NOVEL MODIFIED NUCLEIC ACID SEQUENCES AND METHODS FOR INCREASING mRNA LEVELS AND PROTEIN EXPRESSION IN CELL SYSTEMS

Abstract: The invention provides modified recombinant nucleic acid sequences (preferably DNA) and methods for increasing the mRNA levels and protein expression of proteins which are known to be, or are likely to be, difficult to express in cell culture systems, mammalian cell culture systems, or in transgenic animals. The preferred "difficult" protein candidates for expression using the recombinant techniques of the invention are those proteins derived from heterologous cells preferably those of lower organisms such as parasites, bacteria, and virus, having DNA coding sequences comprising high overall AT content or AT rich regions and/or mRNA instability motifs and/or rare codons relative to the recombinant expression system to be used.

Description: NOVEL MOD IFIED NUCLEIC AC ID SEQUENCES AND METHODS FOR INCREAS ING M R NA LEVELS \ND P ROTE IN EXPRESSION IN CELL SYSTEMS BACKGROUND OF THE INVENTION Field of the invention The invention relates to heterologous gene expression More particularh , the invention relates to the expression of microbial or parasitic organism genes in higher eukaryote cell systems Summary of the related art Recombinant production of certain heterologous gene products is often difficult in in viti o cell culture systems or in vivo recombinant production s\ stems For example, many researchers have tound it difficult to express proteins dem ed from bacteria, parasites and virus in cell culture systems different from the cell from which the protein was originally derived, and particularly in mammalian cell culture systems. One example of a therapeuticallv important protein which has been difficult to produce by mammalian cells is the malaria merozoite surface protein (MSP-1) Malaria is a serious heath problem m tropical countries Resistance to existing drugs is fast developing and a vaccine is urgently needed Of the number of antigens that get expressed duπng the life cycle of P falcψarutn, MSP-1 is the most extensively studied and promises to be the most successful candidate for vaccination Indiv iduals exposed to P f lcipai um dev elop antibodies against MSP-1, and studies have shown that there, is a correlation between a naturallv acquired immune response to MSP-1 and reduced malaria morbidit \ In a number of studies, immunization w ith purified nativ e MSP-1 or recombinant fragments of the protein has induced at least partial protection tro the parasite ' Diggs et al, (1993) Pai -itol T m/ 9 300-302) Thus MSP-1 is an important target for the development of a vaccine against P falcipauun MSP-1 is a 190-220 kDA glycoprotein The C-terminal region has been the focus of recombinant production for use as a vaccine However, a major problem in developing MSP-1 as a vaccine is the difficulty in obtaining recombinant proteins in bacterial or yeast expression systems that are equivalent in immunological potency to the affinity purified native protein (Chang et al , (1992) / Immunol 148.548-555 ) and in large enough quantities to make vaccine production feasible Improved procedures for enhancing expression of sufficient quantities of proteins derived from parasite, bacterial and viral organisms which have prev lously been difficult to produce recombinantly would be advantageous In particular, a recombinant system capable of expressing MSP-1 in sufficient quantities would be particularly advantageous BRIEF SUMM ARY OF THE INVENTION The present inv ention prov ides improved recombinant DNA compositions and procedures for increasing the mRNA levels and protein expression of proteins deriv ed from heterologous cells, preferably those of lower organisms such as bacteria, virus, and parasite, which have previously been difficult to express in cell culture systems, mammalian cell culture systems, or in transgenic mammals The preferred protein candidates for expression in an expression system in accordance with the inv ention are those proteins having DNA coding sequences comprising high overall AT content or AT rich regions, and/or mRNA instability motifs and/or rare codons relative to the recombinant expression systems In a first aspect, the invention features a modified know n nucleic acid, preferably a gene from a bacterium, virus or parasite, capable of being expressed in a system w herein the modification comprises a reduced AT content, relative to the unmodified sequence, and optionally further comprises elimination of at least one or all mRNA instability motifs present in the natural gene In certain preferred embodiments the modification further comprises replacement of one or more codons of the natural gene with preferred codons of the cell system In a second aspect, the invention provides a process for preparing a modified nucleic acid of the invention comprising the steps of lo ering the overall AT content of the natural gene encoding the protein, and/or eliminating at least one or all mRNA instability motifs and/or replacing one or more codons with a preferred codon of the cell system of choice, all by replacing one or more codons in the natural gene with codons recognizable to, and preferably with codons preferred by the cell system of choice and which code for the same ammo acids as the replaced codon This aspect of the invention further includes modified nucleic acids prepared according to the process of the invention In a third aspect, the invention also provides ectors comprising nucleic acids of the in ention and promoters activ e in the cell line or organism of choice and host cells transformed with nucleic acids of the in ention In a fourth aspect, he invention provides transgenic expression vectors for the production of transgenic lactating animals comprising nucleic acids of the invention as well as transgenic non-human lactating animals whose germhnes comprise a nucleic acid of the invention In a fifth aspect, he invention provides a transgenic expression vector for production of a transgenic lactating animal species comprising a nucleic acid of the invention, a promoter operatively coupled to the nucleic acid which directs mammary gland expression of the protein encoded by the nucleic acid into the milk of the transgenic animal In a sixth aspect, the invention provides a DNA vaccine comprising a «_. modified nucleic acid according to the invention A preferred embodiment of this aspect of the invention comprises a fragment of a modified MSP-1 gene according to the invention DESCRIPTION OF THE DRAWINGS Fig 1 depicts the cDNA sequence of MSP 1 4: modified in accordance ith the inv ention [SEQ ID NO 1 ] in which 306 nucleotide positions hav e been replaced to low er AT content and eliminate mRNA instabihtv motifs while maintaining the same protein ammo acid sequence of MSP-1 2 The large letters indicate nucleotide substitutions Fig 2 depicts the nucleotide sequence coding sequence of the "w lid type' or native MSP- 1 2 [SEQ ID NO 2] Fig 3a is a codon usage table for wild type MSP-1 42 (designated "MSP wt" in the table) and the new modified MSP-l 2 gene (designated "edited MSP" in the table) and sev eral milk protein geneb (casein genes derived from goats and mouse) The numbers in each column indicate the actual number of times a specific codon appeals in each of the listed genes The new MSP-1 42 synthetic gene was derived from the mammai specific codon usage by first choosing GC rich codons for a given amino acid combined with selecting the ammo acids used most frequentlv in the milk proteins Fig 3b is a codon usage table comparing the number of times each codon appears in both the w ild tv pe MSP-1 42 (designated "MSP w t" in the table) and the new modified MSP-1 2 gene (designated ' edited MSP" in the table) as is also show n in the table in Fig 3a The table in Fig 3b, also compares the frequency in which each codon appears in the ild type MSP-1 42 and the new modified MSP-l 42 ene, to the frequency of appearance of each codon m both E coli genes and human genes Thus if the expression s stem were E toll cells, this table may be used to determine what codons are recognized b) , or preferred by E ^ coh Fig 4a-c depict MSP-1 2 constructs GTC 479, GTC 564, and GTC 627 respectiv ely as are described in the examples Fig 5 panel A is a Northern anal sis w herein construct GTC627 comprises the new MSP-I 4. gene modified in accordance ith the inv ention, GTC479 is the construct comprising the nativ e MSP-l 2 ene, and construct GTC469 is a negative control DNA Fig 5 panel B is a Western analysis wherein the eluted fractions after affinity purifications Numbers are collected fractions The results show that fractions from GTC679 the modified MSP-1 42 synthetic gene construct reacted with polyclonal antibodies to MSP-1 and the negative control GTC479 did not Fig 6 depicts the nucleic acid sequences of OT1 [SEQ ID NO 3] OT2 [SEQ ID NO 4], MSP-S [SEQ ID NO 5] MSP-2 [SEQ ID NO 6] and MSPl [SEQ ID NO 7] described in the Examples Fig 7 is a schematic representation of plasmid BC574 Fig S is a schematic representation of BC620 Fig 9 is a schematic representation of BC670 Fig 10 is a representation of a Western blot of MSP in transgenic milk Fig 11 is a schematic representation of the nucleotide sequence of MSP42-2 [SEQ ID NO S] Fig 12 is a schematic representation of the BC-71S Fig 13 is a representation of a Western blot of BC-71S expression in transgenic milk DETAILED DESCRIPTION OF THE PREFERRED EMBODIMENTS The patent and scientific literature referred to herein establishes the knowledge that is av ilable to those with skill in the art The issued US patents, allowed applications, published foreign applications and references cited herein are hereby incorporated by reference Any conflicts between thβbe refeiences and the present disclosure shall be resolved in favor of the present disclosure The invention provides modified recombinant nucleic acid sequences (preferably DNA) and methods for increasing the mRNA levels and protein expression of proteins which are known to be, or are likety to be, difficult to express in cell culture systems, mammalian cejl culture systems, or in transgenic animals The preferred "difficult" protein candidates for expression using the recombinant techniques of the invention are those proteins deπv ed from heterologous cells preferably those of lower organisms such as parasites, bacteria, and virus, hav ing DNA coding sequences comprising high overall AT content or AT rich regions and/or mRNA instability motifs and/or rare codons relative to the recombinant expression system to be used In a first aspect, the invention features a modified known nucleic acid, preferably a gene from a bacterium, virus or parasite, capable of being expressed in a cell system, wherein the modification comprises a reduced AT content, relativ e to the unmodified sequence, and optionally further comprises elimination of at least one or all mRNA instability motifs present in the natural gene A "cell system" includes cell culture systems, tissue culture systems organ culture systems and tissues of living animals In certain preferred embodiments the modification further comprises replacement of one or more codons of the natural gene w ith preferred codons of the cell s stem Each of these features are achiev ed by replactng one or more codons of the natural gene w tth codons recognizable to, and preferablv preferred by the cell s stem that encode the same amino acid as the codon w hich was replaced in the natural gene In accordance w ith the inv ention, such "silent' nucleotide and codon substitutions should be sufficient to achieve the goal low ering AT content and/or of eliminating mRNA instability motifs, and/or reducing the number of rare codons, while maintaining, and preterablv improving the ability of the cell system to produce mRNA and express the desired protein Also included in the invention are those sequences which are specifically homologous to the modified nucleic acids of the invention under suitable stringent conditions, specifically excluding the known nucleic acids from w hich the modified nucleic acids are derived A sequence is "specifically homologous" to another sequence if it is sufficiently homologous to specifically hybridize to the exact complement of the sequence A sequence "specifically hybridizes" to another sequence if it hybridizes to form Watson-Crick or Hoogsteen base pairs either in the bodv , or under conditions which approximate physiological conditions ith respect to ionic strength, e g , 140 m.Vl NaCl, 5 mM MgCl 2 Preferably, such specific hybridization is maintained under stringent conditions, g , 0 2X SSC at 68 3 C In preferred embodiments, the nucleic acid of the invention is capable of expressing the protein in mammalian cell culture, or in a transgenic animal at a level which is at least 25%, and preferably 50% and even more preferably at least 100% or more of that expressed by the natural gene in an in vitro cell culture system or in a transgenic animal under identical conditions (1 e the same cell type, same culture conditions, same expression vector) As used herein, the term "expression" is meant mRNA transcription resulting in protein expression Expression may be measured by a number of techniques known in the art including using an antibody specific for the protein of interest By "natural gene" or "native gene" is meant the gene sequence, or fragments thereof (including naturally occurring allelic variations) which encode the wild tv pe form of the protein and from which the modified nucleic acid is derived A "preferred codon "means a codon u hich is used more prevalentlv by the cell sv stem of choice Not all codon changes described herein are chan g es to a preferred codon so long as the codon replacement is a codon which is at least recognized bv the cell sv tem The term ' reduced AT content" as used herein means having a low er ov erall percentage of nucleotides hav ing A (adenine) or T (thymine) bases relative to the natural gene due to replacement of the A or T containing nucleotide positions or A and/or T containing codons with nucleotides or codons recognized bv the cell system of choice and w hich do not change the amino acid sequence of the target protein "Heterologous" is used herein to denote genetic material originating from a different species than that into which it has been introduced, or a protein produced from such genetic material Particularly preferred cell systems of the invention include mammalian cell culture systems such as COS cells and CHO cells, as well as transgenic animals, particularly the mammary tissue of transgenic animals However, the inv ention also contemplates bacteria, east, E coli, and v iral expression sv stems such as baculovirus and ev en plant systems In a second aspect, the invention provides a process for preparing a modified nucleic acid of the invention comprising the steps of lowering the overall AT content of the natural gene encoding the protein, and/or eliminating at least one or all mRNA instability motifs and/or replacing one or more codons with a preferred codon of the cell system of choice, all by replacing one or more codons in the natural gene with codons recognizable to, and peterably with codons preferred bv, the cell system of choice and which code for the same amino acids as the replaced codon Standard reference works describing the general principals of recombinant DNA technology include Watson, } D et al, Molecular Biologi/ of the Gene, Volumes I and II the Benjamin/Cummings Publishing Companv , Inc publisher, Menlo Park, CA (1987) Darnell, J E et al , Moleiulai Cell Biology, Scientific American Books, Inc , Publisher, New York, NY (1986), Old, RW , et al , Pi inuples of Gene Manipulation An Inti eduction to Genetn Engmeei ing, 2d edition University of California Press, publisher, Berkelev CA (1981), antatis, T et al Mokxulat Cloning A Laboi aton/ Manual 2 nd ed Cold Spring Harbor Laborator , publisher, Cold Spring Harbor NY (1989) and Cuπ ent ilev Pres New York, NY (1992) This aspect of the inv ention further includes modified nucleic acids prepared according to the process of the inv ention Without being limited to any theory, previous research has indicated that a conserved AU sequence (AUUUA) from the 3' untranslated region of GM-CSF mRNA mediates selective mRNA degradation (Shaw , G and Kamen, R Cell 46 659-667) The focus in the past has been on the presence of these instabilitv motifs in the untranslated region of a gene The instant inv ention is the first to recognize an advantage to eliminating the instability sequences in the coding region of a gene In a third aspect, the invention also provides v ectors comprising nucleic acids of the invention and promoters activ e in the cell line or organism of choice, and host cells transformed with nucleic acids of the inv ention Preferred v ectors include an origin of replication and are thus replicatable in one or more cell type Certain preferred vectors are expression vectors, and further comprise at least a promoter and passiv e terminator, thereby allowing transcription of the recombinant expression element in a bacterial, fungal, plant, insect or mammalian cell In a fourth aspect, he invention provides transgenic expression vectors for the production of transgenic lactating animals comprising nucleic acids of the invention as ell as transgenic non-human lactating animals whose germhnes comprise a nucleic acid of the invention Such transgenic expression vectors comprise a promoter capable of being expressed as part of the genome of the host transgenic animal General principals for producing transgenic animals are known in the art See for example Hogan et al , Manipulating the Mow-c Embn/o A Laboiaton/ Manual, Cold Spring Harbor laboratory, (1986), Simons et al, Bio/Tethnologi/ 6 179-183, (1988), Wall et al , Biol Reprod 32 645-651, (1985), Buhler et al , Bio/Teilmolog , 8 140-143 (1990), Ebert et al , Bio/TeUuwhςυ 9 835-83S (1991) Kπmenfort et al , Bio /Technology 9 844-847 (1991) Wall et al , / Cell Bioclieiu 49 113-120 (1992) Techniques for introducing foreign DNA sequences into mammals and their germ cells were originally dev eloped in the mouse See e g , Gordon et al , Proi Natl Auui Su SA 77 73δ0-73°4, (1980), Gordon and Ruddle, Science 214 1244-1246 (1981) Palmiter and Brinster, Cell 41 343-345, 1985, Brinster et al , Proc Natl Auui St/., USA 82:4438-4442 (1985) and Hogan et al (ibid ) These techniques were subsequently adapted for use with larger animals including cows and goats Up until very recently, the most widety used procedure for the generation of transgenic mice or livestock, several hundred linear molecules of the DNA of interest in the form of a transgenic expression construct are injected into one of the pro- nuclei of a fertilized egg Injection of DNA into the cytoplasm of a * _ zygote is also widely used Most recently cloning of an entire transgenic cell line capable of injection into an unfertilized egg has been achieved (KHS Campbell et al , Nat me 380 64-66, (1996)) In a fifth aspect, he inv ention provides a transgenic expression vector for production of a transgenic lactating animal species comprising a nucleic acid of the invention, a promoter operatively coupled to the nucleic acid which directs mammary gland expression of the protein encoded b ) the nucleic acid into the milk of the transgenic animal The mammary gland expression system has the advantages of high expression levels, low cost, correct processing and accessibility Known proteins, such as bovine and human alpha- lactalbumin have been produced in lactating transgenic animals by several researchers (Wright et al, Bio /Technology 9 830-834 (1991), Vilotte et al, Eur j Biochem ,186 43-48 (1989), Hochi et al , Mol Repiod And Dcvel 33 160-164 (1992), Soulier et al FEBS Lettci s 297(1,2) 13-18 (1992)) and the system has been shown to produce high levels of protein Preferred promoters are active in the mammary tissue Particularly useful are promoters that are specifically active in genes encoding milk specific proteins such as genes found in mammarv tissue, i e are more activ e in mammarv tissue than in other tissues under physiological conditions w here milk is sv nthesized Most preferred are promoters that are both specific to and efficient in mammarv tissue Among such promoters, the casein lactalbumin and lactalglobulm promoters are preferred, including, but not limited to the alpha, beta and gamma casein promoters and the alpha lactalbumin and beta-lactalglobuhn promoters Preferred among the promoters are those from rodent, goats and cows Other promoters include those that regulate a whey acidic protein (WAP) gene In a preferred embodiment of the invention, a modified nucleic acid encoding MSP-1 or fragments thereof capable of expression in a cell culture svstem, mammalian cell culture system or in the milk of a transgenic animal is provided Nucleic acid sequences encoding the natural MSP-1 gene are modified in accordance w ith the invention First the overall AT content is reduced by replacing codons of the natural gene with codons recognizable to, and preferably with codons preferred bv the cell svstem of choice, that encode the same amino acid but are sufficient to lower the AT content of the modified nucleic acid as compared to the nativ e MSP-1 gene or gene fragment Second, mRNA instability motifs (AUUUA, Shaw and Kamen, bupia) in the native gene or gene fragment are eliminated from the coding sequence of the gene bv replacing codons of the natural gene with codons recognizable to, and preferably prefrred bv the cell system of choice that encode the same amino acid but are sufficient to eliminate the mRNA instability motif Optionally, any other codon of the native gene may be replaced with a preferred codon of the expression system of choice as described In a sixth aspect, the invention provides a DNA vaccine comprising a modified nucleic acid according to the invention In certain preferred embodiments, the DNA vaccine conpπses " *a vector according to the inv ention, The DNA vaccine according to the invention ma\ be in the form of a naked' or purified modified nucleic acid according to the inv ention, w hich may or mav not be operativelv associated with a promoter A nucleic acid is operativelv associated with a promoter if it is associated with the promoter in a manner which allo s the nucleic acid sequence to be expressed Such DNA v accines may be deliv ered without encapsulation, or they may be delivered as part of a liposome, or as part of a viral genome Generally, such vaccines are delivered in an amount sufficient to allow expression of the nucleic acid and elicit an antibody response in an animal, including a human, which receives the DNA vaccine Subsequent deliveries, at least one week after the first delivery, may be used to enhance the antibodv response Preferred delivery routes include introduction via mucosal membranes, as well as parenteral administration A preferred embodiment of this aspect of the invention comprises a fragment of a modified MSP-1 gene according to the invention Such fragment preferablv includes from about 5% to about 100% of the overall gene sequence and comprises one or more modification according to the invention Examples of codon usage from E coli and human are sho n in Fig 3b Fig 3b shows the frequency of codon usage for the MSP-1 native gene as w ell as the modified MSP-1 gene of the invention and also compares the frequencv of codon usage to that of E coli and human genes Codon usage frequency tables are readily available and known to those skilled in the art for a number of other expression systems such as yeast, baculovirus and the mammalian, systems The following examples illustrate certain preferred modes of making and practicing the present invention, but are not meant to limit the scope of the invention since alternative methods may be utilized to obtain similar results Examples Ci eation of novel modified MSP -I n gene In one embodiment, a novel modified nucleic acid encoding the C-termmal fragment of M5P-1 is prov ided The novel, modified nucleic acid of the inv ention encoding a 42 kD C-terminal part of MSP-1 (MSP-1 42 ) capable of expression in mammalian cells of the invention is shown in Fig 1 The natural MSP-1 42 gene (Fig 2) was not capable of being expressed in mammalian cell culture or in transgenic mice Analysis of the natural MSP- 1 42 gene suggested sev eral characteristics that distinguish it from mammalian genes First, it has a ver\ high overall AT content of 76% Second, the mRNA instability motif AUUUA, occurred 10 times in this 1100 bp DNA segment (Fig 2) To address these differences a new MSP-1 2 gene was designed Silent nucleotide substitution was introduced into the native MSP-1 2 gene at 306 positions to reduce the overall AT content to 49 7% Each of the 10 AUUUA mRNA instability motifs in the natural gene ere eliminated by changes in codon usage as well To ciymge the codon usage, a mammary tissue specific codon usage table, Fig 3a, was created b \ using several mouse and goat mammary specific proteins The table was used to guide the choice of codon usage for the modified MSP-1 2 gene as descπbed above For example as shown in the Table in Fig 3a, in the natural gene, 65% (25/38) of the Leu was encoded bv TTA, a rare codon in the mammary gland In the modified MSP-1 42 gene, 100% of the Leu was encoded b\ CTG, a preferred codon for Leu in the mammary gland An expression vector was created using the modified MSP-l_p gene by fusing the first 26 amino acids of goat beta-casein to the N-terminal of the modified MSP-1 2 gene and a Sall-Xho I fragment which carries the fusion gene was subcloned into the Xhol site of the expression vector pCDNA3 A Hιs6 tag was fused to the 3' end of the MSP-1 42 gene to allow the gene product to be affinity purified This resulted in plasmid GTC627 (Fig 4c) To compare the natural MSP-1 2 gene construct to the modified MSP-1 nucleic acid of the inv ention, an expression vector was also created for the natural MSP-1 2 gene and the gene as added to mammalian cell culture and injected into mice to form transgenic mice as follows Constr uction of the native MSP-1 2 Expression Vettoi To secrete the truncated the merozoite surface proteιn-1 (MSP-1) of Plasmodium falciparum, the wild type gene encoding the 42KD C-terminal part of MSP-1 (MSP-1 2 ) was fused to either the DNA sequence that encodes the first 15 or the first 25 amino acids of the goat beta-casein This is achieved by first PCR amplifv the MSP-1 plasmid (received from Dr David Kasiow, NIH) with primers MSPl and MSP2 (Fig 6), then cloned the PCR product into the TA v ector (Invitrogen) The Bglll-Xhol fragments of the PCR product was ligated with oligos OT1 and OT2 (Fig 6) into the expression vector pCDNA3 This yielded plasmid GTC564 (Fig 4b), which encodes the 15 amino acid beta- casein signal peptide and the first 11 amino acids of the mature goat beta-casein followed by the native MSP-1 42 gene Oligos MSP-S and MSP-2 (Fig 6) were used to amplify MSP-1 plasmid by PCR, the product was then cloned into TA v ector The Xhol fragment was exercised and cloned into the Xhol site of the expression vector pCDNA3 to yield plasmid GTC479 (Fig 4a), which encoded 15 amino acid goat beta-casein signal peptide fused to the wild-type MSP-1 42 gene A Hιs6 tag was added to the 3' end of MSP-1 2 gene in GTC 564 and GTC 479 Native MSP-i Gene K Not Expressed In COS-7 Cells Expression of the native MSP gene in cultured COS-7 cells was assayed by transient transfection assays GTC479 and GTC564 plasmids DNA were introduced into COS-7 cells bv lipofectamine (Gibco-BRL) according to manufacturer's protocols Total cellular RNA was isolated from the COS cells two da s post-transfection The newlv synthesized proteins w ere metabo cally labeled for 10 hours bv adding ? "S ethionine added to the culture media two da s-post transfection To determine the MSP mRNA expression in the COS cells, a Northern blot was probed w ith a ^-F labeled DNA fragment from GTC479 No MSP RNA was detected in GTC479 or GTC564 transfectants (data not shown) Prolonged exposure revealed residual levels of degraded MSP mRNA The C; S labeled culture supernatants and the Iv sates were immunoprecipitated with a polyclonal antibody raised against MSP Immunoprecipitation experiments showed that no expression from either the lysates or the supernatants of the GTC479 or GTC564 transfected cells (data not shown) These results showed that the native MSP-1 gene w as not expressed in COS cells Native MSP- 1 2 Gene is Not Expressed in the Mammanj Gland of Tt Mice The Sall-Xhol fragment of GTC479, which encoded the 15 amino acids of goat beta- casein signal peptide, the first 11 amino acids of goat beta-casein, and the native MSP-1 42 gene, w as cloned into the Xhol site of the beta-casein expressed in vector BC350 This yielded plasmid BC574 (Fig 7) A Sall-NotI fragment of BC574 was injected into the mouse embryo to generate transgenic mice Fifteen lines of transgenic mice were established Milk from the female founder mice was collected and subjected to Western analysis with polycolonal antibodies against MSP None of the seven mice analyzed were found to express MSP-I 47 protein in their milk To further determine if the mRNA of MSP-1 42 was expressed in the mammary gland, total RNA was extracted from day 11 lactating transgenic mice and analyzed by Northern blotting No MSP-1 42 mRNA was detected by any of the BC 574 lines analyzed Therefore, the MSP-1 2 transgene was not expressed in the mammary gland of transgenic mice Taken together, these experiments suggest that native parasitic MSP-1 2 gene could not be expressed in mammalian cells, and the block is as the lev el of mRNA abundance Expression of MSP m the Mammalian Cells Transient transfection experiments were performed to ev aluate the expression of the modified MSP-1 gene of the invention in COS cells GTC627 and GTC479 DNA were introduced into the COS-7 cells Total RNA was isolated 48 hours post-transfection for Northern analysis The immobilized RNA was probed with 32 P labeled Sall-Xhol fragment of GTC627 A dramatic difference w as observ ed betw een GTC479 and GTC627 While no MSP-1 42 mRNA w s detected in the GTC479 transfected cells as shown previously, abundant MSP-1 42 mRNA w as expressed by GTC627 (Fig 5, Panel A) ,GTC 469 was used as a negativ e control and comprises the insert of GTC564 cloned into cloning vector PU19, a commerciallv available cloning vector A metabolic labeling experiment with ?:; S methionine followed by lmmunoprecipitation w ith polyclonal antibody (provided bv D Kaslow NIAID, NIH) against MSP showed that MSP-1 42 protein was synthesized bv the transfected COS cells (Fig 5, Panel B) Furthermore, MSP-l_p as detected in the transfected COS supernatant, indicating the MSP-1 42 protein was also secreted Additionally, using Nt-NTA column, MSP-I 47 was affinity purified from the GTC627 transfected COS supernatant These results demonstrated that the modification of the parasitic MSP-1 42 gene lead to the expression of MSP mRNA in the COS cells Consequently, the MSP-1 2 product was synthesized and secreted by mammalian cells Polyclonal antibodies used in this experiment may also be prepared by means well kno n in the art (Antibodies A Laboratonj Manual, Ed Harlow and David Lane, eds Cold Spring Harbor Laboratory, publishers (19SS)) Production of MSP serum antibodies is also described m Chang et al , Infection and liuiiiunitii <T996) 64 253-261 and Chang et al . (1992) Pi oc \atl A ad Su USA 86 6343-6347 The results of this analysis indicate that the modified MSP-l 4 ι nucleic acid of the invention is expressed at a very high level compared to that of the natural protein which was not expressed at all These results represent the first experimental evidence that reducing the AT % in a gene leads to expression of the MSP gene in heterologous systems and also the first evidence that removal of AUUUA mRNA instability motifs from the MSP coding region leads to the expression of MSP protein in COS cells Thus, the data presented here suggest that certain heterologous proteins that may be difficult to express in cell culture or transgenic systems because of high AT content and/or the presence of instability motifs, and or the usage of rare codons w hich are unrecognizable to the cell svstem of choice may be reengineered to enable expression in anv given system with the aid of codon usage tables for that svstem The present invention represents the first time that a DNA sequence has been modified w ith the goal of removing suspected sequences responsible for degradation resulting in low RNA levels or no RNA at all The results shown in the Fig 5, Panel A Northern (I e no RNA with native gene and reasonable levels with a modified DNA sequence in accordance with the invention), likely explains the increase in protein production The following examples describe the expression of MSP1-42 as a native non-fusion (and non-glycosylated) protein in the milk of transgenic mice Coiiyn action of MSP Tiansgene To .use MSP 1-42 to the 15 aminυ acid ll-cascin signal pcplidc. a pair l oligos \ISP203 and MSP204 (MSP203 ggccgctcgacgccaccatgaaggtccicataallgcc Iglclgglggαctggeeailgcagccg -aclccclccgtcal. MSP204 cgaigacggagggagtgacgg.tg cαaιu-!cca-;a_!CL\ιcLa-:aca -;caauat α_;-!_ιccucal-:- , .l-;- , .c-:lc_:α-;c ) w hich encode the 15 ammo acid - casein signal and the first 5 amino acid of the MSP 1 -42 ending at the Cla I site, was ligaied vviih a Cla I-Xho I fragment of BC620 (Fig. 8) which encodes the rest of the MSP 1 -42 gene, into the Xho I site of the expression vector pCDNA3. A Xho I fragment of this plasmid (GTC669) was then cloned into the Xho I site of milk specific expression vector BC350 to generate B670 (Fig.9) Expression of MSP I -42 in the milk of transgenic mice A Sal I-Nol I fragment was prepared from plasmid BC670 and microimecied into the mouse embryo to generate transgenic mice. Transgenic mice was identified by extracting mouse DNA from tail biopsy followed by PCR analysis using oligos GTC 17 and MSP 101 (sequences of oligos: GTC 17. GATTGACAAGTAATACGCTGTTTCCTC. Oligo MSP 101. GGATTCAATAGATACGG). Milk from the female founder transgenic mice was collected al day 7 and day 9 of lactation, and subjected to western analysis to determine the expression level of MSP- 1-42 using an polyclonal anii-MSP antibody and monoclonal and MSP antibody 5.2 (Dr. David Kaslovv. NIH). Results indicated that the level of MSP- 1-42 expression in the milk of transgenic mice was at 1 -2 mg/ml (Fig. 10). Construction of MSP l -42 glycosylarion sites minus mutants Our analysis of the milk produced MSP revealed that the transgenic MSP protein was N-glycosylated. To eliminate the N-glycosylation sites in the MSP 1-42 gene. Asn. (N) at positions 181 and 262 were substituted with Gln.(Q). The substitutions were introduced by designing DNA oligos that anneal to the corresponding region of MSPl and cany the A AC ιo CAG mutations. These oligos were then used as PCR primers to produce DNA fragments that encode the N to Q substitutions. To introduce N262-Q mutation, a pair of oligos, MSPG YLYCO-3 (CAGGGAATGCTGCAGATCAGC) AND MSP42-2 (AATTCTCGAGTTAGTG GTGGTGGTGGTGGTGATCGCAGAAAATACCATG. FIG. 1 1 ). were used to PCR amplify plasmid GTC627, which contains the synthetic MSP I -42 gene. The PCR product was cloned into pCR2. l vector (Inviuogen). This generated plasmid GTC 16. To introduce N181 -Q mutation, oligos MSPGLYCO- 1 (CTCCTTGTTCAGG AACTTGTAGGG) and MSPGLCO-2 (GTCCTGCAGTACACATATGAG. Fin 4) were used to amplify plasmid GTC 627. The PCR product was cloned into pCR2.1. This generated plasmid GTC700. The MSP double glycosvlation mutant was constructed by the following three steps: first, a Xho I-Bsm I fragment of BC670 and the Bsm 1-Xho 1 fragment of GTC716 is ligated into the Xho 1 site of vector pCR2.1. This resulted a plasmid that contain the MSP- 1 -42 gene with N262-Q mutation. EcoN I-Ndc I fragment of this plasmid was then replaced by the EcoX I-Nde I fragment from plasmid GTC716 to introduce the second mutation. Nl 8 l-Q. A Xho I fragment of this plasmid was finally cloned into BC350 to generate BC71 (Fig. 12). Expression of non lxcosxlated MSPl in transgenic animals BC718 has the following characierisijcs: it caιτies the MSP 1 -42 gene under the control of the (..-casein promoter so it can be expressed in the mammary gland of the transgenic animal during lactation. Further, it encodes a 15 amino acid li-casein leader sequence fused directly to MSP 1 -42. so that the MS PI -42. without any additional amino acid at its N-tcπninal. can be secreted into the milk. Finally, because the N-Q substitutions, the MSP produced in the milk of the transgenic animal by this construct will not be N-glycosylalcd. Taken together, the transgenic MSP produced in the milk by BC718 is the same as the parasitic MSP. A Sall/Xhol fragment was prepared from plasmid BC71 and microinjectcd into mouse embryos to generate transgenic mice. Transgenic animals were identified as described previously. Milk from female founders was collected and analyzed by Western blotting with antibody 5.2. The results, shown in Figure 13, indicate expression of nonglycosylated MSP l at a concentration of 0.5 to 1 g/ml. Equivalents Those skilled in the art will recognize, or be able to ascertain, using no more than routine experimentation, numerous equivalents are considered to be within the scope of this invention, and are covered by the following claims.

Claims: What is claimed is 1 A modified known nucleic acid of a parasite w hich ib capable of being expressed in a mammalian cell herein the modification comprises a reduction of AT content of the gene bv replacing one or more AT containing codons in the gene with a preferred codon encoding the same amino acid as the replaced codon 2 A modified known nucleic acid of a parasite protein which is capable of being expressed in a mammalian cell wherein at least one mRNA instability motifs present in the gene coding sequence is eliminated b\ replacing said mRNA instability motif with a preferred codon encoding the same amino acid as the replaced codon 3 The modified nucleic acid of claim 1 or 2 wherein at least one or more codons of the known gene is replaced bv a preferred milk protein specific codon encoding the same amino acid as the replaced codon 4 A modified known nucleic acid of a parasite which is capable of being expressed in a mammalian cell, wherein the overall AT content of the know n gene encoding is lowered by replacement with a milk protein specific codon, and wherein at least one mRNA instability motif present in the gene is eliminated bv replacement with a milk protein specific codon and at least one codon of the natural gene is replaced by a preferred milk protein specific codon 5 The modified nucleic acid of claim 4 wherein said modified nucleic acid is capable of expressing said protein at a level which is at least 100".. of that expressed by said natural gene in an in vitro or in vivo mammalian cell system 6 A method for preparing a modified known nucleic acid of a parasite for expression in a mammalian cell comprising lowering the AT content of the natural gene by replacing one or more AT containing codons of the natural gene with a preferred mammarv specific codon encoding the same amino acid as the replaced codon 7 A method for preparing a modified known nucleic acid of a parasite protein for expression in a mammalian cell comprising eliminating at least one mRNA instability motif present in the gene coding sequence by replacing one or more mRNA instability motif in the gene with a mammary specific codon encoding the same amino acid as the replaced codon 8 The method of claim 5 or 6 further comprising replacing one or more codons in the natural gene encoding said protein with a preferred mammary specific codon encoding the same amino acid as the replaced codon 9 A modified nucleic acid sequence prepared by the method according to claim 5 or 6 10 A method for preparing a modified known nucleic acid of a parasite for expression in a mammalian cell comprising the steps of a) eliminating at least one mRNA instability motif present in the natural gene encoding said protein by replacing one or more mRNA instability motifs in the gene with a preferred milk protein specific codon encoding the same ammo acid as the replaced codon, b) lowering the AT rich content of the natural gene encoding said protein by replacing one or more AT containing codons of the gene ith a milk protein specific codon encoding the same amino acid as the replaced codon, and c) replacing one or more codons in the natural gene encoding said protein with a preferred mammary specific codon encoding the same amino acid as the replaced codon 11 A modified nucleic acid prepared by the method according to claim 10 12 A modified nucleic acid of claim 1 wherein said parasite is malaria and said nucleic acid is a fragment of SEQ ID NO 1 or SEQ ID NO 9 or a sequence specifically homologous thereto 13 12 A modified nucleic acid of claim 1 wherein said parasite is malaria and said nucleic acid is or SEQ ID NO 9 or a fragment thereof or a sequence specifically homologous thereto 14 A modified nucleic acid that is a fragment of SEQ ID NO 1 or a sequence specifically homologous thereto capable of being expressed in a cell system wherein the AT content of the natural gene is lowered by replacement of one or more codons with codons recognizable bv said cell culture svstem coding for the same amino acid as the replaced codon but which effectively lower the overall AT content of the natural gene 15. A modified nucleic acid that is a fragment of SEQ ID NO 1 or a sequence specifically homologous thereto, capable of being expressed in a cell svstem w herein at least one mRNA instability motif present in the natural gene coding sequence is eliminated by replacing one or more codons comprising said instability motif with a codon recognizable by said cell system which effectivelv eliminates said instability motif and encodes the same amino acid as the replaced codon 16 The modified nucleic acid of claims 14 or 15 w herein at least one or all codons of the natural gene are replaced vv ith preferred codons of said cell system 17 A vector comprising the modified nucleic acid of claim 12 18 A host cell transfected or transformed with a vector of claim 17 19 A transgenic expression construct comprising the modified nucleic acid of claim 12 20 A transgenic non-human animal whose germhne comprises the modified nucleic acid of claim 12 21 A transgenic expression v ector for the production of a transgenic animal comprising a promoter, operativelv associated with the modified nucleic acid of claim 12, wherein said promoter directs mammary gland expression of the protein encoded bv said modified nucleic acid into the animal s milk 22 A modified know n nucleic acid of a bacterium, virus, or parasite which is capable of being expressed in a cell system wherein the AT content of the gene is lowered by replacement of one or more codons with codons recognizable by said cell system coding for the same am o acid as the replaced codon, but w hich effectively lower the overall AT rich content of the natural gene 23 A modified nucleic acid of a bacterium, virus, or parasite which is capable of being expressed in a cell s stem wherein =_vt least one mRNA instabilitv motifs present in the gene coding sequence is eliminated bv replacing one or more codons comprising said instabilitv motif with a codon recognizable bv said cell sv tem which effectively eliminates said instabilitv motif and encodes the same amino acid as the replaced codon 24 A modified nucleic acid of claims 22 or 23, wherein at least one or all codons of the natural gene are replaced with preferred codons of said cell svstem 25 A DNA vaccine comprising a modified nucleic acid according to claim 24 26 A DNA v ccine comprising a vector according to claim 17

Inventors: CHEN LI HOW, MEADE HARRY, CHEN, LI, HOW, MEADE, HARRY
Applicants: GENZYME TRANSGENICS CORP, GENZYME TRANSGENICS CORPORATION
Application year: 1998
Main classification: C12N15
IPC codes: A01K67, A61K35, A61K39, A61K48, C07K14, C12N1, C12N5, C12N15, C12P19