is also characterized by elevated fasting plasma insulin and an exaggerated insulin response to oral glucose intake (Koltermann O.G., (1980) J. Clin. Invest 65: 1272-1284). A clear involvement of obesity in type 2 diabetes mellitus can be confirmed (Kopelman P.G., (2000) Nature 404: 635-643).
Hyperlipidemia and elevation of free fatty acids correlate clearly with the metabolic syndrome, which is defined as the linkage between several diseases, including obesity and insulin resistance. This often occurs in the same patients and are major risk factors for development of type 2 diabetes
and cardiovascular disease. It was suggested that the control of lipid levels and glucose levels is required to treat type 2 diabetes, heart disease, and other occurances of metabolic syndrome (see, for example, Santomauro AT. et al., (1999) Diabetes, 48: 1836-1841 and Lakka H.M., (2002) JAMA 288: 2709-2716).
The concept of 'metabolic syndrome' (syndrome x, insulin-resistance syndrome, deadly quartet) was first described 1966 by Camus and reintroduced 1988 by Reaven (Camus J.P., (1966) Rev Rhum Mai Osteoartic 33: 10-14; Reaven G.M. et al., (1988) Diabetes, 37: 1595-1607). Today metabolic syndrome is commonly defined as clustering of cardiovascular risk factors like hypertension, abdominal obesity, high blood levels of triglycerides and fasting glucose as well as low blood levels of HDL cholesterol. Insulin resistance greatly increases the risk of developing the metabolic syndrome (Reaven G., (2002) Circulation 106: 286-288). The metabolic syndrome often precedes the development of type II diabetes and cardiovascular disease (Lakka H.M. et al., (2002) JAMA 288: 2709-2716).
The molecular factors regulating food intake and body weight balance are incompletely understood. Even if several candidate genes have been described which are supposed to influence the homeostatic system(s) that regulate body mass/weight, like leptin or the peroxisome proliferator-activated receptor-gamma co-activator, the distinct molecular mechanisms and/or molecules influencing obesity or body weight/body mass regulations are not known. In addition, several single-gene mutations resulting in obesity have been described in mice, implicating genetic factors in the etiology of obesity (Friedman J.M. and Leibel R.L., (1992), Cell 69: 217-220). In the obese (ob) mouse a single gene mutation (obese) results in profound obesity, which is accompanied by diabetes (Friedman J.M. et. al., (1991 ) Genomics 11 : 1054-1062).
Therefore, the technical problem underl/ing the present invention was to
provide for means and methods for modulating/effecting (pathological) metabolic conditions influencing body-weight regulation and/or energy homeostatic circuits. The solution to said technical problem is achieved by providing the embodiments characterized in the claims. Accordingly, the present invention relates to novel functions of proteins and nucleic acids encoding these in body-weight regulation, energy homeostasis, metabolism, and obesity. The proteins discloses herein and polynucleotides encoding these are thus suitable to investigate metabolic diseases and disorders. Further new compositions are provided that are useful in diagnosis, treatment, and prognosis of metabolic diseases and disorders as described.
So far, it has not been described t at the protein of the invention or a homologous protein are involved in the regulation of energy homeostasis and body-weight regulation and related disorders, and thus, no functions in metabolic diseases and dysfunctions and other diseases as listed above have been discussed. In this invention, we demonstrate that the correct gene dose of DG280 is essential for maintenance of energy homeostasis.
Before the present proteins, nucleotide sequences, and methods are described, it is understood that this invention is not limited to the particular methodology, protocols, cell lines, vectors, and reagents described as these may vary. It is also to be understood that the terminology used herein is for the purpose of describing particular embodiments only, and is not intended to limit the scope of the present invention that will be limited only by the appended claims. Unless defined otherwise, all technical and scientific terms used herein have the same meanings as commonly understood by one of ordinary skill in the art to which this invention belongs. Although any methods and materials similar or equivalent to those described herein can be used in the practice or testing of the present invention, the preferred methods, devices, and materials are now described. All publications mentioned herein are incorporated herein by reference for the purpose of describing and disclosing the cell lines, vectors, and methodologies that are reported in the
publications which might be used in connection with the invention. Nothing herein is to be construed as an admission that the invention is not entitled to antedate such disclosure.
The present invention discloses that the DG280 protein (herein referred to as "protein of the invention") is regulating the energy homeostasis and fat metabolism, and polynucleotides, which identify and encode the protein disclosed in this invention. The invention also relates to vectors, host cells, and recombinant methods for producing the polypeptides and polynucleotides of the invention. The invention also relates to the use of these compounds and effectors/modulators thereof, e.g. antibodies, biologically active nucleic acids, such as antisense molecules, RNAi molecules or ribozymes, aptamers, peptides or low-molecular weight organic compounds recognizing said polynulceotides or polypeptides, in the diagnosis, study, prevention, and treatment of metabolic diseases or dysfunctions, including metabolic syndrome, obesity, and/or diabetes as well as related disorders such as eating disorder, cachexia, hypertension, coronary heart disease, hypercholesterolemia, dyslipidemia, osteoarthritis, gallstones, or liver fibrosis.
DG280 (Frizzled 4) belongs to the frizzled/smoothened gene family of seven- pass transmembrane proteins, sharing significant structural homology with the superfamily of G-protein-coupled receptors. Frizzled proteins are highly conserved throughout the animal kingdom and are characterized in all major model organisms and in humans. Frizzled proteins constitute the receptors for the members of the Wnt-family of secreted signalling molecules (Bhanot et al., 1996, Nature 382: 225-30; for a review, see Strutt D., 2003, Development 130: 4501-13 and Bejsovec A., 2000, Curr. Biol. 10: 919-22) Signalling from Wnt ligands to Frizzled receptors involves co-receptors that are related to low-density-lipoprotein receptors (LRP, Tamai et al., 2000, Nature 407:530-5).
The Wnt/Frizzled signalling pathway controls many aspects of both embryonic development and tissue homeostasis (for a review, see Wodarz A. and Nusse R., 1998, Annu. Rev. Cell Dev. Biol. 14: 59-88). In addition, deregulation of the Wnt-Frizzled pathway is currently viewed as the earliest causative event in colon cancer pathologies (in about 85% of all human cases, see Bienz M. and Clevers H., 2000, Cell 103:311-20).
Frizzled receptors are able to elicit distinct intracellular signalling outcomes. To date, three major pathways downstream of Frizzled recptors are postulated: 1) the Wnt beta-catenin pathway, also referred to as the canonical Wnt/Frizzled pathway, 2) the Wnt/JNK pathway, also referred to as the planar cell polarity (PCP) pathway, and 3) the Wnt/Ca2+ pathway (for a review, see Huelsken J. and Birchmeier W., 2001 , Curr. Opin. Genet. Dev. 11 :547-553 and Veeman M. et al., 2003, Dev. Cell 5: 357-77). The molecular mechanism of signal transduction downstream of the Frizzled receptors is unclear. In the case of the Wnt/Ca2+ pathway, it is very likely that heterotrimeric G proteins are involved in generating second messengers (for a review, see Wang H. and Malbon C. et al., 2003, Science 300: 1529-30). There is some evidence that in particular Frizzled 4 signals via G proteins (Kϋhl M. et al., 2000, J. Biol. Chem. 275: 12701-11 and Robitaille J. et al., 2002, Nat Genet. 32: 326-330).
Wnt/Frizzled signalling has also been implicated in the control of preadipocyte differentiation into mature adipopc/tes. It was demonstrated that Wnt/Frizzled signalling to beta-catenin potently inhibits adipogenesis in the murine 3T3-L1 model system (Ross S et al., 2000, Science 289: 950-3). It was suggested that Wnt10B is likely to mediate this inhibition by activating Frizzled 1 , 2, and/ 5, all of which are highly expressed in 3T3-L1 preadipocytes and become downregulated during adipocyte differentiation. Frizzled 4 is not expressed during adipogenic differentiation in 3T3-L1 cells, however it was noted that Frizzled 4 is expressed in mature murine adipocytes (Bennett C. et al., 2002, J. Biol. Chem. 277: 30998-31004 and
Soukas et al., 2001 , J. Biol. Chem. 276: 34167-74).
The phenotype of mice carrying a targeted deletion of the Frizzled 4 gene was described as progressive cerebellar, auditory, and esophageal dysfunction, mainly attributed to neuronal defects in the affected tissues (Wang Y. et al., 2001 , J Neurosci. 21 : 4761-4771 , see also JP2000093186). Further, a function for human Frizzled 4 in retinal angiogenesis was suggested (Robitaille J. et al., 2002, Nat Genet. 32: 326-330; see also WO03/004045). Recently, internalisation of Frizzled 4 after ligand binding was shown to be dependent on the interaction with beta-arrestin 2 and the cytoplasmic signalling molecule Dishevelled 2 (Chen W. et al., 2003, Science 301 : 1391-4).
Although an indirect role of other members of the frizzled family in adipogenesis have been discussed in the literature, so far, it has not been described that the DG280 protein of the invention are involved in the regulation of energy homeostasis and body-weight regulation and related disorders, and thus, no functions in metabolic diseases and dysfunctions and other diseases as listed above have been discussed.
DG280 protein or homologous proteins and nucleic acid molecules coding therefore are obtainable from vertebrate species, e.g. mammals or birds. Particularly preferred are nucleic acids, particularly nucleic acids encoding a human protein as described in Example 1.
The invention particularly relates to a nucleic acid molecule encoding a polypeptide contributing to regulating the energy homeostasis, wherein said nucleic acid molecule comprises
(a) the nucleotide sequence encoding human DG280 nucleic acids, particularly nucleic acids encoding a human protein as described in Example 1 , and/or a sequence complementary thereto,
(b) a nucleotide sequence which hybridizes at 50 °C in a solution containing 1 x SSC and 0.1% SDS to a sequence of (a),
(c) a sequence corresponding to the sequences of (a) or (b) within the degeneration of the genetic code, (d) a sequence which encodes a polypeptide which is at least 85%, preferably at least 90%, more preferably at least 95%, more preferably at least 98% and up to 99,6% identical to the amino acid sequence of the DG280 protein, preferably of the human DG280 protein, particularly a human protein as described in Example 1 ,
(e) a sequence which differs from the nucleic acid molecule of (a) to
(f) by mutation and wherein said mutation causes an alteration, eletion, duplication and/or premature stop in the encoded polypeptide or (g) a partial sequence of any of the nucleotide sequences of (a) to
(h) having a length of 15-25 bases, preferably 25-35 bases, more preferably 35-50 bases and most preferably at least 50 bases.
The invention is based on the finding that DG280 and/or homologous proteins and the polynucleotides encoding these, are involved in the regulation of energy homeostasis. The invention describes the use of these compositions for the diagnosis, study, prevention, or treatment of metabolic diseases or dysfunctions, including metabolic syndrome, obesity, and/or diabetes, as well as related disorders as mentioned above.
In this invention, the function of DG280 in human energy homeostasis was analyzed by evaluating its role in human adipocyte differentiation. Expression profiling studies (see Examples for more detail) confirm the particular relevance of DG280 as regulator of energy metabolism in humans. For example, we found that DG280 expression in human adipocytes is significantly upregulated during the differentiation from preadiopocytes to mature adipocytes (see Figure 1 A for abdominal-derived adipocytes, Figure
1 B for mammary gland-derived adipocytes). In addition, high expression of DG280 is observed in different human adipose tissues, for example, in visceral and subcutane adipose tissues (see Figure 2).
We found that DG280 protein has to be significantly increased in order for the preadipocyctes to differentiate into mature adipocycte. DG280 expression in preadipocyctes has the potential to enhance adipose differentiation. Therefore, the DG280 protein might play an essential role in the regulation of human metabolism, in particular in the regulation of adipogenesis and thus it might play an essential role in obesity, diabetes, and/or metabolic syndrome. Particularly, the DG280 polypeptide and a nucleic acid coding therefor and modulators/effectors of the polypeptide or nucleic acid are useful for regulating, e.g. increasing or decreasing, adipogenesis, more particularly regulating the differentiation of preadipocytes to adipocytes in mammals, e.g. humans. Thus, DG280 is a strong candidate for the manufacture of a pharmaceutical composition and a medicament for the treatment of conditions related to human metabolism, such as obesity, diabetes, and/or metabolic syndrome.
The invention also encompasses polynucleotides that encode the protein of the invention or a homologous protein. Accordingly, any nucleic acid sequence, which encodes the amino acid sequence of the protein of the invention or a homologous protein, can be used to generate recombinant molecules that express the protein of the invention or a homologous protein. In a particular embodiment, the invention encompasses a nucleic acid encoding human DG280 as described in Example 1 ; referred to herein as the protein of the invention. It will be appreciated by those skilled in the art that as a result of the degeneracy of the genetic code, a multitude of nucleotide sequences encoding the proteins, some bearing minimal homology to the nucleotide sequences of any known and naturally occurring gene, may be produced. The invention contemplates each and every possible variation of nucleotide sequence that can be made by selecting
combinations based on possible codon choices.
Also encompassed by the invention are polynucleotide sequences that are capable of hybridizing to the claimed nucleotide sequences, and in particular, those of the polynucleotides encoding human DG280, or a homologous protein as described in Example 1 , under various conditions of stringency. Hybridization conditions are based on the melting temperature (Tm) of the nucleic acid binding complex or probe, as taught in Wahl G.M. et al., (1987) Methods Enzymol. 152: 399-407 and Kimmel A.R., (1987) Methods Enzymol. 152: 507-511 , and may be used at a defined stringency. Preferably, hybridization under stringent conditions means that after washing for 1 h with 1 x SSC and 0.1% SDS at 50 °C, preferably at 55 °C, more preferably at 62 °C and most preferably at 68 °C, particularly for 1 h in 0.2 x SSC and 0.1 % SDS at 50 °C, preferably at 55 °C, more preferably at 62 °C and most preferably at 68 °C, a positive hybridization signal is observed. Altered nucleic acid sequences encoding the proteins which are encompassed by the invention include deletions, insertions or substitutions of different nucleotides resulting in a polynucleotide that encodes the same or a functionally equivalent protein.
The encoded proteins may also contain deletions, insertions or substitutions of amino acid residues, which produce a silent change and result in functionally equivalent proteins. Deliberate amino acid substitutions may be made on the basis of similarity in polarity, charge, solubility, hydrophobicity, hydrophilicity, and/or the amphipathic nature of the residues as long as the biological activity of the protein is retained. Furthermore, the invention relates to peptide fragments of the proteins or derivatives thereof such as cyclic peptides, retro-inverso peptides or peptide mimetics having a length of at least 4, preferably at least 6 and up to 50 amino acids.
Also included within the scope of the present invention are alleles of the genes encoding the protein of the invention or a homologous protein. As
used herein, an 'allele' or 'alleiic sequence' is an alternative form of the gene, which may result from at least one mutation in the nucleic acid sequence. Alleles may result in altered mRNAs or polypeptides whose structures or function may or may not be altered. Any given gene may have none, one or many alleiic forms. Common mutational changes, which give rise to alleles, are generally ascribed to natural deletions, additions or substitutions of nucleotides. Each of these types of changes may occur alone or in combination with the others, one or more times in a given sequence.
The nucleic acid sequences encoding the protein of the invention or a homologous protein may be extended utilizing a partial nucleotide sequence and employing various methods known in the art to detect upstream sequences such as promoters and regulatory elements. For example, one method which may be employed, 'restriction-site' PCR, uses universal primers to retrieve unknown sequence adjacent to a known locus (Sarkar G. et al., (1993) PCR Methods Applic. 2: 318-322). Inverse PCR may also be used to amplify or extend sequences using divergent primers based on a known region (Triglia T. et al., (1988) Nucleic Acids Res. 16: 8186). Another method which may be used is capture PCR which involves PCR amplification of DNA fragments adjacent to a known sequence in human and yeast artificial chromosome DNA (Lagerstrom M. et al., (1991 ) PCR Methods Applic. 1 : 111 -119). Another method which may be used to retrieve unknown sequences is that of Parker J.D. et al., (1991 ) Nucleic Acids Res. 19: 3055-3060. Additionally, one may use PCR, nested primers, and PROMOTERFINDER libraries to walk in genomic DNA (Clontech, Palo Alto, Calif.). This process avoids the need to screen libraries and is useful in finding intron/exon junctions.
In order to express a biologically active protein, the nucleotide sequences encoding the proteins or functional equivalents, may be inserted into appropriate expression vectors, i.e., a vector which contains the necessary elements for the transcription and translation of the inserted coding
sequence. Methods, which are well known to those skilled in the art, may be used to construct expression vectors containing sequences encoding the proteins and the appropriate transcriptional and translational control elements. These methods include in vitro recombinant DNA techniques, synthetic techniques, and in vivo genetic recombination. Such techniques are described in Sambrook, J. et al. (1989) Molecular Cloning, A Laboratory Manual, Cold Spring Harbor Press, Plainview, N.Y. and Ausubel, F.M. et al. (1989) Current Protocols in Molecular Biology, John Wiley & Sons, New York, N.Y.
In a further embodiment of the invention, natural, modified or recombinant nucleic acid sequences encoding the protein of the invention or a homologous protein may be ligated to a heterologous sequence to encode a fusion protein. Heterologous sequences are preferably located at the N-and/or C-terminus of the fusion protein.
A variety of expression vector/host systems may be utilized to contain and express sequences encoding the proteins or fusion proteins. These include, but are not limited to, micro-organisms such as bacteria transformed with recombinant bacteriophage, plasmid or cosmid DNA expression vectors; yeast transformed with yeast expression vectors; insect cell systems infected with virus expression vectors (e.g., baculovirus, adenovirus, adeno-associated virus, lentiverus, retrovirus); plant cell systems transformed with virus expression vectors (e.g., cauliflower mosaic virus, CaMV; tobacco mosaic virus, TMV) or with bacterial expression vectors (e.g., Ti or PBR322 plasmids); or animal cell systems.
The presence of polynucleotide sequences encoding the protein of the invention or a homologous protein in a sample can be detected by DNA-DNA or DNA-RNA hybridization or amplification using probes or portions or fragments of said polynucleotides. Nucleic acid amplification based assays involve the use of oligonucleotides or oligomers based on the sequences
specific for the gene to detect transformants containing DNA or RNA encoding the corresponding protein. As used herein 'oligonucleotides' or 'oligomers' refer to a nucleic acid sequence of at least about 10 nucleotides and as many as about 60 nucleotides, preferably about 15 to 30 nucleotides, and more preferably about 20-25 nucleotides, which can be used as a probe or amplimer.
A wide variety of labels and conjugation techniques are known by those skilled in the art and may be used in various nucleic acid and amino acid assays. Means for producing labeled hybridization or PCR probes for detecting polynucleotide sequences include oligo-labeling, nick translation, end-labeling of RNA probes, PCR amplification using a labeled nucleotide, or enzymatic synthesis. These procedures may be conducted using a variety of commercially available kits (Pharmacia & Upjohn, (Kalamazoo, Mich.); Promega (Madison Wis.); and U.S. Biochemical Corp., (Cleveland, Ohio).
Suitable reporter molecules or labels, which may be used for nucleic acid and protein assays, include radionuclides, enzymes, fluorescent, chemiluminescent or chromogenic agents as well as substrates, co-factors, inhibitors, magnetic particles, and the like.
Host cells transformed with nucleotide sequences encoding the protein of the invention may be cultured under conditions suitable for the expression and recovery of said protein from cell culture. The protein produced by a recombinant cell may be secreted or contained intracellularly depending on the sequence and/or the vector used. As will be understood by those of skill in the art, expression vectors containing polynucleotides, which encode the protein may be designed to contain signal sequences, which direct secretion of the protein through a prokaryotic or eukaryotic cell membrane. Other recombinant constructions may be used to join sequences encoding the protein to nucleotide sequence encoding a polypeptide domain, which will facilitate purification of soluble proteins. Such purification facilitating domains
include, but are not limited to, metal chelating peptides such as histidine-tryptophan modules that allow purification on immobilized metals, protein A domains that allow purification on immobilized immunoglobulin, and the domain utilized in the FLAG extension/affinity purification system (Immunex Corp., Seattle, Wash.) The inclusion of cleavable linker sequences such as those specific for Factor XA or Enterokinase (Invitrogen, San Diego, Calif.) between the purification domain and the desired protein may be used to facilitate purification.
Diagnostics and Therapeutics
The data disclosed in this invention show that the nucleic acids and proteins of the invention and effectors/modulators thereof are useful in diagnostic and therapeutic applications implicated, for example but not limited to, metabolic diseases or dysfunctions, including metabolic syndrome, obesity, and/or pancreatic diseases e.g. diabetes mellitus such as insulin dependent diabetes mellitus or non insulin dependent diabetes mellitus, as well as related disorders such as eating disorder, cachexia, hypertension, coronary heart disease, hypercholesterolemia, dyslipidemia, osteoarthritis, gallstones, or liver fibrosis. Particularly, the proteins, nucleic acids and effectors/ modulators are useful in applications associated with, accompanied by or caused by disturbances in the differentiation of preadipocytes to adipocytes. Hence, diagnostic and therapeutic uses for the proteins and nucleic acids of the invention are, for example but not limited to, the following: (i) small molecule drug target, (ii) antibody target (therapeutic, diagnostic, drug targeting/cytotoxic antibody), (iii) tissue regeneration in vitro and in vivo (regeneration for all these tissues and cell types composing these tissues and cell types derived from these tissues), (iv) diagnostic and/or prognostic marker, (v) protein therapy, (vi) gene therapy (gene delivery/gene ablation), and (vii) research tools.
The nucleic acids and protein of the invention and modulators/effectors
thereof are useful in diagnostic and therapeutic applications implicated in various applications as described below. For example, but not limited to, cDNAs encoding the protein of the invention may be useful in gene therapy, and the protein of the invention may be useful when administered to a subject in need thereof. By way of non-limiting example, the compositions of the present invention will have efficacy for treatment of patients suffering from, for example, but not limited to, metabolic disorders as described above.
The nucleic acids encoding the protein of the invention, a homologous protein, or a functional fragment thereof, may further be useful in diagnostic applications, wherein the presence or amount of the nucleic acids or the proteins are to be assessed. These materials are further useful in the generation of antibodies that bind immunospecifically to the novel substances of the invention may be used in therapeutic or diagnostic methods.
For example, in one aspect, antibodies, which are specific for the protein of the invention or a homologous protein, may be used directly as a modulator/effector, e.g. an antagonist or agonist or indirectly as a targeting or delivery mechanism for bringing a pharmaceutical agent to cells or tissue which express the protein. The antibodies may be generated using methods that are well known in the art. Such antibodies may include, but are not limited to, polyclonal, monoclonal, chimeric single chain, Fab fragments, and fragments produced by a Fab expression library. Neutralising antibodies, (i.e., those which inhibit dimer formation) are especially preferred for therapeutic use.
For the production of antibodies, various hosts including goats, rabbits, rats, mice, humans, and others, may be immunized by injection with the protein or any fragment or oligopeptide thereof which has immunogenic properties. Depending on the host species, various adjuvants may be used to increase immunological response. It is preferred that the peptides, fragments or oligopeptides used to induce antibodies to the protein have an amino acid
sequence consisting of at least five amino acids, and more preferably at least 10 amino acids.
Monoclonal antibodies to the proteins may be prepared using any technique that provides for the production of antibody molecules by continuous cell lines in culture. These include, but are not limited to, the hybridoma technique, the human B-cell hybridoma technique, and the EBV-hybridoma technique (Kδhler G. and Milstein C. (1975) Nature 256: 495-497; Kozbor D. et al. (1985) J. Immunol. Methods 81 : 31 -42; Cote R.J. et al., (1983) Proc. Natl. Acad. Sci. 80: 2026-2030; Cole S.P. et al., (1984) Mol Cell Biochem. 62: 109-120).
In addition, techniques developed for the production of 'chimeric antibodies', the splicing of mouse antibody genes to human antibody genes to obtain a molecule with appropriate antigen specificity and biological activity can be used (Morrison S.L. et al., (1984) Proc. Natl. Acad. Sci. 81 : 6851 -6855; Neuberger M.S. et al (1984) Nature 312: 604-608; Takeda S. et al., (1985) Nature 314: 452-454). Alternatively, techniques described for the production of single chain antibodies may be adapted, using methods known in the art, to produce single chain antibodies specific for the protein of the invention or a homologous protein. Antibodies with related specificity, but of distinct idiotypic composition, may be generated by chain shuffling from random combinatorial immunoglobulin libraries (Kang A.S. et al., (1991) Proc. Natl. Acad. Sci. 88: 11120-11123). Antibodies may also be produced by inducing in vivo production in the lymphocyte population or by screening recombinant immunoglobulin libraries or panels of highly specific binding reagents as disclosed in the literature (Orlandi R. et al., (1989) Proc. Natl. Acad. Sci. 86: 3833-3837; Winter G. and Milstein C, (1991) Nature 349: 293-299).
Antibody fragments which contain specific binding sites for the proteins may also be generated. For example, such fragments include, but are not limited to, the F(ab')2 fragments which can be produced by Pepsin digestion of the
antibody molecule and the Fab fragments which can be generated by reducing the disulfide bridges of F(ab')2 fragments. Alternatively, Fab expression libraries may be constructed to allow rapid and easy identification of monoclonal Fab fragments with the desired specificity (Huse W.D. et al., (1989) Science 246: 1275-1281 ).
Various immunoassays may be used for screening to identify antibodies having the desired specificity. Numerous protocols for competitive binding and immunoradiometric assays using either polyclonal or monoclonal antibodies with established specificities are well known in the art. Such immunoassays typically involve the measurement of complex formation between the protein and its specific antibody. A two-site, monoclonal-based immunoassay utilizing monoclonal antibodies reacive to two non-interfering protein epitopes are preferred, but a competitive binding assay may also be employed (Maddox D.E. et al., (1983) J. Exp. Med. 158: 1211 -1216).
In another embodiment of the invention, the polynucleotides of the invention or fragments thereof or nucleic acid modulator/effector molecules such as aptamers, antisense molecules, RNAi molecules, or ribozymes may be used for therapeutic purposes. In one aspect, aptamers, i.e. nucleic acid molecules, which are capable of binding to the protein of the invention and modulating its activity, may be generated by a screening and selection procedure involving the use of combinatorial nucleic acid libraries.
In a further aspect, antisense molecules may be used in situations in which it would be desirable to block the transcription of the mRNA. In particular, cells may be transformed with sequences complementary to polynucleotides encoding the protein of the invention or a homologous protein. Thus, antisense molecules may be used to modulate/effect protein activity or to achieve regulation of gene function. Such technology is now well known in the art, and sense or antisense oligomers or larger fragments, can be designed from various locations along the coding or control regions of
sequences encoding the proteins. Expression vectors derived from retroviruses, adenovirus, herpes or vaccinia viruses or from various bacterial plasmids may be used for delivery of nucleotide sequences to the targeted organ, tissue or cell population. Methods, which are well known to those skilled in the art, can be used to construct recombinant vectors, which will express antisense molecules complementary to the polynucleotides of the genes encoding the protein of the invention or a homologous protein. These techniques are described both in Sambrook et al. (supra) and in Ausubel et al. (supra). Genes encoding the protein of the invention or a homologous protein can be turned off by transforming a cell or tissue with expression vectors, which express high levels of polynucleotides that encode the protein of the invention or a homologous protein or a functional fragment thereof. Such constructs may be used to introduce untranslatable sense or antisense sequences into a cell. Even in the absence of integration into the DNA, such vectors may continue to transcribe RNA molecules until they are disabled by endogenous nucleases. Transient expression may last for a month or more with a non-replicating vector and even longer if appropriate replication elements are part of the vector system.
As mentioned above, modifications of gene expression can be obtained by designing antisense molecules, e.g. DNA, RNA or PNA, to the control regions of the genes encoding the protein of the invention or a homologous protein, i.e., the promoters, enhancers, and introns. Oligonucleotides derived from the transcription initiation site, e.g., between positions -10 and +10 from the start site, are preferred. Similarly, inhibition can be achieved using "triple helix" base-pairing methodology. Triple helix pairing is useful because it cause inhibition of the ability of the double helix to open sufficiently for the binding of polymerases, transcription factors or regulatory molecules. Recent therapeutic advances using triplex DNA have been described in the literature (Gee, J. E. et al. (1994) In; Huber, B. E. and B. I. Carr, Molecular and Immunologic Approaches, Futura Publishing Co., Mt. Kisco, N.Y.). The antisense molecules may also be designed to block translation of mRNA by
preventing the transcript from binding to ribosomes.
Ribozymes, enzymatic RNA molecules, may also be used to catalyze the specific cleavage of RNA. The mechanism of ribozyme action involves sequence-specific hybridization of the ribozyme molecule to complementary target RNA, followed by endonucleolytic cleavage. Examples, which may be used, include engineered hammerhead motif ribozyme molecules that can be specifically and efficiently catalyze endonucleolytic cleavage of sequences encoding the protein of the invention or a homologous protein. Specific ribozyme cleavage sites within any potential RNA target are initially identified by scanning the target molecule for ribozyme cleavage sites which include the following sequences: GUA, GUU, and GUC. Once identified, short RNA sequences of between 15 and 20 ribonucleotides corresponding to the region of the target gene containing the cleavage site may be evaluated for secondary structural features which may render the oligonucleotide inoperable. The suitability of candidate targets may also be evaluated by testing accessibility to hybridization with complementary oligonucleotides using ribonuclease protection assays.
Nucleic acid effector/modulator molecules, e.g. antisense molecules and ribozymes of the invention may be prepared by any method known in the art for the synthesis of nucleic acid molecules. These include techniques for chemically synthesizing oligonucleotides such as solid phase phosphoramidite chemical synthesis. Alternatively, RNA molecules may be generated by in vitro and in vivo transcription of DNA sequences. Such DNA sequences may be incorporated into a variety of vectors with suitable RNA polymerase promoters such as T7 or SP6. Alternatively, these cDNA constructs that synthesize antisense RNA constitutively or inducibly can be introduced into cell lines, cells or tissues. RNA molecules may be modified to increase intracellular stability and half-life. Possible modifications include, but are not limited to, the addition of flanking sequences at the 5' and/or 3' ends of the molecule or modifications in the nucleobase, sugar and/or phosphate
moieties, e.g. the use of phosphorothioate or 2' O-methyl rather than phosphodiesterase linkages within the backbone of the molecule. This concept is inherent in the production of PNAs and can be extended in all of these molecules by the inclusion of non-traditional bases such as inosine, queosine, and wybutosine, as well as acetyl-, methyl-, thio-, and similarly modified forms of adenine, cytidine, guanine, thymine, and uridine which are not as easily recognized by endogenous endonucleases.
Many methods for introducing vectors into cells or tissues are available and equally suitable for use in vivo, in vitro, and ex vivo. For ex vivo therapy, vectors may be introduced into stem cells taken from the patient and clonally propagated for autologous transplant back into that same patient. Delivery by transfection and by liposome injections may be achieved using methods, which are well known in the art. Any of the therapeutic methods described above may be applied to any suitable subject including, for example, mammals such as dogs, cats, cows, horses, rabbits, monkeys, and most preferably, humans.
An additional embodiment of the invention relates to the administration of a pharmaceutical composition, in conjunction with a pharmaceutically acceptable carrier, for any of the therapeutic effects discussed above. Such pharmaceutical compositions may consist of the nucleic acids or protein of the invention or homologous nucleic acids or proteins, antibodies to the protein of the invention or a homologous protein, mimetics, agonists, antagonists or inhibitors of the protein of the invention or homologous proteins or nucleic acids. The compositions may be administered alone or in combination with at least one other agent, such as stabilizing compound, which may be administered in any sterile, biocompatible pharmaceutical carrier, including, but not limited to, saline, buffered saline, dextrose, and water. The compositions may be administered to a patient alone or in combination with other agents, drugs or hormones. The pharmaceutical compositions utilized in this invention may be administered by any number of
routes including, but not limited to, oral, intravenous, intramuscular, intra-arterial, intramedullary, intrathecal, intraventricular, transdermal, subcutaneous, intraperitoneal, intranasal, enteral, topical, sublingual or rectal means.
In addition to the active ingredients, these pharmaceutical compositions may contain suitable pharmaceutically-acceptable carriers comprising excipients and auxiliaries, which facilitate processing of the active compounds into preparations, which can be used pharmaceutically. Further details on techniques for formulation and administration may be found in the latest edition of Remington's Pharmaceutical Sciences (Maack Publishing Co., Easton, Pa.).
The pharmaceutical compositions of the present invention may be manufactured in a manner that is known in the art, e.g., by means of conventional mixing, dissolving, granulating, dragee-making, levigating, emulsifying, encapsulating, entrapping or lyophilizing processes. The pharmaceutical composition may be provided as a salt and can be formed with many acids. After pharmaceutical compositions have been prepared, they can be placed in an appropriate container and labeled for treatment of an indicated condition. For administration of proteins, such labeling would include amount, frequency, and method of administration.
Pharmaceutical compositions suitable for use in the invention include compositions wherein the active ingredients are contained in an effective amount to achieve the intended purpose. The determination of an effective dose is well within the capability of those skilled in the art. For any compounds, the therapeutically effective dose can be estimated initially either in cell culture assays, e.g., of preadipocyte cell lines or in animal models, usually mice, rabbits, dogs or pigs. The animal model may also be used to determine the appropriate concentration range and route of administration. Such information can then be used to determine useful doses and routes for
administration in humans. A therapeutically effective dose refers to that amount of active ingredient, for example the nucleic acid or protein of the invention or a functional fragment thereof, or an antibody, which is sufficient for treating a specific condition. Therapeutic efficacy and toxicity may be determined by standard pharmaceutical procedures in cell cultures or experimental animals, e.g., ED50 (the dose therapeutically effective in 50% of the population) and LD50 (the dose lethal to 50% of the population). The dose ratio between therapeutic and toxic effects is the therapeutic index, and it can be expressed as the ratio, LD50/ED50. Pharmaceutical compositions, which exhibit large therapeutic indices, are preferred. The data obtained from cell culture assays and animal studies is used in formulating a range of dosage for human use. The dosage contained in such compositions is preferably within a range of circulating concentrations that include the ED50 with little or no toxicity. The dosage varies within this range depending upon the dosage from employed, sensitivity of the patient, and the route of administration. The exact dosage will be determined by the practitioner, in light of factors related to the subject that requires treatment. Dosage and administration are adjusted to provide sufficient levels of the active moiety or to maintain the desired effect. Factors, which may be taken into account, include the severity of the disease state, general health of the subject, age, weight, and gender of the subject, diet, time and frequency of administration, drug combination(s), reaction sensitivities, and tolerance/response to therapy. Long-acting pharmaceutical compositions may be administered every 3 to 4 days, every week or once every two weeks depending on half-life and clearance rate of the particular formulation. Normal dosage amounts may vary from 0.1 to 100,000 micrograms, up to a total dose of about 1 g, depending upon the route of administration. Guidance as to particular dosages and methods of delivery is provided in the literature and generally available to practitioners in the art. Those skilled in the art employ different formulations for nucleotides than for proteins or their inhibitors. Similarly, delivery of polynucleotides or polypeptides will be specific to particular cells, conditions, locations, etc.
In another embodiment, antibodies which specifically bind to the proteins may be used for the diagnosis of conditions or diseases characterized by or associated with over- or underexpression of the protein of the invention or a homologous protein or in assays to monitor patients being treated with the protein of the invention or a homologous protein, or modulators/effectors thereof, e.g. agonists, antagonists, or inhibitors. Diagnostic assays include methods which utilize the antibody and a label to detect the protein in human body fluids or extracts of cells or tissues. The antibodies may be used with or without modification, and may be labeled by joining them, either covalently or non-covalently, with a reporter molecule. A wide variety of reporter molecules which are known in the art may be used several of which are described above.
A variety of protocols including ELISA, RIA, and FACS for measuring proteins are known in the art and provide a basis for diagnosing altered or abnormal levels of gene expression. Normal or standard values for gene expression are established by combining body fluids or cell extracts taken from normal mammalian subjects, preferably human, with antibodies to the protein under conditions suitable for complex formation. The amount of standard complex formation may be quantified by various methods, but preferably by photometry, means. Quantities of protein expressed in control and disease, samples from biopsied tissues are compared with the standard values. Deviation between standard and subject values establishes the parameters for diagnosing disease.
In another embodiment of the invention, the polynucleotides specific for the protein of the invention or a homologous protein may be used for diagnostic purposes. The polynucleotides, which may be used, include oligonucleotide sequences, antisense RNA and DNA molecules, and PNAs. The polynucleotides may be used to detect and quantitate gene expression in biopsied tissues in which gene expression may be correlated with disease.
The diagnostic assay may be used to distinguish between absence, presence, and excess gene expression, and to monitor regulation of protein levels during therapeutic intervention.
In one aspect, hybridization with probes which are capable of detecting polynucleotide sequences, including genomic sequences, encoding the protein of the invention or a homologous protein or a closely related molecule, may be used to identify nucleic acid sequences which encode the respective protein. The hybridization probes of the subject invention may be DNA or RNA and derived from the nucleotide sequence of the polynucleotide encoding the protein of the invention or from a genomic sequence including promoter, enhancer elements, and introns of the naturally occurring gene. Hybridization probes may be labeled by a variety of reporter groups, for example, radionuclides such as 32P or 35S or enzymatic labels, such as alkaline phosphatase coupled to the probe via avidin/biotin coupling systems, and the like.
Polynucleotide sequences specific for the protein of the invention or homologous nucleic acids may be used for the diagnosis of conditions or diseases, which are associated with the expression of the protein. Examples of such conditions or diseases include, but are not limited to, metabolic diseases and disorders, including obesity and diabetes. Polynucleotide sequences specific for the protein of the invention or a homologous protein may also be used to monitor the progress of patients receiving treatment for metabolic diseases and disorders, including obesity and diabetes. The polynucleotide sequences may be used qualitative or quantitative assays, e.g. in Southern or Northern analysis, dot blot or other membrane-based technologies; in PCR technologies; or in dip stick, pin, ELISA or chip assays utilizing fluids or tissues from patient biopsies to detect altered gene expression. Such qualitative or quantitative methods are well known in the art.
In a particular aspect, the nucleotide sequences specific for the protein of the invention or homologous nucleic acids may be useful in assays that detect activation or induction of various metabolic diseases or dysfunctions, including metabolic syndrome, obesity, and/or diabetes as well as related disorders such as eating disorder, cachexia, hypertension, coronary heart disease, hypercholesterolemia, dyslipidemia, osteoarthritis, gallstones, or liver fibrosis. The nucleotide sequences may be labeled by standard methods, and added to a fluid or tissue sample from a patient under conditions suitable for the formation of hybridization complexes. After a suitable incubation period, the sample is washed and the signal is quantitated and compared with a standard value. If the amount of signal in the biopsied or extracted sample is significantly altered from that of a comparable have hybridized with nucleotide sequences in the sample, and the presence of altered levels of nucleotide sequences encoding the protein of the invention or a homologous protein in the sample indicates the presence of the associated disease. Such assays may also be used to evaluate the efficacy of a particular therapeutic treatment regimen in animal studies, in clinical trials or in monitoring the treatment of an individual patient.
In order to provide a basis for the diagnosis of a disease associated with expression of the protein of the invention or a homologous protein, a normal or standard profile for expression is established. This may be accomplished by combining body fluids or cell extracts taken from normal subjects, either animal or human, with a sequence or a fragment thereof, which is specific for the nucleic acids encoding the protein of the invention or homologous nucleic acids, under conditions suitable for hybridization or amplification. Standard hybridization may be quantified by comparing the values obtained from normal subjects with those from an experiment where a known amount of a substantially purified polynucleotide is used. Standard values obtained from normal samples may be compared with values obtained from samples from patients who are symptomatic for disease. Deviation between standard and subject values is used to establish the presence of disease. Once disease is
established and a treatment protocol is initiated, hybridization assays may be repeated on a regular basis to evaluate whether the level of expression in the patient begins to approximate that, which is observed in the normal patient. The results obtained from successive assays may be used to show the efficacy of treatment over a period ranging from several days to months.
With respect to metabolic or pancreatic diseases such as described above the presence of an unusual amount of transcript in biopsied tissue from an individual may indicate a predisposition for the development of the disease or may provide a means for detecting the disease prior to the appearance of actual clinical symptoms. A more definitive diagnosis of this type may allow health professionals to employ preventative measures or aggressive treatment earlier thereby preventing the development or further progression of the metabolic diseases and disorders.
Additional diagnostic uses for oligonucleotides designed from the sequences encoding the protein of the invention or a homologous protein may involve the use of PCR. Such oligomers may be chemically synthesized, generated enzymatically or produced from a recombinant source. Oligomers will preferably consist of two nucleotide sequences, one with sense orientation (5'.fwdarw.3') and another with antisense (3'.rarw.5'), employed under optimized conditions for identification of a specific gene or condition. The same two oligomers, nested sets of oligomers or even a degenerate pool of oligomers may be employed under less stringent conditions for detection and/or quantification of closely related DNA or RNA sequences.
Methods which may also be used to quantitate the expression of the protein of the invention or a homologous protein include radiolabeling or biotinylating nucleotides, coamplification of a control nucleic acid, and standard curves onto which the experimental results are interpolated (Melby P.C. et al., (1993) J. Immunol. Methods, 159: 235-244; Duplaa C. et al., (1993) Anal. Biochem. 212: 229-236). The speed of quantification of multiple samples may
be accelerated by running the assay in an ELISA format where the oligomer of interest is presented in various dilutions and a spectrophotometric or colorimetric response gives rapid quantification.
In another embodiment of the invention, the nucleic acid sequences may also be used to generate hybridization probes, which are useful for mapping the naturally occurring genomic sequence. The sequences may be mapped to a particular chromosome or to a specific region of the chromosome using well known techniques. Such techniques include FISH, FACS or artificial chromosome constructions, such as yeast artificial chromosomes, bacterial artificial chromosomes, bacterial P1 constructions or single chromosome cDNA libraries as reviewed in Price CM., (1993) Blood Rev. 7: 127-134, and Trask B.J., (1991) Trends Genet. 7: 149-154. FISH is described in Verma R.S. and Babu A., (1989) Human Chromosomes: A Manual of Basic Techniques, Pergamon Press, New York, N.Y. The results may be correlated with other physical chromosome mapping techniques and genetic map data. Examples of genetic map data can be found in the 1994 Genome Issue of Science (265:1981 f). Correlation between the location of the gene encoding the protein of the invention on a physical chromosomal map and a specific disease or predisposition to a specific disease, may help to delimit the region of DNA associated with that genetic disease.
The nucleotide sequences of the subject invention may be used to detect differences in gene sequences between normal, carrier or affected individuals. For example, an analysis of polymorphisms, e.g. single nucleotide polymorphisms may be carried out. Further, in situ hybridization of chromosomal preparations and physical mapping techniques such as linkage analysis using established chromosomal markers may be used for extending genetic maps. Often the placement of a gene on the chromosome of another mammalian species, such as mouse, may reveal associated markers even if the number or arm of a particular human chromosome is not known. New sequences can be assigned to chromosomal arms or parts thereof, by
physical mapping. This provides valuable information to investigators searching for disease genes using positional cloning or other gene discovery techniques. Once the disease or syndrome has been crudely localized by genetic linkage to a particular genomic region, for example, AT to 11q22-23 (Gatti R.A. et al., (1988) Nature 336: 577-580), any sequences mapping to that area may represent associated or regulatory genes for further investigation. The nucleotide sequences of the subject invention may also be used to detect differences in the chromosomal location due to translocation, inversion, etc. among normal, carrier or affected individuals.
In another embodiment of the invention, the protein of the invention, its catalytic or immunogenic fragments or oligopeptides thereof, an in vitro model, a genetically altered cell or animal, can be used for screening libraries of compounds in any of a variety of drug screening techniques. One can identify modulators/effectors, e.g. receptors, ligands or substrates that bind to, modulate or mimic the action of the protein of the invention. The protein or fragment thereof employed in such screening may be free in solution, affixed to a solid support, borne on a cell surface, or located intracellularly. The formation of binding complexes, between the protein of the invention and the agent tested, may be measured. Agents could also, either directly or indirectly, influence the activity of the protein of the invention.
In addition activity of DG280 or homologous proteins against their physiological substrate(s) or derivatives thereof could be measured in cell-based or cell-free assays. Agents may also interfere with posttranslational modifications of the protein of the invention, such as phosphorylation and dephosphorylation, farnesylation, palmitoylation, acetylation, alkylation, ubiquitination, proteolytic processing, subcellular localization or degradation. Moreover, agents could influence the dimerization or oligomerization of the protein of the invention or, in a heterologous manner, of the protein of the invention with other proteins, for example, but not exclusively, docking proteins, enzymes, receptors, ion
channels, uncoupling proteins, or translation factors. Agents could also act on the physical interaction of the proteins of this invention with other proteins, which are required for protein function, for example, but not exclusively, their downstream signaling.
Methods for determining protein-protein interaction are well known in the art. For example binding of a fluorescently labeled peptide derived from the protein of the invention to the interacting protein (or vice versa) could be detected by a change in polarisation. In case that both binding partners, which can be either the full length proteins as well as one binding partner as the full length protein and the other just represented as a peptide are fluorescently labeled, binding could be detected by fluorescence energy transfer (FRET) from one fluorophore to the other. In addition, a variety of commercially available assay principles suitable for detection of protein-protein interaction are well known In the art, for example but not exclusively AlphaScreen (PerkinElmer) or Scintillation Proximity Assays (SPA) by Amersham. Alternatively, the interaction of the protein of the invention with cellular proteins could be the basis for a cell-based screening assay, in which both proteins are fluorescently labeled and interaction of both proteins is detected by analysing cotranslocation of both proteins with a cellular imaging reader, as has been developed for example, but not exclusively, by Cellomics or EvotecOAI. In all cases the two or more binding partners can be different proteins with one being the protein of the invention, or in case of dimerization and/or oligomerization the protein of the invention itself. The protein of the invention, for which one target mechanism of interest, but not the only one, would be such protein/protein interaction, is the DG280 protein.
A variety of assay formats to measure receptor-ligand binding or receptor downstream signalling are well known in the art.
For example, the method of radioligand binding for studying G protein-
coupled receptors (GPCRs) is described by Keen M. (editor, (1998) Receptor Binding Techniques, Humana Press Inc.).
In addition, commercially available secondary assays suitable for detection of agonist and antagonist activities on GPCRs measure levels of cAMP produced upon modulation of adenylate cyclase activity by GPCRs. The assays are based on the competition between endogenous cAMP and exogenously added labeled cAMP. (e.g. AlphaScreen; PerkinElmer).
A number of response element-based reporter systems have been developed that enable the study of GPCR function. For example, a colorimetric assay for measuring activation of Gs- and Gq-coupled signaling pathways was described by Chen W. et al. (1995, Anal Biochem. 226: 349- 354). The assay utilizes a beta-galactosidase (lacZ) gene fused to five copies of the cyclic AMP response element (CRE) to detect the activation of CRE- - binding protein that results from an increase in intracellular cAMP or calcium. Alternatively, but comparable assay systems are well known in the art, e.g. luciferase reporter genes linked to CREs.
Alternatively, the calcium signalling could be the basis for a screening assay, in which calcium ion flux can be measured as an end point for GPCR stimulated signal transduction. For example, but not exclusively, widely applicated is a fluorescence-based assay system for the measurement of intracellular calcium developed by Molecular Devices. This application is, for example, described in Chambers C. et al., (2003) Comb Chem High Throughput Screen. 6: 355-362.
A further assay system uses the secondary regulation of the receptor by binding to a secondary regulatory molecule, particularly on a cytoplasmic domain of the receptor (e.g., Beta arrestin). The GPCR activity can be monitored by detecting movement of Beta arrestin in a cell (e.g. Transfluor assay; Cellomics).
Of particular interest are screening assays for agents that have a low toxicity for mammalian cells. The term "agent" as used herein describes any molecule, e.g. protein or pharmaceutical, with the capability of altering or mimicking the physiological function of the protein of the invention. Candidate agents encompass numerous chemical classes, though typically they are organic molecules, preferably small organic compounds having a molecular weight of more than 50 and less than about 2,500 Daltons. Candidate agents comprise functional groups necessary for structural interaction with proteins, particularly hydrogen bonding, and typically include at least an amine, carbonyl, hydroxyl or carboxyl group, preferably at least two of the functional chemical groups. The candidate agents often comprise carbocyclic or heterocyclic structures and/or aromatic or polyaromatic structures substituted with one or more of the above functional groups.
Candidate agents are also found among biomolecules including peptides, saccharides, fatty acids, steroids, purines, pyrimidines, nucleic acids and derivatives, structural analogs or combinations thereof. Candidate agents are obtained from a wide variety of sources including libraries of synthetic or natural compounds. For example, numerous means are available for random and directed synthesis of a wide variety of organic compounds and biomolecules, including expression of randomized oligonucleotides and oligopeptides. Alternatively, libraries of natural compounds in the form of bacterial, fungal, plant and animal extracts are available or readily produced. Additionally, natural or synthetically produced libraries and compounds are readily modified through conventional chemical, physical and biochemical means, and may be used to produce combinatorial libraries. Known pharmacological agents may be subjected to directed or random chemical modifications, such as acylation, alkylation, esterification, amidification, etc. to produce structural analogs. Where the screening assay is a binding assay, one or more of the molecules may be joined to a label, where the label can directly or indirectly provide a detectable signal.
Another technique for drug screening, which may be used, provides for high throughput screening of compounds having suitable binding affinity to the protein of interest as described in published PCT application WO84/03564. In this method, as applied to the protein of the invention large numbers of different small test compounds, e.g. aptamers, peptides, low-molecular weight compounds etc., are provided or synthesized on a solid substrate, such as plastic pins or some other surface. The test compounds are reacted with the proteins or fragments thereof, and washed. Bound proteins are then detected by methods well known in the art. Purified proteins can also be coated directly onto plates for use in the aforementioned drug screening techniques. Alternatively, non-neutralizing antibodies can be used to capture the peptide and immobilize it on a solid support.
In another embodiment, one may use competitive drug screening assays in which neutralizing antibodies capable of binding the protein specifically compete with a test compound for binding the protein. In this manner, the antibodies can be used to detect the presence of any peptide, which shares one or more antigenic determinants with DG280 or a homologous protein.
The nucleic acids encoding the protein of the invention can be used to generate transgenic animals or site-specific gene modifications in cell lines. These transgenic non-human animals are useful in the study of the function and regulation of said protein in vivo. Transgenic animals, particularly mammalian transgenic animals, can serve as a model system for the investigation of many developmental and cellular processes common to humans. A variety of non-human models of metabolic disorders can be used to test modulators/effectors of the protein of the invention. Misexpression (for example, overexpression or lack of expression) of the protein of the invention, particular feeding conditions, and/or administration of biologically active compounds can create models of metablic disorders.
In one embodiment of the invention, such assays use mouse models of insulin resistance and/or diabetes, such as mice carrying gene knockouts in the leptin pathway (for example, ob (leptin) or db (leptin receptor) mice). Such mice develop typical symptoms of diabetes, show hepatic lipid accumulation and frequently have increased plasma lipid levels (see Bruning J.C. et al, (1998) Mol. Cell. 2: 559-569). Susceptible wild type mice (for example C57BI/6) show similiar symptoms if fed a high fat diet. In addition to testing the expression of the protein of the invention in such mouse strains (see Examples section), these mice could be used to test whether administration of a candidate modulator/effector alters for example lipid accumulation in the liver, in plasma, or adipose tissues using standard assays well known in the art, such as FPLC, colorimetric assays, blood glucose level tests, insulin tolerance tests and others.
Transgenic animals may be made through homologous recombination in non-human embryonic stem cells, where the normal locus of the gene encoding the protein of the invention is altered. Alternatively, a nucleic acid construct encoding the protein of the invention is injected into oocytes and is randomly integrated into the genome. Vectors for stable integration include plasmids, retroviruses and other animal viruses, yeast artificial chromosomes (YACs), and the like. The modified cells or animal are useful in the study of the function and regulation of the protein of the invention. For example, a series of small deletions and/or substitutions may be made in the gene that encodes the protein of the invention to determine the role of particular domains of the protein, functions in pancreatic differentiation, etc.
Furthermore, variants of the gene of the invention like specific constructs of interest include anti-sense molecules, which will block the expression of the protein of the invention, or expression of dominant negative mutations. A detectable marker, such as for example lac-Z or luciferase may be introduced in the locus of the gene of the invention, where up regulation of expression of the gene of the invention will result in an easily detected change in
phenotype.
One may also provide for expression of the genes of the invention or variants thereof in cells or tissues where it is not normally expressed or at abnormal times of development. In addition, by providing expression of the protein of the invention in cells in which they are not normally produced, one can induce changes in cell behavior.
DNA constructs for homologous recombination will comprise at least portions of the genes of the invention with the desired genetic modification, and will include regions of homology to the target locus. DNA constructs for random integration do not need to contain regions of homology to mediate recombination. Conveniently, markers for positive and negative selection are included. DNA constructs for random integration will consist of the nucleic acids encoding the protein of the invention, a regulatory element (promoter), an intron and a poly-adenylation signal. Methods for generating cells having targeted gene modifications through homologous recombination are known in the art. For non-human embryonic stem (ES) cells, an ES cell line may be employed, or embryonic cells may be obtained freshly from a host, e.g. mouse, rat, guinea pig, etc. Such cells are grown on an appropriate fibroblast-feeder layer and are grown in the presence of leukemia inhibiting factor (LIF).
When non-human ES or embryonic cells or somatic plu ipotent stem cells have been transfected, they may be used to produce transgenic animals. After transfection, the ceils are plated onto a feeder layer in an appropriate medium. Cells containing the construct may be selected by employing a selective medium. After sufficient time for colonies to grow, they are picked and analyzed for the occurrence of homologous recombination or integration of the construct. Those colonies that are positive may then be used for embryo transfection and morula aggregation. Briefly, morulae are obtained from 4 to 6 week old superovulated females, the Zona Pellucida is removed
and the morulae are put into small depressions of a tissue culture dish. The ES cells are trypsinized, and the modified cells are placed into the depression closely to the morulae. On the following day the aggregates are transfered into the uterine horns of pseudopregnant females. Females are then allowed to go to term. Chimeric offsprings can be readily detected by a change in coat color and are subsequently screened for the transmission of the mutation into the next generation (F1 -generation). Offspring of the F1 -generation are screened for the presence of the modified gene and males and females having the modification are mated to produce homozygous progeny. If the gene alterations cause lethality at some point in development, tissues or organs can be maintained as allogenic or congenic grafts or transplants, or in vitro culture. The transgenic animals may be any non-human mammal, such as laboratory animal, domestic animals, etc., for example, mouse, rat, guinea pig, sheep, cow, pig, and others. The transgenic animals may be used in functional studies, drug screening, and other applications and are useful in the study of the function and regulation of the protein of the invention in vivo.
Finally, the invention also relates to a kit comprising at least one of (a) a nucleic acid molecule coding for the protein of the invention or a functional fragment thereof;
(b) the protein of the invention or a functional fragment or an isoform thereof;
(c) a vector comprising the nucleic acid of (a); (d) a host cell comprising the nucleic acid of (a) or the vector of (c);
(e) a polypeptide encoded by the nucleic acid of (a);
(f) a fusion polypeptide encoded by the nucleic acid of (a);
(g) an antibody, an aptamer or another modulator/effector of the nucleic acid of (a) or the polypeptide of (b), (e), or (f) and (h) an anti-sense oligonucleotide of the nucleic acid of (a).
The kit may be used for diagnostic or therapeutic purposes or for screening
applications as described above. The kit may further contain user instructions.
The Figures show:
Figure 1 shows the expression of DG280 during human preadipocyte to adipocyte differentiation.
Figure 1 A shows the real-time PCR analysis of DG280 expression in human abdominal-derived (pre-) adipocytes during differentiation. DG280 expression is clearly upregulated at an early stage of development. X-axis: days of differentiation, Y-axis: fold expression relative to delta CT(36). Figure 1 B shows the real-time PCR analysis of DG280 expression in human mammary gland-derived (pre-) adipocytes during differentiation. Shown are DG280 expression on day 0, day 6, and day 12 of adipocyte differentiation.
Figure 2 shows the real-time PCR analysis of DG280 expression in different human adipocyte tissues (visceral and subcutane adipocyte tissues).
Figure 3 shows the expression of DG280 in human tissue. Shown is the microarray analysis of DG280 expression in human primary abdominal adipocyte cells (PAAT; columns 1 and 2), in human primary adipose mammary gland cells (PAMG; columns 3 and 4) and in a human preadipocyte cell line (SGBS; columns 5 and 6) during the differentiation from preadipocytes to mature adipocytes.
The examples illustrate the invention:
Example 1 : Identification of mammalian genes and proteins
The term "polynucleotide comprising the nucleotide sequence as shown in GenBank Accession number" relates to the expressible gene of the nucleotide sequences deposited under the corresponding GenBank
Accession number. The term "GenBank Accession number" relates to NCBI GenBank database entries (Ref.: Benson D.A. et al., (2000) Nucleic Acids Res. 28: 15-18).
DG280 relates to GenBankAccession Number NM_012193 (nucleic acid) and the protein encoded by this sequence, e.g. GenBankAccession number NP_036325 (protein) (Kirikoshi et al., 1999, Biochem. Biophys. Res. Commun. 264 (3), 955-961).
Further, DG280 or homologous proteins and nucleic acid molecules coding therefore are obtainable from other vertebrate species, e.g. mammals or birds.
Example 2: Expression of the polypeptides in human tissues - TaqMan analysis
To analyse the expression of the polypeptides disclosed in this invention, different regions of human adipose tissue depots (visceral: hepato- duodenale; subcutaneous: abdominal) were isolated according to standard procedures known to those skilled in the art, snap frozen in liquid nitrogen and stored at -80 °C until needed.
For analyzing the role of the proteins disclosed in this invention in the in vitro differentiation of mammalian cell culture cells for the conversion of preadipocytes to adipocytes, human adipose tissue (subcutaneous abdominal- and mammary gland-derived) obtained from elective surgery was used to isolate preadipocytes. Human preadipocyte isolation and differentiation was carried out as described previously (Hauner et al., 2001 , Meth. Mol. Biol. 155:239-247). In brief, subcutanous adipose tissue was used to crudely prepare fat pads by liberating from connecting tissue and blood vessels. After collagenase (Collagenase Typl CLS; Biochrom KG; approx. 200 U/ml final cone, in 10% BSA/PBS) digest at 37 °C for 90 minutes cells
were treated with Erythrocyte lysing buffer (155 mM NH4CI, 5.7 mM K2HPO4, 0.1 mM EDTA, pH 7.3) at room temperature for 5-10 min. Cells are filtered through nylon-tissue (150μm) and pelleted by centrifugation at 200xg for 10 minutes, resolved in DMEM/HAM F12 (Invitro) and filtered again (BD Falcon 5 cell strainer 70μm). Cells are cultured in basal medium (DMEM/HAM F12, 1% Pen/Strep, 33 μM pantothenate/17 μM biotin) supplemented with 10% FCS (not heat-inactivated).
Induction of differentiation: Preadipocytes were grown in serum-containingo medium until reaching confluency (defined as day 0: dO). To induce differentiation to mature adipocytes cells were washed with PBS buffer and then cultered in serum-free basal medium supplemented with 20 nM insulin (Sigma), 0.01 mg/ml transferrin (Sigma), 100 nM hydrocortisone (Sigma), and 0.2 nM T3 (Sigma) for up to 14 days. Initiation of differentiation was achieved5 adding 25 nM dexamethasone, 250 μM 1 -methyl-3-isobutylxanthine (IBMX; Sigma), and 3 μM ciglitizone (Sigma) during the first four days of differentiation (d0-d4). Media changes were performed on dO and d4. At various time points of the differentiation procedure, beginning with day 0 (day of confluence; hormone addition) suitable aliquots of cells were taken ando analyzed.
RNA was isolated from tissues and cells using Trizol Reagent (for example, from Invitrogen, Karlsruhe, Germany) and further purified with the RNeasy Kit (for example, from Qiagen, Germany) in combination with an5 DNase-treatment according to the instructions of the manufacturers and as known to those skilled in the art. Total RNA was reverse transcribed (preferrably using Superscript II RNaseH- Reverse Transcriptase, from Invitrogen, Karlsruhe, Germany) and subjected to Taqman analysis preferrably using the Taqman 2xPCR Master Mix (from Applied Biosystems,0 Weiterstadt, Germany; the Mix contains according to the Manufacturer for example AmpliTaq Gold DNA Polymerase, AmpErase UNG, dNTPs with dUTP, passive reference Rox and optimized buffer components) on a
GeneAmp 5700 Sequence Detection System (from Applied Biosystems, Weiterstadt, Germany).
Taqman analysis was performed preferably using the following primer/probe pairs:
For the amplification of human DG280 sequence:
Human DG280 forward primer (SEQ ID NO: 1): 5'- CAC TGT CAT CCT AGA AGG CTT CTG -3'; human DG280 reverse primer (SEQ ID NO: 2): 5'- AAC CTC GGA GAG AAG ATG GAC C -3'; human DG280 Taqman probe (SEQ ID NO: 3): (5/6-FAM)- AAG AGC CAC TCT GCG CCA CAA AGG T -(5/ 6-TAMRA).
In Figure 1 the relative RNA-expression is shown on the Y-axis. In Figure 1 A and 1 B the X-axis represents the time axis. "dO" refers to day 0 (start of the experiment), "d2" - "d14" refers to day 2 - day 14 of adipocyte differentiation. In Figure 2, the tissues tested are given on the X-axis.
The function of DG280 in human metabolism was validated by analyzing the expression of the transcripts in human tissues and by analyzing the role in human adipocyte differentiation.
Expression profiling studies clearly show the particular relevance of DG280 as regulator of energy metabolism in humans. DG280 expression is significanly up-regulated during differentiation from human preadipocytes to mature adipocytes (adipogenesis) in abdominal-derived (Figure 1 A) and in mammary gland-derived (Figure 1 B) cells. In addition, we found in this invention an abundant expression of DG280 in both human visceral and subcutaneous adipose tissues (Figure 2). These findings confirm a significant involvement of DG280 in the regulation of energy homeostasis in humans, in particular, in the regulation of adipocyte differentiation.
Example 3. Microarray analysis of the differential expression of the DG280 in human tissues
RNA preparation from human primary adipose tissues and preadipacyte cell line was done as described in Example 2. The target preparation, hybridization, and scanning was performed as described in the manufactures manual (see Affymetrix Technical Manual, 2002, obtained from Affymetrix, Santa Clara, USA).
In Figure 3, the X-axis represents the time axis, shown are day 0 and day 12 of adipocyte differentiation. The Y-axis represents the fluorescent intensity. The expression analysis (using Affymetrix GeneChips) of the DG280 gene using primary human abdominal-derived adipocyctes (PAAT), primary human mammary gland-derived adipocytes (PAMG), and a human preadipocyte cell line (Simpson-Golabi-Behmel Syndrome; SGBS) differentiation, clearly shows differential expression of the human DG280 gene in adipocytes. Several independent experiments were done. The experiments further show that the DG280 transcript is most abundant at day 12 compared to day 0 during differentiation.
Thus, the DG280 protein has to be significantly increased in order for the preadipocyctes to differentiate into mature adipocycte. Therefore, DG280 expression in preadipocyctes has the potential to enhance adipose differentiation. Therefore, the DG280 protein might play an essential role in the regulation of human metabolism, in particular in the regulation of adipogenesis and thus it might play an essential role in obesity, diabetes, and/or metabolic syndrome.
For the purpose of the present invention, it will be understood by the person having average skill in the art that any combination of any feature mentioned throughout the specification is explicitly disclosed herewith.
Claims
1. A pharmaceutical composition comprising a DG280 protein or/and a functional fragment thereof, a nucleic acid molecule encoding a DG280 protein or/and a functional fragment thereof or/and a modulator/effector of said nucleic acid molecule or/and said protein together with pharmaceutically acceptable carriers, diluents or/and additives.
2. The composition of claim 1 , wherein the nucleic acid molecule is a vertebrate DG280 nucleic acid, particulary encoding a human DG280 protein as described in Example 1 or/and a nucleic molecule which is complementary thereto or a functional fragment thereof or a variant thereof.
3. The composition of claim 1 or 2, wherein said DG280 nucleic acid molecule is selected from the group consisting of (a) a nucleic acid molecule encoding a polypeptide, particularly as described in Example 1 or an isoform, fragment or variant of said polypeptide; (b) a nucleic acid molecule which comprises or is the nucleic acid molecule as described in Example 1 ; (c) a nucleic acid molecule being degenerated as a result of the genetic code to the nucleic acid sequences as defined in (a) or (b); (d) a nucleic acid molecule that hybridizes at 50 °C in a solution containing 1 x SSC and 0.1% SDS to a nucleic acid molecule as defined in claim 2 or as defined in (a) to (c) or/and a nucleic acid molecule which is complementary thereto; (e) a nucleic acid molecule that encodes a polypeptide which is at least 85%, preferably at least 90%, more preferably at least 95%, more preferably at least 98% and up to 99,6% identical to the human protein as described in Example 1 or as defined in claim 2 or to a polypeptide as defined in (a); (f) a nucleic acid molecule that differs from the nucleic acid molecule of (a) to (e) by mutation and wherein said mutation causes an alteration, deletion, duplication or premature stop in the encoded polypeptide.
4. The composition of any one of claims 1 -3, wherein the nucleic acid molecule is a DNA molecule, particularly a cDNA or a genomic DNA.
5. The composition of any one of claims 1 -4, wherein said nucleic acid encodesa polypeptide contributing to regulating the energy homeostasis.
6. The composition of any one of claims 1 -5, wherein said nucleic acid encodes a polypeptide contributing to the differentiation of adipocytes.
7. The composition of any one of claims 1 -6, wherein said nucleic acid molecule is a recombinant nucleic acid molecule.
8. The composition of any one of claims 1 -7, wherein the nucleic acid molecule is a vector, particularly an expression vector.
9. The composition of any one of claims 1 -6, wherein the polypeptide is a recombinant polypeptide.
10. The composition of claim 9, wherein said recombinant polypeptide is a fusion polypeptide.
1 1 . The composition of any one of claims 1 -8, wherein said nucleic acid molecule is selected from hybridization probes, primers and anti-sense oligonucleotides.
12. The composition of any one of claims 1 -11 which is a diagnostic composition.
13. The composition of any one of claims 1 -12 which is a therapeutic 5 composition.
14. The composition of any one of claims 1 -13 for the manufacture of an agent for detecting or/and verifying, for the treatment, alleviation or/and prevention of metabolic diseases or dysfunctions, including metabolico syndrome, obesity, or/and diabetes, as well as related disorders such as eating disorder, cachexia, hypertension, coronary heart disease, hypercholesterolemia, dyslipidemia, osteoarthritis, gallstones, or liver fibrosis, in cells, cell masses, organs or/and subjects. s
15. The composition of any one of claims 1-14 for the manufacture of an agent for the regulation of adipogenesis, particularly for the regulation of adipocyte differentiation.
16. The composition of any one of claims 1 -15 for application in vivo.0
17. The composition of any one of claims 1 -15 for application in vitro.
18. Use of a nucleic acid molecule encoding a DG280 protein or an isoform, a functional fragment or variant thereof, in particular a nucleic acid5 molecule as described in Example 1 , particularly of a nucleic acid molecule according to claim 3 (a), (b), or (c), or/and a polypeptide encoded thereby or/and a functional fragment or/and a variant of said nucleic acid molecule or said polypeptide or/and a modulator/effector of said nucleic acid molecule or polypeptide for the manufacture of ao medicament for the treatment of obesity, diabetes, or/and metabolic syndrome for controlling the function of a gene or/and a gene product which is influenced or/and modified by a DG280 polypeptide, particularly by a polypeptide according to claim 3.
19. Use of a nucleic acid molecule encoding a DG280 protein or an isoform, a functional fragment or variant thereof, in particular a nucleic acid molecule as described in Example 1 , particularly of a nucleic acid molecule according to claim 3 (a), (b), or (c), or/and a polypeptide encoded thereby or/and a functional fragment or/and a variant of said nucleic acid molecule or said polypeptide or/and a modulator/effector of said nucleic acid molecule or said polypeptide for identifying substances capable of interacting with a DG280 polypeptide, particularly with a polypeptide according to claim 3.
20. A non-human transgenic animal exhibiting a modified expression of a DG280 polypeptide, particularly of a polypeptide according to claim 3.
21 . The animal of claim 20, wherein the expression of the DG280 polypeptide, particularly of a polypeptide according to claim 3, is increased or/and reduced.
22. A recombinant host cell exhibiting a modified expression of a DG280 polypeptide, particularly of a polypeptide according to claim 3.
23. The cell of claim 22 which is a human cell.
24. A method of identifying a (poly)peptide involved in the regulation of energy homeostasis or/and differentiation of adipocytes in a mammal comprising the steps of (a) contacting a collection of (poly)peptides with a DG280 polypeptide, particularly a polypeptide according to claim 3, or a functional fragment thereof under conditions that allow binding of said (poly) peptides; (b) removing (poly)peptides which do not bind and (c) identifying (poly)peptides that bind to said DG280 polypeptide.
25. A method of screening for an agent which modulates/effects the interaction of a DG280 polypeptide, particularly of a polypeptide according to claim 3, with a binding target, comprising the steps of (a) incubating a mixture comprising (aa) a DG280 polypeptide, particularly a polypeptide according to claim 3, or a functional fragment thereof; (ab) a binding target/agent of said polypeptide or functional fragment thereof ; and (ac) a candidate agent under conditions whereby said polypeptide or functional fragment thereof specifically binds to said binding target/agent at a reference affinity; (b) detecting the binding affinity of said polypeptide or functional fragment thereof to said binding target to determine an affinity for the agent; and (c) determining a difference between affinity for the agent and the reference affinity.
26. A method for screening for an agent, which modulates/effects the activity of a DG280 polypeptide, particularly of a polypeptide according to claim 3, comprising the steps of (a) incubating a mixture comprising (aa) said polypeptide or a functional fragment thereof; (ab) a candidate agent under conditions whereby said polypeptide or functional fragment thereof has a reference activity; (b) detecting the activity of said polypeptide or functional fragment thereof to determine an activity in presence of the agent; and (c) determining a difference between the activity in the presence of the agent and the reference activity.
27. A method of producing a composition comprising the (poly)peptide identified by the method of claim 24 or the agent identified by the method of claim 25 or 26 with a pharmaceutically acceptable carrier, diluent or/and additive.
28. The method of claim 27 wherein said composition is a pharmaceutical composition for preventing, alleviating or treating of metabolic diseases or dysfunctions, including obesity, diabetes, or/and metabolic syndrome, as well as related disorders such as eating disorder, cachexia, hypertension, coronary heart disease, hypercholesterolemia, dyslipidemia, osteoarthritis, gallstones, or liver fibrosis.
29. Use of a (poly)peptide as identified by the method of claim 24 or of an agent as identified by the method of claim 25 or 26 for the preparation of a pharmaceutical composition for the treatment, alleviation or/and prevention of metabolic diseases or dysfunctions, including obesity, diabetes, or/and metabolic syndrome, as well as related disorders such as eating disorder, cachexia, hypertension, coronary heart disease, hypercholesterolemia, dyslipidemia, osteoarthritis, gallstones, or liver fibrosis.
30. Use of a nucleic acid molecule as defined in any of claims 1 -7 or 11 for the preparation of a medicament for the treatment, alleviation or/and prevention of metabolic diseases or dysfunctions, including obesity, diabetes, or/and metabolic syndrome, as well as related disorders such as eating disorder, cachexia, hypertension, coronary heart disease, hypercholesterolemia, dyslipidemia, osteoarthritis, gallstones, or liver fibrosis.
31 . Use of a polypeptide as defined in any one of claims 1 to 7, 9 or 10 for the preparation of a medicament for the treatment, alleviation or/and prevention of metabolic diseases or dysfunctions, including obesity, diabetes, or/and metabolic syndrome, as well as related disorders such as eating disorder, cachexia, hypertension, coronary heart disease, hypercholesterolemia, dyslipidemia, osteoarthritis, gallstones, or liver fibrosis.
32. Use of a vector as defined in claim 8 or the preparation of a medicament for the treatment, alleviation or/and prevention of metabolic diseases or dysfunctions, including obesity, diabetes, or/and metabolic syndrome, as well as related disorders such as eating disorder, cachexia, hypertension, coronary heart disease, hypercholesterolemia, dyslipidemia, osteoarthritis, gallstones, or liver fibrosis.
33. Use of a host cell as defined in claim 22 or 23 for the preparation of a medicament for the treatment, alleviation or/and prevention of metabolic diseases or dysfunctions, including obesity, diabetes, or/and metabolic syndrome, as well as related disorders such as eating disorder, cachexia, hypertension, coronary heart disease, hypercholesterolemia, dyslipidemia, osteoarthritis, gallstones, or liver fibrosis.
34. Use of a DG280 nucleic acid molecule or of a functional fragment thereof for the production of a non-human transgenic animal which over- or under-expresses the DG280 gene product.
35. Kit comprising at least one of (a) a DG280 nucleic acid molecule or a functional fragment thereof; (b) a DG280 amino acid molecule or a functional fragment or an isoform thereof; (c) a vector comprising the nucleic acid of (a); (d) a host cell comprising the nucleic acid of (a) or the vector of (c); (e) a polypeptide encoded by the nucleic acid of (a); (f) a fusion polypeptide encoded by the nucleic acid of (a); (g) an antibody, an aptamer or/and another modulator/effector of the nucleic acid of (a) or/and the polypeptide of (b), (e), or/and (f) and (g) an anti -sense oligonucleotide of the nucleic acid of (a).
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