DNA sequences encoding t-PA derivatives with cleavable sites

FIELD OF THE INVENTION
This invention relates to a novel method for the production of a homogeneous population of tissue plasminogen activator (t-PA) molecules using recombinant DNA technology. The invention also provides several unique DNA compounds, recombinant DNA expression vectors and transformants thereof.
BACKGROUND OF THE INVENTION
Tissue plasminogen activator molecules are found in a partially processed form following secretion from a eukaryotic host cell. The partially processed form results from the incomplete removal of the propeptide region from the amino-terminus of the mature t-PA molecule. During incubation and purification, proteolytic cleavage of the remainder of the propeptide region results in the accumulation of the fully processed form. Thus, a mixture of fully and partially processed t-PA molecules are present following purification of the t-PA molecules from the culture medium. According to the present invention, the heterogeneity at the amino-terminus is eliminated by providing a novel propeptide region that is capable of being uniformly cleaved by a cell associated protease. The expression vectors of the present invention provide a convenient means of producing the novel propeptide-containing forms of tissue plasminogen activator in eukaryotic host cells. Following expression, these novel t-PA molecules are uniformly cleaved by a cell associated protease and are secreted into the host cell culture medium in the fully processed form.
Plasminogen activators are a unique class of enzymes that convert plasminogen to its active enzymatic form, plasmin. Plasmin is a serine protease that degrades the fibrin networks of blood clots. Several plasminogen activators are currently being used as in vivo fibrinolytic agents in the treatment of acute myocardial infarction. One of these plasminogen activators, tissue plasminogen activator, has a significantly enhanced ability to activate plasminogen in the presence of fibrin. Thus, when used as an in vivo fibrinolytic agent, t-PA is more selective for fibrin clots.
Human t-PA is a multi-domain serine protease with five distinct structural domains that make up the 527 amino acids of the mature t-PA molecule. The molecule is synthesized as a one-chain polypeptide that can be converted to a two-chain form by a plasmin-mediated cleavage at Arginine 275-Isoleucine 276.
The amino-terminal portion of the molecule contains a disulfide-linked loop referred to as the finger domain. This domain is highly homologous to the finger domain of fibronectin which provides that molecule with fibrin-binding properties. The second domain, called the EGF domain, is highly homologous with epidermal growth factor (EGF). Similar growth factor domains occur in serine proteases such as urokinase, protein C and clotting factors IX and X. The third and fourth domains are highly disulfide-linked structures referred to as kringles (K1 and K2). Similar homologous kringle structures are present in plasma proteins such as plasminogen and prothrombin. There is conflicting evidence as to whether both kringle domains or just the second kringle domain are involved in the fibrin-mediated activation of plasminogen. The fifth domain, located at the carboxy-terminus, is the serine protease domain. The serine protease domain is homologous to similar domains in urokinase, plasma serine clotting proteases and trypsin.
The DNA encoding the amino-terminal end of tissue plasminogen activator encodes a precursor region of 35 amino acids (amino acids -1 to -35). The amino acid sequence (SEQ ID NO:1) of this precursor region is: ##STR1## wherein Arg is Arginine, Asn is Asparagine, Asp is Aspartic acid, Cys is Cysteine, Gln is Glutamine, Glu is Glutamic Acid, Gly is Glycine, His is Histidine, Ile is Isoleucine, LEU is Leucine, Lys is Lysine, Met is Methionine, Phe is Phenylalanine, Pro is Proline, Ser is Serine, Thr is Threonine, Trp is Tryptophan, Tyr is Tyrosine, and Val is Valine. The DNA and amino acid sequence of human tissue plasminogen activator was described by Pennica et al., 1983, Nature 301:214.
Amino acids -13 to -35 are hydrophobic amino acids comprising a signal sequence that directs secretion of the t-PA molecule from the host cell (Vehar et al., 1984, BIO/TECHNOLOGY 2(12):1051). This signal sequence is cleaved from the t-PA molecule during the secretion process, yielding a t-PA molecule with a 12 amino acid propeptide extension at the amino-terminal end. When t-PA is produced by melanoma cells using cell culture techniques the t-PA molecules isolated from the resulting culture medium exist in two forms (Wallen et al., 1983, Eur. J. Biochem. 132:681-686). One form is a t-PA molecule from which 9 of the 12 amino acids of the propeptide region have been cleaved resulting in a t-PA molecule with the tripeptide amino-terminal extension H.sub.2 N-Gly-Ala-Arg. A second form is a fully processed mature t-PA from which the entire propeptide region has been cleaved (Vehar et al., 1984).
Analysis of recombinantly produced t-PA variants from cultures incubated for short periods of time indicate that the t-PA molecules are secreted in the partially processed form (Burck et al., 1990, Journal of Biological Chemistry 265(9):5170). However, analysis of the t-PA molecules after longer periods of incubation or following purification of the molecules from the culture medium indicated that the remaining amino-terminal propeptide extension is cleaved from a portion of the molecules. Thus, the production of t-PA molecules is plagued by the presence of a heterogeneous final product consisting of both partially and fully processed forms.
It is the purpose of the present invention to provide a method for the recombinant production of t-PA or derivatives thereof by use of propeptide regions that are uniformly cleaved upon secretion from the cell. Use of this method provides a homogeneous population of t-PA molecules produced by recombinant DNA methods.
For purposes of the present invention, as disclosed and claimed herein, the following terms are defined below.
ApR--the ampicillin-resistant phenotype or gene conferring same.
Cloning--the process of incorporating a segment of DNA into a recombinant DNA cloning vector.
E1A--an immediate-early gene product of adenovirus which can activate a poly-GT element to express enhancer activity and can also activate the BK virus enhancer.
ep--a DNA segment comprising the SV40 early promoter of the T-antigen gene, the T-antigen binding sites, and the SV40 origin of replication.
Eukaryotic promoter--any DNA sequence that functions as a promoter in eukaryotic cells.
GBMT transcription control unit--a modified transcription control unit which comprises the P2 enhancer element of BK virus spaced closely to the upstream regulatory element of the major late promoter of adenovirus (MLTF), the adenovirus-2 major late promoter and a poly-GT element positioned to stimulate said promoter and a DNA sequence encoding the spliced tripartite leader of adenovirus-2. The GMBT transcription control unit is best exemplified by the approximately 900 base pair HindIII cassette found in plasmid pGTC which is found in E. coli K-12 AG1/pGTC (NRRL B-18593).
GT--enhancer system--any poly-GT element linked to a promoter, such as MLP, in which the poly-GT element does not itself possess enhancer activity but is activated as an enhancer by an immediate-early gene product of a large DNA virus, such as the E1A gene product or by any similarly activating viral gene product.
HmR--the hygromycin-resistant phenotype or gene conferring same.
IVS--DNA encoding an intron, also called an intervening sequence.
Large DNA virus--a virus that infects eukaryotic cells and has a genome greater than .about.10 kb in size, i.e., any of the pox viruses, adenoviruses, and herpes viruses.
MLP--the major late promoter of adenovirus, which is also referred to herein as the adenovirus late promoter, adenovirus-type-2 late promoter, or Ad2 late promoter.
MLTF binding site--the site in adenovirus DNA where the major late transcription factor (MLTF) binds; the MLTF is required for MLP activity.
NeoR--the neomycin resistance-conferring gene, which can also be used to confer G418 resistance in eukaryotic host cells.
ori--a plasmid origin of replication.
pA--a DNA sequence encoding a polyadenylation signal.
Poly-GT element--a DNA sequence of (GT).sub.n --(CA).sub.n, which is illustrated herein by a sequence where n is 21, but which can also refer to sequences of varying lengths where n is greater or less than 21, and may refer to chemically synthesized (GT).sub.n -(CA).sub.n sequences or human genomic DNA fragments containing a (GT).sub.n -(CA).sub.n tract.
Promoter--a DNA sequence that directs transcription of DNA into RNA.
Recombinant DNA Cloning Vector--any autonomously replicating or integrating agent that comprises a DNA molecule to which one or more additional DNA segments can be or have been added.
Recombinant DNA Expression Vector--any recombinant DNA cloning vector comprising a promoter and associated insertion site, into which a DNA sequence that encodes a useful product can be inserted and expressed.
Recombinant DNA Vector--any recombinant DNA cloning or expression vector.
Replicon--any DNA sequence that controls the replication of a recombinant DNA vector.

BRIEF DESCRIPTION OF THE FIGURES
FIG. 1 is a restriction and function map of pLP53.
FIG. 2 is a restriction and function map of pLP53-TLB.
FIG. 3 is a restriction and function map of pTPA102.
FIG. 4 is a restriction and function map of pTPA103.
FIG. 5 is a restriction and function map of pTPA602.
FIG. 6 is a restriction and function map of pTPA603.
FIG. 7 is a restriction and function map of phd.
FIG. 8 is a restriction and function map of pmt6-hd.
FIG. 9 is a restriction and function map of pTLB-t6.
FIG. 10 is a restriction and function map of pBKneol.
FIG. 11 is a restriction and function map of pSV2cat.
FIG. 12 is a restriction and function map of pLPcat.
FIG. 13 is a restriction and function map of pBLcat.
FIG. 14 is a restriction and function map of pSBLcat.
FIG. 15 is a restriction and function map of pSBL-Bt6-d.
FIG. 16 is a restriction and function map of pGTC.
FIG. 17 is a restriction and function map of pGT-t6B-d.

SUMMARY OF THE INVENTION
The present invention concerns a method that utilizes a modified propeptide region of tissue plasminogen activator in the recombinant production of tissue plasminogen activator or derivatives thereof. The modified propeptide is uniformly cleaved from the t-PA molecule upon secretion from the host cell. In this manner, a homogeneous population of a desired t-PA molecule is produced.
The invention also concerns a recombinant DNA compound that comprises DNA encoding a protein, said protein comprising, from amino-terminus to carboxy-terminus:
a) a signal peptide;
b) a propeptide region which contains a sequence that is capable of being uniformly cleaved by a cell associated protease;
c) a tissue plasminogen activator or derivative thereof.
The amino acid sequence of the signal peptide/propeptide region of the present invention is: ##STR2## wherein X is an amino acid sequence that is capable of being uniformly cleaved by a cell associated protease.
Because the object of the present invention is to produce a homogeneous population of tissue plasminogen activator molecules directly from recombinant cells, cleavage of the novel propeptide regions of the present invention must take place either in the cell or on the surface of the cell upon secretion. For purposes of the present invention, a cell associated protease includes not only proteases located in the cytoplasm or organelles of the cell, but also proteases located at the cell membranes that can cleave proteins immediately upon secretion. Consequently, the present invention provides DNA compounds that encode a proteolytic cleavage site for a cell associated protease for purposes of producing a homogeneous population of tissue plasminogen activator or derivatives thereof.
DETAILED DESCRIPTION OF THE INVENTION
In the present invention, recombinant DNA expression vectors were constructed that operably link the novel propeptide regions to a DNA sequence encoding a tissue plasminogen activator derivative. As described by the examples presented below, synthetic DNA sequences encoding the signal peptide region, as well as the novel propeptide regions, were cloned into various expression vectors. These expression vectors were used to transform eukaryotic host cells. The transformed eukaryotic host cells were cultured under conditions allowing the expression and secretion into the culture medium of the t-PA molecule encoded by the expression vector. The secreted t-PA molecules were then isolated from the culture medium and the amino-terminal amino acid sequences of the molecules were analyzed.
The DNA sequences encoding the signal peptide and novel propeptide region were constructed from single stranded deoxyoligonucleotides by procedures well known in the art. These deoxyolignucleotides can be constructed with commercially available instruments such as the 380B DNA synthesizer marketed by Applied Biosystems (850 Lincoln Center Drive, Foster City Calif. 94404), which utilizes .beta.-cyanoethyl phosphoramidite chemistry. Other procedures for synthesizing DNA are also known in the art and are described by Itakura et al., 1977, Science 198:1056, Crea et al., 1978, Proc. Natl. Acad. Sci. USA 75:5765, Hsiung et al., 1983 Nucleic Acids Research 11:3227 and Narang et al., 1980, Methods in Enzymology 68:90.
For the purposes of the present invention, cleavage sequences are amino acid sequences adjacent to cleavage sites for cell associated proteases. Table I, below, provides an illustrative listing of cleavage sequences suitable for use as the cleavage sequence for a cell associated protease in the methods and compounds of the present invention.
TABLE I______________________________________Proteolytic Cleavage Sequences for CellAssociated Proteases Amino Acid SequenceOrigin P5 P4 P3 P2 P1______________________________________protein C Arg Ile Arg Lys Arg(SEQ ID NO: 3)insulin receptor Ser Arg Lys Arg Arg(SEQ ID NO: 4)factor X Glu Arg Arg Lys Arg(SEQ ID NO: 5)protein S Val Arg Lys Arg Arg(SEQ ID NO: 6)______________________________________
A variety of other proteolytic cleavage sites are known in the art (Schwartz, 1987, FEBS 200(1):1). However, it is the present invention that, for the first time, introduces a propeptide cleavage site that is heterologous to the tissue plasminogen activator molecule to enable the production of a homogeneous population of recombinantly produced t-PA molecules in eucaryotic cells.
The most preferred uniformly cleavable cell associated protease cleavage sequence of the present invention comprises the amino acid sequence: Arg Ile Arg Lys Arg (SEQ ID NO:3). This proteolytic cleavage sequence can be encoded by a DNA compound that comprises DNA encoding the signal peptide and propeptide regions. The presence of this signal peptide/propeptide region in the expression vectors of the present invention results in the expression and secretion of a homogeneous population of mature t-PA molecules. The amino-terminal amino acid of these molecules is the first amino acid (Ser) of mature t-PA. This propeptide cleavage site is similar to the amino acid sequence present in the propeptide region of human protein C. The propeptide cleavage site of human protein C is Arg Ile Arg Lys Arg (SEQ ID NO:3), and is cleaved from the zymogen form of protein C upon secretion.
In addition to the proteolytic cleavage sequences listed in Table 1, the following proteolytic cleavage sequences are also useful in the present invention:
Arg Ile Xaa Xaa Xaa (SEQ ID NO:7);
Ser Arg Xaa Xaa Xaa (SEQ ID NO:8);
Glu Arg Xaa Xaa Xaa (SEQ ID NO:9);
and
Val Arg X.sub.aa X.sub.aa X.sub.aa (SEQ ID NO:10),
wherein the amino acids at positions Xaa are Lys or Arg.
Those skilled in the art will recognize that a number of amino acid residues in the cleavage sequence of the present invention can be varied somewhat. In the propeptide region cleavage occurs following the amino acid sequence Arg Ile Arg Lys Arg (SEQ ID NO:3). Thus, the residues located between this sequence and the amino-terminal of the nascent protein are removed upon cleavage at the novel propeptide site. Therefore, a cleavage sequence longer than that presented above (SEQ ID NO:3) can be used in the methods and compounds of the present invention. The methods and compounds of the present invention also include signal peptide/propeptide regions that include amino acid residues other than those specifically illustrated above. For instance, various amino acid substitutions may be made within the signal peptide region that do not affect the operability of the novel propeptide regions presented above.
The signal peptide/propeptide region (SEQ ID NO:3) is partially encoded on a DNA compound comprising the DNA sequence (SEQ ID NO:11): ##STR3## Only the coding strand of the DNA sequence is shown. Due to the complementary nature of DNA, the opposite strand of the double stranded DNA compound can be deduced. Translation of the signal peptide/propeptide region is initiated at the ATG codon that is underlined. The DNA sequence directly preceding this initiation codon was designed to encode a consensus sequence that provides optimal initiation of translation from the initiation codon. (Kozak, M., 1986, Cell 44:283-292). The DNA compound encoding the signal peptide/propeptide region may also be constructed to provide the naturally occurring DNA sequence preceding the initiation codon.
Native t-PA as well as a variety of t-PA derivatives can be used in the method of the present invention. Gene mapping studies have shown that the gene encoding t-PA is comprised of twelve exons split by introns (Ny et al., 1984, Proc. Natl. Acad. Sci. USA 81:5355). These introns correspond, in part, to the domain junctions at the amino acid level. Several derivatives of native t-PA have been constructed wherein various domains of the t-PA molecule have been deleted (Van Zonneveld et al., 1986, Proc. Natl. Acad. Sci. USA 83:4670). Reviews of t-PA derivatives are provided by Harris, T. J., 1987, Protein Enqineering 1(6):449; van Zonneveld et al., 1988, Fibrinolysis 2:123 and Higgins and Bennett, 1990, Annu. Rev. Pharmacol. Toxicol. 30:91.
One derivative of native t-PA was described by Burck et al., 1990, Journal of Bioloqical Chemistry 265(9):5170. This derivative form, known as mt-PA-6, was constructed by site specific mutagenesis of the cDNA encoding human t-PA. The DNA encoding amino acids 4-175 was deleted so that upon expression, the resultant t-PA derivative comprised the signal peptide and propeptide regions as well as the kringle 2 and serine protease domains. This derivative form was found to possess a greater fibrinolytic specific activity than native t-PA. Similar to native t-PA, mt-PA-6 was found to occur in both the mature and partially processed forms.
For purposes of exemplifying the effectiveness of the present invention, recombinant DNA expression vectors were constructed that link the novel propeptide regions of the present invention to mt-PA-6. Thus, the vectors of the present invention encode a signal peptide, a modified propeptide region and a polypeptide encoding t-PA or a derivative thereof. Upon expression and secretion of the t-PA molecules illustrated herein, the novel propeptide regions are uniformly cleaved to provide a homogeneous population of secreted, mature mt-PA-6. The present invention is applicable to native t-PA and derivatives thereof, in addition to mt-PA-6.
The plasmid pSBL-Bt6-d was constructed to provide high level expression of mt-PA-6 linked to the novel propeptide regions of the present invention. Expression is provided by this plasmid from the SBL unit which comprises the SV40 enhancer linked to the P2 enhancer of BK virus which is spaced closely to the adenovirus-2 late major promoter. The SBL unit will drive high levels of expression of a useful substance that is properly positioned. The plasmid pSBL-Bt6-d has the SBL unit properly positioned to express mt-PA-6 which is operably linked to the propeptide regions of the present invention.
To further exemplify the present invention, the plasmid pGT-t6B-d was constructed. This plasmid enables high level expression of mt-PA-6 linked to novel propeptide regions of the present invention. Expression is provided by this plasmid from the GBMT unit which comprises the P2 enhancer of BK virus spaced closely to the upstream regulatory element of the major late promoter of adenovirus (MLTF), the adenovirus-2 major late promoter, a poly-GT element positioned to stimulate said promoter and a DNA sequence encoding the tripartite leader sequence of adenovirus-2. When properly positioned, the GBMT unit will drive high levels of expression of a useful substance. The plasmid pGT-t6B-d has the GBMT unit properly positioned to express mt-PA-6 which is operably linked to the propeptide region of the present invention.
It is preferable to transform the above vectors into host cells which express the adenovirus E1A immediate-early gene product, in that the BK enhancer found on the vectors functions to enhance expression most efficiently in the presence of E1A. Skilled artisans will recognize that a number of host cells express, or can be made to express, an immediate-early gene product of a large DNA virus. Preferred cell lines are the Syrian Hamster cell line AV12-664 (available from the American Type Tissue Collection (ATCC), Rockville Md., 20852 under accession number CRL 9595) or the human kidney 293 cell line (ATCC CRL 1573). The AV12-664 cell line is most preferred.
The vectors of the present invention can be transformed into and expressed in a variety of eucaryotic host cells. Vectors of the invention that possess no selectable marker with which to identify and isolate stable eukaryotic transformants are useful not only for purposes of transient assay but also for purposes of cotransformation, a procedure disclosed in U.S. Pat. No. 4,399,216, issued Aug. 26, 1983, and incorporated herein by reference. In addition, the vectors of the present invention may further comprise sequences that allow for replication in Escherichia coli, as it is usually more efficient to prepare plasmid DNA in E. coli than in other host organisms.
Expression of the coding sequences for the novel propeptide-containing t-PA found on the vectors of the invention occurs in those host cells in which the particular promoter associated with the structural gene functions. Exemplary host cells suitable for use in the invention include BHK-21 cells (ATTC CRL 10), CHO-K1 cells (ATTC CRL 61), and C127 cells (ATTC CRL 1616).
Many mammalian host cells possess the necessary cellular machinery for the recognition and proper processing of the signal peptide on the nascent proteins of the invention and provide the post-translational modifications, such as glycosylation. A wide variety of vectors, discussed below, exist for the transformation of such eukaryotic host cells, and the specific vectors exemplified below are in no way intended to limit the scope of the present invention.
The pSV2-type vectors comprise segments of the SV40 genome that constitute a defined eukaryotic transcription unit-promoter (ep), intervening sequence (IVS), and polyadenylation (pA) site. In the absence of SV40 T-antigen, the plasmid pSV2-type vectors transform mammalian and other eukaryotic host cells by integrating into the host cell chromosomal DNA. A variety of plasmid pSV2-type vectors have been constructed (see Eukaryotic Viral Vectors, edited by Gluzman, published by Cold Spring Harbor Laboratories, Cold Spring Harbor, N.Y., 1982), such as plasmids pSV2-gpt, pSV2-neo, pSV2-dhfr, pSV2-hyg, and pSV2-.beta.-globin, in which the SV40 promoter drives transcription of an inserted gene. These vectors are suitable for use with the coding sequences of the invention and are available either from the American Type Culture Collection (ATCC) in Rockville, Md. or from the Northern Regional Research Laboratory (NRRL) in Peoria, Ill.
Plasmid pSV2-dhfr (ATCC 37146) comprises a murine dihydrofolate reductase (dhfr) gene under the control of the SV40 early promoter (ep). Under the appropriate conditions, the dhfr gene is known to be amplified, or copied, in the host chromosome. This amplification, described in a review article by Schimke, 1984, Cell 37:705-713, can involve DNA sequences closely contiguous with the dhfr gene, such as the t-PA compounds of the present invention, and thus can be used to increase production of the t-PA molecules of the invention.
Plasmids which were constructed for expression of the t-PA compounds of the invention in mammalian and other eukaryotic host cells can utilize a wide variety of promoters. The present invention is in no way limited to the use of the particular eukaryotic promoters exemplified herein. Promoters such as the SV40 late promoter or the eukaryotic promoters disclosed in Bucher et al., 1986, Nuc. Acids Res. 14(24):1009, or promoters from eukaryotic genes, such as, for example, the estrogen-inducible chicken ovalbumin gene, the interferon genes, the glucocorticoid-inducible tyrosine aminotransferase gene, the thymidine kinase gene, and the major early and late adenovirus genes, can be readily isolated and modified for use on recombinant DNA expression vectors designed to produce human tissue plasminogen activator in eukaryotic host cells. Eukaryotic promoters can also be used in tandem to drive expression of a coding sequence of the invention. Furthermore, a large number of retroviruses are known that infect a wide range of eukaryotic host cells. The long terminal repeats in the retrovirus DNA often encode promoter activity and thus can be used to drive expression of the coding sequences of the invention.
Plasmid pRSVcat (ATCC 37152) comprises portions of the long terminal repeat of the Rous Sarcoma virus (RSV), a virus known to infect chicken and other host cells. The RSV long terminal repeat sequences can be isolated on an .about.0.76 kb NdeI-HindIII restriction fragment of plasmid pRSVcat. The promoter in the RSV long terminal repeat (Gorman et al., 1982, Proc. Natl. Acad. Sci. USA 79:6777) is suitable for use in vectors of the invention. Plasmid pMSVi (NRRL B-15929) comprises the long terminal repeats of the Murine Sarcoma virus (MSV), a virus known to infect mouse and other host cells. These repeat sequences are suitable for use as a promoter in the vectors of the invention. The mouse metallothionein (MMT) promoter has also been well characterized for use in eukaryotic host cells and is suitable for use in the vectors of the invention. The MMT promoter is present in the 15 kb plasmid pdBPV-MMTneo (ATCC 37224), which can serve as the starting material for the construction of other plasmids of the present invention.
Many other modifications and variations of the present illustrative DNA sequences and plasmids are possible. For example, the degeneracy of the genetic code allows for the substitution of nucleotides throughout polypeptide coding regions, as well as in the translational stop signal, without alteration of the encoded polypeptide coding sequence. Such substitutable sequences can be deduced from the known amino acid or DNA sequence of human t-PA and can be constructed by following conventional synthetic or site-specific mutagenesis procedures. Synthetic methods can be carried out in substantial accordance with the procedures of Itakura et al., 1977 Science 198:1056 and Crea et al., 1978, Proc. Nat. Acad. Sci. USA 75:5765. Therefore, the present invention is in no way limited to the DNA sequences and plasmids specifically exemplified.
After transformation of a vector of the invention into a eukaryotic host cell, one can select transformants on the basis of a selectable phenotype. This phenotype can be conferred either by a selectable marker present on the expression vector or present on another vector cotransformed with the expression vector into the host cell. Once transformants are selected, transformants which are expressing the highest levels of the desired protein encoded on the expression vector are identified. Such identification is especially important after a cotransformation procedure, which generates a number of transformants that recieved only the plasmid containing the selectable marker but not the expression vector.
The use of the dihydrofolate reductase (dhfr) gene as a selectable marker for introducing a gene or plasmid into a dhfr-deficient cell line and the subsequent use of methotrexate to amplify the copy number of the plasmid has been well established in the literature. Although the use of dhfr as a selectable and amplifiable marker in dhfr-producing cells has not been well studied, efficient coamplification in primate cells requires an initial selection using a directly selectable marker before coamplification using methotrexate. The use of the present invention is not limited by the selectable marker used. Moreover, amplifiable markers such as metallothionein genes, adenosine deaminase genes, or members of the multigene resistance family, exemplified by P-glycoprotein, can be utilized.
The following examples are intended to assist in further understanding of the invention. Particular materials employed, species, and conditions are intended to be further illustrative of the invention and not limiting the reasonable scope thereof. All enzymes referred to in the examples are available, unless otherwise indicated from Bethesda Research Laboratories (BRL), Gaithersburg, Md. 20877, New England Biolabs Inc. (NEB), Beverly, Mass. 01915, or Boehringer Mannhelm Biochemicals, 7941 Castleway Drive, Indianapolis, Ind. 46250 and are used in substantial accordance with the manufacturer's recommendations.
EXAMPLE 1
Construction of pLP53-TLB
A. Preparation of BamHI-BqlII Digested pLP53
The plasmid pLP53 can be conventionally isolated from Escherichia coli K12 AG1/pLP53 according to the method of Example 1F. E. coli K12 AG1/pLP53 was deposited on Sep. 21, 1990 and made part of the permanent stock culture collection of the Northern Regional Research Center (NRRL), Agriculture Research Service, U.S. Department of Agriculture, Peoria, Ill. 61604 under accession number NRRL B-18714. A restriction site and function map of pLP53 is shown in FIG. 1.
Five .mu.l (5 .mu.g) of pLP53 DNA was digested to completion with 2 .mu.l (20 units) of BamHI and 2 .mu.l (20 units) of BglII in a 50 .mu.l reaction volume containing 50 mM Tris-HCl (pH 8.0) (Tris is tris[hydroxymethyl]aminomethane), 10 mM MgCl.sub.2 and 50 mM NaCl. The reaction was incubated at 37.degree. C. for two hours. The sample was extracted twice with an equal volume of a mixture of phenol and chloroform (50:50) and the aqueous layer was recovered. The DNA was recovered from the aqueous layer by the addition of 0.1 volume of 3M sodium acetate and 2.5 volumes of absolute ethanol. The digested DNA was collected by centrifugation, the supernatant was removed and the DNA dried and resuspended in water.
B. Preparation of the TLB Linker
The following single stranded DNA segments are conventionally synthesized by methods well known in the art on an automated DNA synthesizer (Model 380B Applied Biosystems 850 Lincoln Center Drive, Foster City Calif. 94404) using .beta.-cyanoethyl phosphoramidite chemistry. ##STR4##
BGT3 and BGT4 are complementary DNA molecules. The synthetic DNA segments were dissolved in 50 .mu.l of TE buffer (TE is 10 mM Tris-HCl (pH 7.4) and 1 mM ethylene-diaminetetraacetic acid (EDTA)) and stored at 0.degree. C.
The DNA strands were annealed as follows. Fifty pmoles each of BGT3 and BGT4 were mixed and heated to 95.degree. C. for 15 minutes. The mixture was slowly brought to room temperature allowing the two complementary strands to anneal and form the double stranded DNA linker known as TLB.
C. Final Construction of pLP53-TLB
The DNA prepared in Example 1A was ligated with TLB. One .mu.l of the DNA from Example 1A and 1 .mu.l of TLB were ligated in a reaction that contained 1 .mu.l (10 units) of T4 DNA ligase, 66 mM Tris-HCl (pH 7.6), 6.6 mM MgCl.sub.2, 10 mM dithiothreitol (DTT) and 66 mM adenosine 5'-triphosphate (ATP) in a total volume of 10 .mu.l. The mixture was incubated at 4.degree. C. for 16 hours. The ligation mix was used to transform Escherichia coli K12 AGl as described below.
D. Transformation Procedure
Frozen competent Escherichia coli K12 AG1 cells are obtained from Stratagene, 3770 Tansey Road, San Diego, Calif. 92121. About 5 .mu.l of the ligation reaction is mixed with a 100 .mu.l aliquot of competent cells and then the cell-DNA mixture is incubated on ice for one hour, heat-shocked at 42.degree. C. for 45 seconds, then chilled on ice for about 2 minutes. The cell-DNA mixture is diluted into 1 ml of SOC media (2% tryprone, 0.05% yeast extract, 10 mM NaCl, 2.5 mM KCl, 10 mM each of MgCl.sub.2 and MgSO.sub.4, 20 mM glucose and distilled water) in Falcon 2059 tubes (Curtin Matheson, Chicago, Ill.) and incubated at 37.degree. C. for one hour. About one hundred microliter aliquots are plated on LB-agar plates tryptone, 0.5% yeast extract, 1% NaCl and 1.5% agar, pH 7.0) containing 100 .mu.g/ml ampicillin and incubated at 37 .degree. C. until colonies appear.
Alternatively, cells can be made competent for transformation as follows. A 50 ml culture of E. coli K12 AG1 cells is grown in L-broth (10 g tryptone, 10 g NaCl and 5 g yeast extract per liter of H.sub.2 O and brought to pH 7.5) to an O.D..sub.590 of 0.5 absorbance units. The culture is chilled on ice for ten minutes and then the cells are collected by centrifugation. The cell pellet is resuspended in 25 ml of cold 50 mM CaCl.sub.2 :10 nlM Tris-HCl (pH 8.0) and incubated on ice for 15 minutes. The cells are collected by centrifugation, the cell pellet is resuspended in 2.5 ml of cold 50 mM CaCl.sub.2 :10 mM Tris-HCl (pH 8.0) and the sample can be held at 4.degree. C. for 16 hours. The transformation of these competent cells is carried out as described above.
E. DNA Isolation
Following transformation, ampicillin resistant cells were picked and used to inoculate 2 mls of TY broth (1% tryptone, 0.5% yeast extract, 1% NaCl, pH 7.4) and 100 .mu.g/ml ampicillin. These cultures were grown for 16 hours at 37.degree. C. with aeration. Plasmid DNA was isolated from the cultures as follows. All of the following manipulations were done at ambient temperature unless otherwise indicated. One and a half ml of each of the cultures was transferred to a microcentrifuge tube. The cells were collected by a 1 minute centrifugation. The supernatant was removed with a fine-tip aspirator and the cell pellet was suspended in 100 .mu.l of a solution containing 50 mM glucose, 10 mM EDTA and 25 Tris-HC1 (pH 8.0). After incubation at room temperature for 5 minutes, 200 .mu.l of an alkaline sodium dodecyl sulfate (SDS) solution (0.2 N NaOH, 1% SDS) was added. The tube was gently inverted to mix and then maintained on ice for 5 minutes. Next, 150 .mu.l of a potassium acetate solution (prepared by adding 11.5 ml of glacial acetic acid and 28.5 ml of water to 60 ml of 5M potassium acetate, resulting in a solution which is 3M with respect to potassium and 5M with respect to acetate) was added and the contents of the tube mixed by gently vortexing. The sample was kept on ice for 5 minutes and then centrifuged for 10 minutes. The supernatant was transferred to a second centrifuge tube to which an equal volume of a mixture of phenol (saturated with 0.1M Tris (pH 8.0)) and chloroform was added. The sample was mixed and then centrifuged for 5 minutes. The supernatant was collected. One ml of ice-cold absolute ethanol was added to the supernatant. The sample was mixed, held at room temperature for 5 minutes and then the DNA was collected by a 5 minute centrifugation. The supernatant was removed by aspiration and 500 .mu.l of 70% ethanol was added to the DNA pellet. The sample was gently vortexed to wash the pellet and centrifuged for 2 minutes. The supernatant was removed and the DNA pellet was dried under vacuum. The DNA was dissolved in 50 .mu.l of TE buffer and stored at 4.degree. C.
A restriction and function map of pLP53-TLB is shown in FIG. 2.
F. Large Scale Plasmid DNA Isolation
Large scale isolation of plasmid DNA can be carried out by the following procedure.
A small portion of an overnight culture of Escherichia coli K12 AG1/pLP53-TLB is spread onto L-agar plates containing 100 .mu.g/ml ampicillin in a manner so as to obtain a single colony isolate. The single colony obtained is inoculated into 10 ml of L-broth containing 100 .mu.g/ml ampicillin and incubated overnight at 37.degree. C. with vigorous shaking. The 10 ml overnight culture is inoculated into 500 ml L-broth containing 100 .mu.g/ml ampicillin and incubated at 37.degree. C. with vigorous shaking until the culture reached stationary phase.
The following procedure is adapted from Maniatis et al., 1982, Molecular Cloning (Cold Spring Harbor Laboratory).
The cells are harvested by centrifugation at 4000 Xg for 10 minutes at 4.degree. C., and the supernatant is discarded. The cell pellet is washed in 100 ml of ice-cold STE buffer (0.1M NaCl; 10 mM Tris-HCl, pH 7.8; and 1 mM EDTA). After washing, the cell pellet is resuspended in 10 ml of Solution 1 (50 mM glucose; 25 mM Tris-HCl, pH 8.0; and 10 mM EDTA) containing 5 .mu.g/ml lysozyme and left at room temperature for 10 minutes. Twenty ml of Solution 2 (0.2N NaOH and 1% SDS) are then added to the lysozyme-treated cells, and the solution is gently mixed by inversion. The mixture is incubated on ice for 10 minutes.
Fifteen ml of ice-cold 5M potassium acetate, pH 4.8, are added to the lysed-cell mixture and the solution mixed by inversion. The solution is incubated on ice for 10 minutes. The 5M potassium acetate solution is prepared by adding 11.5 ml of glacial acetic acid to 28.5 ml of water and 60 ml of 5M potassium acetate; the resulting solution is 3M with respect to potassium and 5M with respect to acetate.
The lysed cell mixture is centrifuged in a Beckman SW27 (or its equivalent) at 20,000 rpm for 20 minutes at 4.degree. C. The cell DNA and debris formed a pellet on the bottom of the tube. About 36 ml of supernatant are recovered, and 0.6 volumes of isopropanol are added, mixed, and the resulting solution left at room temperature for 15 minutes. The plasmid DNA is collected by centrifugation at 12,000 g for 30 minutes at room temperature. The supernatant is discarded, and the DNA pellet is washed with 70% ethanol at room temperature. The ethanol wash is decanted, and the pellet is dried in a vacuum desiccator. The pellet is then resuspended in 8 ml of TE buffer.
Eight grams of cesium chloride (CsCl) are added to the DNA solution. About 0.8 ml of a 10 .mu.g/ml solution of ethidium bromide in water is added for each 10 ml of CsCl-DNA solution. The final density of the solution is about 1.55 g/ml, and the ethidium bromide concentraton is about 600 .mu.g/ml. The solution is transferred to a Beckman Type 50 centrifuge tube, filled to the top with paraffin oil, sealed, and centrifuged at 45,000 rpm for 24 hours at 20.degree. C. After centrifugation, two bands of DNA are visible in ordinary light. After removing the cap from the tube, the lower DNA band is removed by using a syringe with a #21 hypodermic needle inserted through the side of the centrifuge tube.
The ethidium bromide is removed by several extractions with water-saturated 1-butanol. The CsCl is removed by dialysis against TE buffer. After extractions with buffered phenol and then chloroform, the DNA is precipitated, washed with 70% ethanol, and dried.
EXAMPLE 2
Construction of pmt6-hd
A. Construction of Intermediate Plasmid pTPA103
Plasmid pTPA102 comprises the coding sequence of human tissue plasminogen activator. Plasmid pTPA102 can be isolated from Escherichia coli K12 MM294/pTPA102, a strain available from the Northern Regional Research Laboratory under the accession number NRRL B-15834. A restriction site and function map of plasmid pTPA102 is presented in FIG. 3 of the accompanying drawings. Plasmid pTPA102 DNA is isolated from E. coli K12 MM294/pTPA102 in substantial accordance with the procedure of Example 1F.
Fifty .mu.g of plasmid pTPA102 (in about 50 .mu.l of TE buffer) was added to 10 .mu.l of 10X Tth111I buffer (0.5M NaC1, 80 mM Tris-HCl (pH 7.4), 80 mM MgCl.sub.2, 80 mM 2-mercaptoethanol and 1 mg/ml BSA (bovine serum albumin)) and 80 .mu.l of H.sub.2 O. Ten .mu.l (.about.50 units) of restriction enzyme Tthlll I was added to the solution of DNA, and the resulting reaction was incubated at 65.degree. C. for 2 hours. Following the incubation period, loading buffer was added to the sample (final concentration of loading buffer was 2.5% v/v glycerol, 0.005% w/v bromphenol blue, and 0.05% v/v xylene cyanole). The sample was fractionated by gel electrophoresis through an agarose gel. Following electrophoresis, the gel was strained with a dilute solution of ethidium bromide. The digested DNA was visualized under a 300 run UV light, and the .about.4.4 kb TthlllI restriction fragment that comprises the t-PA coding sequence was isolated from the gel. Methods for preparative gel electrophoresis are known in the art. A number of these methods are described by Maniatis et al., Molecular Cloning: A Laboratory Manual, Cold Spring Harbor N.Y. (2d ed. 1989), and are useful as guides in carrying out the above procedures. About 10 .mu.g of the desired .about.4.4 kb Tth111I restriction fragment was obtained and suspended in 10 .mu.l of TE buffer.
About 5 .mu.l of 10X Klenow buffer (500 mM potassium phosphate (pH 7.5), 30 mM MgCl.sub.2 and 10 mM 2-mercaptoethanol) and 30 .mu.l of H.sub.2 O were added to the solution comprising the .about.4.4 kb Tthlll I restriction fragment, and after the further addition of about 5 .mu.l of Klenow enzyme (.about.5 units), the reaction mixture was incubated at 16.degree. C. for 30 minutes. After the Klenow reaction, the DNA was precipitated with ethanol and resuspended in 3 .mu.l of 10X ligase buffer (660 mM Tris-HCl (pH 7.6), 66 mM MgC.sub.2, 100 mM DTT, and 10 mM ATP) and 14 .mu.l of H.sub.2 O.
BamHI linkers (available from N.E.B.) which had the following sequence: ##STR5## were kinased and prepared for ligation by the following procedure. Four .mu.l of the BamHI linkers (.about.2 .mu.g) were dissolved in 20.15 .mu.l of H.sub.2 O and 5 .mu.l of 10X kinase buffer (500 mM Tris-HCl (pH 7.6) and 100 mM MgCl.sub.2), incubated at 90.degree. C. for two minutes, and then cooled to room temperature. Five .mu.l of .gamma.-.sup.32 P-ATP (.about.20 .mu.Ci), 2.5 .mu.l of 1M DTT, and 5 .mu.l of polynucleotide kinase (.about.10 units) were added to the mixture, which was then incubated at 37.degree. C. for 30 minutes. Then, 3.35 .mu.l of 0.01M ATP and 5 .mu.l of kinase were added, and the reaction was continued for another 30 minutes at 37.degree. C. The radioactive ATP aids in determining whether the linkers have ligated to the target DNA.
About 10 .mu.l of the kinased BamHI linkers were added to the solution of .about.4.4 kb Tthlll I restriction fragment, and after the addition of 2 .mu.l of T4 DNA ligase (.about.1000 units) and 1 .mu.l of T4 RNA ligase (.about.2 units), the ligation reaction was incubated overnight at 4.degree. C. The ligated DNA was precipitated with ethanol and resuspended in 5 .mu.l of 10X HindIII buffer (500 mM Tris-HCl (pH 8.0), 100 mM MgCl.sub.2 and 500 mM NaCl) and 40 .mu.l of H.sub.2 O. About 5 .mu.l (.about.50 units) of restriction enzyme HindIII was added to the solution of DNA, and the resulting reaction was incubated at 37.degree. C. for 2 hours.
The HindIII-digested DNA was extracted and then precipitated with ethanol and collected as described in Example 1A, and resuspended in 10 .mu.l of 10X BamHI buffer (500 mM Tris-HCl (pH 8.0), 100 mM MgCl.sub.2, 1M NaCl) and 90 .mu.l of H.sub.2 O. About 10 .mu.l (.about.100 units) of restriction enzyme BamHI was added to the solution of DNA, and the resulting reaction was incubated at 37.degree. C. for 2 hours. After the BamHI digestion, the reaction mixture was loaded onto an agarose gel, and the .about.2.0 kb BamHI-HindIII restriction fragment was isolated from the gel as described above. About 4 .mu.g of the desired fragment were obtained and suspended in about 5 .mu.l of TE buffer.
To construct plasmid pTPA103, the .about.2.0 kb BamHI-HindIII restriction fragment derived from plasmid pTPA102 was inserted into BamHI-HindIII-digested plasmid pRC. Plasmid pRC was constructed by inserting an .about.288 bp EcoRI-ClaI restriction fragment that comprises the promoter and operator (trpPO) sequences of the Escherichia coli trp operon into EcoRI-ClaI-digested plasmid pKC7. Plasmid pKC7 can be obtained from the American Type Culture Collection in E. coli K12 N100/pKC7 under the accession number ATCC 37084. The .about.288 bp EcoRI-ClaI restriction fragment that comprises the trpPO can be isolated from plasmid pTPA102. Plasmid pKC7 and plasmid pTPA102 DNA can be obtained from the aforementioned cell lines in substantial accordance with the procedure of Example 1F. This .about.0.29 kb EcoRI-ClaI restriction fragment of plasmid pTPA102 comprises the transcription activating sequence and most of the translation activating sequence of the Escherichia coli trp gene and has the sequence (SEQ ID NO:14) depicted below: ##STR6## Due to the complementary nature of DNA, the opposite strand of this double stranded DNA compound can be deduced.
Thus, to construct plasmid pRC, about 2 .mu.g of plasmid pKC7 in 10 .mu.l of TE buffer were added to 2 .mu.l of 10X ClaI buffer (0.5M NaCl, 60 mM Tris-HCl (pH 7.9), 60 mMMgCl.sub.2, and 1 mg/ml BSA) and 6 .mu.l of H20. About 2 .mu.l (.about.10 units) of restriction enzyme ClaI were added to the solution of plasmid pKC7 DNA, and the resulting reaction was incubated at 37.degree. C. for 2 hours. The ClaI-digested plasmid pKC7 DNA was purified and collected by ethanol precipitation. The DNA was resuspended in 2 .mu.l of 10X EcoRI buffer (500 mM Tris-HCl (pH 8.0), 100 mM MgCl.sub.1 and 1M NaCl) and 16 .mu.l of H.sub.2 O. About 2 .mu.l (.about.10 units) of restriction enzyme EcoRI were added to the solution of ClaI-digested plasmid pKC7 DNA, and the resulting reaction was incubated at 37.degree. C. for 2 hours. The EcoRI-ClaI-digested plasmid pKC7 DNA was extracted, precipitated with ethanol and resuspended in 3 .mu.l of 10X ligase buffer and 20 .mu.l of H.sub.2 O. A restriction site and function map of plasmid pKC7 can be obtained from Maniatis et al., Molecular Cloning (Cold Spring Harbor Laboratory, 1982), page 8.
About 20 .mu.g of plasmid pTPA102 in about 20 .mu.l of TE buffer were added to 10 .mu.l of 10X ClaI buffer and 60 .mu.l of H.sub.2 O. About 10 .mu.l (.about.50 units ) of restriction enzyme ClaI were added to the solution of plasmid pTPA102 DNA, and the resulting reaction was incubated at 37.degree. C. for 2 hours. The ClaI-digested plasmid pTPA102 DNA was precipitated with ethanol and resuspended in 10 .mu.l of 10X EcoRI buffer and 80 .mu.l of H.sub.2 O. About 10 .mu.l (.about.50 units) of restriction enzyme EcoRI were added to the solution of ClaI-digested plasmid pTPA102 DNA, and the resulting reaction was incubated at 37.degree. C. for 2 hours.
The EcoRI-ClaI-digested plasmid pTPA102 DNA was extracted once with phenol, loaded onto a 7% polyacrylamide gel, and electrophoresed until the .about.288 bp EcoRI-ClaI restriction fragment that comprises the trpPO was separated from the other digestion products. The .about.288 bp EcoRI-ClaI restriction fragment was isolated from the gel (methods for preparative acrylamide gel electrophoresis are described by Maniatis et al., 1989); about 1 .mu.g of the desired fragment was obtained, suspended in 5 .mu.l of TE buffer, and added to the solution of EcoRI-ClaI-digested plasmid pKC7 DNA prepared as described above. About 2 .mu.l (.about.1000 units) of T4 DNA ligase was then added to the mixture of DNA, and the resulting ligation reaction was incubated at 16.degree. C. for 2 hours. The ligated DNA constituted the desired plasmid pRC DNA.
The ligated DNA was used to transform Escherichia coli K12 HB101 competent cells (available from BRL) in substantial accordance with the procedure of Example 1D. The transformed cells were plated on L agar containing 100 .mu.g/ml ampicillin, and the ampicillin-resistant transformants were screened by restriction enzyme analysis of their plasmid DNA to identify the desired E. coli K12 HB101/pRC colonies. Plasmid pRC DNA was obtained from the E. coli K12 HB101/pRC transformants in substantial accordance with the procedure of Example 1F.
About 2 .mu.g of plasmid pRC DNA in 2 .mu.l of TE buffer were added to 2 .mu.l of 10X HindIII buffer and 16 .mu.ll of H.sub.2 O. About 2 .mu.l (.about.10 units) of restriction enzyme HindIII were added to the solution of plasmid pRC DNA, and the resulting reaction was incubated at 37.degree. C. for two hours. The HindIII-digested plasmid pRC DNA was precipitated with ethanol and resuspended in 2 .mu.l of 10X BamHI buffer and 16 .mu.l of H.sub.2 O. About 2 .mu.l (.mu.10 units) of restriction enzyme BamHI were added to the solution of HindIII-digested plasmid pRC DNA, and the resulting reaction was incubated at 37.degree. C. for 2 hours.
The BamHI-HindIII-digested plasmid pRC DNA was extracted once with phenol and then twice with chloroform. The DNA was precipitated with ethanol and resuspended in 3 .mu.l of 10X ligase buffer and 20 .mu.l of H.sub.2 O. The .about.4 .mu.g (in .about.5 ul of TE buffer) of .about.2.0 kb HindIII-BamHI restriction fragment of plasmid pTPA102 were then added to the solution of BamHI-HindIII-digested plasmid pRC DNA. About 2 .mu.l (.about.1000 units) of T4 DNA ligase were added to the mixture of DNA, and the resulting reaction was incubated at 16.degree. C. for 2 hours. The ligated DNA constituted the desired plasmid pTPA103 DNA.
To reduce undesired transformants, the ligated DNA was digested with restriction enzyme NcoI, which cuts plasmid pRC but not plasmid pTPA103. Thus, digestion of the ligated DNA with NcoI reduces undesired transformants, because linearized DNA transforms Escherichia coli at a lower frequency than closed, circular DNA. To digest the ligated DNA, the DNA was first precipitated with ethanol and then resuspended in 2 .mu.l of 10X NcoI buffer (1.5M NaCl, 60 mM Tris-HCl (pH 7.8), 60 mM MgCl.sub.2, and 1 mg/ml BSA) and 16 .mu.l of H.sub.2 O. About 2 .mu.l (.about.10 units) of restriction enzyme NcoI were added to the solution of DNA, and the resulting reaction was incubated at 37.degree. C. for 2 hours.
The ligated and then NcoI-digested DNA was used to transform Escherichia coli K12 RV308 (NRRL B-15624). Escherichia coli K12 RV308 cells were made competent and transformed in substantial accordance with the procedure of Example 1D. The transformation mixture was plated on L agar containing 100 .mu.g/ml ampicillin. The ampicillin-resistant transformants were tested for sensitivity to kanamycin, for though plasmid pRC confers kanamycin resistance, plasmid pTPA103 does not. The ampicillin-resistant, kanamycin-sensitive transformants were then used to prepare plasmid DNA, and the plasmid DNA was examined by restriction enzyme analysis to identify the E. coli K12 RV308/pTPA103 transformants. A restriction site and function map of plasmid pTPA103 is presented in FIG. 4 of the accompanying drawings. Plasmid pTPA103 DNA was isolated from the E. coli K12 RV308/pTPA103 cells in substantial accordance with the procedure of Example 1F.
B. Construction of Intermediate Plasmid pTPA602
About 50 .mu.g of plasmid pTPA103 in 45 pl of glass-distilled H.sub.2 O was added to 30 .mu.l of 10X EcoRI buffer and 225 .mu.l of H.sub.2 O. About 10 .mu.l (480 units) of restriction enzyme EcoRI was added to the solution of plasmid pTPA103 DNA, and the mixture was incubated at 37.degree. C. for 90 minutes. The EcoRI-digested plasmid pTPA103 DNA was precipitated with ethanol, resuspended in 50 ul of 1X loading buffer (10% glycerol and 0.02% bromophenol blue), loaded onto an agarose gel, and electrophoresed until the .about.1.1 kb EcoRI restriction fragment was separated from the other reaction products. The 41.1 kb EcoRI restriction fragment that comprises the t-PA amino-terminal-encoding DNA and was isolated from the gel and resuspended in 160 .mu.l of H.sub.2 O.
About 40 .mu.l of 10X HgaI buffer (0.5M NaCl, 60 mM Tris-HCl (pH 7.4) and 0.1M MgCl.sub.2), 200 .mu.l of glass-distilled H.sub.2 O, and 20 .mu.l (about 10 units) of restriction enzyme HgaI were added to the solution of .about.1.1 kb EcoRI restriction fragment, and the resulting reaction was incubated at 37.degree. C. for 4 hours. The HgaI-digested DNA was precipitated with ethanol and then electrophoresed on a 5% acrylamide gel, and the .about.520 bp restriction fragment that encodes the amino terminus of TPA was isolated from the gel. About 5 .mu.g of the .about.520 bp HgaI fragment was obtained and suspended in 50 .mu.l of H.sub.2 O.
About 12.5 p .mu.l of 10X Klenow buffer (0.5M Tris-HCl (pH 7.4), and 0.1M MgCl.sub.2), 2 .mu.l of a solution that was 6.25 mM in each of the four deoxynucleotide triphosphates, 2 .mu.l of 0.2M DTT, 1 .mu.l of 7 .mu.g/ml BSA, 57.5 .mu.l of glass-distilled H.sub.2 O, and 2 .mu.l (.about.10 units) of Klenow enzyme were added to the solution of the .about.520 bp HgaI restriction fragment, and the resulting reaction was incubated at 20.degree. C. for 30 minutes. The Klenow-treated DNA was incubated at 70.degree. C. for 15 minutes and precipitated with ethanol.
About 500 picomoles of BamHI linker were phosphorylated using polynucleotide kinase in a total reaction volume of 25 .mu.l. The reaction was carried out in substantial accordance with the procedure described in Example 2A. The kinased BamHI linkers were added to the solution of Klenow-treated, .about.520 bp HgaI restriction fragment together with 15 .mu.l of 10X ligase buffer, 7 .mu.l (.about.7 Weiss units) of T4 DNA ligase, and enough glass-distilled H.sub.2 O to bring the reaction volume to 150 .mu.l. The resulting reaction was incubated at 16.degree. C. overnight.
The ligation reaction was heat-inactivated, and the DNA was precipitated with ethanol and resuspended in 5 .mu.l of 10X BamHI buffer and 45 .mu.l of About 1 .mu.l (.about.16 units) of restriction enzyme BamHI was added to the solution of DNA, and the resulting reaction was incubated at 37.degree. C. for 90 minutes. Then, another 16 units of BamHI enzyme were added to the reaction mixture, and the reaction was incubated at 37.degree. C. for another 90 minutes. The reaction mixture was then electrophoresed on a 5% polyacrylamide gel, and the .about.530 bp HgaI restriction fragment, now with BamHI ends, was purified from the gel. About 2 .mu.g of the desired fragment was obtained and suspended in 20 .mu.l of H.sub.2 O.
BamHI-digested, dephosphorylated plasmid pBR322 DNA can be obtained from New England Biolabs. About 0.1 .mu.g of BamHI-digested dephosphorylated plasmid pBR322 in 2 .mu.l of H.sub.2 O was added to 1 .mu.l of the .about.530 bp HgaI restriction fragment, with BamHI ends, of plasmid pTPA103, 14 .mu.l of H.sub.2 O, 2 .mu.l of 10X T4 DNA ligase buffer, and 1 .mu.l (.about.1 Weiss unit) of T4 DNA ligase, and the resulting reaction was incubated at 16.degree. C. overnight. The ligated DNA constituted the desired plasmid pTPA602 and an equivalent plasmid designated pTPA601, which differs from plasmid pTPA602 only with respect to the orientation of the inserted, .about.530 bp restriction fragment. A restriction site and function map of plasmid pTPA602 is presented in FIG. 5 of the accompanying drawings.
The ligated DNA was used to transform Escherichia coli K12 MM294 (NRRL B-15625) in substantial accordance with the procedure of Example 1D. The transformed cells were plated on L agar containing ampicillin, and the ampicillin-resistant E. coli K12 MM294/pTPA602 and E. coli K12 MM294/pTPA601 cells were identified by restriction enzyme analysis of their plasmid DNA. Presence of an .about.530 bp BamHI restriction fragment indicated that the plasmid was either pTPA602 or plasmid pTPA601.
C. Construction of Intermediate Plasmid pTPA603
About 5 .mu.g of plasmid pTPA602 was dissolved in 20 .mu.l of 10X BglII buffer (500 mM Tris-HCl (pH 8.0), 100 mM MgCl.sub.2, 1M NaCl) and 180 .mu.l of H.sub.2 O. About 3 .mu.l (.about.24 units) of restriction enzyme BglII were added to the solution of plasmid pTPA602 DNA, and the resulting reaction was incubated at 37.degree. C. for 90 minutes. Then, .about.13 .mu.l of 10X BamHI buffer was added to the reaction mixture to bring the salt concentration of the reaction mixture up to that recommended for SalI digestion, and 2 .mu.l (.about.20 units) of restriction enzyme SalI was added to the reaction. The reaction was incubated at 37.degree. C. for another 2 hours; then, the DNA was precipitated with ethanol, resuspended in 75 .mu.l of 1X loading buffer, loaded onto an agarose gel, and electrophoresed until the .about.4.2 kb BglII-SalI restriction fragment was separated from the other digestion products. The region of the gel containing the .about.4.2 kb BglII-SalI restriction fragment was excised from the gel, frozen, and the frozen segment was wrapped in plastic and squeezed to remove the .about.4.2 kb fragment. The DNA was precipitated and resuspended in 20 .mu.l of H.sub.2 O; about 200 nanograms of the desired fragment were obtained.
About 12 .mu.g of plasmid pTPA103 was dissolved in 15 .mu.l of 10X BglII buffer and 135 .mu.l of H.sub.2 O. About 2 .mu.l (.about.16 units) of restriction enzyme BglII was added to the solution of plasmid pTPA103 DNA, and the resulting reaction was incubated at 37.degree. C. for 90 minutes. About 10 .mu.l of 10X BamHI buffer was added to the solution of BglII-digested plasmid pTPA103 DNA to bring the salt concentration of the reaction mixture up to that required for SalI digestion. Then, about 2 .mu.l (.about.20 units) of restriction enzyme SalI was added to the solution of BglII-digested plasmid pTPA103 DNA, and the reaction was incubated at 37.degree. C. for another 90 minutes. The BglII-SalI digested plasmid pTPA103 DNA was concentrated by ethanol precipitation and then loaded onto an agarose gel, and the .about.2.05 kb BglII-SalI restriction fragment that encodes all but the amino-terminus of t-PA was isolated from the gel, precipitated with ethanol and resuspended in 20 .mu.l of H.sub.2 O. About 2 .mu.g of the desired fragment was obtained.
About 5 .mu.l of the .about.4.2 kb BglII-SalI restriction fragment of plasmid pTPA602 and 2 .mu.l of the .about.2.05 kb BglII-SalI restriction fragment of plasmid pTPA103 were added to 2 .mu.l of 10X ligase buffer, 10 .mu.l of H.sub.2 O, and 1 .mu.l (.about.1 Weiss unit) of T4 DNA ligase, and the resulting ligation reaction was incubated at 16.degree. C. overnight. The ligated DNA constituted the desired plasmid pTPA603. A restriction site and function map of plasmid pTPA603 is presented in FIG. 6 of the accompanying drawings.
The ligated DNA was used to transform Escherichia coli K12 MM294 in substantial accordance with the procedure of Example 1D. The transformed cells were plated on L agar containing ampicillin, and the ampicillin-resistant E. coli K12 MM294/pTPA603 transformants were identified by restriction enzyme analysis of their plasmid DNA.
D. Final Construction of Plasmid pmt6-hd
Site specific mutagenesis of the TPA coding region and the construction of plasmid pmt6-hd is accomplished as follows. About 5 .mu.g of plasmid pTPA103 in 10 .mu.l of dH.sub.2 O are added to about 10 .mu.l of 10X HindIII buffer and 80 .mu.l of dH.sub.2 O. One .mu.l (20 units) of restriction enzyme HindIII is added to the solution of plasmid pTPA103 DNA, and the resulting reaction is incubated at 37.degree. C. for 90 minutes. One .mu.l (20 units) of restriction enzyme SstI and 10 .mu.l of 1M Tris-HCl (pH 7.6) is added to the solution of HindIII-digested plasmid pTPA103 DNA, and the resulting reaction is incubated at 37.degree. C. for 90 minutes. The 1.4 kb HindIII-SstI restriction fragment is isolated by preparative gel electrophoresis.
About 4.5 pg of the replicatire form (RF) of M13mp18 DNA (available from NEB) in 35 .mu.l of dH.sub.2 O is added to 10 .mu.l of 10X HindIII buffer and 55 .mu.l of dH.sub.2 O. One .mu.l (about 20 units) of restriction enzyme HindIII is added to the solution of M13mp18 DNA, and the resulting reaction was incubated at 37.degree. C. for 1 hour. One .mu.l (about 20 units) of restriction enzyme SstI and 10 .mu.l of 1M Tris-HC1 (pH 7.6) is added to the solution of HindIII-digested M13mp18 DNA, and the resulting reaction is incubated at 37.degree. C. for 1 hour. The large HindIII-SstI restriction fragment of M13mp18 is obtained by preparative gel electrophoresis and suspended in 20 .mu.l of dH.sub.2 O. About 2 .mu.l of the large HindIII-SstI restriction fragment of M13mp 18, 2 .mu.l of 10X T4 DNA ligase buffer, 12 .mu.l of dH.sub.2 O and .about.1 .mu.l (about 1 Weiss unit) of T4 DNA ligase is added to 3 .mu.l of the .about.1.4 kb HindIII-SstI restriction fragment of plasmid pTPA103, and the resulting ligation reaction is incubated at 16.degree. C. overnight.
Escherichia coli JM103 cells are made competent and transfected with the ligation mix in substantial accordance with the procedure described in the BRL M13 Cloning/`Dideoxy` Sequencing Instruction Manual, except that the amount of DNA used per transfection is varied (host cells other than JM103 may be used in this procedure. For examples of appropriate host cells, see Maniatis et al., 1989, vol. 1 at pp. 414-415). This method is also described by Maniatis et al., 1989, 1:4.37. Recombinant plaques are identified by insertional inactivation of the .mu.-galactosidase .alpha.-fragment-encoding gene, which results in the loss of the ability to cleave X-Gal (5-bromo-4-chloro-3-indolyl-.beta.-D-galactopyranoside) to its indigo colored cleavage product. For screening purposes, several white plaques are picked into 2.5 ml of L broth, to which is added 0.4 ml of E. coli K12 JM103 in logarithmic growth phase, that are cultured in minimal media stock to insure retention of the F episome that carries proAB. The 2.5 ml plaque-containing cell suspensions are incubated in an air-shaker at 37.degree. C. for 8 hours. Cells from 1.5 ml aliquots are pelleted and RF DNA isolated in substantial accordance with the alkaline miniscreen procedure of Example 1E. The remainder of each culture is stored at 4.degree. C. for stock. The desired phage, designated MP18BW47, contains the .about.1.4 kb HindIIISstI restriction fragment of plasmid pTPA103 ligated to the .about.7.2 kb EcoRI-HindIII restriction fragment of M 13mp18.
About fifty ml of log phase Escherichia coli JM103 are infected with MP18BW47 and incubated in an air-shaker at 37.degree. C. for 18 hours. The infected cells are pelleted by low speed centrifugation, and single-stranded MP18BW47 DNA is prepared from the culture supernatant by scaling up the procedure given in the Instruction Manual. Single-stranded MP18BW47 is mutagenized in substantial accordance with the teaching of Adelman, et al., 1983, DNA 2(3): 183-193, except that the Klenow reaction is done at room temperature for 30 minutes, then at 37.degree. C. for 60 minutes, then at 10.degree. C. for 18 hours. In addition, the S1 treatment is done at 20.degree. C., the salt concentration of the buffer is one-half that recommended by the manufacturer, and the M13 sequencing primer (BRL) is used. The synthetic oligodeoxyribonucleotide primer used to delete the coding sequence for amino acid residues 4 through 175 of native TPA is
5'-GGAGCCAGATCTTACCAAGGAAACAGTGACTGCTAC-3' (SEQ ID NO:15).
The resulting mutagenesis mix is used to transfect Escherichia coli K12 JM103 in substantial accordance with the infection procedure described above. Desired mutants are identified by restriction enzyme analysis of RF DNA and by Maxam and Gilbert DNA sequencing (Maxam, A. M. and Gilbert, W. 1980, Proc. Natl. Acad. Sci. U.S.A. 74:560). The desired mutant, which has the coding sequence for amino acid residues 4 through 175 of native TPA deleted, was designated MP18BW52.
Plasmid pmt6-hd was constructed as follows. First, the plasmid pTPA603 was digested to completion with BamHI in accordance with the methods described above, and the .about.1.9 kb BamHI fragment was isolated by preparative gel electrophoresis. Next, plasmid pac373 (Miyamoto et al., 1985, Mol. Cell. Biol. 5:2860-2865) was digested with BamHI, extracted and ethanol precipitated. The BamHI digested pac373 DNA was ligated with the .about.1.9 kb BamHI fragment from plasmid pTPA603 to create intermediate plasmid pL100. Plasmid pac373 was used because of the presence of convenient cloning sites in this plasmid. Other plasmids can be used instead of plasmid pac373 to create plasmid pL100. Examples of such plasmids include pBR322, pUC18, and pUC19, all of which are publicly available. The ligated DNA was used to transform Escherichia coli K12 MM294 in substantial accordance with the procedure of Example 1D. The transformed cells were plated on L agar containing ampicillin, and the ampicillin-resistant E. coli K12 MM294/pL100 transformants were identified by restriction enzyme analysis of their plasmid DNA.
Plasmid pL100 DNA was digested to completion with restriction enzymes BglII and SstI and a 9.7 kb BglII-SstI fragment was isolated by preparative gel electrophoresis. MP18BW52 DNA, obtained as above, was digested with restriction enzymes BglII and SstI and an .about.718 bp BglII-SstI fragment was isolated by preparative gel electrophoresis. This fragment was ligated with the 9.7 kb BglII-SstI fragment of plasmid pL100 in accordance with the method of Example 1C to create intermediate plasmid pL229. Plasmid pL229 was used to transform Escherichia coli K12 MM294 in substantial accordance with the procedure of Example 1D. The transformed cells were plated on L agar containing ampicillin, and the ampicillin-resistant E. coli K12 MM294/pL229 transformants were identified by restriction enzyme analysis of their plasmid DNA. Plasmid pL229 DNA was isolated as described in Example 1E and then digested with restriction enzyme BamHI. A .about.1.4 kb BamHI fragment was isolated by preparative gel electrophoresis.
Escherichia coli K12 GM48/phd cells are obtained in lyophil form from the Northern Regional Research Laboratory under accession number NRRL B-18525. The lyophilized cells are plated on L-agar plates containing 100 .mu.g/ml ampicillin and incubated at 37.degree. C. to obtain single colony isolates. Plasmid DNA can be isolated from these cells by the method described in Example 1F. A restriction and function map of plasmid phd is presented in FIG. 7. Plasmid phd was digested with BclI, purified and collected by ethanol precipitation. The BclI digested phd DNA was ligated with the .about.1.4 kb BamHI fragment of plasmid pL229 to create the desired plasmid pmt6-hd. The ligated DNA was used to transform Escherichia coli K12 MM294 in substantial accordance with the procedure of Example 1D. The transformed cells were plated on L agar containing ampicillin, and the ampicillin-resistant E. coli K12 M}4294/pmt6-hd transformants were identified by restriction enzyme analysis of their plasmid DNA.
A restriction and function map of pmt6-hd is shown in FIG. 8.
EXAMPLE 3
Construction of pTLB-t6
A. Preparation of the 3273 Base Pair BglII-XmaI Restriction Fragment of pLP53-TLB
One .mu.g of plasmid pLP53-TLB DNA (prepared in Example 1) was digested to completion with 1 .mu.l (10 units) of BglII and 9 .mu.l (9 units) of YanaI in a 200 .mu.l reaction volume containing 50 mM Tris-HC1 (pH 8.0), 10 mM MgCl.sub.2, and 50 mM NaCl. The sample was incubated at 37.degree. C. for 2 hours. The digested DNA was purified and collected as described in Example 1A.
B. Preparation of the 1073 Base Pair BglII-XmaI Restriction Fragment of pmt6-hd
Thirty .mu.g of plasmid pmt6-hd DNA (prepared in Example 2) was digested to completion with 2 .mu.l (20 units) of BglII and 25 .mu.l (25 units) of XmaI in a 250 .mu.l reaction volume under the buffer conditions described in Example 3A. Following incubation, 25 .mu.l of loading buffer (25% v/v glycerol, 0.05% w/v bromphenol blue, and 0.5% v/v xylene cyanole) was added to the sample and the digested DNA was fractionated by gel electrophoresis. The 1073 base pair BglII-XmaI restriction fragment was recovered and purified from the gel. The recovered DNA fragment was dissolved in 20 .mu.l of water.
C. Final Construction of pTLB-t6
Fifty nanograms of the 3273 BglII-XmaI restriction fragment of plasmid pLP53-TLB DNA (prepared in Example 3A) was ligated with 0.2 .mu.g of the 1073 base pair BglII-XmaI restriction fragment of plasmid pmt6-hd DNA (prepared in Example 3B) in accordance with the ligation procedure of Example 1C. A portion of the ligation mixture was used to transform competent Escherichia coli K12 AG1 cells in accordance with the method described in Example 1D. The transformants were selected on LB agar plates containing 100 .mu.g/ml of ampicillin grown overnight at 37.degree. C. Plasmid DNA was isolated from the ampicillin resistant clones by the DNA isolation procedure of Example 1E. Plasmid pTLB-t6 was identified by restriction enzyme analysis.
A restriction site and function map of pTLB-t6 is shown in FIG. 9.
EXAMPLE 4
Construction of pBKneol and pBKneo2
A. Preparation of BK virus DNA
BK virus is obtained from the Northern Regional Research Laboratory under the accession number ATCC VR-837. The virus is delivered in freeze-dried form and resuspended in Hank's balanced salts (Gibco, 3175 Staley Road, Grand Island, N.Y. 14072) to a titer of about 10.sup.5 plaque-forming units (pfu)/ml. The host of choice for the preparation of BK virus DNA is primary human embryonic kidney (PHEK) cells, which can be obtained from Flow Laboratories, Inc., 7655 Old Springhouse Road, McLean, Va. 22101, under catalogue number 0-100 or from M. A. Bioproducts under catalogue number 70-151. Alternatively, BK virus can be propagated in Vero cells (ATCC catalogue number CCL81).
About five 75 mm.sup.2 polystyrene flasks comprising confluent monolayers of about 10.sup.6 PHEK cells are used to prepare the virus. About 1 ml of BK virus at a titer of 10.sup.5 pfu/ml is added to each flask, which is then incubated at 37.degree. C. for one hour, and then, fresh culture medium (Dulbecco's Modified Eagle's Medium, Gibco, supplemented with 10% fetal bovine serum) is added, and the infected cells are incubated at 37.degree. C. for 10-14 days or until the full cytopathogenic effect of the virus is noted. This cytopathogenic effect varies from cell line to cell line and from virus to virus but usually consists of cells rounding up, clumping, and sloughing off the culture disk.
The virus is released from the cells by three freeze-thaw cycles, and the cellular debris is removed by centrifugation at 5000Xg. The virus in 1 liter of supernatant fluid is precipitated and collected by the addition of 100 g of PEG-6000, incubation of the solution for 24 hours at 4.degree. C., and centrifugation at 5000Xg for 20 minutes. The pellet is dissolved in 0.1X SSC buffer (1XSSC=0.15M NaCl and 0.015M sodium citrate, pH=7) at 1/100th of the original volume. The virus suspension is layered onto a 15 ml solution of saturated KBr in a tube, which is centrifuged at 75,000Xg for 3 hours. Two bands are evident in the KBr solution after centrifugation. The lower band, which contains the complete virion, is collected and desalted on a Sephadex.RTM. G-50 column (Sigma Chemical Co., P.O. Box 14508, St. Louis, Mo. 63178) using TE as an elution buffer. Sodium dodecyl sulfate (SDS) is added to the solution of purified virions obtained from the column to a concentration of 1%; pronase is added to a concentration of 100 .mu.g/ml, and the solution is incubated at 37.degree. C. for 2 hours. Cesium chloride is then added to the solution to a density of 1.56 g/ml, and ethidium bromide is added to the solution to a final concentration of 100 .mu.g/ml. The solution is centrifuged in a Sorvall (DuPont Inst. Products, Biomedical Division, Newton, Conn. 06470) 865 rotor or similar vertical rotor at 260,000Xg for 24 hours. After centrifugation, the band of virus DNA is isolated and extracted five times with isoamyl alcohol saturated with 100 mM Tris-HCl (pH 7.8). The solution of BK virus DNA is then dialyzed against TE buffer until the 260 nm/280 nm absorbance ratio of the DNA is between 1.75 and 1.90. The DNA is precipitated by adjusting the NaCl concentration to 0.15M, adding two volumes of ethanol, incubating the solution at -70.degree. C. for at least 2 hours, and centrifuging the solution at 12,000Xg for 10 minutes. The resulting pellet of BK virus DNA is suspended in TE buffer at a concentration of 1 mg/ml.
B. Construction of Plasmids pBKneol and pBKneo2
Escherichia coli K12 HB101/pdBPV-MMTneo cells are obtained in lyophil form from the American Type Culture Collection under the accession number ATCC 7224. The lyophilized cells are plated on L-agar plates containing 100 .mu.g/ml ampicillin and incubated at 37.degree. C. to obtain single colony isolates. Plasmid DNA can be isolated from these cells in accordance with the plasmid isolation procedure described in Example 1F.
About 5 .mu.g (5 .mu.l) of the plasmid pdBPV-MMTneo DNA prepared above and five .mu.g (5 .mu.l) of the BK virus DNA prepared in Example 4A were each digested at 37.degree. C. for 2 hours in a solution containing 2 .mu.l of 10X BamHI buffer (1.5M NaCl, 60 mM Tris-HCl (pH 7.9), 60 mM MgCl.sub.2, and 1 mg/ml BSA), 1 .mu.l of restriction enzyme BamHI, and 7 .mu.l of H.sub.2 O. The reaction was stopped by an extraction with an equal volume of phenol, followed by two extractions with chloroform. Each BamHI-digested DNA was then precipitated, collected by centrifugation, and resuspended in 5 .mu.l of H.sub.2 O.
About 1 .mu.l of 10X ligase buffer was added to a mixture of BamHI-digested plasmid pdBPV-MMTneo (1 .mu.l) and BamHI-digested BK virus DNA (1 .mu.l). After 1 .mu.l (.about.1000 units) of T4 DNA ligase and 6 .mu.l of H.sub.2 O were added to the mixture of DNA, the resulting reaction was incubated at 16.degree. C. overnight. The ligated DNA constituted the desired plasmids pBKneo1 and pBKneo2, which differ only with respect to the orientation of the BK virus DNA. A restriction site and function map of plasmid pBKneol is presented in FIG. 10 of the 25 accompanying drawings.
Escherichia coli K12 HB101 cells are available in lyophilized form from the Northern Regional Research Laboratory under the accession number NRRL B-15626. E. coli K12 HB101 cells were cultured, made competent for transformation, and transformed with the ligated DNA prepared above in substantial accordance with the procedure of Example 1D. The transformed cells were plated on L-agar plates containing 100 .mu.g/ml ampicillin. E. coli K12 HB101/pBKneol and E. coli K12/pBKneo2 transformants were identified by their ampicillin-resistant phenotype and by restriction enzyme analysis of their plasmid DNA.
EXAMPLE 5
A. Construction of Intermediate Plasmid pLPcat
The virion DNA of adenovirus 2 (Ad2) is a double-stranded linear molecule about 35.94 kb in size. The Ad2 late promoter can be isolated on an .about.0.316 kb AccI-PvuII restriction fragment of the Ad2 genome; this .about.0.32 kb restriction fragment corresponds to the sequence between nucleotide positions 5755 and 6071 of the Ad2 genome. To isolate the desired .about.0.32 kb AccI-PvuII restriction fragment, Ad2 DNA is first digested with restriction enzyme Bali, and the .about.2.4 kb Bali restriction fragment that comprises the entire sequence of the .about.0.32 kb AccI-PvuII restriction fragment is isolated. Then, the .about.2.4 kb Bali restriction fragment is digested with AccI and PvuII to obtain the desired fragment.
About 50 .mu.g of Ad2 DNA (available from BRL) are dissolved in 80 .mu.l of H.sub.2 O and 10 .mu.l of 10X Bali buffer (100 mM Tris-HCl (pH 7.6), 120 mM MgCl.sub.2, 100 mM DDT, and 1 mg/ml BSA). About 10 .mu.l (.about.20 units) of restriction enzyme BalI are added to the solution of Ad2 DNA, and the resulting reaction is incubated at 37.degree. C. for 4 hours.
The Bali-digested DNA is loaded onto an agarose gel and electrophoresed until the restriction fragments are well separated. Visualization of the electrophoresed DNA is accomplished by staining the gel in a dilute solution (0.5 .mu.g/ml) of ethidium bromide and exposing the stained gel to long-wave ultraviolet (UV) light. One method to isolate DNA from agarose is as follows. A small slit is made in the gel in front of the desired fragment, and a small piece of NA-45 DEAE membrane (Schleicher and Schuell, Keene, N.H. 03431) is placed in each slit. Upon further electrophoresis, the DNA non-covalently binds to the DEAE membrane. After the desired fragment is bound to the DEAE membrane, the membrane is removed and rinsed with low-salt buffer (100 mM KC1, 0.1 mM EDTA, and 20 mM Tris-HCl (pH 8.0)). Next, the membrane is placed in a small tube and immersed in high-salt buffer (1M NaCl, 0.1 mM EDTA, and 20 mM Tris-HCl (pH 8.0)) and then incubated at 65.degree. C. for one hour to remove the DNA from the DEAE paper. After the 65.degree. C. incubation, the incubation buffer is collected and the membrane rinsed with high-salt buffer. The high-salt rinse solution is pooled with the high-salt incubation buffer.
The volume of the high salt-DNA solution is adjusted so that the NaCl concentration is 0.25M, and then three volumes of cold, absolute ethanol are added to the solution. The resulting solution is mixed and placed at -70.degree. C. for 10-20 minutes. The solution is then centrifuged at 15,000 rpm for 15 minutes. After another precipitation to remove residual salt, the DNA pellet is rinsed with ethanol, dried, resuspended in 20 .mu.l of TE buffer, and constitutes about 3 .mu.g of the desired restriction fragment of Ad2. The purified fragment obtained is dissolved in 10 .mu.l of TE buffer.
About 6 .mu.l of H.sub.2 O and 2 .mu.l of 10X AccI buffer (60 mM NaCl, 60 mM Tris-HCl (pH 7.5), 60 mM MgCl.sub.2, 60 mM DTT, and 1 mg/ml BSA) are added to the solution of the .about.2.4 kb Bali restriction fragment of Ad2. After the addition of about 2 .mu.l (.about.10 units) of restriction enzyme AccI to the solution of DNA, the reaction is incubated at 37.degree. C. for 2 hours. After the AccI digestion, the DNA is collected by ethanol precipitation and resuspended in 16 .mu.l of H.sub.2 O and 2 .mu.l of 10X PvuII buffer (600 mM NaCl, 60 mM Tris-HCl (pH 7.5), 60 mM MgCl.sub.2, 60 mM DTT, and 1 mg/ml BSA). After the addition of about 2 .mu.l (about 10 units) of restriction enzyme PvuII to the solution of DNA, the reaction is incubated at 37.degree. C. for 2 hours.
The AccI-PvuII-digested, .about.2.4 kid Bali restriction fragment of Ad2 is loaded onto an .about.6% polyacrylamide gel and electrophoresed until the .about.0.32 kb AccI-PvuII restriction fragment that comprises the Ad2 late promoter is separated from the other digestion products. The gel is stained with ethidium bromide and viewed using UV light, and the segment of gel containing the .about.0.32 kb AccI-PvuII restriction fragment is cut from the gel, crushed, and soaked overnight at room temperature in .about.250 .mu.l of extraction buffer (500 mM NH.sub.4 OAc; 10 mM MgOAc; 1 mM EDTA; and 0.1% SDS). The following morning, the mixture is centrifuged, and the pellet is discarded. The DNA in the supernatant is precipitated with ethanol; about 2 .mu.g of tRNA are added to ensure complete precipitation of the desired fragment. About 0.2 .mu.g of the .about.0.32 kb AccI-PvuII restriction fragment are obtained and suspended in 7 .mu.l of H.sub.2 O.
About 0.25 Hg (in 0.5 ul) of BclI linkers (5'-CTGATCAG-3', available from NEB), which had been kinased in substantial accordance with the procedure described in Example 2 was added to the solution of the .about.0.32 kb AccI-PvuII restriction fragment, and then, 1 .mu.l (.about.1000 units) of T4 DNA ligase and 1 .mu.l of 10X ligase buffer were added to the solution of DNA, and the resulting reaction was incubated at 16.degree. C. overnight. The BclI linkers could only ligate to the PvuII end of the AccI-PvuII restriction fragment. DNA sequencing later revealed that four BclI linkers attached to the PvuII end of the AccI-PvuII restriction fragment. These extra BclI linkers can be removed by BclI digestion and religation; however, the extra BclI linkers were not removed as the linkers do not interfere with the proper functioning of the vectors that comprise the extra linkers.
Escherichia coli K12 HB101/pSV2cat cells are obtained in lyophilized form from the ATCC under the accession number ATCC 37155, and plasmid pSV2cat DNA was isolated from the cells in substantial accordance with the procedure of Example 1F. A restriction site and function map of plasmid pSV2cat is presented in FIG. 11 of the accompanying drawings. About 1 mg of plasmid pSV2cat DNA is obtained and dissolved in 1 ml of TE buffer. About 3 .mu.g (3 .mu.l ) of the plasmid pSV2cat DNA were added to 2 .mu.l of 10X AccI buffer and 16 .mu.l of H.sub.2 O, and then, 3 .mu.l (about 9 units) of restriction enzyme AccI were added to the solution of pSV2cat DNA, and the resulting reaction was incubated at 37.degree. C. for 2 hours. The AccI-digested plasmid pSV2cat DNA was then digested with restriction enzyme StuI by adding 3 .mu.l of 10X StuI buffer (1.0M NaC1, 100 mM Tris-HCl (pH 8.0), 100 mM MgCl.sub.2, 60 mM DTT, and 1 mg/ml BSA), 5 .mu.l of H.sub.2 O, and about 2 .mu.l (about 10 units) of restriction enzyme StuI. The resulting reaction was incubated at 37.degree. C. for 2 hours. The reaction was terminated by extracting the reaction mixture once with phenol, then twice with chloroform. About 0.5 .mu.g of the desired fragment was obtained and dissolved in 20 .mu.l of TE buffer.
About 4 .mu.l of the AccI-StuI-digested plasmid pSV2cat DNA were mixed with about 7 .mu.l of the .about.0.32 kb AccI-PvuII (with BclI linkers attached) restriction fragment of Ad2, and after the addition of 3 .mu.l of 10X ligase buffer, 15 .mu.l of H.sub.2 O, and 2 .mu.l (about 1000 units) of T4 DNA ligase, the ligation reaction was incubated at 16.degree. C. overnight. The ligated DNA constituted the desired plasmid pLPcat, a plasmid that comprises the Ad2 late promoted positioned so as to drive transcription, and thus expression, of the chloramphenicol acetyltransferase gene. A restriction site and function map of plasmid pLPcat is presented in FIG. 12 of the accompanying drawings.
The ligated DNA was used to transform Escherichia coli K12 HB101 cells in substantial accordance with the procedure of Example 1D. The transformed cells were plated on L agar containing 50 .mu.g/ml ampicillin; restriction enzyme analysis of plasmid DNA was used to identify the E. coli K12 HB101/pLPcat transformants. Plasmid pLPcat DNA was isolated from the transformants for use in subsequent constructions in substantial accordance with the plasmid isolation procedure described in Example 1F.
B. Construction of Plasmid pBLcat
About 88 .mu.g of plasmid pBKneol DNA (from Example 4B) in 50 .mu.l of TE buffer were added to 7.5 .mu.l of 10X AccI buffer, 30 .mu.l of H.sub.2 O, and 15 .mu.l (about 75 units) of restriction enzyme AccI, and the resulting reaction was incubated at 37.degree. C. for 2 hours. The AccIdigested BK virus DNA was loaded on an agarose gel, and the .about.1.4 kb fragment that contains the BK enhancer was separated from the other digestion products. The .about.1.4 kb AccI restriction fragment was then isolated from the gel. About 5 .mu.g of the fragment were resuspended in 5 .mu.l of 10X PvuII buffer, 45 .mu.l of H.sub.2 O, and 5 .mu.l (about 25 units) of restriction enzyme PvuII, and the resulting reaction was incubated at 37.degree. C. for 2 hours. The PvuII-digested DNA was then purified and precipitated with ethanol. About 2 .mu.g of the desired .about.1.28 kb AccI-PvuII fragment were obtained and dissolved in 5 .mu.l of TE buffer.
About 1 .mu.g of plasmid pLPcat DNA was dissolved in 5 .mu.l of 10X AccI buffer and 40 About 5 .mu.l (.about.25 units) of restriction enzyme AccI were added to the solution of plasmid pLPcat DNA, and the resulting reaction was incubated at 37.degree. C. The AccI-digested plasmid pLPcat DNA was precipitated with ethanol and resuspended in 5 .mu.l of 10X StuI buffer, 40 .mu.l of H.sub.2 O, and 5 .mu.l (about 25 units) of restriction enzyme StuI, and the resulting reaction was incubated at 37.degree. C. for 2 hours. The AccI-StuI-digested plasmid pLPcat DNA was precipitated with ethanol several times to purify the .about.4.81 kb AccI-StuI restriction fragment that comprises the E. coli origin of replication and Ad2 late promoter away from the other digestion product, a restriction fragment about 16 bp in size. About 1 .mu.g of the desired .about.4.81 kb restriction fragment was obtained and dissolved in 20 .mu.l of TE buffer.
The 5 .mu.l of .about.4.81 kb AccI-StuI restriction fragment of plasmid pLPcat were added to 5 .mu.l of .about.1.28 kb AccI-PvuII restriction fragment of plasmid pBKneol. After the addition of 3 .mu.l of 10X ligase buffer, 15 .mu.l of H.sub.2 O, and 2 .mu.l (about 1000 units) of T4 DNA ligase to the mixture of DNA, the resulting ligation reaction was incubated at 16.degree. C. overnight. The ligated DNA constituted the desired plasmid pBLcat. A restriction site and function map of plasmid pBLcat is presented in FIG. 13 of the accompanying drawings. The ligated DNA was used to transform E. coli K12 HB101 cells in substantial accordance with the procedure described in Example 1D. E. coli K12 HB101/pBLcat transformants were identified by restriction enzyme analysis of their plasmid DNA. Plasmid pBLcat DNA was prepared for use in subsequent constructions in substantial accordance with the procedure of Example 1F.
C. Final Construction of Plasmid pSBLcat
About 100Mg of plasmid pBLcat DNA were dissolved in 10 .mu.l of 10X HindIII buffer (0.5M NaCl, 0.1M Tris-HCl (pH 8.0), 0.1M MgCl.sub.2 and 1 mg/ml BSA) and 80 .mu.l of H.sub.2 O. About 10 .mu.l (about 100 units) of restriction enzyme HindIII were added to the solution of plasmid pBLcat DNA, and the resulting reaction was incubated at 37.degree. C. for 2 hours. The HindIII-digested plasmid pBLcat DNA was loaded onto an agarose gel and electrophoresed until the .about.0.87 kb HindIII restriction fragment that comprises the BK enhancer and Ad2 late promoter was well separated from the other digestion products; then, the .about.0.87 kb fragment was isolated from the gel, purified and ethanol precipitated. About 10Mg of the desired fragment were obtained and dissolved in 50 .mu.l of TE buffer.
About 1 .mu.g of plasmid pSV2cat DNA in 1 .mu.l of TE buffer was dissolved in 2 .mu.l of 10X HindIII buffer and 16 .mu.l of H.sub.2 O. About 1 .mu.l (about 10 units) of restriction enzyme HindIII was added to the solution of DNA, and the resulting reaction was incubated at 37.degree. C. for 2 hours. The reaction was stopped by extracting the reaction mixture first with phenol, then twice with chloroform. The HindIII-digested plasmid pSV2cat DNA was precipitated with ethanol and resuspended in 100 .mu.l of TE buffer. About 0.06 units of calf-intestinal alkaline phosphatase were added to the solution, and the resulting mixture was incubated at 37.degree. C. for 30 minutes. The solution was adjusted to contain 1X SET (5 mM Tris-HCl (pH 7.8), 5 mM EDTA, and 150 mM NaCl), 0.3M sodium actate and 0.05% SDS and then incubated at 65.degree. C. for 45 minutes. The DNA was extracted twice with phenol and then chloroform. The DNA was ethanol precipitated as described in Example 1 and the resuspended in 10 .mu.l of TE buffer. The phosphatase treatment prevents the pSV2cat DNA from self-ligating.
About 5 .mu.l of the .about.0.87 kb HindIII restriction fragment of plasmid pBLcat were added to the 10 .mu.l of HindIII-digested plasmid pSV2cat, and then, 3 .mu.l of 10X ligase buffer, 2 .mu.l (about 1000 units) of T4 DNA ligase, and 13 .mu.l of H.sub.2 O were added to the solution of DNA, and the resulting reaction was incubated at 16.degree. C. for 2 hours. The ligated DNA constituted the desired plasmid pSBLcat. The ligated DNA was used to transform Escherichia coli K12 HB101 in substantial accordance with the procedure of Example 1D. The transformed cells were plated on L agar containing ampicillin, and the plasmid DNA of the ampicillin-resistant transformants was examined by restriction enzyme analysis to identify the E. coli K12 HB101/pSBLcat transformants. The .about.0.87 kb HindIII restriction fragment that encodes the BK enhancer and Ad2 late promoter could insert into HindIII-digested plasmid pSBLcat in one of two orientations, only one of which yields plasmid pSBLcat. A restriction site and function map of plasmid pSBLcat is presented in FIG. 14 of the accompanying drawings.
EXAMPLE 6
Construction of pSBL-Bt6-d
A. Preparation of the 3865 Base Pair AatII-XmaI Restriction Fragment of pmt6-hd
Twenty .mu.g of pmt6-hd (prepared in Example 2) was digested to completion with 10.mu.l (20 units) of AatII in a 150 .mu.l reaction volume containing 10 mM Tris-HCl (pH 7.5), 50 mM KCl, 10 mM MgCl.sub.2 and 1 mM DTT. The sample was incubated at 37.degree. C. for 3 hours. Following incubation, the sample was purified and collected by ethanol precipitation as described in Example 1A and resuspended in 210 .mu.l of water.
The above DNA was digested to completion with XmaI as follows. Twenty-five .mu.l of 10X BRL Core buffer (500 mM Tris-HCl (pH 8.0), 100 mM MgCl.sub.2 and 500 mM NaCl) and 15.mu.l of XmaI (15 units) were added to the sample. The sample was mixed and then incubated at 37.degree. C. for 16 hours. Following incubation, the sample was purified and collected as described in Example 1A and resuspended in 210 .mu.l of water.
The above DNA was further digested with MstII to allow separation of the desired 3865 base pair AatII-BglII restriction fragment upon gel electrophoresis. Twenty-five .mu.l of 10X MstII buffer (100 mM Tris-HCl (pH 7.5), 1.5M NaCl,10 mM MgCl.sub.2 and 2mM B-mercaptoethanol) and 15 .mu.l of MstII (x units ) were added to the sample. The sample was mixed and then incubated at 37.degree. C. for 2 hours. Following incubation the 3865 base pair AatII-BglII restriction fragment was isolated by preparative gel electrophoresis.
B. Preparation of the 3228 Base Pair AatII-BclI Restriction Fragment of pSBLcat
The 3228 base pair AatII-BclI restriction fragment was isolated from the plasmid pSBL. The plasmid pSBL is a derivative of plasmid pSBLcat which was described in Example 5. The chloramphenical acetyl transferase (CAT) gene was deleted from pSBL cat to form pSBL. Alternatively, the 3228 base pair AatII-BclI restriction fragment can be isolated from pSBLcat as described below.
Twenty-five .mu.g of pSBLcat (prepared in Example 4) is digested to completion with 20 .mu.l (400 units) of AatII in a 200 .mu.l reaction volume containing 10 mM Tris-HCl (pH 7.5), 50 mM KCl, 10 mM MgCl.sub.2 and 1 mM DTT. The sample is incubated at 37.degree. C. for 3 hours. Following incubation, 30 .mu.l of 10X Core buffer (500 mM Tris-HCl (pH 8.0), 100 mM MgCl.sub.2 and 500 mM NaCl), 60 .mu.l of water and 10 .mu.l (100 units) of BclI are added to the sample. The sample is incubated at 37.degree. C. for 3 hours. Following incubation the 3228 base pair AatII-BclI restriction fragment is isolated by preparative gel electrophoresis.
C. Preparation of the 1190 Base Pair BamHI-XmaI Restriction Fragment of pTLB-t6
Twenty-five .mu.g of pTLB-t6 (prepared in Example 3) was digested to completion in a reaction containing 20 .mu.l (20 units) of XmaI, 5 .mu.l of BamHI (50 units), 20 .mu.l of 10X Core buffer (500 mM Tris-HCl (pH 8.0), 100 mM MgCl.sub.2 and 500 mM NaCl) and 80 .mu.l of water. The samples were incubated at 37.degree. C. for 2 hours. Following incubation, the 1190 base pair BamHI-XmaI restriction fragment was isolated from each sample by preparative gel electrophoresis.
D. Final Preparation of Plasmids pSBL-Bt6-d
Fifty nanograms of the 3865 base pair AatIIXmaI restriction fragment of plasmid pmt6-hd (prepared in Example 6A) is ligated to 0.1 .mu.g of the 3228 base pair AatI-BclI restriction fragment (prepared in Example 6B) and 0.05 .mu.g of the 1190 base pair BamHI-XrnaI restriction fragment of pTLB-t6 (prepared in Example 6C) in substantial accordance with the ligation method of Example 1C. A portion of the ligation mixture is used to transform Escherichia coli K12 AG1 in accordance with the method described in Example 1D. The transformants are selected on LB agar plates containing 100 .mu.g/ml of ampicillin grown overnight at 37.degree. C. Plasmid DNA is isolated from the ampicillin resistant clones by the DNA isolation procedure of Example 1E.
A restriction site and function map of pSBL-Bt6-d is shown in FIG. 15.
EXAMPLE 7
Construction of Plasmids pGT-t6B-d
A. Preparation of the 3865 Base Pair AatII-XmaI Restriction Fragment of pmt6-hd
The 3865 base pair AatII-XmaI restriction fragment of pmt6-hd was isolated as described in Example 6A.
B. Preparation of the 3560 Base Pair BclI-AatII Restriction Fragment of pGTC
The plasmid pGTC can be conventionally isolated from Escherichia coli K12 AG1/pGTC, a culture deposited on Jan. 18, 1990 and made part of the permanent stock culture collection of the Northern Regional Research Center (NRRL), Agricultural Research Service U.S. Department of Agriculture, Peoria, Ill. 61604, under accession number NRRL B-18593. A restriction site and function map of pGTC is shown in FIG. 15.
The plasmid pGTC was transformed into the damcell line Escherchia coli K12 GM48 as described in Example 1D. Escherichia coli K12 GM48 is available from the NRRL under accession number NRRL B-15725. Other dam- cell lines may also be used. Plasmid DNA was isolated from these transformants as described in Example 1E.
Twenty-five .mu.g of pGTC was digested to completion with 20 .mu.l (40 units) of AatII in a 200 .mu.l reaction volume containing 10 mM Tris-HCl (pH 7.5), 50 mM KC1, 10 mM MgCl.sub.2 and 1 mM DTT. The sample was incubated at 37.degree. C. for 3 hours. Following incubation, 30 .mu.l of 10X Core buffer, 60 .mu.l of water and 10 .mu.l (100 units) of BclI were added to the sample. The sample was incubated at 37.degree. C. for 3 hours. Following incubation the 3560 base pair AatII-BclI restriction fragment was isolated by preparative gel electrophoresis.
C. Preparation of the 1120 Base Pair BamHI-XmaI Restriction Fragment of pTLB-t6
The 1120 base pair BamHI-XmaI restriction fragment of pTLB-t6 was isolated as described in Example 6C.
Final Construction of pGT-t6B-d
Fifty ng of the AatII-XmaI restriction fragment of pmt6-hd (prepared in Example 7A) was ligated to 50 ng of the BclI-AatII restriction fragment of pGTC (prepared in Example 7B) and 50 ng of the BamHI-XmaI restriction fragment of pTLB-t6 (prepared in Example 7C) in substantial accordance with the ligation method of Example 1C. A portion of the ligation mixture was used to transform Escherichia coli K12 AG1 in accordance with the method described in Example 1D. The transformants were selected on LB agar plates containing 100 .mu.g/ml of ampicillin grown overnight at 37.degree. C. Plasmid DNA was isolated from the ampicillin resistant clones by the DNA isolation procedure of Example 1E. A restriction site and function map of pGT-t6B-d is shown in FIG. 16.
EXAMPLE 8
Transformation and Culturing
A. Transformation of AV12-664 Cells
The transformation procedure described below refers to AV12-664 cells as the host cell line; however, the procedure is generally applicable to most eukaryotic cell lines.
AV12-664 cells are obtained from the ATCC under the accession number CRL 9595 in a 25 mm.sup.2 flask containing a confluent monolayer of about 5.5.times.10.sup.6 cells in Eagle's Minimum Essential Medium with 10% heat-inactivated horse serum. The flask is incubated at 37.degree. C.; medium is changed twice weekly. The cells are subcultured by removing the medium, rinsing with Hank's Balanced Salts solution (Gibco, 3175 Staley Road, Grand Island, N.Y. 14072), adding 0.25% trypsin for 1-2 minutes, rinsing with fresh medium, aspirating, and dispensing into new flasks at a subcultivation ratio of 1:5 or 1:10.
One day prior to transformation, cells are seeded at 0.7.times.10.sup.6 cells per 100 mm or 55 cm.sup.2 dish. The medium is changed 4 hours prior to transformation. Sterile, ethanol-precipitated plasmid DNA dissolved in H.sub.2 O is used to prepare a 2X DNA-CaCl.sub.2 solution containing 20 .mu.g/ml DNA and 250 mM CaCl.sub.2. 2X HBS is prepared containing 280 mM NaCl, 50 mM Hepes (N-2-Hydroxyethylpiperazine-N'-2-ethanesulfonic acid), and 1.5 mM sodium phosphate, with the pH adjusted to 7.05-7.15. The 2X DNA-CaCl.sub.2 solution is added dropwise to an equal volume of sterile 2X HBS with a one ml sterile plastic pipette with a cotton plug while air is slowly bubbled through the solution. The calcium-phosphate-DNA precipitate is allowed to form without further agitation for 30-45 minutes at room temperature.
The precipitate is then mixed by gentle pipetting with a plastic pipette, and 0.5 ml (per plate) of precipitate is added directly to the 10 ml of growth medium that covers the recipient cells. After 4 hours of incubation at 37.degree. C., the medium is replaced with DMEM containing 10% fetal bovine serum and the cells are allowed to incubate for an additional 72 hours before providing selective pressure. For plasmids that do not comprise a selectable marker that functions in eukaryotic cells, the transformation procedure utilizes a mixture of plasmids: the expression vector of the invention but lacking a selectable marker; and an expression vector that comprises a selectable marker that functions in eukaryotic cells. This co-transformation technique allows for the identification of cells that comprise both of the transforming plasmids by isolating colonies that grow in the presence of the selective pressure and assaying for the useful protein.
For cells transfected with plasmids containing the hygromycin resistance-conferring gene, hygromycin is added to the growth medium to a final concentration of about 200 to 400 .mu.g/ml. AV12-664 cells can also be directly selected with methotrexate (200-500 nM) when transformed with a vector containing the murine dhfr gene. The cells are then incubated at 37.degree. C. for 2-4 weeks with medium changes at 3 to 4 day intervals. The resulting hygromycin-resistant or methotrexate resistant colonies are transferred to individual culture flasks for characterization.
EXAMPLE 9
Purification and Analysis
The tissue plasminogen activator molecules are isolated from the culture medium and purified by methods well known in the art, such as the method described by Burck et al., 1990, J. Biol. Chem. 265(9):5170. The plasminogen activator activity of the t-PA molecules can be determined using an indirect spectrophotometric assay described by Verheijen et al., 1982 Thrombol. Haemostas. 48:226.
Upon isolation and purification of the secreted proteins, the amino terminal amino acid sequence was analyzed using an Applied Biosystems (850 Lincoln Center Drive, Foster City, Calif. 94404) 470A Protein Sequencer. The amino terminal amino acid sequence was also determined for molecules isolated from the crude medium but which were not purified. The method of sequencing is essentially the Edman degradation method described by Hewick et al., 1981, J. Biol. Chem. 256:7990. Those transformants containing plasmids with the TLB propeptide region (SEQ ID NO: 3) resulted in the expression and secretion of a homogeneous population of mt-PA-6 molecules with the amino terminal acid Ser, which is the first amino acid of the mature form of the mt-PA-6 protein. This result indicates that the propeptide cleavage sequences of the present invention are uniformly cleaved to allow production of a homogeneous population of t-PA molecules.
__________________________________________________________________________SEQUENCE LISTING(1) GENERAL INFORMATION:(iii) NUMBER OF SEQUENCES:16(2) INFORMATION FOR SEQ ID NO:1:(i) SEQUENCE CHARACTERISTICS:(A) LENGTH:35 amino acids(B) TYPE:amino acid(C) STRANDEDNESS:single(D) TOPOLOGY:linear(ii) MOLECULE TYPE:peptide(xi) SEQUENCE DESCRIPTION: SEQ ID NO:1:MetAspAlaMe tLysArgGlyLeuCysCysValLeuLeuLeuCys151015GlyAlaValPheValSerProSerGlnGluIleHisAlaArgPhe20 2530ArgArgGlyAlaArg35(2) INFORMATION FOR SEQ ID NO:2:(i) SEQUENCE CHARACTERISTICS:(A) LENGTH:29 amino acids(B) TYPE:amino acid(C) STRANDEDNESS:single(D) TOPOLOGY:linear(ii) MOLECULE TYPE:protein(xi) SEQUENCE DESCRIPTION: SEQ ID NO:2:Met AspAlaMetLysArgGlyLeuCysCysValLeuLeuLeuCys151015GlyAlaValPheValSerProSerGlnGluIleHisAlaArg20 25(2) INFORMATION FOR SEQ ID NO:3:(i) SEQUENCE CHARACTERISTICS:(A) LENGTH:5 amino acids(B) TYPE:amino acid(C) STRANDEDNESS:single(D) TOPOLOGY:linear(ii) MOLECULE TYPE:peptide(xi) SEQUENCE DESCRIPTION: SEQ ID NO:3:ArgIleArgLysArg15(2) INFORMATION FOR SEQ ID NO:4:(i ) SEQUENCE CHARACTERISTICS:(A) LENGTH:5 amino acids(B) TYPE:amino acid(C) STRANDEDNESS:single(D) TOPOLOGY:linear(ii) MOLECULE TYPE:peptide(xi) SEQUENCE DESCRIPTION: SEQ ID NO:4:SerArgLysArgArg15(2) INFORMATION FOR SEQ ID NO:5:(i) SEQUENCE CHARACTERISTICS:(A) LENGTH:5 amino acids(B) TYPE:amino acid(C) STRANDEDNESS:single(D) TOPOLOGY:linear(ii) MOLECULE TYPE:peptide(xi) SEQUENCE DESCRIPTION: SEQ ID NO:5:GluArgArgLysArg15(2) INFORMATION FOR SEQ ID NO:6:(i) SEQUENCE CHARACTERISTICS:(A) LENGTH:5 amino acids(B) TYPE:amino acid(C) STRANDEDNESS:single(D) TOPOLOGY:linear (ii) MOLECULE TYPE:peptide(xi) SEQUENCE DESCRIPTION: SEQ ID NO:6:ValArgLysArgArg15(2) INFORMATION FOR SEQ ID NO:7:(i) SEQUENCE CHARACTERISTICS:(A) LENGTH:5 amino acids(B) TYPE:amino acid(C) STRANDEDNESS:single(D) TOPOLOGY:linear(ii) MOLECULE TYPE:peptide(ix) FEATURE:Xaa is Lys or Arg(xi) SEQUENCE DESCRIPTION: SEQ ID NO:7:ArgIleXaaXaaXaa15(2) INFORMATION FOR SEQ ID NO:8:(i) SEQUENCE CHARACTERISTICS:(A) LENGTH:5 amino acids(B) TYPE:amino acid(C) STRANDEDNESS:single(D) TOPOLOGY:linear(ii) MOLECULE TYPE:peptide(ix) FEATURE:Xaa is Lys or Arg(xi) SEQUENCE DESCRIPTION: SEQ ID NO:8:SerArgXaaXa aXaa15(2) INFORMATION FOR SEQ ID NO:9:(i) SEQUENCE CHARACTERISTICS:(A) LENGTH:5 amino acids(B) TYPE:amino acid(C) STRANDEDNESS:single(D) TOPOLOGY:linear(ii) MOLECULE TYPE:peptide(ix) FEATURE:Xaa is Lys or Arg(xi) SEQUENCE DESCRIPTION: SEQ ID NO:9:GluArgXaaXaaXaa1 5(2) INFORMATION FOR SEQ ID NO:10:(i) SEQUENCE CHARACTERISTICS:(A) LENGTH:5 amino acids(B) TYPE:amino acid(C) STRANDEDNESS:single(D) TOPOLOGY:linear(ii) MOLECULE TYPE:peptide(ix) FEATURE:Xaa is Lys or Arg(xi) SEQUENCE DESCRIPTION: SEQ ID NO:10:ValArgXaaXaaXaa15(2) INFORMATION FOR SEQ ID NO:11: (i) SEQUENCE CHARACTERISTICS:(A) LENGTH:114 nucleotides(B) TYPE:nucleic acid(C) STRANDEDNESS:double(D) TOPOLOGY:linear(ii) MOLECULE TYPE:DNA(xi) SEQUENCE DESCRIPTION: SEQ ID NO:11:GATCCGCCACCATGGATGCAATGAAGAGAGGGCTCTGCTGTGTG44CTGCTGCTGTGTGGAGCAGTCTTC GTTTCGCCCAGCCAGGAA86ATCCATGCCCGATTCAGAATCCGCAAAA114(2) INFORMATION FOR SEQ ID NO:12 :(i) SEQUENCE CHARACTERISTICS:(A) LENGTH:114 nucleotides(B) TYPE:nucleic acid(C) STRANDEDNESS:single(D) TOPOLOGY:linear(ii) MOLECULE TYPE:DNA(xi) SEQUENCE DESCRIPTION: SEQ ID NO:12:GATCCG CCACCATGGATGCAATGAAGAGAGGGCTCTGCTGTGTGCTGCTG50CTGTGTGGAGCAGTCTTCGTTTCGCCCAGCCAGGAAATCCATGCCCGATT100CAGAATCCGAAAAA114(2) INFORMATION FOR SEQ ID NO:13 :(i) SEQUENCE CHARACTERISTICS:(A) LENGTH:114 nucleotides(B) TYPE:nucleic acid (C) STRANDEDNESS:single(D) TOPOLOGY:linear(ii) MOLECULE TYPE:DNA(xi) SEQUENCE DESCRIPTION: SEQ ID NO:13:GATCTTTTGCGGATTCTGAATCGGGCATGGATTTCCTGGCTGGGCGAAAC50GAAGACTGCTCCACACAGCAGCAGCACACAGCAGAGCCCTCTCTTCATTG100CATCCATGGTGGCG114(2) INFORMATION FOR SEQ ID NO:14:(i) SEQUENCE CHARACTERISTICS:(A) LENGTH:287 nucleotides(B) TYPE:nucleic acid(C) STRANDEDNESS:double(D) TOPOLOGY:linear(ii) MOLECULE TYPE:DNA(xi) SEQUENCE DESCRIPTION: SEQ ID NO:14:AATTCACGCTGTGGTGTTATGGTCGGTGGTCGCTAGGGTG40CCGACGCGCATCTCGACTGCACG GTGCACCAATGCTTCTG80GCGTCAGGCAGCCAATCGGAAGCTGTGGTATGGCTGTGCA120GGTCGTATAATCACCGCATAATTCGAGTCGCTCAAGGCGC160ACTCCCGTTCCGGATAATGTTTTTTGCTCCGACATCATAA200CGGTTCCGGCAAAT ATTCTGAAATGAGCTGTTGACAATTA240ATCATCGAACTAGTTAACTAGTACGCAAGTTCTCGTAAAA280AGGGTAT287(2) INFORMATION FOR SEQ ID NO:15 :(i) SEQUENCE CHARACTERISTICS:(A) LENGTH:36 nucleotides(B) TYPE:nucleic acid(C) STRANDEDNESS:single(D) TOPOLOGY:linear (ii) MOLECULE TYPE:DNA(xi) SEQUENCE DESCRIPTION: SEQ ID NO:15:GGAGCCAGATCTTACCAAGGAAACAGTGACTGCTAC36(2) INFORMATION FOR SEQ ID NO:16:(i) SEQUENCE CHARACTERISTICS:(A) LENGTH:527 amino acids(B) TYPE:amino acid(C) STRANDEDNESS:single(D) TOPOLOGY:linear(ii) MOLECULE TYPE:protein(xi) SEQUENCE DESCRIPTION: SEQ ID NO:16:SerTyrG lnValIleCysArgAspGluLysThrGlnMetIleTyr151015GlnGlnHisGlnSerTrpLeuArgProValLeuArgSerAsnArg20 2530ValGluTyrCysTrpCysAsnSerGlyArgAlaGlnCysHisSer354045ValProValLysSerCysSerGluProArg CysPheAsnGlyGly505560ThrCysGlnGlnAlaLeuTyrPheSerAspPheValCysGlnCys6570 75ProGluGlyPheAlaGlyLysCysCysGluIleAspThrArgAla808590ThrCysTyrGluAspGlnGlyIleSerTyrArgGlyThrTrpSer 95100105ThrAlaGluSerGlyAlaGluCysThrAsnTrpAsnSerSerAla110115120LeuAlaGlnLysProTyrS erGlyArgArgProAspAlaIleArg125130135LeuGlyLeuGlyAsnHisAsnTyrCysArgAsnProAspArgAsp140145 150SerLysProTrpCysTyrValPheLysAlaGlyLysTyrSerSer155160165GluPheCysSerThrProAlaCysSerGluGlyAsnSerAsp Cys170175180TyrPheGlyAsnGlySerAlaTyrArgGlyThrHisSerLeuThr185190195GluSerGl yAlaSerCysLeuProTrpAsnSerMetIleLeuIle200205210GlyLysValTyrThrAlaGlnAsnProSerAlaGlnAlaLeuGly215 220225LeuGlyLysHisAsnTyrCysArgAsnProAspGlyAspAlaLys230235240ProTrpCysHisValLeuLysAsnArgArgL euThrTrpGluTyr245250255CysAspValProSerCysSerThrCysGlyLeuArgGlnTyrSer2602652 70GlnProGlnPheArgIleLysGlyGlyLeuPheAlaAspIleAla275280285SerHisProTrpGlnAlaAlaIlePheAlaLysHisArgArgSer 290295300ProGlyGluArgPheLeuCysGlyGlyIleLeuIleSerSerCys305310315TrpIleLeuSerAlaAlaHi sCysPheGlnGluArgPheProPro320325330HisHisLeuThrValIleLeuGlyArgThrTyrArgValValPro335340 345GlyGluGluGluGlnLysPheGluValGluLysTyrIleValHis350355360LysGluPheAspAspAspThrTyrAspAsnAspIleAlaLeuL eu365370375GlnLeuLysSerAspSerSerArgCysAlaGlnGluSerSerVal380385390ValArgThr ValCysLeuProProAlaAspLeuGlnLeuProAsp395400405TrpThrGluCysGluLeuSerGlyTyrGlyLysHisGluAlaLeu410 415420SerProPheTyrSerGluArgLeuLysGluAlaHisValArgLeu425430435TyrProSerSerArgCysThrSerGlnHisLe uLeuAsnArgThr440445450ValThrAspAsnMetLeuCysAlaGlyAspThrArgSerGlyGly45546046 5ProGlnAlaAsnLeuHisAspAlaCysGlnGlyAspSerGlyGly470475480ProLeuValCysLeuAsnAspGlyArgMetThrLeuValGlyIle 485490495IleSerTrpGlyLeuGlyCysGlyGlnLysAspValProGlyVal500505510TyrThrLysValThrAsnTyr LeuAspTrpIleArgAspAsnMet515520525ArgPro527

Number	Name	Date
4753879	Rosa et al.	Jun 1988
4769326	Rutter	Sep 1988
4916071	Hung et al.	Apr 1990
4992373	Bang et al.	Feb 1991
5071972	Larsen et al.	Dec 1991
5082783	Ernst et al.	Jan 1992
5100666	Bell et al.	Mar 1992

Number	Date	Country
0143081	Nov 1984	EPX
0266190	Oct 1987	EPX
0273774	Dec 1987	EPX
0301670	Jul 1988	EPX
0319312	Jun 1989	EPX
8907144	Aug 1989	WOX
9107490	May 1991	WOX

DNA sequences encoding t-PA derivatives with cleavable sites

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Entry
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