Patent Application
20090226936
This invention relates to a tetrahydrofolate synthetase gene, a DNA concerned in said gene and a protein encoded by said DNA. Also, it relates to a DNA which hybridizes with at least either one of a DNA comprising said DNA, a complementary chain of said DNA, a DNA represented by a partial nucleotide sequence of the DNA concerned in said gene and a complementary chain of said DNA. Further, it relates to a recombinant vector comprising the DNA concerned in said gene, a transformant comprising said vector, a method for producing said protein using said transformant and an antibody for said protein. Also, it relates to a method for identifying a compound which inhibits the cell growth accelerating activity possessed by said protein. Further, it relates to a method for judging whether or not a certain tissue is a colon cancer derived tissue. Also, it relates to a preventive agent and/or therapeutic agent for a cancer, which comprises an inhibitor of said protein. In addition, it relates to a kit for judgment of colon cancer, which comprises a DNA which hybridizes with at least either one of a DNA comprising the DNA concerned in said gene, a complementary chain of said DNA, a DNA represented by a partial nucleotide sequence of the DNA concerned in said gene and a complementary chain of said DNA and/or said antibody.
Tetrahydrofolate synthetase (to be referred to as C1-THFS hereinafter) is an enzyme which synthesizes a tetrahydrofolic acid derivative that provides C1 group necessary for various metabolic reactions (Non-patent Reference 1; hereinafter, tetrahydrofolic acid is referred to as TF, and tetrahydrofolic acid derivative as TF derivative). Illustratively, TF derivatives give C1 group to the biosynthesis reactions of purine, thymidylic acid histidine, pantothenic acid and the like. That is, TF and TF derivatives are deeply concerned in nucleic acid metabolism, amino acid metabolism and the like. Thus, TF and TF derivatives are found in tissues where cell division is vigorously carried out and essential for cell multiplication and growth.
C1-THFS is a tri-functional enzyme which has 3 types of functions. Illustratively, C1-THFS has the functions of 10-formyl-THF synthetase (EC 6.3.4.3), 5,10-methenyl-THF cyclohydrolase (EC 3.5.4.9) and 5,10-methylene-THF dehydrogenase (EC 1.5.1.5). By exerting these functions, C1-THFS accelerates synthesis of TF derivatives which are necessary for various metabolic reactions.
Analysis of C1-THFS has been carried out using human, mouse, yeast and the like eucaryote, Escherichia coli and the like procaryote and the like various organism species as the object (Non-patent References 2 to 5). Regarding yeast, the presence of a C1-THFS which functions in its cytoplasm and mitochondria is known. Also, regarding human, the presence of a C1-THFS which functions in the cytoplasm of its cells is known.
However, the presence of a C1-THFS which functions in the mitochondria of human cells is not known, and there is only one report of Non-patent Reference 19. In addition, a human C1-THFS gene whose expression is elevated in colon cancer tissue in comparison with normal colon tissue is not known, too.
The references cited in this description are listed in the following.
Non-patent Reference 1
Hum D W et al., The Journal of Biological Chemistry, 1988, vol. 263, no. 31, pp. 15946-15950.
Non-patent Reference 2
Staben, C et al., The Journal of Biological Chemistry, 1984, vol. 261, pp. 4629-4637.
Non-patent Reference 3
Shannon, K. W. et al., The Journal of Biological Chemistry, 1986, vol. 261, pp. 12266-12271.
Non-patent Reference 4
Thigpen, A. E. et al., The Journal of Biological Chemistry, 1990, vol. 265, pp. 7907-7913.
Non-patent Reference 5
Dev, I. K. et al., The Journal of Biological Chemistry, 1978, vol. 253, pp. 4245-4253.
Non-patent Reference 6
Raj S K et al., Biochemistry and Molecular Biology International, vol. 44, no. 1, pp. 89-95.
Non-patent Reference 7
Frohman M. A. et al., Proceedings of The National Academy of Science of The United States of America, 1988, vol. 85, no. 23, pp. 8998-9002.
Non-patent Reference 8
Proceedings of The National Academy of Science of The United States of America, 1977, vol. 74, pp. 5463-5467.
Non-patent Reference 9
Methods in Enzymology, 1980, no. 65, p. 499-.
Non-patent Reference 10
Claros M G et al., European Journal of Biochemistry, 1996, vol. 241, no. 3, pp. 779-786.
Non-patent Reference 11
Kim P J et al., Lancet, 2003, vol. 362, pp. 205-209.
Non-patent Reference 12
R. H. Giles et al., Biochimica et Biophysica Acta, 2003, vol. 1653, pp. 1-24.
Non-patent Reference 13
He T C et al., Science, 1998, vol. 128, pp. 1509-1515.
Non-patent Reference 14
Levens D L, Genes and Development, 2003, no. 17, pp. 1071 1077.
Non-patent Reference 15
Garrow T A et al., The Journal of Biological Chemistry, 1993, vol. 268, pp. 11910-11916.
Non-patent Reference 16
Nikiforov M A et al., Molecular and Cellular Biology, 2002, vol. 22, pp. 5793-5800.
Non-patent Reference 17
Tavtigian S V et al., Molecular Biology of the Cell, 1994, vol. 5, pp. 375-388.
Non-patent Reference 18
Villar E, The Journal of Biological Chemistry, 1985, vol. 260, no. 4, pp. 2245-2252.
Non-patent Reference 19
Prasannan P et al., The Journal of Biological Chemistry, 2003, vol. 278, no. 44, pp. 43178-43187.
Non-patent Reference 20
Sugiura et al., Biochemical and Biophysical Research Communications, 2004, vol. 315, no. 1, pp. 204-211.
The problem that the invention is to solve is to find and provide a DNA concerned in a novel C1-THFS gene and a protein encoded by said DNA. Also, provision of a DNA which hybridizes with at least either one of a DNA comprising the DNA concerned in said gene, a complementary chain of said DNA, a DNA represented by a partial nucleotide sequence of the DNA concerned in said gene and a complementary chain of said DNA is also included in the problem. Further, provision of a recombinant vector comprising the DNA concerned in said gene, a transformant transformed using said vector, an antibody for said protein, a method for producing said protein and a method for identifying a compound which inhibits the cell growth accelerating activity of said protein is also included in the problem. Further, provision of a kit for judgment of colon cancer, which contains a DNA comprising the DNA concerned in said gene, a complementary chain of said DNA, a DNA represented by a partial nucleotide sequence of the DNA concerned in said gene and a complementary chain of said DNA and/or said antibody, and a method for judging whether or not a certain tissue is a colon cancer derived tissue is also included in the invention. In addition, provision of a preventive agent and/or therapeutic agent for colon cancer is also included in the problem.
The present inventors have conducted intensive efforts for the aforementioned problem and found a novel C1-THFS gene and succeeded in preparing a novel C1-THFS using a DNA concerned in said gene. Thereafter, by analyzing nucleotide sequence of said DNA, it was found that said C1-THFS transfers from cytoplasm to mitochondria and functions in mitochondria. Also, it was proved that said C1-THFS has a cell growth accelerating activity. In addition, it was proved that expression of said C1-THFS gene is significantly elevated in colon cancer tissue in comparison with that in normal colon tissue, thereby accomplishing the invention.
That is, the invention includes the following embodiments.
(1) A DNA of either one of the following (a) and (b):
(a) a DNA represented by a nucleotide sequence of from the 94th to 2934th positions of the nucleotide sequence described in SEQ ID NO:1 of the SEQUENCE LISTING,
(b) a DNA represented by the nucleotide sequence described in SEQ ID NO:1 of the SEQUENCE LISTING.
(2) A DNA which comprises the 94th to 2934th positions of the nucleotide sequence described in SEQ ID NO:1 of the SEQUENCE LISTING, and also encodes a protein having 3 activities of 10-formyl-tetrahydrofolate synthetase activity, 5,10-methenyl-tetrahydrofolate cyclohydrolase activity and 5,10-methylene-tetrahydrofolate dehydrogenase activity, and/or a cell growth accelerating activity.
(3) The DNA described in (2), which is a DNA represented by the nucleotide sequence described in SEQ ID NO:1 of the SEQUENCE LISTING.
(4) A DNA which comprises a nucleotide sequence wherein 1 or 2 or more of bases in the DNA sequence of the DNA described in any one of (1) to (3) are deleted, substituted or added, and encodes a protein having a cell growth accelerating activity.
(5) A DNA which hybridizes with at least either one of a DNA comprising the DNA described in any one of (1) to (4), a complementary chain of said DNA, a DNA represented by a partial nucleotide sequence of the DNA described in any one of (1) to (4) and a chain of said DNA, under a stringent condition.
(6) The DNA described in (5), which is a primer for amplifying at least one of a DNA comprising the DNA described in any one of (1) to (4), a complementary chain of said DNA, a DNA represented by a partial nucleotide sequence of the DNA described in any one of (1) to (4) and a chain of said DNA, and/or a probe for detecting the same, and is a DNA selected from the following group;
(i) a DNA represented by the nucleotide sequence described in SEQ ID NO:3 of the SEQUENCE LISTING,
(ii) a DNA represented by the nucleotide sequence described in SEQ ID NO:4 of the SEQUENCE LISTING,
(iii) a DNA represented by the nucleotide sequence described in SEQ ID NO:5 of the SEQUENCE LISTING, and
(iv) a DNA represented by the nucleotide sequence described in SEQ ID NO:6 of the SEQUENCE LISTING.
(7) A recombinant vector which comprises the DNA described in any one of (1) to (4).
(8) A plasmid FERM BP-8419.
(9) A transformant transformed with the recombinant vector described in (7) or the plasmid described in (8).
(10) A protein of either one of the following (a) and (b);
(a) a protein represented by an amino acid sequence of from the 32nd to 978th positions of the amino acid sequence described in SEQ ID NO:2 of the SEQUENCE LISTING,
(b) a protein represented by the amino acid sequence described in SEQ ID NO:2 of the SEQUENCE LISTING.
(11) A protein encoded by the DNA described in (4).
(12) A method for producing the protein described in (10) or (11), which comprises a step of culturing a transformant transformed with the recombinant vector described in (7) or the plasmid described in (8).
(13) An antibody for the protein described in (10) or (11) or a fragment of said protein as the antigen.
(14) A method for identifying a compound that inhibits the cell growth accelerating activity possessed by the protein described in (10) or (11), characterized in that whether or not a certain compound inhibits the cell growth accelerating activity of the protein described in (10) or (11) is judged by detecting the presence, absence or change of the cell growth accelerating activity under such a condition that interaction between said compound and the protein described in (10) or (11) is enabled.
(15) A method for identifying a compound that inhibits the cell growth accelerating activity possessed by the protein described in (10) or (11), characterized in that it uses at least one of the protein described in (10) or (11), the DNA described in any one of (1) to (4), the DNA described in (5) or (6), the recombinant vector described in (7) or the plasmid described in (8), the transformant described in (9) and the antibody described in (13).
(16) A method for judging whether or not a certain tissue is a colon cancer derived tissue, characterized in that expressed amount of the DNA described in any one of (1) to (4) in the certain tissue is measured.
(17) The judging method described in (16), wherein it is judged that a certain tissue is a colon cancer derived tissue when expressed amount of the DNA described in any one of (1) to (4) in the certain tissue is 3 times or more of the expressed amount of the DNA described in any one of (1) to (4) in a normal colon derived tissue as the control.
(18) The judging method described in (17), wherein expressed amount of the DNA described in any one of (1) to (4) in a certain tissue is measured by the following steps;
(i) a step for carrying out reverse transcription reaction using RNA contained in the certain tissue as the template,
(ii) a step for carrying out polymerase chain reaction using the cDNA synthesized by the reverse transcription reaction as the template, and DNA fragments represented by the nucleotide sequences described in SEQ ID NOs:5 and 6 of the SEQUENCE LISTING as the primers, and
(iii) a step for measuring amount of DNA amplified by the polymerase chain reaction.
(19) A colon cancer judging kit which is used in the judging method described in any one of (16) to (18), characterized in that it contains at least either one of the DNA described in (5) or (6) and the antibody described in (13).
(20) A preventive agent and/or therapeutic agent for colon cancer, which comprises an inhibitor of the protein described in (10) or (11).
ND represents N-terminal moiety DNA, NT represents N-terminal deficient DNA, and SP represents target sequence (signal peptide).
The numeral 1 represents a colon cancer cell HCT116, 2 represents a colon cancer cell SW620 and 3 represents a normal colon cell CCD841CoN. DKFZP shows expression quantity of the gene to be provided by the invention, and GAPDH shows expression quantity of glyceraldehyde 3-phosphate dehydrogenase.
The symbol — shows a sample derived from an animal cell of no gene transfer, E shows a sample derived from an animal cell in which pCMV-Tag4 vector was transferred, and FL shows a sample derived from an animal cell in which the recombinant pCMV-Tag4 vector concerned in the DNA to be provided by the invention was transferred.
DKFZP shows growth of an animal cell into which the recombinant pCMV-Tag4 vector concerned in the DNA to be provided by the invention was transferred, and Empty Vector shows growth of the animal cell into which pCMV-Tag4 vector was transferred.
According to this description, the “stringent condition” means, for example, a case in which a sample is heated at 42° C. in a solution of 6×SSC, 0.5% SDS and 50% formamide, and then washed at 68° C. in a solution of 0.1×SSC and 0.5% SDS.
The hybridization means a case in which it was carried out in accordance with the methods described in Molecular Cloning, A Laboratory Manual, edited by T. Maniatis et al., published in 1989 by Cold Spring Harbor Laboratory, and the like.
According to this description, the “homology” means a numerical value calculated, for example, using BLAST (National Center for Biotechnology Information).
According to this description, the “tissue” may contain one or more cells, and a single cell is also included in the definition of “tissue”.
(Preparation of the Instant Gene)
The DNA concerned in the instant gene can be prepared making use of the conventionally known DNA cloning method, RT-PCR method (Non-patent Reference 6), RACE method (Non-patent Reference 7) and the like. For example, when the RT-PCR method is used, total RNA is extracted from an appropriate origin in which expression of the DNA concerned in the instant gene was confirmed, making use of a conventionally known RNA preparation method. Since expression of the instant gene is elevated in human colon cancer tissue in comparison with normal colon tissue, the human colon cancer tissue can be exemplified as said origin. Next, cDNA is synthesized from the extracted RNA making use of a conventionally known reverse transcriptase reaction. As primers for the reverse transcriptase reaction, oligo(dT) primers, random primers and the like can be exemplified. These primers can be obtained by their synthesis in accordance with the usual way. The synthesized cDNA is amplified making use of a conventionally known PCR method using primers peculiar to the nucleotide sequence of cDNA (two primers of a sense primer and an antisense primer). The primers for PCR can be optionally designed based on the nucleotide sequence information of the cDNA, and can be obtained by synthesis in accordance with the usual way. As the sense primer, a DNA consisting of the DNA sequence described in SEQ ID NO:3 of the SEQUENCE LISTING can be exemplified. As the antisense primer, a DNA consisting of the DNA sequence described in SEQ ID NO:4 of the SEQUENCE LISTING can be exemplified. Isolation and purification of the amplified cDNA can be carried out in the usual way. For example, this can be carried out by a gel electrophoresis. After the amplification, the DNA concerned in the instant gene can be obtained as the isolated and purified cDNA.
Nucleotide sequence of the thus obtained DNA can be determined making use of conventionally known methods. For example, the nucleotide sequence can be determined making use of the dideoxy method (Non-patent Reference 8) or Maxam-Gilbert method (Non-patent Reference 9).
(Function of the Instant Gene)
It was revealed that the instant gene is a novel gene of ORF 2934 bp, coding for 978 amino acids. Of which, an amino acid sequence of from the 1st to 31st positions is the mitochondria target sequence, and a protein represented by an amino acid sequence of from 32nd to 678th positions is the mature protein.
Nucleotide sequence of a DNA moiety (to be referred to as N-terminal deficient DNA) of the DNA concerned in the instant gene in which a part of the 5′-end moiety (to be referred to as N-terminal moiety DNA) was missed is registered on a nucleotide data base (DDBJ/EMBL/GenBank) and opened to the public (
As a result of homology retrieval of the N-terminal deficient DNA with the already known DNA concerned in human CL-THFS gene on their amino acid sequences, it was revealed that, among partial sequences on the already known human CL-THFS gene corresponding to the three types of enzyme activities possessed by the already known human CL-THFS gene, the N-terminal deficient DNA has a homology of about 75.7% with the partial sequence corresponding to the enzyme activity of 10-formyl-tetrahydrofolate synthetase, a homology of about 33.2% with the partial sequence corresponding to the enzyme activity of 5,10-methenyl-tetrahydrofolate cyclohydrolase, and a homology of about 33.2% with the partial sequence corresponding to the enzyme activity of 5,10-methylene-tetrahydrofolate dehydrogenase.
Also, a human CL-THFS ortholog has already been discovered. As a result of homology retrieval of the human C1-THFS ortholog gene with the already known human C1-THFS gene on their nucleotide sequences, it was found that, among partial sequences corresponding to the three types of enzyme activities possessed by the already known human C1-THFS gene, homology with the partial sequence corresponding to the enzyme activity of 10-formyl-tetrahydrofolate synthetase is high in comparison with the homology with the partial sequence corresponding to the enzyme activity of 5,10-methenyl-tetrahydrofolate cyclohydrolase and the partial sequence corresponding to the enzyme activity of 5,10-methylene-tetrahydrofolate dehydrogenase. In addition, it was revealed also that the protein encoded by the human C1-THFS ortholog gene has all of the three enzyme activities possessed by the already known human C1-THFS.
That is, it is considered that in comparison with the partial structure corresponding to the enzyme activity of 10-formyl-tetrahydrofolate synthetase, the partial structure corresponding to the enzyme activity of 5,10-methenyl-tetrahydrofolate cyclohydrolase and the partial structure corresponding to the enzyme activity of 5,10-methylene-tetrahydrofolate dehydrogenase are partial structures in which their activities are not easily lost by a change of amino acid sequence caused by a DNA mutation or the like.
Based on these, it is considered that the protein encoded by the DNA concerned in the instant gene also has all of the three enzyme activities possessed by C1-THFS. That is, it is considered that the protein encoded by the DNA concerned in the instant gene is an isozyme of the human C1-THFS.
On the other hand, those which have a specific target sequence in the N-terminal moiety are present among proteins synthesized on ribosome. It is known that these proteins are transferred to Golgi body, mitochondria and the like cell organelles by the target sequences. The target sequences possessed by all of the proteins to be transferred to mitochondria do not always have a consensus on amino acid sequences. However, it is known that the target sequences possessed by all of the proteins to be transferred to mitochondria commonly have high containing ratio of basic amino acids, and the target sequences are hydrophobic in general (Non-patent Reference 10). Accordingly, it is possible to predict whether or not an optional protein having distinct amino acid sequence has a target sequence for its transfer to mitochondria, using this tendency as the index.
As a result of predicting whether or not a polypeptide encoded by the N-terminal DNA has a target sequence, from its amino acid sequence, it was revealed that the polypeptide encoded by the N-terminal DNA has a target sequence. Accordingly, it is considered that the protein encoded by the DNA concerned in the instant gene is synthesized on ribosome and transferred to mitochondria, a peptide concerned in the target sequence is further cut off in mitochondria, and as a result, the polypeptide resulting from the removal of the peptide concerned in the target sequence functions as a mature protein. As shown in the following Examples, it was confirmed that an amino acid sequence of from 1st to 31st positions of the amino acid sequence of SEQ ID NO:2 is the mitochondria target sequence.
In addition, as a result of transferring the DNA concerned in the instant gene into a cell strain derived from human fetal kidney using liposome, growth of the cell was accelerated in comparison with the case of no transfer. Since it is predicted that the protein encoded by the DNA concerned in the instant gene has the three enzyme activities of C1-THFS, it is considered that the result of cell growth acceleration is due to concern of the protein encoded by the DNA concerned in the instant gene in the nucleic acid synthesis.
In comparison with the N-terminal deficient DNA, the DNA concerned in the instant gene has an N-terminal moiety DNA, namely a DNA comprising a DNA concerned in the target sequence for transferring from cytoplasm to mitochondria. This means that, different from the gene coding for the already known human C1-THFS which functions by presenting in cytoplasm, the instant gene is a gene coding for a mitochondria localizing human C1-THFS. Also, expression of the instant gene is significantly elevated in colon cancer tissue in comparison with normal colon tissue. Based on the above, the invention contributes to the further elucidation of metabolic reaction of C1-THFS. In addition, the instant gene can contribute to the development of a new antitumor agent as a gene coding for a protein targeting at the antitumor agent, which is not present for the conventional C1-THFS genes.
(DNA)
The DNA concerned in the invention is a DNA which comprises a DNA represented by a nucleotide sequence of from the 94th to 2934th positions of the nucleotide sequence described in SEQ ID NO:1 of the SEQUENCE LISTING, preferably a DNA represented by a nucleotide sequence of from the 94th to 2934th positions described in SEQ ID NO:1 of the SEQUENCE LISTING, or a DNA represented by the nucleotide sequence described in SEQ ID NO:1 of the SEQUENCE LISTING.
Also included in the DNA concerned in the invention is a DNA which comprises the 94th to 2934th positions of the nucleotide sequence of SEQ ID NO:1 of the SEQUENCE LISTING, and also encodes a protein having 3 activities of 10-formyl-tetrahydrofolate synthetase activity, 5,10-methenyl-tetrahydrofolate cyclohydrolase activity and 5,10-methylene-tetrahydrofolate dehydrogenase activity, and/or a cell growth accelerating activity, preferably a DNA represented by a nucleotide sequence of from the 94th to 2934th positions described in SEQ ID NO:1 of the SEQUENCE LISTING, or a DNA represented by the nucleotide sequence described in SEQ ID NO:1 of the SEQUENCE LISTING.
In addition, a DNA which comprises the DNA sequence of the aforementioned DNA, wherein it has deletion, substitution, addition or the like mutation or induced mutation of 1 or 2 or more of bases, and encodes a protein having a cell growth accelerating activity, is also included in the DNA concerned in the invention. Said DNA may be a naturally occurring one, or a DNA obtained by introducing a mutation based on a natural origin gene. The method for introducing mutation is conventionally known, and a method for preparing deletion mutants using an exonuclease, a site-directed mutagenesis method and the like can be exemplified.
The “1 or 2 or more” is generally from 1 to 20, preferably from 1 to 10, more preferably from 1 to several. The several is generally from 1 to 5, preferably from 1 to 3, more preferably 1 or 2.
According to this description, the aforementioned DNA is called the DNA concerned in the instant gene.
In addition, a DNA which hybridizes with at least one of a DNA comprising the DNA concerned in the instant gene, a complementary chain of said DNA, a DNA represented by a partial nucleotide sequence of the DNA concerned in the instant gene and complementary chains of said DNA, under a stringent condition, is also included in the DNA concerned in the instant invention. Said DNA is a DNA consisting of preferably 5 or more nucleotides, more preferably 10 or more nucleotides, further preferably 20 or more nucleotides, as its minimum unit. It is desirable that said DNA has a nucleotide sequence region specific to the DNA concerned in the invention. It is possible to produce said DNA making use of a conventionally known chemical synthesis method (cf. Gene, vol. 60 (1), pp. 115-127 (1987)) based on the nucleotide sequence information of said DNA. Said DNA is used as a primer for amplifying the DNA concerned in the instant gene, a probe for detecting the DNA concerned in the instant gene and the like.
As the DNA comprising the DNA concerned in the instant gene, a DNA which has an additional sequence on the N-terminus and/or C-terminus of the DNA concerned in the instant gene can be exemplified. The additional sequences are not limited with the proviso that the protein encoded by such a DNA has cell growth activity and/or the aforementioned three enzyme activities.
In addition, a DNA which is a primer for amplifying at least one of a DNA comprising the DNA concerned in the instant gene, a complementary chain of said DNA, a DNA represented by a partial nucleotide sequence of the DNA concerned in the instant gene and complementary chains of said DNA, and/or a probe for detecting the same, is also included in the DNA concerned in the instant gene. Said DNA is used for the preparation of the instant gene, measurement of the amount of transcription products of the instant gene and the like. For example, said DNA is a DNA consisting of the nucleotide sequence described in any one of SEQ ID NOs:3 to 6 of the SEQUENCE LISTING. For example, a DNA consisting of the nucleotide sequence described in SEQ ID NO:3 or 4 of the SEQUENCE LISTING is used as a primer for amplifying a DNA comprising the DNA concerned in the instant gene and complementary chains of said DNA in preparing the DNA concerned in the instant gene. For example, a DNA consisting of the nucleotide sequence described in SEQ ID NO:5 or 6 of the SEQUENCE LISTING is used as a primer for amplifying a fragment of the DNA concerned in the instant gene and complementary chains of said DNA fragment and as a probe for detecting the DNA concerned in the instant gene and complementary chains of said DNA.
According to this description, DNA preparations among the aforementioned DNA preparations excluding the DNA preparations concerned in the instant gene are called DNA preparations which hybridize with the instant gene and the like.
(Protein)
An embodiment of the invention is a protein represented by an amino acid sequence of from 32nd to 978th positions of the amino acid sequence described in SEQ ID NO:2 of the SEQUENCE LISTING or a protein represented by the amino acid sequence described in SEQ ID NO:2 of the SEQUENCE LISTING. In addition, a protein encoded by the DNA concerned in the instant gene, such as a protein encoded by a DNA which has deletion, substitution, addition or the like mutation or induced mutation of 1 or 2 or more of bases in the DNA sequence of the DNA represented by the nucleotide sequence described in SEQ ID NO:1 of the SEQUENCE LISTING, and has a cell growth accelerating activity, is also included in the protein concerned in the invention.
It is possible to modify these proteins to such a degree that significant alteration of their functions does not occur, such as modification of the constituting amino group, carboxyl group or the like. For example, a protein labeled by adding other protein or the like to the N-terminus or C-terminus directly or indirectly via a linker protein using a genetic engineering technique or the like is also included in the invention. As the protein or the like to be added, glutathione S-transferase, β-galactosidase, alkaline phosphatase and the like enzymes, His-tag, Myc-tag, HA-tag, FLAG-tag and the like tag peptides, fluorescein isothiocyanate and the like fluorescent materials and the like can for example be cited. By the addition of these proteins or the like, it becomes possible to easily purify and detect the protein concerned in the invention.
The protein to be provided by the invention may be prepared from a cell in which a DNA coding for said protein is expressed by a genetic engineering technique, a cell-free system synthesis product, a chemical synthesis product or a biological sample derived from a living body, or may be the one further purified therefrom.
The protein to be provided by the invention is useful in carrying out screening of an inhibitor which inhibits the activity of said protein. For example, a cell growth accelerating activity can be cited as the activity of said protein.
By accomplishing the invention which provides the instant gene, the protein encoded by the DNA concerned in the instant gene can be expressed while keeping its C1-THFS activity. In addition, it also renders possible purification of said protein and screening of an agent targeting at said protein.
On the other hand, in comparison with an N-terminal deficient DNA, the DNA concerned in the instant gene is possessed of an N-terminal moiety DNA, namely a DNA concerned in the target sequence for transferring from cytoplasm to mitochondria, and a DNA represented by a partial nucleotide sequence of the DNA concerned in the structural gene. Accordingly, provided that the N-terminal deficient DNA is forcedly expressed in an animal cell or the like using an N-terminal deficient DNA, the N-terminal deficient DNA does not contain whole DNA concerned in the structural gene, so that it is considered that the expressed protein does not show the C1-THFS activity. In addition, since the N-terminal deficient DNA does not have the DNA concerned in the target sequence for transferring from cytoplasm to mitochondria, it can be hardly considered that the expressed protein is transferred from cytoplasm to mitochondria and shows the C1-THFS activity thereon.
(Recombinant Vector)
As one of the embodiments, the invention provides a recombinant vector which comprises the DNA concerned in the instant gene. The recombinant vector can be obtained by inserting the DNA concerned in the instant gene and the like into an appropriate vector DNA.
The vector DNA is optionally selected depending on the kind of transfected cell and the like. In addition to the one prepared by extracting naturally existing counterpart, the vector DNA may be another one in which a DNA moiety other than the moiety necessary for replication is partially deleted. For example, vectors derived from a plasmid, a bacteriophage and a virus can be cited. As the plasmid DNA, an Escherichia coli derived plasmid, a Bacillus subtilis derived plasmid and a yeast derived plasmid can be exemplified. As the bacteriophage DNA, λ phage and the like can be exemplified. As the virus derived vector DNA, retrovirus, vaccinia virus, adenovirus, papovavirus, SV40, baculovirus and the like can be exemplified. In addition to these, transposon derived, insertion element derived vector DNA and the like can be exemplified. Alternatively, a vector DNA prepared by a combination thereof (cosmid or the like) can be exemplified. The recombinant vector uses the gene sequence of interest and a gene sequence which carries information on the replication and control, such as a promoter, a ribosome binding region, a terminator, a signal sequence, an enhancer, a selection marker or the like, as the composing elements, and is prepared by combining them based on a conventionally known method. As the selection marker, an ampicillin resistance gene, a neomycin resistance gene and the like can be exemplified.
As the method for integrating a gene of interest into a vector DNA, a conventionally known method can be employed. For example, a method in which the gene of interest is digested at a specified site by selecting an appropriate restriction enzyme and treating therewith, subsequently mixed with a DNA to be used as the vector after treating in the same manner, and then connected again by a ligase. Alternatively, a desired vector can also be obtained by ligating an appropriate linker to the gene of interest, and inserting this into a multi-cloning site of a vector suited for the purpose.
In the pCMV-Tag4A-hC1S (
(Transformant)
In one of the embodiments of the invention, a transformant obtained by introducing a recombinant vector concerned in the invention into a host is provided. When an expression vector is used as the vector DNA, the protein concerned in the invention can be provided. One or two or more of vector DNA into which a desired gene other than the DNA concerned in the invention is inserted can be further introduced into said transformant. The vector DNA to be introduced into a host may be one kind of vector or two or more kinds of vector DNA.
As the host, both of procaryote and eucaryote can be used. As the procaryote, Escherichia coli, Bacillus subtilis and the like can be exemplified. As the eucaryote, a yeast cell and an insect cell, or a monkey kidney derived cell, a Chinese hamster ovary cell, a mouse L cell, a rat GH3 cell, a human FL cell, a 293 EBNA cell and the like animal cells can be exemplified. Preferably, an animal cell is used. More preferably, a human cell is used.
The transformation can be carried out making use of a conventionally known method. Preferably, an integration method into chromosome of the host can be exemplified taking stability of the gene into consideration, but conveniently, an autonomous replication system using an extranuclear gene is used. Introduction of the DNA to be provided by the invention is carried out making use of a conventionally known method. For example, the calcium phosphate method, the electroporation method and the lipofection method can be cited, though not limited to these methods. From the viewpoints of introducing efficiency and convenience, the lipofection method can be preferably exemplified. In this connection, in the Examples which are described later, the protein concerned in the invention was expressed using a transformant obtained as a result of carrying out transformation by introducing pCMV-Tag4A-hC1S into a 293 cell by the lipofection method. The 293 cell means a human fetal kidney cell transformed with an oncogene E1 of adenovirus type 5.
(Production Method of Protein)
As one of the embodiments of the invention, there is provided a method for producing the protein concerned in the invention, which comprises a step for culturing the transformant concerned in the invention. Expression of the protein concerned in the invention can be carried out using a cell-free protein expression system. In addition to this, the protein concerned in the invention can be expressed using a gene recombination technique making use of an Escherichia coli cell, a yeast cell, a Bacillus subtilis cell, an insect cell, an animal cell or the like conventionally known host. For example, the protein concerned in the invention can be produced by culturing the transformant concerned in the invention, and subsequently recovering the protein of interest from a cultured material obtained by the culturing. Culturing of the transformant concerned in the invention can be carried out making use of conventionally known culture condition and culturing method most suited for each host. The culturing can be carried out using the cell growth accelerating activity of said protein expressed by the transformant as the index. In addition, this can also be carried out using the aforementioned 3 enzyme activities possessed by said protein as the index. These enzyme activities can be measured using a conventionally known method (Non-patent Reference 18). Alternatively, amount of said protein produced in the host or outside the host may be used as the index. The expressed protein can be purified and recovered making use of a conventionally known purification method. For example, it can be purified and recovered by a combination of molecular sieve, ion exchange chromatography, affinity chromatography and the like. In addition to this, it can also be purified and recovered by ammonium sulfate, alcohol and the like fractionation means. Preferably, it can be purified and recovered by preparing an antibody for the protein concerned in the invention, and making use of the specific adsorption of the protein concerned in the invention to said antibody.
(Antibody)
As one of the embodiments of the invention, an antibody for the protein concerned in the invention is provided. The antibody is prepared using the protein concerned in the invention or a fragment thereof as the antigen. The antigen may be either said protein or a fragment thereof and is constituted from at least 8, preferably at least 10, more preferably at least 12, more preferably 15 or more, of amino acids. In order to prepare an antibody specific for said protein, it is desirable to use a region consisting of an amino acid sequence peculiar to said protein and/or a fragment thereof. The amino acid sequence of this region is not necessarily the same as or homologous to the amino acid sequence concerned in the protein of the invention or a fragment thereof, but may be a region exposed to the outside of said protein in view of its three-dimensional structure, and even when the amino acid sequence of the exposed region is discontinued in view of its primary structure, it may be a continuous amino acid sequence regarding the exposed region. The antibody is not particularly limited with the proviso that it specifically binds to or recognizes the protein to be provided by the invention and/or a fragment thereof. The presence or absence of this binding or recognition can be determined making use of a conventionally known antigen-antibody binding reaction.
The antibody is produced making use of a conventionally known antibody preparation method. In order to produce the antibody, the protein to be provided by the invention or a fragment thereof is administered to an animal directly or by linking to a carrier, in the presence or absence of an adjuvant, to carry out humoral response and/or cellular response and the like immune induction in the animal. The carrier is not particularly limited with the proviso that it does not cause an injurious action upon the host and reinforces antigenicity, and for example, cellulose, polymerized amino acid, albumin and the like can be exemplified. As the animal to be immunized, mouse, rat, rabbit, goat, horse and the like are suitably used. A polyclonal antibody is prepared from serum of the aforementioned immunized animal making use of a conventionally known antibody recovering method. As a desirable antibody recovering method, an immune affinity chromatography can be exemplified.
Production of a monoclonal antibody is carried out by recovering an antibody producing cell (e.g., lymphocyte derived from the spleen or lymph node) from the aforementioned immunized animal, and employing a transformation means to a conventionally known persistently growing cell. For example, hybridomas are prepared by fusing the antibody producing cell and persistently growing cell by a conventionally known method and after cloned, a hybridoma capable of producing an antibody which specifically recognizes the protein to be provided by the invention and/or a fragment thereof is selected, and the antibody is recovered from a culture medium of said hybridoma.
The thus obtained polyclonal antibody or monoclonal antibody can be used directly as an antibody for purification, labeling marker and the like of the protein to be provided by the invention. In addition, said polyclonal antibody or said monoclonal antibody can control activity of the protein to be provided by the invention by binding thereto. Accordingly, this is useful for the treatment and/or prevention of a disease in which activity of the protein concerned in the invention is concerned. For example, since expression of the DNA concerned in the instant gene is elevated in human colon cancer tissue in comparison with human normal colon tissue, said polyclonal antibody or said monoclonal antibody is useful for the treatment and/or prevention of colon cancer. In addition, said polyclonal antibody or said monoclonal antibody can provide a colon cancer diagnosing means as a labeling marker of said protein.
(Identification Method of Compound)
As one of the embodiments of the invention, there is provided a method for identifying a compound which inhibits the cell growth accelerating activity of the protein concerned in the invention. Said compound identification method can be carried out making use of a conventionally known medicament screening system, using at least any one of the protein concerned in the invention, the DNA concerned in the invention, the recombinant vector concerned in the invention or the plasmid concerned in the invention, the transformant concerned in the invention and the antibody concerned in the invention. The identification method concerned in the invention renders possible selection of an antagonist by a drug design based on the three-dimensional structure of said protein, selection of an antibody recognizing substance making use of said antibody and the like. The compound identified by said identification method is useful for the treatment and/or prevention of a disease in which activity of the protein concerned in the invention is concerned. Expression of the DNA concerned in the instant gene is elevated in human colon cancer tissue in comparison with human normal colon tissue. Accordingly, said compound is useful for the treatment and/or prevention of colon cancer.
For example, in an experimental system for measuring cell growth accelerating activity of the protein concerned in the invention, said activity is measured by allowing said protein and a compound to be tested to coexist under a condition which renders possible interaction between said protein and the compound to be tested. Subsequently, it becomes possible to identify a compound which inhibits said activity of said protein by detecting the presence, absence or change of said activity, such as decrease, increase, disappearance, appearance and the like of the same, obtained based on the comparison with a result measured in the absence of the compound to be tested. Measurement of the activity can be carried out by direct detection or can be carried out, for example, by introducing a signal to be used as the index of the activity into the experimental system and then detecting said signal. As the signal, glutathione S-transferase, or His-tag, Myc-tag, HA-tag, FLAG-tag and the like tag peptides and the like can be used.
By comparing said activity of said protein in the case of the coexistence of a compound to be tested with said activity of said protein in the case of the absence of the compound to be tested, effect of said compound to be tested on said activity can be measured. When said activity in the case of the coexistence of said compound to be tested is reduced in comparison with said activity of said protein in the case of the absence of said compound to be tested, it can be judged that said compound to be tested has the effect to inhibit the activity of said protein.
As an example, by using the cell growth accelerating activity of the protein concerned in the invention as the index, a compound capable of giving influence upon said activity can be selected. Said cell growth accelerating activity can be determined by culturing a cell which expresses the protein concerned in the invention and counting the number of grown cells after the culturing. The number of cells can be counted by staining the intact cells using Violet, Neutral Red or the like. In addition, it is possible also to count the number of cells using incorporation of radiation-labeled thymidine by intact cells as the index.
(Judging Method of Colon Cancer)
Also, as one of the embodiments of the invention, there is provided a method for judging whether or not a certain tissue is a colon cancer derived tissue, characterized in that expressed amount of the DNA concerned in the instant gene in the certain tissue is measured. That is, expression of the DNA concerned in the instant gene is significantly elevated in colon cancer tissue in comparison with normal colon tissue. Accordingly, it is possible to judge whether or not a certain tissue is a colon cancer derived tissue, using expressed amount expression of the DNA concerned in the instant gene as the index.
Regarding the sample to be tested, it is not particularly limited with the proviso that it contains the gene to be provided by the invention and/or a nucleic acid of a mutant gene thereof and/or a nucleic acid fragment thereof. For example, colon tissue, colon tissue biopsy and the like living body derived biological samples can be exemplified as the sample to be tested. As the nucleic acid, a DNA comprising the DNA concerned in the instant gene, a complementary chain of said DNA, a fragment of the DNA concerned in the instant gene, a complementary chain of said DNA fragment, an RNA as a product of transcription of such a DNA and the like can be exemplified. The sample to be tested can be prepared using various methods which facilitate detection of nucleic acid contained in the sample, such as denaturation, restriction enzyme digestion, electrophoresis, dot blotting and the like methods.
Detection of said nucleic acid and measurement of the amount of said nucleic acid can be carried out making use of conventionally known gene detection method and measuring method. As said detection method, for example, in situ hybridization, northern blot technique and the like can be exemplified. As said measuring method, northern blot technique, quantitative RT-PCR, spectroscopic analysis and the like can be exemplified. For example, it is possible to measure expressed amount of the DNA concerned in the instant gene by the following steps.
(i) A step for carrying out reverse transcription reaction using RNA contained in a certain tissue as the template,
(ii) a step for carrying out polymerase chain reaction using the cDNA synthesized by the reverse transcription reaction as the template, and DNA fragments represented by the nucleotide sequences described in SEQ ID NOs:5 and 6 of the SEQUENCE LISTING as the primers, and
(iii) a step for measuring amount of DNA amplified by the polymerase chain reaction.
According to said detection method, the DNA concerned in the instant gene or a fragment of complementary chain of said DNA having a property as a probe or having a property as a primer is useful in carrying out identification of a gene concerned in the invention or a mutant gene thereof and/or amplification of a DNA concerned in said gene. The DNA fragment having a property as a probe means a DNA which can specifically hybridize only with the DNA concerned in the instant gene. The one having a property as a primer means a DNA which can specifically amplify only the DNA concerned in the instant gene. As the probe or primer, the one having a nucleotide sequence length of generally from about 5 to 50 nucleotides is preferable, the one having from about 10 to 35 nucleotides is more preferable, and the one having from about 15 to 30 nucleotides is further preferable. In general, labeled one is used as the probe, but it may be a non-labeled one. As a suitable label, a radioisotope, biotin, a fluorescent substance, a chemiluminescent substance, an enzyme, an antibody and the like can be exemplified. As the method for labeling a probe, nick translation, random priming, a method which uses kinase treatment and the like can be exemplified. For example, the polynucleotide concerned in the invention can be exemplified as said probe and/or primer.
In addition, when the expressed amount in the aforementioned identification method is 2 times or more, preferably 3 times or more, more preferably 4 times or more, further preferably 8 times or more, in comparison with the expressed amount of the DNA concerned in the instant gene in normal colon derived tissue as the control, it is possible to judge that the certain tissue is a colon cancer derived tissue. In the Examples which are described later, the expressed amount of said DNA in a colon cancer cell was about 2.38 times of the expressed amount of said DNA in a normal colon cell.
(Judging Kit of Colon Cancer)
Also, as one of the embodiments of the invention, there is provided a kit for judging colon cancer, characterized in that it contains at least either one of the DNA which hybridizes with the instant gene and the like and the antibody concerned in the invention. For example, since elevation of expression of the DNA concerned in the instant gene is found in human colon cancer tissue in comparison with human normal colon tissue, it is possible to judge whether or not a certain tissue is a colon cancer derived tissue, by detecting expressed product of said DNA in a tissue to be tested using the DNA contained in the colon cancer judging kit concerned in the invention as the probe and measuring expressed amount of said DNA. Said judging kit may contain a buffer solution, a salt, a stabilizing agent and/or an antiseptic and the like substances. In this connection, in preparing a pharmaceutical preparation, a conventionally known preparation means may be introduced according to the properties of the DNA which hybridizes with the instant gene and the like and said antibody.
(Preventing Agent and/or Therapeutic Agent for Colon Cancer)
As one of the embodiments, the invention provides a preventive agent and/or therapeutic agent for colon cancer, which comprises an inhibitor of the protein concerned in the invention. As the inhibitor of the protein concerned in the invention, an antibody concerned in the invention and a compound identified by the identification method concerned in the invention can be exemplified. Since expression of the DNA concerned in the instant gene is elevated in colon cancer tissue in comparison with normal colon tissue, inhibitor of the protein concerned in the invention is useful in preventing and/or treating colon cancer.
It is desirable to use 1 or 2 or more carriers for medicament use for the production of a medicament. Amount of the active ingredient to be contained in the pharmaceutical preparation concerned in the invention is optionally selected from a broad range, but it is appropriate to set it within the range of generally from about 0.00001 to 70% by weight, preferably from 0.0001 to 5% by weight.
As the carrier for medicament use, a bulking agent, an extending agent, a binder, a moistening agent, a disintegrating agent, a surfactant, a lubricant and the like diluents, fillers and the like, which are generally used according to the using form of the pharmaceutical preparations, can be exemplified, and these are optionally selected according to the administration form of the pharmaceutical preparation to be obtained.
For example, water, pharmaceutically acceptable organic solvent, collagen, polyvinyl alcohol, polyvinyl pyrrolidone, carboxy vinyl polymer, sodium alginate, water-soluble dextran, carboxymethyl starch sodium, pectin, xanthan gum, gum arabic, casein, gelatin, agar, glycerol, propylene glycol, polyethylene glycol, vaseline, paraffin, stearyl alcohol, stearic acid, human serum albumin, mannitol, sorbitol, lactose and the like can be cited. These are optionally used alone or as a combination of 2 or more according to the dosage forms concerned in the invention.
As occasion demands, the medicament can also be prepared by optionally using various components which are used in general pharmaceutical preparations, such as a stabilizing agent, a germicide, a buffer agent, a tonicity agent, a chelating agent, a pH adjusting agent, a surfactant.
As the stabilizing agent, for example, human serum albumin and general L-amino acid, saccharides, cellulose derivatives and the like can be exemplified, and these can be used alone or in combination with a surfactant or the like. Particularly according to this combination, stability of the active ingredient is further improved in certain cases. The aforementioned L-amino acid is not particularly limited, and it may be any one of for example glycine, cysteine, glutamic acid and the like. The saccharides are not particularly limited too, and for example they may be any one of glucose, mannose, galactose, fructose and the like monosaccharides, mannitol, inositol, xylitol and the like sugar alcohols, sucrose, maltose, lactose and the like disaccharides, dextran, hydroxypropyl starch, chondroitin sulfate, hyaluronic acid and the like polysaccharides and the like and derivatives thereof and the like. The cellulose derivatives are not particularly limited too, and they may be any one of methyl cellulose, ethyl cellulose, hydroxyethyl cellulose, hydroxypropyl cellulose, hydroxypropylmethyl cellulose and the like. The surfactant is not particularly limited too, and any one of ionic and anionic surfactants can be used. A polyoxyethylene glycol sorbitan alkyl ester system, a polyoxyethylene alkyl ether system, a sorbitan monoacyl ester system, a fatty acid glyceride system and the like are included therein.
As the buffer agent, boric acid, phosphoric acid, acetic acid, citric acid, ε-amino-caproic acid, glutamic acid and/or salts corresponding thereto (e.g., their sodium salt, potassium salt, calcium salt, magnesium salt and the like alkali metal salts and alkaline earth metal salts) and the like can be exemplified.
As the tonicity agent, for example, sodium chloride, potassium chloride, saccharides, glycerol and the like can be exemplified.
As the chelating agent, for example, sodium edetate, citric acid and the like can be exemplified.
The medicament and pharmaceutical composition concerned in the invention can be used as a solution preparation and also can be used by making this into such a state that it can be freeze-dried, and then, when used, adjusting to an appropriate concentration by dissolving in water or a buffer solution containing physiological saline or the like.
The range of dose of the pharmaceutical composition is not particularly limited, and it is desirable to select it optionally, depending on the efficacy of the pharmaceutical composition of the invention, administration form, kind of the disease, properties of each object (body weight, age, the condition of the disease and the presence or absence of the use of other medicaments and the like) and judgment of the doctor in charge.
In general, it is desirable that the appropriate dose is within the range of for example from about 0.01 μg to about 100 mg, preferably from about 0.1 μg to about 1 mg, per 1 kg body weight of the object. However, change of these doses can be carried out using a general conventional test for optimization, which is well known in said field. The aforementioned dose can be administered by dividing it into one to several doses per day, or may be administered intermittently at a ratio of once per several days or several weeks.
A formula suited for each administration form may be selected, and said formula may be used by selecting a counterpart well known to those skilled in the art. In addition, when formulated, these may be used alone, or may be used together with other compound or medicament necessary for the treatment. For example, the active ingredient and the like of other medicament for antitumor use may be blended.
Regarding the administration form, either one of systemic administration and local administration can be selected. In this case, an appropriate administration form is selected according to the disease, symptom and the like. For example, in addition to the general intravenous administration and intraarterial administration, subcutaneous, intracutaneous, intramuscular and the like administrations can also be carried out. It can also be administered directly into a colon cancer tissue.
Shape of the medicament can be selected according to the administration form, and gene therapy agents, cyclodextrin and the like inclusion bodies, solutions, suspensions, fat emulsions, powders, ointments, creams, percutaneous absorption preparations, transmucosal absorption preparations, pills, tablets, capsules, granules, fine subtilaes, suppositories, inhalations, eye lotions, ear lotions and the like can also be prepared. However, embodiments of the medicament of the invention are not limited thereto.
In preparing pharmaceutical preparations, appropriate additives for pharmaceutical preparation use can be used according to the embodiment, and can be made into pharmaceutical preparations in accordance with the usual way.
Liposome formation can be carried out, for example, by adding a solution prepared by dissolving the substance of interest in a solvent to a solution prepared by dissolving phospholipid in an organic solvent (chloroform or the like), evaporating the solvent, adding phosphate buffer to the residue to carry out shaking, ultrasonic treatment and centrifugation treatment, and then filtering and recovering the supernatant.
Cyclodextrin inclusion can be carried out by adding a solution prepared by heat-dissolving cyclodextrin in water or the like to a solution prepared by dissolving the substance of interest in a solvent, and then filtering the precipitate precipitated by cooling and sterilizing and drying the same. Regarding the cyclodextrin to be used in this case, cyclodextrins having different void diameter (α, β, and γ types) may be optionally selected according to said substance.
The solutions for injection can be prepared using a carrier consisting of a salt solution, a glucose solution or a mixture of a salt solution and a glucose solution.
The suspensions can be produced using water, sucrose, sorbitol, fructose and the like saccharides, polyethylene glycol and the like glycols and oils.
Preparation of Fat Emulsions can be Carried Out, for example, by mixing the substance of interest, an oil component (soybean oil, sesame oil, olive oil or the like plant oil, MCT or the like), an emulsifying agent (phospholipid or the like) and the like, making them into a solution with heating, and then adding a necessary amount of water thereto and emulsifying and homogenizing the solution using an emulsifier (a homogenizer such as a high pressure jet type, an ultrasonic type or the like). In addition, it is possible to freeze-dry them. In this connection, an emulsification assisting agent may be added when fat emulsions are prepared, and for example, glycerol and saccharides (e.g., glucose, sorbitol, fructose and the like) can be exemplified as the emulsification assisting agent.
Powders, pills, capsules, tablets, granules, fine subtilaes, drip infusions, suppositories, inhalations, eye lotions, ear lotions, ointments, creams, percutaneous absorption preparations, transmucosal absorption preparations and the like can also be prepared by generally used methods.
The following describes the invention further illustratively based on examples, though the invention is not limited to the following examples.
(Identification of Gene Whose Expression is Elevated in Colon Cancer Cell in Comparison with Normal Colon Cell)
The gene whose expression is elevated in the cancer cell in comparison with the normal cell was identified making use of the microarray data base of Bioexpress (Genelogic). Expression profile data in respective cells of 117 normal colon tissue cell samples and 77 colon cancer cell samples are contained in the microarray data base. The expression profile data are housed as expression data base of respective cells using Affimetrix human gene oligonucleotide chip HG-U133. Among the genes whose expressed amounts are larger in colon cancer cells than in normal colon cells, a gene concerned in the DNA to be provided by the invention, in which full-length nucleotide sequence of the gene is not registered in the nucleotide data base (DDBJ/EMBL/GenBank), was identified. Ratio of the average expression of the gene concerned in the DNA to be provided by the invention in the 77 colon cancer cell samples to the average expression of the gene concerned in the DNA to be provided by the invention in the 117 normal colon tissue cell samples was about 2.38. The significance level was less than 0.0000001. When the ratio of expression of the gene concerned in the DNA to be provided by the invention was examined in the same manner for other cancer cells, the result showed an expression ratio of about 1.22 (significance level 0.00243) in the case of breast cancer, about 1.52 (significance level less than 0.0000001) in the case of lung cancer, about 1.98 (significance level 0.00003) in the case of gastric cancer, and about 1.37 (significance level 0.0019) in the case of cancer of the pancreas.
(Preparation of Gene)
As a gene corresponding to the probe sequence information of the microarray data base, nucleotide sequence of N-terminal deficient DNA of the gene concerned in the DNA to be provided by the invention was registered in the public nucleotide data base (DDBJ/EMBL/GenBank). Thus, the nucleotide sequence of N-terminal DNA of the gene concerned in the DNA to be provided by the invention was not clear.
Accordingly, complete sequence of the DNA to be provided by the invention was determined in the following manner. To begin with, complete sequence of the DNA to be provided by the invention was estimated. Firstly, homology retrieval was carried out on the nucleotide data base (DDBJ/EMBL/GenBank) using a nucleotide sequence concerned in the 5′-end 30 polynucleotide of the N-terminal deficient DNA as the query. As a result of the retrieval, it showed a high homology with a human genomic DNA fragment (accession No. AL035086). Among the nucleotide sequence of human genomic DNA fragment, a nucleotide sequence obtained by removing partial sequences having homology with the nucleotide sequence of N-terminal deficient DNA (to be referred to as nucleotide sequence A hereinafter) was used as the object to identify the initiation codon existing in the most 5′-end side among initiation codons contained in the nucleotide sequence A, and to identify the partial sequence in and after said initiation codon of the nucleotide sequence A (to be referred to as estimated N-terminus nucleotide sequence hereinafter). It was estimated that sequence length of the estimated N-terminus nucleotide sequence was 183, and this is a partial sequence coding for 61 amino acid. In addition, a homology retrieval was carried out on the nucleotide data base (DDBJ/EMBL/GenBank) using a sequence prepared by converting the nucleotide sequence of N-terminal deficient DNA into amino acid sequence as the query. As a result, it showed high homology with a DNA concerned in a gene estimated to be a mouse ortholog of the gene concerned in the DNA to be provided by the invention. When homology retrieval was carried out between a sequence prepared by converting a 5′-end partial sequence (sequence length 183) of said DNA into amino acid sequence and a sequence prepared by converting the estimated N-terminal nucleotide sequence into amino acid sequence, they showed a good homology (56.1%). Accordingly, it was estimated that the estimated N-terminal nucleotide sequence is the nucleotide sequence of N-terminal moiety DNA.
In addition, cDNA cloning of the gene concerned in the DNA to be provided by the invention was carried out. The DNA consisting of the nucleotide sequence described in SEQ ID NO:3 of the SEQUENCE LISTING was used as the sense primer, and the DNA consisting of the nucleotide sequence described in SEQ ID NO:4 of the SEQUENCE LISTING as the antisense primer. QUICK-Clone cDNA (Clontech) was used as the template, and KOD-Plus-DNA polymerase (TOYOBO) was used as the DNA polymerase. In the PCR amplification reaction, a step consisting of 94° C. for 2 minutes, 94° C. for 30 seconds and 68° C. for 4 minutes was carried out 40 cycles, subsequently carrying out a treatment at 68° C. for 3 minutes. The thus obtained amplification product was ligated to pCR4Blunt-TOPO Vector (TOYOBO). Determination of the DNA concerned in the instant gene contained in the thus obtained recombinant vector (to be referred to as recombinant pCR4Blunt-TOPO Vector concerned in the DNA to be provided by the invention hereinafter) was carried out using Long-Read Tower (Amersham Biosciences). As a result, it was revealed that the nucleotide sequence of DNA concerned in the instant gene is the nucleotide sequence described in SEQ ID NO:1 of the SEQUENCE LISTING.
(Comparison of Expressed Amounts in Normal Colon Cell and Colon Cancer Cell)
A finding that the amount of transcription product of the gene concerned in the DNA to be provided by the invention in normal colon cell is smaller than the amount of transcription product of the gene concerned in the DNA to be provided by the invention in colon cancer cell was confirmed by the following procedure. Firstly, colon cancer cells HCT 116 and SW 620 were purchased from Dainippon Pharmaceutical, and both cells were cultured using DMEM (Invitrogen) containing 10% fetal calf serum (FCS, Iwaki Glass). On the other hand, a normal colon epithelial cell CCD841CoN was purchased from American Tissue Culture Collection, and said cell was cultured using ACL-4 serum-free medium. Total RNA was extracted from these cells using Isogen (Nippon Gene). Using RNA PCR Kit (AMV) Ver.2.1 (TAKARA), reverse transcription reaction from 1 μg of the total RNA was carried out under a condition of 30° C. for 10 minutes, 42° C. for 30 minutes, 99° C. for 5 minutes and 5° C. for 5 minutes. Next, PCR amplification reaction of the cDNA obtained by the reverse transcription reaction was carried out. The reaction was carried out by adding a primer consisting of the nucleotide sequence described in SEQ ID NO:5 of the SEQUENCE LISTING and a primer consisting of the nucleotide sequence described in SEQ ID NO:6 of the SEQUENCE LISTING to a solution in which 1/10 of the obtained cDNA was dissolved, and using Advantage polymerase mix (Clontech). The reaction condition was 94° C. for 1.5 minutes, followed by 30 cycles of 94° C. for 30 seconds, 60° C. for 30 seconds and 72° C. for 1 minute, and final treatment at 72° C. for 3 minutes. The reaction solution was applied to 1% agarose gel to carry out electrophoresis. After the electrophoresis, the PCR amplification product was detected by ethidium bromide staining.
As a control, expression of glyceraldehyde 3-phosphate dehydrogenase was detected by the same method. As a result, a significant difference was not found between the normal colon cell and colon cancer cell regarding the expressed amount of the control glyceraldehyde 3-phosphate dehydrogenase. However, regarding the expressed amount of the gene concerned in the DNA to be provided by the invention, it was revealed that the expressed amount in the colon cancer cell is larger than the expressed amount in the normal colon cell (
(Preparation of Protein)
The protein encoded by the instant gene was expressed by culturing an animal cell into which an expression vector integrated with the DNA concerned in the instant gene had been introduced, and its molecular weight was measured using western blotting. A pCMV-Tag4 Vector (Stratagene) was used as the expression vector. The recombinant pCR4Blunt-TOPO Vector concerned in the DNA to be provided by the invention was digested with BamHI and XhoI, and the thus obtained DNA fragment was mixed with the pCMV-Tag4 Vector which had been digested with BamHI and XhoI, thereby obtaining an expression vector into which the DNA concerned in the instant gene (to be referred to as hC1S hereinafter) was integrated (to be referred to as recombinant pCMV-Tag4 Vector concerned in the DNA to be provided by the invention hereinafter). The 293 cell was used as the animal cell. Firstly, the 293 cell was cultured using DMEM medium (Invitrogen) containing 10% FCS, until reaching a sub-confluent state. After the culturing, the medium was changed to Opti MEMI (Invitrogen). After the exchange, 4 μg of the recombinant pCMV-Tag4 Vector concerned in the DNA to be provided by the invention was transferred into the 293 cell by the lipofection method using Lipofect Amine Plus (Invitrogen). As a control, pCMV-Tag4 Vector into which the instant gene was not integrated was transferred into the 293 cell by the lipofection method using Lipofect Amine Plus (Invitrogen).
After a lapse of 5 hours from the transfer, Opti MEMI medium containing 20% FCS was added to the culture medium of gene-transferred cell, in such an amount that the final serum concentration of the culture medium became 10%. Further on the next day, the medium of the gene-transferred cell was changed to the DMEM medium containing 10% FCS. After a lapse of 48 hours from the gene transfer, the gene-transferred cells were lysed by adding a solution for cell lysis (1% Triton X, 50 mM Tris-HCl pH 7.4, 300 mM NaCl, 5 mM EDTA and complete protease inhibitor cocktail EDTA-free, Roche). After allowing to stand for 30 minutes on ice, the solution (to be referred to as post-lysis solution hereinafter) was recovered and centrifuged (15,000 rpm, 15 minutes). After the centrifugation treatment, BSA-treated IgG agarose gel (Sigma) was added to the supernatant and allowed to stand overnight at 4° C. On the next day, anti-FLAG M2 agarose gel (Sigma) was added to the supernatant to carry out the antigen-antibody reaction at 4° C. for 3.5 hours, and then washed 3 times with a washing liquid (0.1% Triton X, 50 mM Tris-HCl pH 7.4, 300 mM NaCl and 5 mM EDTA) and then once with a phosphate buffer. The protein linked to the anti-FLAG M2 agarose gel was recovered using a sample buffer liquid containing 10% 2-mercaptoethanol. The recovered solution and the post-lysis solution were applied to a 4-20% SDS gel to carry out electrophoresis. After the electrophoresis, the electrophoresis products were transferred onto a nitrocellulose filter (Scleicher and Shcuell). After the transfer, BSA blocking was carried out, and the electrophoresis products were allowed to react with an anti-FLAG M2 antibody (Sigma) and an anti-mouse Ig antibody (Amersham) labeled with hydrogen peroxide dehydrogenase and then to develop color with 4-chloro-1-naphthol. When the post-lysis solution was directly used without immunoprecipitation, it was not able to detect the protein to be provided by the invention. However, in the case of effecting immunoprecipitation with the anti-FLAG M2 agarose gel, it was able to detect the protein to be provided by the invention. As a result of the detection, it was revealed that molecular weight of the protein to be provided by the invention is about 110 kDa (
(Cell Growth Enhancing Activity of Protein Encoded by the Gene Concerned in the DNA to be Provided by the Invention)
Using DMEM medium containing 10% FCS, the 293 cell was inoculated into 24 and 12 well plates and cultured until a sub-confluent state. After the culturing, 0.4 μg (24 well) or 0.7 μg (12 well) of the recombinant pCMV-Tag4 Vector concerned in the DNA to be provided by the invention was transferred into the 293 cell using Lipofect Amine Plus (Invitrogen). As a control, pCMV-Tag4 Vector into which the gene concerned in the DNA to be provided by the invention was not integrated was transferred into the 293 cell using Lipofect Amine Plus (Invitrogen). On the next day, the cells were spread on a 10 cm plate of DMEM containing 10% FCS, and G418 (Promega) was added to a final concentration of 1 mg/ml. Formation of colonies was effected by carrying out the culturing for 10 to 14 days while exchanging the medium containing 1 mg/ml in concentration of G418 (Promega) every 3 or 4 days. The formed colonies were stained with 0.2% Crystal Violet. As a result, it was found that the cell growth is accelerated when the gene concerned in the DNA to be provided by the invention is forcedly expressed by transferring it into the cell. This result shows that the protein encoded by the gene concerned in the DNA to be provided by the invention has the cell growth accelerating activity (
Intracellular localization of the protein encoded by the gene concerned in the DNA to be provided by the invention was determined by the following procedure. The recombinant vector, pCMV-Tag4, concerned in the DNA to be provided by the invention was transferred by the aforementioned method into the 293 cell of a sub-confluent state in a 10 cm plate. After 48 hours, resulting cells were recovered into 0.5 ml of a mitochondria isolation buffer (MIB; 200 mM mannitol, 70 mM sucrose, 35 mM 2-mercaptoethanol, 5 mM EDTA, 50 mM potassium phosphate, complete protease inhibitor cocktail EDTA-free, pH 7.3). The cells were disrupted and suspended using a homogenizer, and then centrifugation precipitation was carried out twice at 600 g at 4° C. The supernatant was further centrifuged at 15000 rpm at 4° C. for 20 minutes. Each of the supernatant (cytoplasm fraction) and precipitate (mitochondria fraction), in an amount corresponding to ⅕ of the first suspension, was subjected to the aforementioned western blotting using an anti-FLAG antibody or to a western blotting using an anti-mitochondria HSP 70 antibody ( 1/500 dilution, Affinity Bioreagent). A band considered to be the protein encoded by the gene concerned in the DNA to be provided by the invention was detected only in the mitochondria fraction, showing the mitochondria localization predicted from the sequence analysis of the instant gene (
By the aforementioned method, the protein encoded by the gene concerned in the DNA to be provided by the invention was expressed in the 293 cell, purified by anti-FLAG M2 agarose gel and separated by 4-20% SDS gel electrophoresis. Thereafter, proteins in the gel were transferred onto a PVDF membrane (Pharmacia) and stained with Coomassie R 250 Solution. The N-terminus of a protein which is shown by a band of around 110 kDa and is also considered to be the protein encoded by the gene concerned in the DNA to be provided by the invention was determined at Toray Research Center. The result was SSGGG, and as expected, this was cut off at the position considered to be the mitochondria target sequence (between 31st Ala and 32nd Ser of SEQ ID NO:2).
Expression patterns of existing antitumor agent targets dihydrofolate reductase (DHFR: target of methotrexate) and thymidylate synthase (TS: target of 5-fluorouridine) and the gene concerned in the DNA to be provided by the invention in human organs were compared using the microarray data base of Bioexpress (
(Activation of C1 Metabolism Through Wnt Pathway in Mitochondria and usefulness of the gene of the invention, in the Carcinogenic Process of Colon Cancer)
In the case of colon cancer, it is considered that the cancer is developed through the shifting from a polyp-like precancerous state to cancerous state due to a gene expression disturbance caused by β catenin (Non-patent Reference 11). A mutation which induces activation of the Wnt gene signal pathway, in other words, a mutation that inactivates the APC gene or activates β catenin, results in the nuclear accumulation of β catenin and further causes formation of a complex of β catenin and a transcription factor Tcf/LEF. It is known that the mutation which induces activation of the Wnt gene signal pathway is found in about 90% of colon cancer cases (Non-patent Reference 12). A c-myc oncogene is present as one of the target genes of this β catenin pathway (Non-patent Reference 13). The myc is an important transcription factor which is concerned in cell growth, differentiation and apoptosis (Non-patent Reference 14), but its detailed mechanism is not clear yet. Recently, it has been revealed that mitochondrial serine hydroxymethyltransferase (mt SHMT) gene is a target gene of myc (Non-patent References 15 and 16), and this gene product is concerned in the one carbon unit metabolism together with C1-THFS, by catalyzing the reaction to synthesize glycine and 5,10-methylene-tetrahydrofolic acid from serine and tetrahydrofolic acid or its reverse reaction. In addition, a clone called U06665 has been identified in another study as a gene in which c-myc induces transcription in mouse (Non-patent Reference 17), and it has been revealed by the analysis of the inventor that this gene is a part of a mouse ortholog of the gene concerned in the DNA to be provided by the invention. When these facts are synthetically considered, it is very reasonable to think that a group of genes cooperating with one another in the same intracellular region, namely mitochondria, and in one metabolic pathway are under control of a cooperative gene. Accordingly, the inventor thinks that the phenomenon in which the carbon unit metabolism of mitochondria is activated by the activation of Wnt signal pathway is playing an important role in the developing process of colon cancer (
While the invention has been described in detail and with reference to specific embodiments thereof, it will be apparent to one skilled in the art that various changes and modifications can be made therein without departing from the spirit and scope of the invention.
This application is based on a Japanese patent application filed on Sep. 30, 2003 (Japanese Patent Application No. 2003-341245), the entire contents thereof being thereby incorporated by reference.
The invention provides a novel C1-THFS gene whose expression is elevated in cancer cells in comparison with normal cells. The DNA concerned in the instant gene encodes a protein having cell growth accelerating activity. Provision of a novel pharmaceutical composition and a diagnosis means making use of this characteristic property provides a great usefulness in the clinical and fundamental medical field of colon cancer.
SEQ ID NO:1: (1): (2934) a region coding for the complete length of the instant protein
SEQ ID NO:1: (1): (183) N-terminal moiety DNA
SEQ ID NO:1: (184): (2934) N-terminal deficient DNA
| Number | Date | Country | Kind |
|---|---|---|---|
| 2003-341245 | Sep 2003 | JP | national |
This is a divisional of application Ser. No. 10/573,969 filed Mar. 30, 2006, which is a National Stage Application filed under §371 of PCT Application No. PCT/JP2004/014812 filed Sep. 30, 2004. The entire disclosures of the prior applications, are considered part of the disclosure and are hereby incorporated by reference.
| Number | Date | Country | |
|---|---|---|---|
| Parent | 10573969 | Mar 2006 | US |
| Child | 12420702 | US |
