TUMOUR-SPECIFIC P450 PROTEIN

Abstract: The discovery that CYP1B1 protein is detectable in a wide range of human cancers of different histogenetic types, but is not detectable in non-cancerous tissues, gives rise to diagnostic methods for detecting tumours based on this protein as a marker, and to the possibility of tumour therapies involving the protein. A diagnostic method may include the steps of: (a) obtaining from a patient a tissue sample to be tested for the presence of cancer cells; (b) producing a prepared sample in a sample preparation process; (c) contacting the prepared sample with an antibody that reacts with human CYP1B1 protein; and (d) detecting binding of the antibody to CYP1B1 protein in the prepared sample.

Description: Tumour-specific P450 protein Field of the invention This invention relates to tumour diagnosis and therapy, and to materials and methods for use therein. More particularly, the invention is based on the identification of a cytochrome P450 form, specifically CYPIBI , in a wide range of tumours, with a high frequency of expression in each type, and proposes the use of this enzyme as a tumour marker, and as the basis of a selective therapeutic approach involving the design of drugs, eg which are activated to a cytotoxic form by the action of CYPIBI. Background to the invention The major goal of cancer chemotherapy is the development of anti-cancer drugs that are effective in a wide range of cancers and produce no toxic effects in normal tissues. The target of such drugs should be expressed only in tumour cells and not normal cells. However, to date, no such tumour specific target, general to all types of cancers, has been identified. The cytochromes P450 are a multi-gene family of constitutive and inducible enzymes, which have a central role in the oxidative metabolic activation and detoxification of both a wide range of xenobiotics (2-4) and several groups of endogenous compounds active in cell regulation and cell signalling including arachidonic acid (5), steroid hormones (6) and fatty acids (7). The major families of P450 involved in xenobiotic metabolism each consist of several individual forms with different regulatory mechanisms and substrate specificities (2). The majority of P450s are primarily expressed in liver (2) although individual P450 forms are also expressed in specific extra-hepatic tissues (8) including small intestine, kidney and lung. The human CYPl gene family (individual P450 forms are identified by the prefix CYP in accordance with the current P450 nomenclature (3)), which is one of the major P450 families involved in the metabolism of xenobiotics, is now known to consist of three individual forms classified into two sub-families. The CYPl A subfamily contains two highly homologous and well characterised but distinct members, CYPlAl (9) and CYP1A2 (10). CYPlAl is an inducible P450 expressed primarily in extrahepatic tissues (11) while CYP1A2 is a major form of P450 that is constitutively expressed in liver (12). Recently a second human CYPl subfamily has been identified which to date contains one member, CYPIBI (1). This P450 is dioxin-inducible, and sequence analysis of CYPIBI shows 40% homology with both CYPlAl and CYP1A2. Although CYPIBI is assigned to the CYPl family on the basis of its sequence, it appears to be structurally distinct from both CYPlAl and CYP1A2. Several forms of P450 are considered to have an important role in tumour development since they can metabolise many potential carcinogens and mutagens (13). Moreover, P450 activity may influence the response of established tumours to anti-cancer drugs; several cancer chemotherapeutic agents can be either activated or detoxified by this enzyme system (14). The presence of individual forms of P450 had previously been investigated in different types of cancer including breast cancer (15), lung cancer (16), colon cancer (17) and head and neck cancer (18) to determine if intra-tumour metabolism of anti-cancer agents by P450 could occur and thus influence the response of tumours to these agents. These studies have generally shown that the level of the P450 forms investigated is significantly reduced or absent in tumours when compared with the adjacent normal tissue in which the tumours have developed. However, our recent studies of several different types of cancer (19) including breast cancer, oesophageal cancer and soft tissue sarcomas have shown that there may be tumour-specific expression of a CYPl form of P450. Although CYPIBI mRNA had previously been identified by Northern blotting in several normal human tissues (1), the presence of CYPIBI protein itself had not been demonstrated. Summary of the invention The present invention is based on the discovery that CYPIBI is a tumour-specific form of P450, present in a wide range of malignant tumours and not detected in normal tissues. Accordingly, a first aspect of the present invention provides a method for the identification of tumour cells, which method comprises the use of a recognition agent, for example an antibody, recognising CYPIBI protein to contact a sample of tissues, cells, blood or body product, or samples derived therefrom, and screening for a positive response. The positive response may for example be indicated by an agglutination reaction or by a visualisable change such as a colour change or fluorescence, eg immunostaining, or by a quantitative method such as in the use of radio-immunological methods or enzyme-linked antibody methods. The method therefore typically includes the steps of (a) obtaining from a patient a tissue sample to be tested for the presence of cancer cells; (b) producing a prepared sample in a sample preparation process; (c) contacting the prepared sample with a recognition agent, such as an antibody, that reacts with human CYPIBI protein; and (d) detecting binding of the recognition agent to CYPIBI protein, if present, in the prepared sample. The human tissue sample can be from for example the bladder, brain, breast, colon, connective tissue, kidney, lung, lymph node, oesophagus, ovary, skin, stomach, testis, and uterus. A preferred sample preparation process includes tissue fixation and production of a thin section. The thin section can then be subjected to i-mmunohistochemical analysis to detect binding of the recognition agent to CYPIBI protein. Preferably, the immunohistochemical analysis includes a conjugated enzyme labelling technique. A preferred thin section preparation method includes formalin fixation and wax embedding. Alternative sample preparation processes include tissue homogenization, and preferably, microsome isolation. When sample preparation includes tissue homogenization, a preferred method for detecting binding of the antibody to CYPIBI protein is Western blot analysis. Alternatively, an immunoassay can be used to detect binding of the antibody to CYPIBI protein. Examples of immunoassays are antibody capture assays, two-antibody sandwich assays, and antigen capture assays. Preferably, the immunoassay is a solid support-based immunoassay. When Western blot analysis or an immunoassay is used, preferably it includes a conjugated enzyme labelling technique. Although the recognition agent will conveniently be an antibody, other recognition agents are known or may become available, and can be used in the present invention. For example, antigen b ding domain fragments of antibodies, such as Fab fragments, can be used. Also, so-called RNA aptomers may be used (36, 37). Therefore, unless the context specifically indicates otherwise, the term "antibody" as used herein is intended to include other recognition agents. Where antibodies are used, they may be polyclonal or monoclonal. Optionally, the antibody can produced by a method so that it recognizes a preselected epitope of said CYPIBI protein. A second aspect of the invention lies in the presence of CYPIBI protein selectively in tumours, eg in kidney tumours and not normal renal tissue, combined with the absence of CYPIBI protein expression in normal liver, which provides a mechanism for the selective targeting of anti-cancer drugs based on CYPIBI metabolism in tumours. Drugs can be designed for, or screened for, specific metabolism by CYPIBI in tumours whereby this metabolism converts a non-toxic moiety into a toxic one, which kills or inhibits the tumour or makes it more susceptible to other agents. A third aspect of the invention provides for the targeting of cytotoxic drugs or other therapeutic agents, or the targeting of imaging agents, by virtue of their recognition of CYPIBI epitopes on the surface of a tumour cell, whether as part of the complete CYPIBI protein itself or in some degraded form such as in the presentation on the surface of a cell bound to a MHC protein. Another aspect of the invention provides stimulation of the immune system of cancer patients, for example by activating cytotoxic or helper T-cells which recognise CYPIBI epitopes so as to implement a cell-mediated or humoral immune response against the tumour. The activation of the immune system can be achieved by immunisation with CYPIBI sequences. Because the expression of CYPIBI is very common in tumours of many different types, it is likely that this enzyme performs an essential function for the tumour cells, for example by inactivating endogenous anti-tumour compounds such as 2-methoxyestradiol. Consequently, another aspect of the invention is the reduction of CYPIBI levels in tumour cells, for example by the use of suicide inhibitors or by using antisense RNA methods to decrease the synthesis of the protein. Down-regulation of the CYPIBI promoter could also achieve the reduction in CYPIBI levels. Brief description of the drawings Fig 1 shows SDS-PAGE and immunoblotting procedures using an anti-CYPlBl antibody to look for CYPIBI protein in normal and tumorous kidney tissue and in normal liver tissue. Fig 2 shows SDS-PAGE and immunoblotring to detect CYPIBI protein in breast tumour and in normal liver tissue. Fig 3 shows an immunoblot of CYPIBI in different types of tumours and normal tissues. Fig 4 shows CYPIBI and /3-actin mRNA in normal (A and B) and corresponding tumour (C and D) samples which have been detected by RT-PCR. Detailed description of the invention Expression of CYPIBI was investigated in different types of cancers that had developed in a broad range of different anatomical sites (bladder, breast, colon, kidney, lung, oesophagus, ovary, skin, stomach, uterus, bone and connective tissue, lymph node, brain and testis). Primary malignant tumours of these tissues constitute different histogenetic types (carcinomas, lymphomas, sarcomas, neuro-epithelial tumours and germ cell tumours) each with a different biological behaviour. These tumours also represent a range of both common and less common types of cancer. The presence of CYPIBI was also investigated in a wide variety of normal tissues. Iπ-munotøstocheπτjstry for CYPIBI showed that in all the different types of tumour there was strong immunoreactivity for CYPIBI. CYPIBI immunoreactivity was localised specifically to tumour cells. Non-tumour cells including stromal cells, inflammatory cells, and endothelial cells present in the sections of tumour showed no immunoreactivity for CYPIBI. SUBSTITUTE SHEET (FiϋLE 26) There was no significant intra-tumour heterogeneity of CYPIBI immunoreactivity and only in five out of 133 tumours was CYPIBI not detected. There was no immunoreactivity for CYPIBI in any of the normal tissues studied which included liver, kidney, small intestine and lung. The absence or low level of individual forms of P450 in most studies of human cancer (15- 18), combined with extrapolation from studies of rodent hepatic carcinogenesis (25), had led to the general belief that tumour cells do not significantly express P450. However, we have now shown that CYPIBI is expressed in a wide variety of malignant tumours of different histogenetic types and is not present in normal tissues, indicating that this P450 is a tumour specific form of P450. Tumours are composed of a variable proportion of tumour cells and non-tumour cells. To identify that a protein is tumour specific, it is important to demonstrate that the protein is localised only to tumour cells. Immunohistochemistry allows the direct visualisation of tumour cells and has the spatial resolution to separate tumour cells from non- tumour cells. Furthermore, it is important to show there has been no differential degradation of proteins in normal tissue samples compared with tumour samples, and immunoblotting for β-actin (as a positive control protein) showed it to be present in every normal and tumour sample indicating there was no protein degradation. In addition, Coomassie blue staining of the polyacrylamide gels showed no evidence of protein degradation. Moreover, immuno¬ histochemistry of the tumour samples provides its own internal control as sections of tumour contain non-tumour cells. The presence of CYPIBI in many types of tumour suggests that this P450 may have a crucial endogenous function in tumour cells and CYPIBI may contribute to drug resistance that is observed in many types of tumour. CYPIBI is also likely to be important in tumour development and progression. Its identification in a diverse range of cancers of different histogenetic types and its absence from normal tissues appears to make CYPIBI one of the common changes of a gene product in malignancy (26). A previous investigation (1) found mRNA in normal tissues. In some tumours, increased (2- 4X) mRNA was found compared with normal. This might be due to increased transcription mediated by hypoxia inducible factor. This is a novel heterodimeric transcription factor which is induced by hypoxia, and the stimulus in this case may be the hypoxic micro¬ environment that can exist in tumours, and this factor can have as one of its components the Ah receptor nuclear translocator (27). However, regulation of other forms of P450 is complex (2, 28) and the regulation of CYPIBI in tumours is likely to be complex also, with multiple mechamsms including transcriptional and post-transcriptional factors involved. The tumour-specific expression of CYPIBI has important consequences for both the diagnosis and treatment of cancer. New diagnostic procedures based on the presence of CYPIBI in cancer cells can be developed, while the expression of CYPIBI in tumour cells provides a molecular target for the development of new anti-cancer drugs that are selectively activated by CYPIBI in tumour cells. Since CYPIBI is found in a wide range of tumours it would be expected that such drugs would be effective in treating many different types of cancer. An important feamre is that it would be anticipated these drugs would not be associated with the systemic toxicity that limits the use of current anti-cancer drugs as CYPIBI is not present in normal tissues especially liver, small intestine and kidney that are the main tissues involved in drug metabolism. Thus, a major problem to targeting anti¬ cancer drugs at tumours based on their selective activation by P450 has been marked hepatic P450 metabolism of drugs resulting in decreased bioavailability and/or undue toxicity. The absence of CYPIBI protein in liver overcomes this problem. As regards tumour diagnosis, numerous methods for using antibodies to detect a specific protein, including CYPIBI, in a biological sample are known and can be used in the present invention. Any of the various antibody methods can be used alone in practising the present invention. If desired, two or more methods can be used to complement one another. A preferred method for use in the present invention is immunohistochemical analysis. Immunohistochemical analysis advantageously avoids a dilution effect when relatively few cancer cells are in the midst of normal cells. An early step in immunohistochemical analysis is tissue fixation, which preserves proteins in place within cells. This prevents substantial mixing of proteins from different cells. As a result, surrounding normal cells do not diminish the detectability of CYPlBl-containing cancer cells. This is in contrast to assay methods that involve tissue homogenization. Upon tissue homogenization, CYPIBI protein SUBSTITUTE SHEET (RULE 25 from cancer cells is mixed with proteins from any surrounding normal cells present in the tissue sample. The concentration of CYPIBI protein is thus reduced in the prepared sample, and it can fall below detectable limits. Immunohistochemical analysis has at least three other advantages. First, it requires less tissue than is required by alternative methods such as Western blot analysis or immunoassay. Second, it provides information on the intracellular localization and distribution of immunoreactive material. Third, information on cell morphology can be obtained from the same thin section used to test for the presence of CYPIBI protein. Preferably, when immunohistochemical analysis is employed in the practice of this invention, several thin sections from each tissue sample are prepared and analysed. This increases the chances of finding small tumours. Another preferred antibody method for use in the present invention is Western blot analysis, ie sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE), followed by immunoblotting. Sample preparation for Western blot analysis includes tissue homogenization, and optionally isolation of microsomes. Western blot analysis has the advantage of detecting immunoreactivity on proteins that have been separated with high resolution, according to (apparent) molecular weight. Immunoassays such as antibody capmre assays, two-antibody sandwich assays, and antigen capture assays can also be used in the present invention. Sample preparation for immunoassays includes tissue homogenization, and optionally isolation of microsomes. Immunoassays have the advantage of enabling large numbers of samples to be tested relatively quickly, and they offer quantitative precision. Principles and practice of immunohistochemistry, Western blot analysis, and immunoassays are well known. One of ordinary skill in the art can select suitable protocols and carry out immunohistochemical analysis, Western blot analysis, or an immunoassay, in the practice of the present invention (30). Experimental details . Preparation of antibodies As already noted, the diagnostic aspects of the present invention can conveniently use an antibody that recognizes human CYPIBI . Antibody specificity for CYPIBI protein is preferable, but not required. Preferably, any non-CYPlBl protein recognized by the antibody is readily distinguished from CYPIBI, eg, according to apparent molecular weight on a Western blot. With selection of an appropriate assay protocol, which is within ordinary skill in the art, the invention can be practised with a polyclonal antibody or a monoclonal antibody. A polyclonal antibody or monoclonal antibody suitable for use in the present invention can be obtained according to conventional procedures (30). Preparation of antibodies that react with CYPIBI protein is known (31). Procedures for obtaining antibodies that react with human CYPIBI protein can be carried out using a preparation of non-human CYPIBI protein, eg, murine CYPIBI protein. A CYPIBI protein preparation suitable for eliciting antibodies useful in the present invention can be obtained according to various procedures, including those described (31). Antibodies useful in the present invention can be obtained by immunizing an animal with a preparation containing intact CYPIBI protein. Alternatively, useful antibodies can be obtained by immunizing an animal with a polypeptide or oligopeptide corresponding to one or more epitopes on the CYPIBI protein. Preparation To prepare an antibody according to the latter approach, two 15-mer peptides corresponding to epitopes on the human CYPIBI protein were synthesized. Each corresponded to a different putative surface loop region of the CYPIBI enzyme. The first peptide (designated 217A) consisted of 14 amino acids, ie, ESLRPGAAPR DMMD (SEQ ID NO: l). Peptide 217A represented amino acid positions 312-325 of the deduced amino acid sequence. A carboxy terminal cysteine was included for use in a conjugation reaction. The second peptide (designated 218A) consisted of 14 amino acids, ie, EKKAAGDSHG GGAR (SEQ ID NO:2). Peptide 218A represented positions 332-345 of the deduced amino acid sequence. A carboxy terminal cysteine was added for use in a conjugation reaction. Each of these peptides was conjugated directly to KLH. Male New Zealand rabbits were ixnmunized at several anatomical sites using 100 μg of the 217 A peptide conjugate or the 218A peptide conjugate. The conjugates were dissolved in 300 μl of PBS mixed with 300 μl of Freund's Complete Adjuvant. Three weeks after the initial immunization, the rabbits were boosted with 50 μg of one of each of the conjugates (contained in 300 μl PBS mixed with 300 μl of Freund's Incomplete Adjuvant, injected in several sites). One week later (four weeks after the initial injection), the rabbits were boosted again, using the same protocol. One week after this second boost, the first serum sample was collected. Rabbits were subsequently boosted, and serum samples were collected, weekly. Serum samples were screened for anti-CYPlBl titre and specificity by Western blotting against a human CYPIBI -maltose binding fusion protein expressed in E. coli, and human CYPIBI protein expressed in COS-1 cells. Anti-CYPlBl IgG was purified by immunoaffinity chromatography. The chromatography was carried out using the appropriate CYPIBI peptide linked directly to a commercial N- hydroxysuccinamide ester of a derivatized, cross-linked agarose gel bead support (AffiGel 10; Biorad, Richmond, CA). Conjugation and chromatography were performed according to the vendor's recommended protocols. 2 ^ Detection of CYPIBI protein and its mRNA In general in the experiments that follow, samples of normal tissue were obtained from tissue specimens that were removed from patients undergoing surgery for malignant disease. Normal liver, stomach and small intestine were also obtained from organ transplant donors. All the tissue samples were processed immediately after excision to prevent any degradation of protein or mRNA and ensure no deterioration in tissue moφhology. We have previously shown that human liver obtained in this way shows no loss or degradation of individual forms of hepatic P450 (20). Tissue blocks for immuno-histochemistry were fixed in 10% neutral buffered formalin for 24 hours and then embedded in wax, while tissue samples for immunoblotting and mRNA analyses were rapidly frozen in liquid nitrogen and stored at - 80°C prior to use. SUBSTITUTE SHΞΞT (RULE 23) The presence of CYPIBI protem in tissue samples was investigated using immunohistochemistry (21) and sodium dodecyl sulphate polyacrylamide gel electrophoresis (SDS-PAGE) combined with immunoblotting (22). Immunohistochemistry ensures the identification of specific types of cells containing CYPIBI and is an ideal technique for investigating the presence of CYPIBI in tumour cells as tumours are composed of a variable proportion of tumour cells and non-tumour cells. Immunohistochemistry was used to determine the cellular localisation and distribution of CYPIBI and was performed on formalin fixed wax embedded sections using two antibodies which recognise CYPIBI. Sites of immunoreactivity were detected using an alkaline phosphatase anti-alkaline phosphatase (APAAP) technique (21). Samples of tumour and normal tissue were fixed in 10% neutral buffered formalin for 24 hour and then embedded in wax. Sections were cut on to glass slides and for immunohistochemistry sections of tumours and normal tissues were dewaxed in xylene, rehydrated in alcohol and then washed sequentially in cold water and 0.05M Tris-HCl (pH 7.6) containing 0.15M sodium chloride (TBS). The sections were then irnmunostained with the CYPIBI antibodies. Subsequently, monoclonal mouse anti-rabbit immunoglobulin (1/100, Dako Ltd, High Wycombe, Bucks; UK), rabbit anti-mouse immunoglobulin (1/100, Dako) and mouse monoclonal APAAP (1/100, Dako) were sequentially applied to the tissue sections for 30 minutes each. Between antibody applications the sections were washed with TBS to remove unbound antibody. Sites of bound alkaline phosphatase were identified using bromo-chloro-indolyl phosphate and nitro blue tetrazolium as the enzyme substrate. After incubating the sections for 30 minutes at room temperature, the reaction was stopped by washing the sections in cold tap water. The slides were then air-dried and mounted in glycerine jelly. The sections were examined using bright field light microscopy in order to establish the presence or absence of immunostaining, and its distribution. SDS-PAGE and immunoblotting was followed by enhanced chemiluminescence (ECL) technique as described below. Immunoblotting was also performed with a monoclonal antibody to β-actin (clone no. AC-15, Sigma, Poole, Dorset, UK) to show the presence of a positive control protein in mmour and normal samples and indicate that there was no evidence of protein degradation in any of the tissue samples. The presence of CYPIBI in each mmour that showed CYPIBI by immunohistochemistry, and the absence of detectable CYPIBI in normal tissues, was confirmed by Western blot analysis. The proteins subjected to Western blot analysis were from isolated microsome preparations. Microsomes were prepared essentially as described (32). Tissue samples were thawed in 25 ml 0.01 M Tris-HCl buffer, pH 7.4, containing 1.15% KCl before being homogenized in 0.01 M Tris-HCl buffer, pH 7.4, containing 0.25 M sucrose, 15% glycerol, using an Ultra- Turrax homogenizer (type TP 18/2; Janke and Kunkel AG, Staufen Breisgau, Germany). After centrifugation at 15,000 x g for 20 min, the supernatant was removed and recentrifuged at 116,000 x g for 50 min. The pellet was resuspended a first time in 0.1 M Tris-HCl buffer, pH 7.4, containing 15% glycerol, 1 mM EDTA, and recentrifuged at 116,000 x g for 50 min. The pellet was resuspended a second time in Tris-HCl-glycerol-EDTA buffer. Microsomal protein concentration was determined (34). A discontinuous polyacrylamide gel system, as described (33) with modifications (32), was employed for separation of proteins in the microsomes. 20 μl of a 1 mg/ml preparation of normal samples, and 40 μl of a 0.5 mg/ml preparation of tumour samples, in 0.125 M Tris- HCl, pH 6.8, containing 2.35% (w/v) sodium dodecyl sulfate, 5% (v/v) 2-mercaptoethanol, and 0.005% bromophenol blue tracking dye were loaded onto the gel. 10 μl of a 1 mg/ml preparation of human liver microsomes were used as positive controls. Samples were run on a 10% non-gradient gel at 30 mA. Following SDS-PAGE, resolved proteins were blotted onto a nitrocellulose membrane (Schleicher & Schuell; Dassel, Germany) overnight as described (35). Nonspecific binding sites were blocked with PBS contaixiing 2% (w/v) nonfat milk, 0.05% (v/v) TWEEN 20™ for 30 minutes at room temperature, with continuous shaking. This buffer was also used for washing stages. The nitrocellulose membrane was then incubated with CYPIBI -specific antibody (1:1000) for 90 minutes and goat anti-rabbit immunoglobulin horseradish peroxidase conjugate (1:2000 Bio-Rad Laboratories, Hemel Hempstead, Herts, UK) for 60 minutes. The membrane was washed for three successive 15-minute periods and one 60-minute period after each incubation to remove unbound antibody. Bound horseradish peroxidase was then visualized with an Enhanced Chemiluminescence (ECL) kit (Amersham International, Aylesbury, Bucks, UK). Detection was carried out as described in the ECL protocol, with the X-ray film (Hyperfilm-ECL; Amersham) being exposed for 30 seconds. Example 1 Expression of CYPIBI in normal kidney and kidney tumours was investigated. Nephrectomy specimens (n= 10) excised from primary renal cell carcinoma were used. Samples or normal kidney were taken at least several centimetres distant from the edge of each tumour, and only macroscopically viable tumour was sampled. Normal human livers (n=5) were obtained from renal transplant donors and stored at -80 * C prior to use. Microsomes of normal kidney, kidney tumours and normal liver were prepared and subjected to the SDS-PAGE and immunoblotting procedures in an enhanced chemiluminescence technique (21, 22) using an anti-CYPl polyclonal antibody. Recognition of human CYPIBI was demonstrated using a maltose-binding recombinant CYPIBI fusion protein expressed in E coli. Expressed CYPlAl and CYP1A2 were supplied by Dr C L Crespi, Gentest Corp, Ma, USA. The results are shown in Fig 1: lane 1 human liver, lane 2 expressed recombinant CYPIBI protein, lanes 3, 5, 7, 9, 11 normal kidney samples, lanes 4, 6, 8, 10, 12 corresponding kidney tumours. The same amount of microsomal protein (30μg) was loaded into each lane, thus allowing direct comparison between the kidney and liver samples. As shown in Fig 1, the kidney tumours and expressed CYPIBI show a single immuno¬ reactive band at 60 kDa corresponding to the molecular weight of expressed CYPIBI . In normal kidney none of the samples showed an immunoreactive band at 60kDa. In addition, none of the kidney tumours or normal kidney samples showed the presence of CYPlAl. Immunoblotting of liver samples showed an immunoreactive band at 54 kDa corresponding to the molecular weight of CYP1A2. The intensity of the band at 54 kDa showed liver-to- liver variation, whereas there was no CYPIBI immunoreactive band at 60 kDa in any of the liver samples. Example 2 The expression of CYPIBI was also investigated in breast cancer using immunoblotting. Samples of breast tissue were obtained from patients undergoing surgery either for primary breast cancer or non-neoplastic breast disease. Immunoblotting was performed on breast cancers obtained from six patients (age range 45-67; three non-smokers, information not available for three patients), and histologically all these tumours were carcinomas of no special type. The tissue samples were frozen in liquid nitrogen and stored at -80 * C prior to analysis. SDS-PAGE and immunoblotting were carried out as described previously. CYPIBI was detected using the anti-CYPl polyclonal antibody referred to above. The results are shown in Fig 2: lane 1 human liver, lane 2 expressed CYPIBI, lanes 3-8 breast tumours. As can be seen, a single protein band of molecular weight 60 kDa corresponding to the molecular weight of the expressed CYPIBI protein was identified. As previously, CYPIBI was not detectable in the liver sample, but CYP1A2 was detected. Example 3 Immunohistochemistry was used to demonstrate the presence of CYPIBI specifically in a variety of normal and tumour tissues. The results are shown in Table 1 and in Fig 3. Immunohistological localisation of CYPIBI was investigated in tumours and normal tissues from invasive ductal carcinoma of the breast, endometrial adenocarcinoma, transitional cell carcinoma of the bladder, diffuse high grade malignant lymphoma, high grade astrocytoma of the brain, soft tissue sarcoma (malignant fibrous histiocytoma), normal liver, normal kidney, normal small intestine. The antibody used was the 218A anti-CYPlBl polyclonal antibody described above. Fig 3 shows an immunoblot of CYPIBI in different types of tumours and normal tissues. Lane 1 normal colon, lane 2 colon adenocarcinoma, lane 3 normal kidney, lane 4 carcinoma of kidney, lane 5 normal breast, lane 6 breast cancer, lane 7 normal jejunum, lane 8 normal stomach, lane 9 normal liver, lane 10 malignant mixed Mϋllerian mmour, lane 11 endometrial adenocarcinoma, lane 12 ovarian carcinoma, lane 13 diffuse B cell lymphoma, lane 14 transitional cell carcinoma, lane 15 lung carcinoma, lane 16 positive control (dioxin- induced ACHN kidney mmour cells (panel A only). In panel B, the same series of tissue samples have been immunoblotted for 3-actin, which is present in all normal and tumour samples. A Coomassie blue stained polyacrylamide gel of the same series of tissue samples displayed no evidence of protein degradation. The results demonstrated that this P450 is specifically localised to tumour cells, and that there is no CYPIBI immunoreactivity in normal tissues. Table 1 CYPIBI Expression in Tumour Tissues and Normal Tissues. Normal Tumor Tissue no posJ no posJ Histopathological diagnosis no tested no tested Bladder 0/8 8/8 transitional cell carcinoma Brain 0/12 11/12 astrocytoma Breast 0/10 12/12 invasive ductal carcinoma Colon 0/10 11/12 adenocarcinoma Connective 0/9 8/9 sarcoma tissue Kidney 0/11 11/11 clear cell carcinoma n= 10; transitional cell carcinoma n= l Liver 0/8 not tested not tested Lung 0/8 7/8 squamous carcinoma Lymph node 0/5 9/9 non-Hodgkin's lymphoma Oesophagus 0/8 8/8 squamous carcinoma Ovary not tested 7/7 adenocarcinoma Skin 0/6 6/6 squamous carcinoma Small 0/5 not tested not tested Intestine Stomach 0/10 9/10 adenocarcinoma Testis 0/8 14/14 malignant germ cell tumours Uterus 0/5 7/7 adenocarcinoma n=5; malignant mixed Mullerian mmour n=2 Total 0/123 128/133 Example 4 Experiments were conducted to defect CYPIBI RNA in various mmour and normal tissues. Reverse transcription polymerase chain reaction (RT-PCR) experiments to detect CYPIBI mRNA were carried out as described in McKay et al (23). RNA was extracted from tissue samples and cDNA was synthesised from the isolated RNA using oligo (dT). The CYPIBI primers had the following sequences: Forward 5'-AAC TCT CCA TCA GGT GAG GT-3' (nt 2104-2123); Reverse 5'-TAA GGA AGT ATA CCA GAA GGC -3' (nt 2573-3593) giving a PCR product of 489bp. β-actin was used as a positive control to confirm the presence and integrity of mRNA in each sample and the 0-actin primers which were bought from Stratagene (Cambridge, UK) had the following sequences: Forward 5'-TGA CGG GGT CAC CCA CAC TGT GCC CAT CTA-3' (nt 1067-1105); Reverse 5'-CTA GAA GCA TTT GCG GTG GAC GAT GGA GGG-3' (nt 1876-1905). PCR with 35 cycles of amplification for both CYPIBI and 3-actin was performed as described (23). The positive control for CYPIBI was a 2.78 kb CYPIBI cDNA and the negative control was sterile water in place of cDNA. After PCR lOμl of the PCR product was electrophoresed on a 1.5% agarose gel which incorporated 0.007% w/v ethidium bromide and visualised by UV illumination. The CYPIBI PCR product was sequenced, after purification, by the direct dideoxy sequencing technique with a T7 sequencing kit (Pharmacia, Milton Keynes, UK) used according to the manufacturer's protocol. To further investigate the relative amount of CYPIBI mRNA in normal and tumour tissues, semi-quantitative RT-PCR of normal and tumour kidney samples was performed using serial dilution of cDNA (24). /3-actin mRNA was used as an internal control (29). Fig 4 shows CYPIBI and /3-actin mRNA in normal (A and B) and corresponding tumour (C and D) samples which have been detected by RT-PCR. Lane 1 kidney, lane 2 colon, lane 3 skin, lane 4 oesophagus, lane 5 stomach, lane 6 lymph node, lane 7 breast. Analysis of the tumours by RT-PCR showed that all mmour samples in which CYPIBI had been identified contained CYPIBI mRNA. The PCR product was of the expected molecular size when analyzed by agarose gel electrophoresis. Sequencing of the PCR product confirmed identity with CYPIBI. Concluding remarks The absence or low level of individual forms of P450 in most studies of human cancer (15- 18), combined with extrapolation from studies of rodent hepatic carcinogenesis (25), had led to the general belief that tumour cells do not significantly express P450. However, we have now shown that CYPIBI is expressed in a wide variety of malignant tumours of different histogenetic types and is not present in normal tissues, indicating that this P450 is a mmour specific form of P450. Tumours are composed of a variable proportion of tumour cells and non-tumour cells. To identify that a protein is tumour specific, it is important to demonstrate that the protein is localised only to tumour cells. Immunohistochemistry allows the direct visualisation of tumour cells and has the spatial resolution to separate mmour cells from non- tumour cells. Furthermore, it is important to show mere has been no differential degradation of proteins in normal tissue samples compared with tumour samples and immunoblotting for β-actin (as a positive control protein) showed it to be present in every normal and tumour sample indicating there was no protein degradation. In addition, Coomassie blue staining of the polyacrylamide gels showed no evidence of protein degradation. Moreover, immuno¬ histochemistry of the tumour samples provides its own internal control as sections of tumour contain non-tumour cells. References 1. T.R. Sutter et al., J. Biol. Chem. 269, 10392 (1994) 2. S.A. Wrighton and J.C. Stevens, Crit. Rev. Toxicol. 22, 1 (1992) 3. D.R. Nelson et al, Pharmacogenetics 6, 1 (1996) 4. T. Shimada and F.P. Guengerich, Chem. Res. Toxicol. 4, 391 (1991); V. Nedelcheva and I. 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Waxman, Drug Metab. Rev. 20, 395 (1989); K.T. Kivisto, H.K. Kroemer, M. Eichelbaum. Brit. J. Clin. Pharmacol. 40, 523 (1995) 15. N. Mbm et al, Cancer Res. 53, 3541 (1993) 16. C. Toussaint et al, Cancer Res. 53, 4606 (1993); M. Czerwinski et al, Cancer Res. 54, 1085 (1994) 17. W.H.M. Peters et al, Gastroenterology 103, 448 (1992); I. de Waziers et al, Carcinogenesis 12, 905 (1991); L. Massad et al, Cancer Res. 52, 6567 (1992); K. Mekhail-Ishak et al, Cancer Res. 49, 4866 (1989) 18. F. Janot et al, Carcinogenesis 14, 1279 (1993) 19. G.I. Murray et al, Br. J. Cancer 63, 1021 (1991); G.I. Murray et al, J. Pathol. Ill, 49 (1993); G.I. Murray et al, Gut 35, 599 (1994) 20. R.J. WeaveR et al, Biochem. Pharmacol. 47, 763 (1994) 21. J.A. McKay et al, J. Histochem. Cytochem. 43, 615 (1995) 22. D.C. Spink et al, Arch. Biochem. Biophys. 293, 242-348 (1992) 23. J.A. McKay et al, FEBS Letts. 374, 270 (1995) 24. M. J. Dallman and A.C.G. Porter, in PCR, A practical approach, eds J. McPherson, P. Quirke and G.R.Taylor (IRL Press, Oxford) p 215-224. 25. A. Buchmann et al, Carcinogenesis 6, 513 (1985); M.W. Roomi, R.K. Ho, D.S.R. Sarma, E. Farber, Cancer Res. 45, 564 (1985); A. Buchmann et al, Cancer Res. 47, 2911 (1987) 26. T.G. Krontiris, N. Engl J. Med. 333, 303 (1995); L.M. Ponz de Leon, Recent Res. Cancer Res. 136, 35 (1994); S.K. Bahra, B.K. A. Rasheed, S.H. Bigner, D.D. Bigner, Lab. Invest. 71, 621 (1994) 27. G.L. Wang, B-H. Jiang, E.A. Rue, G.L. Semenza, Proc. Natl. Acad. Sci. USA 92, 5510 (1995) 28. J.P. Whitlock et al, FASEB. J. 10, 809 (1996) 29. T. Horishiki et al, Cancer Res. 52,108 (1992) 30. Harlow et al., Antibodies - A Laboratory Manual, Cold Spring Harbor, Cold Spring Harbor, ΝY (1988) 31. Otto et al., Endocrinology 129:970-982 (1991) 32. Weaver et al. Biochem. Pharmacol. 46:1183-1197 (1993) 33. Laemmli, Nature 227:68 (1970) 34. Lowry, J. Biol. Chem. 193:265 (1951) 35. Towbin et al. Proc. Natl Acad. Sci. USA 76:4350 (1979) 36. J. R. Williamson, Nature 382:112-113 (1996) 37. A. D. Ellington et al, Nature 346:818-822 (1990) SUBSTITUTE SHEET (RULE 25)

Claims: CLAIMS: 1. A method for detecting cancer cells, if present, in a tissue sample from a human patient, the method comprising contacting a tissue sample from a patient with a recognition agent for CYPIBI, and detecting binding of the recognition agent to CYPIBI protein in the prepared sample as an indication of the presence of cancer cells in the tissue sample. 2. A method according to claim 1 which includes the steps of obtaining from a patient a tissue sample to be tested for the presence of cancer cells; and producing a prepared sample in a sample preparation process; prior to contacting the prepared sample with a recognition agent that reacts with human CYPIBI protein. 3. The method of claim 2 wherein binding of said recognition agent to CYPIBI protein in sample is detected by immunohistochemical analysis. 4. The method of claim 3, wherein the sample preparation process comprises contacting the tissue with fixative and producing a thin section suitable for immunohistochemical analysis. 5. The method of claim 4, wherein the fixative is formalin. 6. The method of claims 4 or claim 5, wherein the thin section is wax-embedded. 7. The method of any one of claims 3 to 6, wherein the immunohistochemical analysis comprises a conjugated enzyme labelling technique. 8. The meihod of claim 2, wherein the sample preparation process comprises tissue homogenization. 9. The method of claim 8, wherein the sample preparation process further comprises isolating microsomes. 10. The method of claim 8 or claim 9, wherein the binding of said recognition agent to the CYPIBI protein in the prepared sample is detected by Western blot analysis. 11. The method of claim 10, wherein the Western blot analysis comprises a conjugated enzyme labelling technique. 12. The method of claim 8, wherein the binding of said recognition agent to the CYPIBI protein in the prepared sample is detected by an immunoassay. 13. The method of claim 12, wherein the immunoassay is selected from antibody capture assay, two-antibody sandwich assay and antigen capmre assay. 14. The method of claim 12, wherein the immunoassay is a solid support-based immunoassay. 15. The method of any one of claims 12, 13 and 14, wherein the immunoassay comprises a conjugated enzyme labelling technique. 16. The method of any one of the preceding claims, wherein the recognition agent is a polyclonal antibody. 17. The method of any one of claims 1 to 15, wherein the recognition agent is a monoclonal antibody. 18. The method of any one of the preceding claims, wherein the recognition agent recognizes a preselected epitope of the CYPIBI protein. 19. The method of any one of claims 1 to 17, wherein the recognition agent is specific for CYPIBI protein. 20. The method of any one of the preceding claims, wherein said tissue sample is selected from bladder, brain, breast, colon, connective tissue, kidney, lung, lymph node, oesophagus, ovary, skin, stomach, testis, and uterus. 21. A method of obtaining drugs of potential use in cancer therapy, which comprises screening for or selecting a substance which is susceptible to specific metabolism by CYPIBI, and using that substance as a basis for a non-toxic moiety which can be converted by the CYPIBI metabolism into a toxic one, which kills or inhibits a tumour cell expressing CYPIBI or makes it more susceptible to other agents. 22. A method of providing for the targeting of cytotoxic drugs or other therapeutic agents, or the targeting of imaging agents, in tumour diagnosis or therapy, which comprises providing the drug, therapeutic agent or imaging agent with means for the recognition of a CYPIBI epitope on the surface of a tumour cell, whether as part of the complete CYPIBI protein itself or in some degraded form such as in the presentation on the surface of a cell bound to a MHC protein. 23. A biologically active substance which is capable of stimulation of the human immune system by activating cytotoxic or helper T-cells which recognise CYPIBI epitopes so as to implement a cell-mediated or humoral immune response against a cell in which CYPIBI is expressed. 24. A biologically active substance according to claim 23, which activates the immune system by immunisation with at least one CYPIBI amino acid sequence. 25. A substance for use in the reduction of CYPIBI levels in tumour cells, said substance comprising a suicide inhibitor or means for producing antisense RNA to decrease the synthesis of CYPIBI. 26. A substance according to claim 25, which functions by down-regulation of the CYPIBI promoter. SUBSTITUTE SHEET (RU-E 25)

Inventors: BURKE MICHAEL DANNY, GREENLEE WILLIAM FRANK, MELVIN WILLIAM THOMAS, MURRAY GRAEME IAN, BURKE, MICHAEL, DANNY, GREENLEE, WILLIAM, FRANK, MELVIN, WILLIAM, THOMAS, MURRAY, GRAEME, IAN
Applicants: BURKE MICHAEL DANNY, GREENLEE WILLIAM FRANK, MELVIN WILLIAM THOMAS, MURRAY GRAEME IAN, UNIV ABERDEEN, BURKE, MICHAEL, DANNY, GREENLEE, WILLIAM, FRANK, MELVIN, WILLIAM, THOMAS, MURRAY, GRAEME, IAN, UNIVERSITY OF ABERDEEN
Application year: 1996
Main classification: G01N33
IPC codes: A61K31, A61K38, A61K45, A61P35, C07K14, C12N9, C12Q1, G01N33