US20090155772A1

US20090155772A1 - Method for detecting nanbv associated seroconversion

Info

Publication number: US20090155772A1
Application number: US12/322,370
Authority: US
Inventors: Suzanne Zebedee; Genevieve Inchauspe; Marc S. Nasoff; Alfred M. Prince
Original assignee: Individual
Current assignee: Bioprocess Pty Ltd; F Hoffmann La Roche AG
Priority date: 1990-08-25
Filing date: 2009-01-29
Publication date: 2009-06-18
Also published as: US20080193920A1; US7863008B2

Abstract

The present invention relates to recombinant expression vectors which express segments of deoxyribonucleic acid that encode recombinant HIV and HCV antigens. These recombinant expression vectors are transformed into host cells and used in a method to express large quantities of these antigens. The invention also provides compositions containing certain of the isolated antigens, diagnostic systems containing these antigens and methods of assaying body fluids to detect the presence of antibodies against the antigens of the invention.

Description

This is a continuation of pending application Ser. No. 12/077,046 filed Mar. 14, 2008 which is a continuation of pending application on appeal Ser. No. 10/677,956 filed Oct. 1, 2003 which is a divisional of application Ser. No. 08/931,855 filed Sep. 16, 1997, now U.S. Pat. No. 6,692,751 B1, which is a continuation-in-part application of Ser. No. 08/563,733, filed Nov. 28, 1995, now abandoned, and of Ser. No. 08/272,271, filed Jul. 8, 1994, which is a continuation of Ser. No. 07/616,369, filed Nov. 21, 1990, abandoned, which is a continuation-in-part of Ser. No. 07/573,643, filed Aug. 27, 1990, abandoned; the disclosures of which are incorporated herein by reference.

FIELD OF THE INVENTION

The present invention relates to recombinant expression vectors which have segments of deoxyribonucleic acid (DNA) that encode recombinant HIV and HCV antigens operatively linked to the sequence AGGAGGGTTTTTCAT (nucleotides 1 to 15 of SEQ ID NO:1) to control expression of the antigens. These recombinant expression vectors are transformed into host cells and used in a method to express large quantities of these antigens. The invention also provides compositions containing certain of the isolated antigens, diagnostic systems containing these antigens and methods of assaying body fluids to detect the presence of antibodies against the antigens of the invention.

BACKGROUND OF THE INVENTION

The development of immunoassays for the detection of antibodies has been limited by difficulties in producing sufficient quantities of specific antigens that are essentially free of immunoreactive contaminants. The presence of contaminants that react with antibodies present in patient samples results in lower assay specificity and sensitivity and an increase in false positive results. The production of large amounts of antigen enables easier purification of antigen having a higher degree of purity and thus less immunoreactive contaminants.
The present invention overcomes the difficulties by providing a simple and highly efficient expression system that allows for the production of large quantities of antigens. The invention relies on the efficient expression resulting from the inclusion of the nucleotide sequence AGGAGGGTTTTTCAT (which corresponds to nucleotides 1-15 of SEQ ID NO.:1) directly upstream from the ATG codon which marks the start of translation.
The invention is particularly useful for the expression of viral antigens of Human Immunodeficiency Virus (HIV) and Hepatitis C Virus (HCV).
HIV is the causative agent of Acquired Immunodeficiency Syndrome (AIDS). The nucleic acid sequence of the HIV proviral genome has been deduced and the location of various protein coding regions within the viral genome has been determined. Of particular interest to the present invention are the portions of the HIV genome known in the art as the gag and env regions. The gag region encodes a precursor protein that is cleaved and processed into three mature proteins, p17, p24 and p15. The HIV p24 protein has an apparent relative molecular weight of about 24,000 daltons and is known in the art as the HIV core antigen because it forms the viral capsid. Also of interest is the env region which encodes the envelope glycoproteins gp120 and gp41, which are required for viral entry into the cell. The first step in infection is the formation of a complex of gp120, gp41 and the cellular CD4 protein, binding the virus particle to the cell. The formation of this complex appears to alter the conformation of gp41, allowing its interaction with a second cellular protein “fusin”, an interaction required for HIV entry into the cell.
The p24 antigen of HIV is of particular interest because studies have indicated that the first evidence of anti-HIV antibody formation (sero-conversion) in infected individuals is the appearance of antibodies induced by the p24 antigen, i.e., anti-p24 antibodies. In addition, recent studies have reported that p24 protein can be detected in blood samples even before the detection of anti p24 antibodies. Detecting the presence of either the p24 protein or anti-p24 antibodies therefore appears to be the best approach to detecting HIV infection at the earliest point in time. Furthermore, the p24 antigen reappears in the blood of infected individuals concomitant with the decline of anti-p24 antibody in patients showing the deterioration in their clinical condition that accompanies transition into full-blown AIDS. Thus, the p24 antigen can serve as an effective prognostic marker in patients undergoing therapy.
Most cases of Non-A, non-B hepatitis (NANBH) are caused by the transmissible virus now designated as hepatitis C virus (HCV). Isolates of HCV nucleic acids have been obtained and completely characterized at the sequence level. The HCV genome is comprised of a plus strand RNA molecule that codes for a single polyprotein which is cleaved to produce functionally distinct structural and nonstructural HCV proteins. Structural proteins include the capsid and envelope proteins which form the viral particle. Nonstructural proteins, such as helicase and RNA-directed RNA polymerase are required for viral function.
Some HCV gene products, or portions thereof have been expressed as fusion products. The HCV antigen C-100-3, derived from portions of the nonstructural genes designated NS3 and NS4, has been expressed as a fusion protein and used to detect anti-C-100-3 antibodies in patients with various forms of NANB hepatitis. See, for example, Kuo et al, Science, 244:362-364 (1989) and International Application No. PCT/US88/04125. A diagnostic assay based on C-100-3 antigen is commercially available from Ortho Diagnostics, Inc. (Raritan, N.J.). However, the C-100-3 antigen-based immunoassay has been reported to preferentially detect antibodies in sera from chronically infected patients. C-100-3 seroconversion generally occurs from four to six months after the onset of hepatitis, and in some cases C-100-3 fails to detect any antibody where an NANBV infection is present. Alter et al, New Eng. J. Med., 321:1538-39 (1989); Alter et al, New Eng. J. Med., 321:1494-1500 (1989); and Weiner et al, Lancet, 335:1-3 (1990). McFarlane et al, Lancet, 335:754-757 (1990), described false positive results when the C-100-3-based immunoassay was used to measure antibodies in patients with autoimmune chronic active hepatitis. In addition, Grey et al., Lancet, 335:609-610 (1990), describe false positive results using C-100-3-based immunoassay on sera from patients with liver disease caused-by a variety of conditions other than HCV. Houghton et al., U.S. Pat. No. 5,350,671, have disclosed a series of fusion proteins which include amino acids from parts of various structural and nonstructural HCV gene products fused to superoxide dismutase (SOD), many of which have no immunogenic activity when tested against HCV positive antisera.
A NANBV immunoassay that could accurately detect seroconversion at early times after infection, or that could identify an acute NANBV infection, is not presently available.
The present invention provides compositions of recombinantly produced HIV and HCV antigens, free of bacterial and other viral components, thus enabling the detection of HIV and HCV antibodies with improved accuracy and sensitivity. The present invention also enables high yield expression of these antigens alone or as fusion proteins.

SUMMARY OF THE INVENTION

The present invention is directed to recombinant expression vectors which comprise a first nucleic acid having the sequence AGGAGGGTTTTTCAT (which corresponds to nucleotides 1-15 of SEQ ID NO.:1) operatively linked to a second nucleic acid having a sequence encoding an HIV or HCV antigen.
The preferred vectors of the inventions are pGEX7 derivatives. The pGEX7 vector contains the first nucleic acid sequence (AGGAGGGTTTTTCAT) which corresponds to nucleotides 1-15 of SEQ ID NO: 1. Thus, the second nucleic acid encoding the HIV antigen or HCV antigen is operatively linked to pGEX7-derived first nucleic acid.
In addition to the recombinant expression vectors, the present invention includes host cells comprising these vectors, the recombinant HIV and HCV antigens produced by treating the host cells of the invention for a time and under conditions to cause expression of the antigen, the HIV and HCV antigens produced by this method and compositions comprising a recombinantly-produced HIV or HCV antigen of the invention. The compositions can be essentially free of procaryotic antigens or other viral related proteins of the respective antigens.
The HIV antigen of the invention comprises three domains which are optionally joined by 1 to 5 linker amino acids. The first domain has a nucleotide sequence which encodes amino acids 1-225 of an HIV p24 antigen, the second domain has a nucleotide sequence which encodes an HIV gp41 antigen (or antigenic fragment thereof), and the third domain has a nucleotide sequence which encodes amino acids 224-232 of an HIV p24 antigen. In preferred embodiments the HIV antigen is encoded by amino acids 1-258 of SEQ ID NO:2, 4, or 6. These preferred HIV antigens are expressed from the vectors pGEXp24gp41-ANT, pGEXp24gp41-MVP and pGEXp24gp41-X84328, respectively.
The HCV antigens of the invention are the HCV capsid antigen, the HCV non-structural 794 antigen and the HCV CAP-B antigen. In preferred embodiments, the HCV capsid antigen is encoded by amino acids 1-120 from an HCV strain, and more preferably are encoded by amino acids 1-120 of SEQ ID NO:8, 10, 12 or 14. The preferred HCV capsid antigens are expressed from the vectors pGEX-C120H-V68, pGEX-C120H, pGEX120H-IS02 and pGEX-C120H-ISO3, respectively. In preferred embodiments the HCV non-structural 794 antigen is encoded by the amino acids of SEQ ID NO:16 or the corresponding sequence from another HCV strain. The antigen of SEQ ID NO:16 is preferably expressed from pGEX-NS3-794. The CAP-B antigen is encoded by the amino acids of SEQ ID NO:18 or the corresponding sequence from another HCV strain. The antigen of SEQ ID NO:18 is preferably expressed from pGEX-CAP-B.
Another aspect of the invention is directed to a diagnostic kit comprising an amount of a HIV antigen or HCV antigen composition of the invention sufficient to perform at least one assay.
Yet another aspect of the invention provides a method of assaying a body fluid sample for the presence of antibodies against an HIV or HCV antigen which comprises:

- a) forming an immunoreaction admixture by admixing the body fluid sample with a composition of the invention;
- b) maintaining the immunoreaction admixture for a time period sufficient for antibodies present against the desired antigen to immunoreact with the antigen and to form an immunoreaction product; and
- c) detecting the presence of any immunoreaction product formed and thereby the presence of the desired antibodies.

The method wherein said detecting step (c) can further comprise the steps of:

- (i) admixing the immunoreaction product with a labeled specific binding agent to form a labeling admixture, wherein the labeled specific binding agent comprises a specific binding agent and a label;
- (ii) maintaining the labeling admixture for a time period sufficient for any immunoreaction product present to bind with the labeled specific binding agent to form a labeled product; and
- (iii) detecting the presence of any labeled product formed, and thereby the presence of the immunoreaction product.

In preferred embodiments, the specific binding agent can be Protein A, anti-human IgG or anti-human IgM and the label can be biotin, an enzyme, a lanthanide chelate or a radioactive isotope.
Further still, another embodiment of the invention is directed to a composition comprising the HCV capsid antigen of the invention and the HCV nonstructural 794 antigen of the invention which is essentially free of procaryotic antigens and other HCV-related proteins. These compositions can be provided as diagnostic kits and used in the methods of assaying a body fluid to detect antibodies against an HCV capsid antigen or an HCV non-structural antigen as described above.
The Hutchinson strain (Hutch) of non-A, non-B hepatitis virus (NANBV) has been propagated through passage in animals and portions of the virus have been cloned and sequenced. Sequence data shows differences at both the nucleotide and amino acid level when compared to any previously reported NANBV strains. See, for comparison, Okamoto, et al., Japan J. Exp. Med., 60:163-177 (1990); and International Application No. PCT/US88/04125.
The identified sequences have been shown herein to encode structural proteins of NANBV. The NANBV structural proteins are also shown herein to include antigenic epitopes useful for diagnosis of antibodies immunoreactive with structural proteins of NANBV, and for use in vaccines to include neutralizing antibodies against NANBV.
The nucleotide sequence that codes for the amino terminal polyprotein portion of the structural genes of the Hutch strain of NANBV is contained in SEQ ID NO: 30. By comparison to putative relatives of NANBV, namely to other NANBV isolates, to flavivirus, and to pestivirus, the nucleotide sequence contained in SEQ ID NO: 30 is believed to encode structural proteins of NANBV, namely capsid and portions of envelope.
The structural antigens described herein are present in the putative capsid protein contained in SEQ ID NO: 73 from amino acid residue positions 1-120, and are present in the amino terminal portion of the putative envelope protein contained in SEQ ID NO: 73 from residue positions 121-326.
The present invention contemplates a DNA segment encoding a NANBV structural protein that comprises a NANBV structural antigen, preferably capsid antigen. A particularly preferred capsid antigen includes an amino acid residue sequence represented by SEQ ID NO: 73 from residue 1 to residue 20, from residue 21 to residue 40, from residue 2 to residue 40, or from residue 1 to residue 74, and the DNA segment preferably includes the nucleotide base sequence represented by SEQ ID NO: 30 from base position 1 to base position 60, from base position 61 to base position 120, from base position 4 to base position 120, or from base position 1 to base position 222, respectively.
Also contemplated is a recombinant DNA molecule comprising a vector, preferably an expression vector, operatively linked to a DNA segment of the present invention. A preferred recombinant DNA molecule is pGEX-3X-690:691, pGEX-3X-690:694, pGEX-3X-693:691, pGEX-3X-15:17, pGEX-3X-15:18, pGEX-2T-15:17, pGEX-2T-CAP-A, pGEX-2T-CAP-B or pGEX-2T-CAP-A-B.
A NANBV structural protein is contemplated that comprises an amino acid residue sequence that defines a NANBV structural antigen, preferably a capsid antigen, and more preferably one that includes the amino acid residue sequence contained in SEQ ID NO: 73 from residue 1 to residue 20, from residue 21 to residue 40, from residue 2 to residue 40, or from residue 1 to residue 74. Fusion proteins comprised of a NANBV structural protein of this invention are also contemplated.
Further contemplated is a culture of cells transformed with a recombinant DNA molecule of this invention and methods of producing a NANBV structural protein of this invention using the culture.
Also contemplated is a composition comprising NANBV structural protein. The composition is preferably characterized as being essentially free of (a) procaryotic antigens, and (b) other NANBV-related proteins.
Still further contemplated is a diagnostic system in kit form comprising, in an amount sufficient to perform at least one assay, a NANBV structural protein composition of this invention, as a separately packaged reagent.
In another embodiment, the present invention contemplates a diagnostic system, in kit form, comprising a fusion protein of this invention. Preferably, the diagnostic systems contains the fusion protein affixed to a solid matrix.
Further contemplated is a method of assaying a body fluid sample for the presence of antibodies against at least one of the NANBV structural antigens described herein. The method comprises forming an immunoreaction admixture by admixing (contacting) the body fluid sample with a fusion protein of this invention. The immunoreaction admixture is maintained for a time period sufficient for any of the antibodies present to immunoreact with the fusion protein to form an immunoreaction product, which product, when detected, is indicative of the presence of anti-NANBV structural protein antibodies. Preferably, the fusion protein is affixed to a solid matrix when practicing the method.
In another embodiment, this invention contemplates a vaccine comprising an immunologically effective amount of a NANBV structural protein of this invention in a pharmaceutically acceptable carrier. The vaccine is essentially free of (a) procaryotic antigens, and (b) other NANBV-related proteins.
A prophylactic method for treating infection, which method comprises administering a vaccine of the present invention, is also contemplated.

BRIEF SUMMARY OF THE DRAWINGS

FIG. 1 illustrates the plasmid pGEXp24 for expressing recombinant HIV p24 protein in E. coli. The recombinant DNAs manipulated and produced by the construction process are indicated in the figure by the circles. The construction proceeds by a series of steps as indicated by the arrows connecting the circles in the figure and as described in detail in Example 1. Landmark and utilized restriction enzyme recognition sites are indicated on the circles by labeled lines intersecting the circles. The relative location of individual genes and their direction of transcription are indicated by the labeled arrows inside the circles.

FIG. 2 illustrates the HIV p24-gp41 hybrid proteins obtained after purification from induced bacterial cultures previously transformed with pGEXp24gp41 of U.S. Pat. No. 5,470,720 or with pGEXp24gp41-ANT, pGEXp24gp41-MVP or pGEXp24gp41-X84328 of the present invention.

FIG. 3 illustrates the HCV 1-120 capsid antigen (strain Hutch) with an amino acid substitution of valine for alanine at residue 68 after purification from induced bacterial cultures previously transformed with pGEX-C120H-V68 of the present invention.

FIG. 4 illustrates the HCV NS3-794 antigen (strain Hutch) after purification from induced bacterial cultures previously transformed with pGEX7-NS3-794 of the present invention.

FIG. 5 illustrates ELISAs of serially diluted HIV positive antiserum using polystyrene plates coated with (A) p24-gp41 recombinant protein of U.S. Pat. No. 5,470,720; (B) p24-gp41 Subtype O ANT recombinant protein; (C) p24-gp41 Subtype O MVP5180 recombinant protein; and (D) p24-gp41 Subtype O X84328 recombinant protein.

FIG. 6 illustrates the immune reactivity in an ELISA of a combination of the recombinant proteins of FIGS. 3 and 4 with the well-characterized, commercially available Boston Biomedica PHV901 seroconverter serum from an individual who developed HCV infection.

FIG. 7 illustrates the immune reactivity in an ELISA of a combination of the recombinant proteins of FIGS. 3 and 4 with the well-characterized, commercially available Boston Biomedica PHV902 seroconverter serum from an individual who developed HCV infection.

FIG. 8 illustrates the immune reactivity in an ELISA of a combination of the recombinant proteins of FIGS. 3 and 4 with the well-characterized, commercially available Boston Biomedica PHV903 seroconverter serum from an individual who developed HCV infection.

SEQ ID NO: 30 illustrates the nucleotide base sequence of a preferred DNA segment of the present invention that encodes portions of the structural proteins of the Hutch strain of NANBV. The base sequences are shown conventionally from left to right and in the direction of 5′ terminus to 3′ terminus using the single letter nucleotide base code (A=adenine, T=thymine, C=cytosine and G=guanine) with the position number of the first base residue in each row indicated to the left of the row showing the nucleotide base sequence.
The reading frame of the nucleotide sequence illustrated in SEQ ID NO: 30 is indicated by placement of the deduced amino acid residue sequence of the protein for which it codes below the nucleotide sequence such that the triple letter code for each amino acid residue (Table of Correspondence) is located directly below the three bases (codon) coding for each residue. The residue sequence is shown conventionally from left to right and in the direction of amino terminus to carboxy terminus. The position number for the last amino acid residue in each row is indicated to the right of the row showing the amino acid residue sequence.
SEQ ID NO: 74 illustrates the structure of a preferred fusion protein comprised of an amino-terminal polypeptide portion corresponding to residues 1-221 of glutathione-S-transferase, an intermediate polypeptide portion corresponding to residues 222-225 and defining a cleavage site for the protease Factor Xa, a linker portion corresponding to residues 226-234, a carboxy-terminal polypeptide portion corresponding to residues 235-308 defining a NANBV capsid antigen that has the amino acid residue sequence 1 to 74 of SEQ ID NO: 73, and a carboxy-terminal linker portion corresponding to residues 309-315. SEQ ID NO: 31 also illustrates the nucleotide base sequence of a DNA segment that encodes the fusion protein illustrated therein. The nomenclature and presentation of sequence information is as described in SEQ ID NO: 30.

DETAILED DESCRIPTION OF THE INVENTION

A. Definitions

Amino acid: All amino acid residues identified herein are in the natural L-configuration. All abbreviations for amino acid residues are in keeping with the standard polypeptide nomenclature, J. Biol. Chem. 243: 3557-3559 (1969). It should be noted that all amino acid residue sequences, typically referred to herein as “residue sequences” are represented herein by formulae whose left to right orientation is in the conventional direction of amino terminus to carboxy-terminus.
Nucleotide: a monomeric unit of DNA or RNA consisting of a sugar moiety (pentose) a phosphate and a nitrogenous heterocyclic base. The base is linked to the sugar moiety via the glycoside carbon (1′ carbon of the pentose) and that combination of base and sugar is a nucleoside. When the nucleoside contains a phosphate group bonded to the 3′ or 5′ position of the pentose, it is referred to as a nucleotide. A sequence of operatively linked nucleotides is typically referred to herein as a “base sequence” and it is represented herein by the formula whose left to right orientation is in the conventional direction of 5′ terminus to 3′ terminus.
Base pair (bp): a partnership of adenine (A) with thymine (T), or of cytosine (C) with guanine (G) in a double stranded DNA molecule.
Antigen: a protein or polypeptide portion thereof which is immunologically identifiable. By immunologically identifiable is meant that the protein or polypeptide reacts specifically with naturally occurring or synthetically derived antibodies to form a complex of bound antibody and antigen.
Operatively linked: the juxtaposition of sequence elements, regulatory elements, control sequences and the like with coding sequences for a gene product, wherein the elements so described are joined to one another in a relationship permitting them to function in their intended manner, e.g. to control expression. A control sequence operatively linked to a coding sequence is spatially joined in such a way that expression of the coding sequence is achieved under conditions compatible with the control sequences. A second coding sequence may be operatively linked to an expressed first coding sequence such that the regulatory elements and control sequences of the first coding region govern expression of the second coding sequence as well. In the present invention, operatively linked coding sequences are juxtaposed such that a single expression product is produced which comprises regions from each of the coding sequences.
HIV antigen: As referred to in the current invention, HIV antigen means an HIV p24gp41 hybrid protein which comprises an amino sequence from gp41 flanked on its amino terminus by amino acids 1-225 of a HIV p24 protein and on its carboxy terminus by amino acids 224-232 of a HIV p24 protein. In some instances, the sequences of each protein domain can be joined by 1-5 linker amino acids. Exemplary antigens are expressed by plasmids pGEXp24gp41-ANT, pGEXp24gp41-MVP or pGEXp24gp41-X84328 of the present invention.
HCV antigen: As referred to herein, HCV antigen means an HCV CAP-B antigen, an HCV 1-120 capsid antigen or an HCV nonstructural 794 antigen. A nonstructural antigen, in the context of HCV means an antigen not derived from capsid or envelope proteins. An HCV CAP-B antigen consists of amino acid residues 1-220 of glutathione-S-transferase, an intermediate polypeptide portion corresponding to residues 221-226 and defining a cleavage site for the protease Thrombin, a polypeptide portion corresponding to residues 227-246 and defining residues 21-40 of an HCV capsid antigen (exemplified by GenBank accession no. M67463) and with or without a carboxy-terminal tail corresponding to residues 247-252. An HCV 1-120 capsid antigen consists of amino acid residues 1 to 120 of an HCV polyprotein. Herein exemplified are an HCV 1-120 capsid antigen derived from HCV strain Hutch and three homologues with various amino acid substitutions. An HCV nonstructural 794 antigen consists of amino acid residues 1-10 having six histidine residues at positions 4 to 9, a nonstructural NS3 antigen of HCV strain Hutch from residue 11 to residue 115 and a six residue tail. The nonstructural NS3 antigen disclose herein corresponds to amino acid residues 1352 to 1456 of the amino acid sequence disclosed in GenBank accession no. 130461. Examples of HCV antigens are encoded by plasmids pGEX-C120H-V68, pGEX-C120H, pGEX-C120H-ISO2, pGEX-C120H-ISO3, pGEX-NS3-794 and pGEX-CAP-B1 of the current invention.

B. Recombinant DNA Molecules

In living organisms, the amino acid residue sequence of a protein or polypeptide is directly related via the genetic code to the DNA sequence of the structural gene that codes for the protein. Thus, a structural gene can be defined in terms of the amino acid residue sequence, i.e., protein or polypeptide for which it codes.
An important and well known feature of the genetic code is its redundancy. That is, for most of the amino acids used to make proteins, more than one coding nucleotide triplet (codon) can code for or designate a particular amino acid residue. Therefore, a number of different nucleotide sequences may code for a particular amino acid residue sequence. Occasionally, a methylated variant of a purine or pyrimidine may be incorporated into a given nucleotide sequence. However, such methylations do not affect the coding relationship in any way.
DNA sequences have other functions as well. Expression of a gene product, i.e. transcription of DNA sequences into ribonucleic acid (RNA) sequences and translation of messenger RNA (mRNA) into sequences of amino acids, depends on DNA nucleotide sequences in addition to those which actually encode the amino acid sequence of interest.
A DNA segment of the present invention comprises a first nucleotide base sequence that defines a ribosome binding site and has a sequence by the formula:
AGGAGGGTTTTTCAT (which corresponds to nucleotides

1-15 of SEQ ID NO.:1).

The first sequence is joined at its 3′ terminus to the 5′ terminus of a second nucleotide base sequence that defines the structural gene product of interest. Structural gene products may include natural proteins, polypeptides, fusion proteins and proteins to which additional sequences of amino acids with specific functions have been added. Preferred DNA segments are illustrated in SEQ ID NO: 1, 3, 5, 7, 9, 11, 13, 15 and 17 and further include the base sequence TAA or similar sequences representing one or several stop signals, operatively linked to the 3′ terminus of the structural gene. The base sequences are shown conventionally from left to right and in the direction of 5′ terminus to 3′ terminus of the coding sequence using the single letter nucleotide base code (A=Adenine, T=Thymine, C=Cytosine and G=Guanine). Nucleotide bases 1-4 represent the Shine Delgarno sequence (Shine et al. Proc. Natl. Acad. Sci. USA Natl. Acad. Sci. USA Natl Acad. Sci. USA 71:1342 (1974)). Bases 1-15 of the above listed sequences define the 15 bases AGGAGGGTTTTTCAT (corresponding to nucleotides 1-15 of SEQ ID NO:1) immediately preceding the nucleotide sequence encoding the antigen of interest, said 15 bases positioned immediately upstream of the polylinker cloning site of the ATCC deposited vector pGEX7 referred to herein. The amino acid sequences of the products expressed from the preferred DNA segments are given by SEQ ID NO: 2, 4, 6, 8, 10, 12, 14, 16 and 18.
In one embodiment of this invention, a DNA segment has the nucleotide sequence AGGAGGGTTTTTCAT (which corresponds to nucleotides 1-15 of SEQ ID NO:1) joined to a nucleotide base sequence that defines an HIV antigen such as an HIV p24-gp41 hybrid protein. The phrase “HIV p24-gp41 hybrid protein” refers to a protein having an amino-terminal HIV p24 polypeptide portion joined by a peptide bond at its carboxy-terminus to an HIV gp41 polypeptide portion followed by another HIV p24 polypeptide portion. In the expressed protein, the first HIV p24 polypeptide portion has an amino acid residue sequence corresponding to residue 2 to residue 225 from one of the sequences shown in SEQ ID NO:2, 4 or 6. The second HIV p24 polypeptide portion has an amino acid sequence corresponding to residues 224 to 232 of an HIV p24 protein, which correspond to residues 250 to 258 of SEQ ID NOS:2, 4 and 6 for the expressed HIV p24-gp41 hybrid protein.
The HIV gp41 polypeptide portion has an amino acid residue sequence corresponding to a polypeptide capable of immunoreacting with anti-HIV gp41 antibodies, i.e., a polypeptide displaying HIV gp41 antigenicity (an HIV gp41-antigenic polypeptide). Polypeptides displaying HIV gp41 antigenicity are well known in the art. See, for example, the U.S. Pat. No. 4,629,783 to Cosand, U.S. Pat. No. 4,735,896 to Wang et al., and Kennedy et al., Science, 231:1556-1559 (1986).
In preferred embodiments, the HIV gp41 polypeptide portion of the HIV p24-gp41 fusion protein of this invention contains at least 10 amino acid residues, but no more than about 35 amino acid residues, and preferably has a length of about 15 to about 30 residues. A preferred HIV gp41 polypeptide portion of a HIV p24-gp41 hybrid protein has an amino acid residue sequence represented by residue 227 to residue 249 shown in SEQ ID NO:2, by residue 227 to residue 249 shown in SEQ ID NO:4 or by residue 227 to residue 249 shown in SEQ ID NO:6.
In preferred embodiments, that portion of a HIV p24-gp41 hybrid protein encoding DNA segment of this invention that codes for the first HIV p24 polypeptide portion has a nucleotide base sequence corresponding to a sequence that codes for an amino acid residue sequence as shown in SEQ ID NOS:2, 4 and 6 from residue 1 to about residue 225, and more preferably has a nucleotide base sequence corresponding to a base sequence as shown in SEQ ID NOS:1, 3 and 5 from base 16 to base 690.
In preferred embodiments, that portion of a HIV p24-gp41 hybrid protein encoding DNA segment of this invention that codes for the HIV gp41 polypeptide portion has a nucleotide base sequence corresponding to a sequence that codes for an amino acid residue sequence as shown in SEQ ID NO:2 from residue 227 to residue 249, in SEQ ID NO:4 from residue 227 to residue 249, or in SEQ ID NO:6 from residue 227 to residue 249. More preferably that portion of the DNA segment coding for the HIV gp41 polypeptide portion has a nucleotide base segment corresponding in base sequence to the sequence shown in SEQ NO:1 from base 694 to base 762, in SEQ ID NO:3 from base 694 to base 762, or in SEQ ID NO:5 from base 694 to base 762.
In preferred embodiments, that portion of a HIV p24-gp41 hybrid protein encoding DNA segment of this invention that codes for the second HIV p24 polypeptide portion has a nucleotide base sequence corresponding to a sequence that codes for an amino acid sequence as shown in SEQ ID NOS:2, 4 and 6 from residue 250 to 258, and more preferably has a nucleotide base sequence corresponding to a base sequence as shown in SEQ ID NOS1, 3 and 5 from base 763 to base 789.
Several HIV Type I, subtype O conserved sequences are well known. (see, e.g., Cohen et al. Lancet, 345 p. 856, 1995, or GenBank Accession # X84328). In a particularly preferred embodiment, recombinant HIV p24-gp41 fusion protein is identified by SEQ ID NO:2 and contains an amino terminal p24 polypeptide portion (residues 2-225) followed by a Lys residue as linker amino acid to an intermediate, a type 0 (strain ANT) specific HIV envelope portion (residues 227-247), and a carboxy terminal HIV p24 polypeptide portion (residues 250-258).
A second particularly preferred recombinant HIV p24-gp41 hybrid protein is identified by SEQ ID NO:4, wherein residues 227-249 correspond to a type 0 specific HIV envelope portion of strain MVP. A third particularly preferred recombinant HIV p24-gp41 hybrid protein is identified by SEQ ID NO:6. In this hybrid protein, the intermediate linker amino acid residue at position 226 is Gln and residues 227-249 correspond to a type 0 specific HIV envelope portion of strain GenBank X84328.
Most preferably, a HIV p24-gp41 hybrid protein encoding DNA segment of this invention has a nucleotide base sequence corresponding to the sequence shown in SEQ ID NO:1 from base 1 to base 795, in SEQ ID NO:3 from base 1 to base 795, or in SEQ ID NO:5 from base 1 to base 795.
In another embodiment of this invention, the nucleotide sequence AGGAGGGTTTTTCAT (which corresponds to nucleotides 1-15 of SEQ ID NO: 1) is joined to a nucleotide base sequence that defines the HCV antigen which is an HCV CAP-B fusion protein. The phrase “CAP-B” refers to a recombinant protein having a first glutathione-S-transferase (GST) polypeptide portion joined by a peptide bond at its carboxy terminus to a second intermediate polypeptide portion defining a cleavage site for Thrombin, said second portion joined by a peptide bond at its carboxy terminus to a third polypeptide portion defining an HCV capsid antigen consisting of amino acids 21-40 of an HCV capsid protein and a six residue tail.
The GST portion of a recombinant CAP-B antigen has an amino acid residue sequence corresponding to a sequence as shown in SEQ ID NO:18 from residue 2 to about residue 220, the amino terminal methionine being cleaved after translation. An intermediate polypeptide portion defining a thrombin cleavage site has the amino acid sequence shown in SEQ ID NO:18 from residue 221 to residue 226.
SEQ ID NO:18 illustrates the amino acid sequence of a particularly preferred recombinant CAP-B fusion protein wherein amino acids 1-220 are from GST, residues 221-226 are a cleavage site for protease Thrombin, residues 227 to 246 are from the HCV capsid antigen with the amino acid sequence of residues 21-40 from GenBank accession no. M67463 (strain Hutch) and residues 247 to 252 are a carboxy terminal tail.
In preferred embodiments, that portion of a CAP-B protein encoding DNA segment of this invention that codes for the GST portion has a nucleotide base sequence corresponding to a sequence that codes for an amino acid residue sequence as shown in SEQ ID NO:18 from about residue 1 to about residue 220 and more preferably has a nucleotide base sequence corresponding to a base sequence as shown in SEQ ID NO:17 from base 16 to base 675.
In preferred embodiments, that portion of a CAP-B protein encoding DNA segment of this invention that codes for the intermediate polypeptide portion defining a thrombin cleavage site has a nucleotide base sequence corresponding to a sequence that codes for an amino acid residue sequence as shown in SEQ ID NO:18 from residue 221 to residue 226 and more preferably has a nucleotide base sequence corresponding to a base sequence as shown in SEQ ID NO:17 from base 676 to base 693.
In preferred embodiments, that portion of a CAP-B protein encoding DNA segment of this invention that codes for the HCV 2140 capsid portion has a nucleotide base sequence corresponding to a sequence that codes for an amino acid residue sequence as shown in SEQ ID NO:18 from residue 227 to residue 246 and more preferably has a nucleotide base sequence corresponding to a base sequence shown in SEQ ID NO:17 from base 694 to base 753.
In a particularly preferred embodiment, the CAP-B protein encoding DNA segment codes for an amino acid residue sequence as shown in SEQ ID NO:18 from residue 1 to residue 252. Most preferably, a CAP-B protein encoding DNA segment of this invention has a nucleotide base sequence corresponding to the sequence disclosed by SEQ ID NO:17 from base 1 to base 774, and consists of a ribosome binding site, coding sequence and a stop codon for expression of the HCV strain Hutch CAP-B antigen.
This invention is further embodied by a DNA segment with the nucleotide sequence AGGAGGGTTTTTCAT (which corresponds to nucleotides 1 to 15 of SEQ ID NO: 1) joined to a nucleotide base sequence that defines the HCV antigen which is an HCV 1-120 capsid antigen. The phrase “capsid antigen” refers to a recombinant protein consisting of amino acids 1-120 of HCV. Preferably, the capsid protein is immunologically related to the Hutch strain of HCV (amino acid sequence 1-120 of GenBank accession no. M67463).
A preferred recombinant HCV capsid antigen is illustrated by SEQ ID NO:8 which represents the structural polypeptide of HCV strain Hutch (amino acid residues 1-120) exhibiting a substitution from Alanine to Valine at amino acid residue 68. Another preferred recombinant HCV capsid antigen is illustrated by SEQ ID NO:10 which represents the structural polypeptide of HCV strain Hutch. A third recombinant HCV capsid antigen is illustrated by SEQ ID NO:12 which represents the structural polypeptide of HCV having the amino acid sequence of strain Hutch except wherein amino acid residues 68 to 81 have been substituted by amino acid residues 68 to 81 of the capsid antigen of an HCV genotype 2 isolate. A fourth recombinant HCV capsid antigen is illustrated by SEQ ID NO:14 which represents the structural polypeptide of HCV having the amino acid sequence of strain Hutch except wherein amino acid residues 68 to 81 have been substituted by amino acid residues 68 to 81 of the capsid antigen of an HCV genotype 3 isolate.
Most preferably, DNA segments of this invention which express preferred HCV 1-120 capsid antigens as illustrated in SEQ ID NOS: 8, 10, 12, and 14 have nucleotide sequences represented by SEQ ID NOS:7, 9, 11, and 13 (nucleotides 1 to 378) respectively. Represented in each DNA sequence are the ribosome binding site, coding sequence and stop codon. Nucleotides 212 and 259 are the start of 6 nucleotide recognition sites for the Styl restriction endonuclease.
In a final exemplary embodiment, a DNA segment comprises a nucleotide base sequence that defines an HCV antigen which is a recombinant HCV nonstructural 794 antigen. As exemplified herein, “794 antigen” refers to a recombinant protein with the amino acid sequence set forth in SEQ ID NO:16, which consists of a first 10 amino acid polypeptide region containing a hexahistidine tag (six histidine residues) from amino acid residue 4 to 9, joined by a peptide bond at its carboxy terminus to an NS3 nonstructural antigen (residues 11-115) and a 6 amino acid tail (residues 116 to 121). By NS3 is meant the mature helicase protein of HCV which in strain Hutch corresponds to amino acid residues 1007 to 1615 of the HCV polyprotein. A preferred HCV NS3 nonstructural antigen has the amino acid residue sequence shown in SEQ ID NO:16 from residue 11 to residue 115, which is that of the Hutch strain of HCV (amino acid sequence 1352-1456 of GenBank accession no. M67463).
The hexahistidine sequence present within the first 10 amino acid sequences exemplifies a “Tag” polypeptide designed to facilitate the purification of the composite synthesis product. Following induction and breakage of cells containing vector encoding a protein with a hexahistidine “Tag”, the protein of interest can be isolated by metal chelate affinity chromatography in accordance with well established procedures (see, e.g. Porath et al. Nature, 258 p. 598 (1975)).
In a preferred embodiment, that portion of a recombinant HCV nonstructural 794 antigen encoding DNA segment of this invention that codes for the HCV nonstructural portion has a nucleotide base sequence corresponding to a sequence that codes for an amino acid residue sequence as shown in SEQ ID NO:16 from residue 11 to residue 115 and more preferably has a nucleotide base sequence corresponding to a base sequence shown in SEQ ID NO:15 from base 46 to base 360.
In a more preferred embodiment, a recombinant HCV nonstructural 794 antigen encoding DNA segment codes for an amino acid residue sequence as shown in SEQ ID NO:16 from residue 1 to residue 121. Most preferably, a recombinant HCV nonstructural 794 antigen encoding DNA segment of this invention has a nucleotide base sequence corresponding to the sequence shown in SEQ ID NO:15 from base 1 to base 381.
In preferred embodiments, a DNA segment of the present invention includes its complimentary DNA segment and is preferably bound thereto, thereby forming a double stranded DNA segment. In addition, it should be noted that a double stranded DNA segment of this invention can have a single stranded cohesive tail at one or both of its termini.
A DNA segment of the present invention can easily be prepared from isolated viruses or other sources by the polymerase chain reaction (PCR) or synthesized by chemical techniques, for example, the phosphotriester method of Matteucci et al. J. Am. Chem. Soc., 103:3185 (1981). (the disclosures of the art cited herein are incorporated herein by reference). Of course, by chemically synthesizing the DNA, any desired modification can be made simply by substituting the appropriate bases for those encoding the native amino acid sequence.
The present invention further contemplates a recombinant DNA (rDNA) that includes a DNA segment of the present invention operatively linked to a vector. A preferred rDNA of the present invention is characterized as being capable of directly expressing, in a compatible host, the gene product of interest. By “directly expressing” it is meant that the mature polypeptide chain of the protein is formed by translation alone as opposed to proteolytic cleavage of two or more terminal amino acid residues from a larger translated precursor protein. Preferred rDNAs of the present invention are derivatives of the pGEX7 expression vector containing the DNA segments of the invention.
As used herein, the term “vector” refers to a DNA molecule capable of autonomous replication in a cell and to which another DNA segment can be operatively linked so as to bring about replication or expression of the attached segment. Typical vectors are plasmids, bacteriophage and the like. Vectors capable of directing the expression of a DNA segment of the invention are referred to herein as “expression vectors”. Thus, a recombinant DNA molecule (rDNA) is a hybrid DNA molecule comprising at least two nucleotide sequences not normally found together in nature. A vector contemplated by the present invention is also least capable of directing replication, and includes a procaryotic replicbn (ori), i.e., a DNA sequence having the ability to direct autonomous replication and maintenance of the recombinant DNA molecule extrachromosomally in a procaryotic host cell, such as a bacterial host cell, transformed therewith. Such replicons are well known in the art. In addition, those embodiments that include a procaryotic replicon also typically include a gene whose expression confers drug resistance to a bacterial host transformed therewith. Typical bacterial drug resistance genes for use in these vectors are those that confer resistance to ampicillin or tetracycline. Preferred vectors of the present invention also include a procaryotic promoter capable of directing the expression (transcription and translation) of the gene encoding the HIV or HCV antigen or fusion protein in a bacterial host cell, such as E. coli, transformed therewith. A promoter is an expression control element formed by a DNA sequence that permits binding of RNA polymerase and transcription to occur. Promoter sequences compatible with bacterial hosts are typically provided in plasmid vectors containing convenient restriction sites for insertion of a DNA segment of the present invention. A typical vector is pPL-lambda available from Pharmacia (Piscataway, N.J.).
Although the expression vector pGEX7 has been used as exemplary in producing the proteins described herein, other functionally equivalent expression vectors can be used. Functionally equivalent vectors have the sequence AGGAGGGTTTTTCAT (which corresponds to nucleotides 1 to 15 of SEQ ID NO: 1) to which coding sequences of interest may be joined, and contain an expression promoter that is inducible by any number of methods such as by temperature shift or by addition of IPTG.
A variety of methods have been developed to operatively link DNA segments to vectors via compatible termini. General recombinant DNA technologies are comprehensively described in a plethora of publications, and for experimental protocols, attention is drawn to the treatise by Maniatis et al. (Molecular Cloning: A Laboratory Manual 2nd edition, Cold Spring Harbor Press (1989)), which is incorporated herein by reference.
Synthetic linkers containing one or more restriction sites provide an alternative method of joining the DNA segments to vectors. The DNA segment, generated by endonuclease digestion or, by some alternate procedure such as primer-directed synthesis via techniques such by PCR (see, e.g., supra or, more specialized monographs such as M. J. McPherson, P. Quirke and G. R. Taylor (Eds), “PCR. A Practical Approach”, IRL Press at Oxford University press, Oxford, UK, (1991)) is treated with bacteriophage T4 DNA polymerase or E. coli DNA polymerase I, enzymes that remove protruding 3′ single stranded termini with the 3′-5′ exonucleolytic activities and fill in recessed 3′ ends with their polymerizing activities. The combination of these activities therefore generate blunt-ended DNA segments. The blunted segments are then incubated with a large molar excess of linker molecules in the presence of an enzyme that is able to catalyze the ligation of blunt-ended DNA segments, such as the bacteriophage T4 DNA ligase. Thus, the products of the reaction are DNA segments carrying polymeric linker sequences at their ends. These DNA segments are then cleaved with the appropriate restriction enzyme and ligated to an expression vector that has been cleaved with an enzyme that produces termini compatible with those of the DNA segment. Synthetic linkers containing a variety of restriction endonuclease sites, as well as the restriction endonucleases themselves are commercially available from a number of sources including New England Biolabs (Boston, Mass.).
Also contemplated by the present invention are RNA equivalents of the above described recombinant DNA molecules.

C. Transformed Cells and Cultures

The present invention also relates to a procaryotic host cell transformed with a recombinant DNA molecule of the present invention, preferably an rDNA capable of expressing a recombinant HIV p24-gp41 fusion protein, a recombinant HCV 1-120 capsid protein, a recombinant HCV CAP-B protein or a recombinant HCV nonstructural antigen 794. Bacterial cells are preferred procaryotic host cells and typically are a strain of E. coli, such as, for example, the E. coli strain W3110 or the strain DH5 available from Bethesda Research Laboratories, Inc., Bethesda, Md. Transformation of appropriate cell hosts with a recombinant DNA molecule of the present invention is accomplished by well known methods that typically depend on the type of vector used. With regard to transformation of procaryotic host cells, see, for example, Cohen et al., Proc. Natl. Acad. Sci. USA, 69:2110 (1972); and Maniatis et al., Molecular Cloning, A Laboratory Manual, Cold Spring Harbor Laboratory, Cold Spring Harbor, N.Y. (1982). Successfully transformed cells, i.e., cells that contain a recombinant DNA molecule of the present invention, can be identified by well known techniques. For example, cells resulting from the introduction of an rDNA of the present invention can be cloned to produce monoclonal colonies. Cells from those colonies can be harvested, lysed and their DNA content examined for the presence of the rDNA using a method such as that described by Southern, J. Mol. Biol., 98:503 (1975) or Berent et al., Biotech., 3:208 (1985). In addition to directly assaying for the presence of rDNA, successful transformation can be confirmed by well known immunological methods when the rDNA is capable of directing the expression of a protein from the inserted gene of interest. Samples of cells suspected of being transformed are harvested and assayed for the presence of the encoded HIV or HCV antigen using antibodies specific for the particular antigen of interest. Such antibodies are well known in the art. Thus, in addition to the transformed host cells themselves, the present invention also contemplates a culture of those cells. Nutrient media useful for culturing transformed host cells are well known in the art and can be obtained from several commercial sources.

D. Methods for Producing Recombinant Proteins and Compositions Containing Same

Another aspect of the present invention pertains to a method for producing the HIV and HCV antigens of this invention, more preferably an HIV p24-gp41 fusion protein, an HCV CAP-B protein, an HCV 1-120 capsid protein or an HCV nonstructural antigen 794. The present method entails initiating a culture comprising a nutrient medium containing host cells transformed with a recombinant DNA molecule of the present invention. The culture is maintained for a time period sufficient for the transformed cells to express the HIV or HCV antigen. The expressed protein is then recovered from the culture. However, as is well known in the art, the expressed protein recovered may or may not contain the amino-terminal methionine residue present on the initial translation product depending on cellular processing mechanisms. Methods for recovering an expressed protein from a culture are well known in the art and include fractionation of the protein-containing portion of the culture using well known biochemical techniques. For instance, the methods of gel filtration, gel chromatography, ultrafiltration, electrophoresis, ion exchange, affinity chromatography and the like, such as are known for protein fractionation, can be used to isolate the expressed proteins found in the culture. In addition, immunochemical methods, such as immunoaffinity, immunoadsorption and the like can be performed using well known methods.

E. Recombinant Protein Compositions

In another embodiment, the present invention contemplates a composition containing an HIV or HCV antigen of the invention, including e.g., an HIV p24-gp41 fusion protein, an HCV CAP-B protein, an HCV 1-120 capsid protein or an HCV nonstructural 794 antigen encoded by the DNA segments of the invention or combinations thereof that is essentially free of both procaryotic antigens (i.e. host cell-specific antigens) and other HIV- or HCV-related proteins. By “essentially free” is meant that the ratio of desired HIV or HCV proteins, alone or in combination, to either procaryotic antigen or other HIV- or HCV-related proteins is at least 100:1, and preferably is 1,000:1.
The presence and amount of contaminating protein in a recombinant protein preparation can be determined by well known methods. For example, a sample of the composition is subjected to sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) to separate the recombinant protein from any protein contaminants present. The ratio of the amounts of the proteins present in the sample is then determined by densitometric soft laser scanning, as is well known in the art. See Guilian et al., Anal. Biochem., 129:277-287 (1983).
In another embodiment of the invention, the HIV or HCV antigen of the invention is in non-reduced form, i.e., substantially free of sulfhydryl groups because of Cys-Cys bonding that can occur in those antigens having cysteine residues.

G. Diagnostic Systems

A diagnostic system in kit form of the present invention includes, in an amount sufficient for at least one assay, a composition comprising a HIV or HCV antigen of the current invention as a separately packaged reagent. Instructions for use of the packaged reagent are also typically included. “Instructions for use” typically include a tangible expression describing the reagent concentration or at least one assay method parameter such as the relative amounts of reagent and sample to be admixed, maintenance time periods for reagent/sample admixtures, temperature, buffer conditions and the like.
In preferred embodiments, the diagnostic system of the present invention further includes a label or indicating means capable of signaling the formation of a complex containing a recombinant antigen. As used herein, the terms “label” and “indicating means” in their various grammatical forms refer to single atoms and molecules that are either directly or indirectly involved in the production of a detectable signal to indicate the presence of a complex. Any label or indicating means can be linked to or incorporated in an expressed protein or polypeptide, or used separately, and those atoms or molecules can be used alone or in conjunction with additional reagents. Such labels are themselves well-known in clinical diagnostic chemistry and constitute a part of this invention only insofar as they are utilized with otherwise novel proteins methods and/or systems.
The linking of labels, i.e., labeling of, polypeptides and proteins is well known in the art. For instance, antibody molecules produced by a hybridoma can be labeled by metabolic incorporation of radioisotope-containing amino acids provided as a component in the culture medium. See, for example, Galfre et al., Meth. Enzymol., 73:3-46 (1981). The techniques of protein conjugation or coupling through activated functional groups are particularly applicable. See, for example, Avrameas, et al., Scand. J. Immunol., Vol. 8 Suppl. 7:7-23 (1978), Rodwell et al., Biotech., 3:889-894 (1984), and U.S. Pat. No. 4,493,795.
The diagnostic systems can also include, preferably as a separate package, a specific binding agent. A “specific binding agent” is a molecular entity capable of selectively binding a reagent species of the present invention but is not itself a protein expression product of the present invention. Exemplary specific binding agents are antibody molecules, complement proteins or fragments thereof, protein A, immobilized metal ion chelates, immobilized glutathione and the like. Preferably the specific binding agent can bind the recombinant antigen when the antigen is present as part of a complex.
In preferred embodiments the specific binding agent is labeled. However, when the diagnostic system includes a specific binding agent that is not labeled, the agent is typically used as an amplifying means or reagent. In these embodiments, the labeled specific binding agent is capable of specifically binding the amplifying means when the amplifying means is bound to a reagent species-containing complex.
The diagnostic kits of the present invention can be used in an “ELISA” format to detect the presence or quantity of antibodies in a body fluid sample such as serum, plasma or saliva that react with any of the antigens of the present invention. “ELISA” refers to an enzyme-linked immunosorbent assay that employs an antibody or antigen bound to a solid phase and an enzyme-antigen or enzyme-antibody conjugate to detect and quantify the amount of an antigen or antibody present in a sample. A description of the ELISA technique is found in Chapter 22 of the 4th Edition of Basic and Clinical Immunology by D. P. Sites et al., published by Lange Medical Publications of Los Altos, Calif. in 1982 and in U.S. Pat. Nos. 3,654,090; 3,850,752; and 4,016,043, which are all incorporated herein by reference.
In preferred embodiments, an HIV or HCV antigen of the present invention can be affixed to or coated on a solid matrix to form a solid support that is separately packaged in the subject diagnostic systems. The antigen is typically affixed to the solid matrix by adsorption from an aqueous medium although other modes of affixation, well known to those skilled in the art can be used. Useful solid matrices are well known in the art. Such materials include the cross-linked dextran available under the trademark SEPHADEX from Pharmacia Fine Chemicals (Piscataway, N.J.); agarose; beads of polystyrene about 1 micron to about 5 millimeters in diameter available from Abbott Laboratories of North Chicago, Ill.; polyvinyl chloride, polystyrene, cross-linked polyacrylamide, nitrocellulose- or nylon-based webs such as sheets, strips or paddles; or tubes, plates or the wells of a microtiter plate such as those made from polystyrene or polyvinylchloride.
The HIV or HCV antigen, labeled specific binding agent or amplifying reagent of any diagnostic system described herein can be provided in solution, as a liquid dispersion or as a substantially dry format, e.g., in lyophilized form. Where the indicating means is an enzyme, the enzyme's substrate can also be provided in a separate package of a system. A solid support such as the before-described microtiter plate and one or more buffers can also be included as separately packaged elements in this diagnostic assay system.
The packages discussed herein in relation to diagnostic systems are those customarily utilized in diagnostic systems. Such packages include glass and plastic (e.g., polyethylene, polypropylene and polycarbonate) bottles, vials, plastic and plastic-foil laminated envelopes and the like.

EXAMPLES

The examples illustrate the present invention but in no way limit its scope.

Example 1

Isolation of the HIV p24 Gene and Construction of Expression Vector

The gag region from the pHXB2CG plasmid clone of HTLV IIIB (obtained from Dr. Robert Gallo, National Cancer Institute, Bethesda, Md.) was isolated by EcoRV restriction enzyme digestion of plasmid pHXB2CG and the resulting 2.86 kilobase fragment was isolated and inserted by ligation into the EcoRV site of a modified pUC8 vector (pUC8NR) to form plasmid PUCGAG (FIG. 1, Step 1).
The plasmid (PUCGAG) was mutagenized to generate an ATG translational initiation codon and an NdeI restriction enzyme site (CATATG) at the beginning of the p24 structural gene by the following series of manipulations (FIG. 1, Step 2). After transformation of pUCGAG into the methylation deficient dam-strain of E. coli, New England Biolabs, a gap was created in the pUCGAG DNA at the p24 amino terminus by cutting with the ClaI and PstI restriction enzymes to form gapped pUCGAG that lacks the smaller DNA segment from the p24 amino terminus. Ten micrograms of gapped pUCGAG DNA and 10 micrograms of pUCGAG DNA cut with the restriction enzyme EcoRI were both subjected to electrophoresis on a 1% agarose gel, and the DNA fragments were each separately isolated from the agarose gel by electroelution (Model 1750 sample concentrator; ISCO, Lincoln, Nebr.), combined, extracted twice with a 50/50 mixture of phenol and chloroform, and precipitated with the addition of sodium acetate (final concentration, 100 mM) and three volumes of ethanol.
The precipitated DNAs were collected by centrifugation and resuspended to a concentration of 25 micrograms per milliliter in water. After addition of an equal volume of annealing buffer (80% formamide, 100 mM Tris, pH 8.0, 25 mM EDTA) the resuspended DNAs were denatured by boiling for 5 minutes and allowed to anneal at 37° C. for 30 minutes. The annealed DNAs were diluted with an equal volume of water and precipitated in ethanol as described above to form precipitated annealed DNA.
The NdeI and ATG sequences were joined to the amino terminus of the p24 gene using the following synthetic oligonucleotide:
5′-CCAAAATTACCATATGCCAATCGTGCAGAAC-3′(SEQ ID NO:19)

The 10 nucleotides at the 5′ end and 9 nucleotides at the 3′ end of this oligonucleotide are homologous to the HTLV IIIB DNA sequence (University of Wisconsin genetic database). The intervening nucleotides were chosen to minimize the formation of secondary structures within the oligonucleotide and within the RNA expected to be generated from this sequence during expression of these sequences in E. coli.
Forty picomoles of the above oligonucleotide (synthesized on a Pharmacia Gene Assembler) was phosphorylated (as described in Molecular Cloning by T. Maniatis, E. F. Fritsch and J. Sambrook, Cold Spring Harbor Laboratory, 1982, p. 125) and admixed with 2.5 micrograms of the precipitated annealed DNA described above. The admixed DNAs were then annealed by heating the admixture to 65° C. for 5 minutes and then cooling to room temperature over the course of an hour in ligase buffer (op. cit., p. 474). The resulting DNA molecule (i.e., a gapped template) containing the precipitated annealed DNA described above and the gapped template with the annealed oligonucleotide was then repaired in vitro in ligase buffer by incubating for 3 hours at 15° C. in the presence of 25 μM of each deoxynucleoside triphosphate, 50 μM adenosine triphosphate, 5 units of T4 DNA ligase and 1 unit of the Klenow fragment of E. coli DNA polymerase.
After transformation into competent cells of the JM83 strain of E. coli the bacterial colonies were screened by hybridization with radiolabeled oligonucleotide on nitrocellulose (op. cit., pp. 250-251, 313-329). A single colony was isolated by this procedure containing the plasmid pUCp40 (FIG. 1), with the DNA sequence for the amino terminal sequence of the p24 gene as disclosed in U.S. Pat. No. 5,470,720.
The DNA fragment from pUCp40 encoding a p24-p15 fusion protein referred to as p40 below and located between the NdeI restriction enzyme site created by the above mutagenesis and the EcoRV site, was isolated by digesting plasmid pUCp40 with NdeI and EcoRV followed by separation on an agarose gel, extraction and precipitation of the separated fragment.
Plasmid pGEX7 DNA was linearized by digestion with NdeI and EcoRV. Plasmid pGEX7 is a bacterial expression vector deposited as plasmid PHAGE 38 with the American Type Culture Collection (ATCC) on Jun. 9, 1988 and given the ATCC accession number 40464. It contains a lambda bacteriophage promoter (P_L), the gene for its temperature sensitive repressor (cl857), the sequence AGGAAGGGTTTTTCAT (SEQ ID NO:1) and an origin of replication (ori).
The digestion of pGEX7 with NdeI and EcoRV results in the production of two linear fragments, one of which contains the amp^rand cl857 genes and the origin of replication and has NdeI and EcoRV cohesive termini. The above described p40 gene-containing NdeI/EcoRV restriction fragment of pUCp40 was then ligated to the pGEX7 NdeI/EcoRV amp^rgene-containing fragment via their respective NdeI and EcoRV termini to form the plasmid pGEXp40 (FIG. 1, Step 3).
The sequences of pGEXp40 encoding p15 were removed from plasmid pGEXp40 by restriction digestion with the enzymes PpuMI and BamHI. Thereafter the 3′ end of the p24 gene was reconstructed as indicated by FIG. 1, Step 4 by synthesizing two complementary oligonucleotides (SEQ ID NO:20 and SEQ ID NO:21) which when annealed form a duplex comprising translational stop codons and overhanging ends corresponding to PpuMI and BamHI restriction enzyme sites. The resulting rDNA plasmid, pGEXp24, expresses an HIV p24 antigen.

Example 2

Formation of Composite DNAs Comprising the pGEXp24 Vector with an Inserted Gene for a Conserved Envelope gp41 (Subtype 0) Antigen

The plasmid pGEXp24, was linearized by digestion with the restriction enzyme PpuMI and purified by phenol-chloroform extraction followed by precipitation with ethanol. Two complementary oligonucleotides (sequences given by nucleotides 686 to 763 and the complement of nucleotides 689 to 766 of SEQ ID NO:1) forming protruding cohesive termini when annealed, were synthesized. The synthetic oligonucleotides were allowed to form a duplex by mixing and heating to 90° C. for a approximately 3 minutes, followed by annealing at room temperature for a period of 10 minutes. The hybrid molecule represents a hybrid gene sequence encoding the p24 molecule interrupted after codon 225 by a linker amino acid (lysine), envelope sequence (amino acids 227-249) for the conserved region of HIV Subtype 0 gp41 polypeptide, strain ANT, followed by a repetition of p24 residues 224 and 225 and then p24 residues 226-232.
A similar hybrid oligonucleotide representing the gp41 conserved region of HIV Subtype 0, strain MVP 5180, was formed by synthesizing complementary oligonucleotides with the sequences given by nucleotides 686 to 763 and the complement of nucleotides 689 to 766 of SEQ ID NO:3.
A third hybrid oligonucleotide representing the gp41 conserved region of HIV Subtype 0, strain GenBank X84328 was formed by synthesizing complementary oligonucleotides with the sequences given by nucleotides 686 to 763 and the complement of nucleotides 689 to 766 of SEQ ID NO:5.
All three duplexes were separately mixed with the linearized pGEXp24 vector and 400 U of T4 ligase and incubated in ligase buffer containing 1 mM ATP at 16° C. overnight. Subsequent transformation into competent E. coli and screening of mini-preparations by Avall digestion allowed for the selection of clones containing the insert as described in U.S. Pat. No. 5,470,720. Mini-inductions confirmed high level synthesis of the gene product of interest, as evidenced by lysing induced cultures in the presence of SDS and running the lysate on a 16% SDS PAGE. The plasmid containing the hybrid gene formed by the first oligonucleotide pair, designated pGEXp24gp41-ANT, comprises the nucleotide sequence given by SEQ ID NO:1. The plasmid containing the hybrid gene formed by the second oligonucleotide pair, designated pGEXp24gp41-MVP, comprises the nucleotide sequence given by SEQ ID NO:3. The plasmid containing the hybrid gene formed by the third oligonucleotide pair, designated pGEXp24gp41-X84328, comprises the nucleotide sequence given by SEQ ID NO:5.

Example 3

Purification of Recombinant p24-gp41 (subtype 0) Fusion Proteins

Plasmids containing the lambda promoter (pL) are normally carried in a strain of bacteria containing a lysogen of bacteriophage lambda in order to minimize the expression of the gene product of interest during the manipulation of DNAs. The pGEX7-based plasmids described in Example 1 were all carried in a lysogen of the MM294 strain of E. coli. Expression from the lambda promoter of pGEX7 can be demonstrated by transfer of the plasmid into an uninfected bacterial host (e.g., E. coli strain W3110, accession no. #27325, ATCC, Rockville, Md.) and inactivation of the cl repressor protein at 42° C. Competent E. coli (strain W3110, 100 μl bacterial suspension) were transformed with 1 μl of pGEXp24gp41-ANT, pGEXp24gp41-MVP or pGEXp24gp41-X84328. After 60 minutes on ice, the bacteria were diluted to 1 ml with LB medium and incubated for a further 60 minutes at 30° C. Aliquots of the culture were than plated on ampicillin containing agar plates which were held at 30° C. for at least 24 hours. A colony was picked and inoculated into 5 ml of LB medium and incubated for approximately 6 hours at 30° C. 1 ml of the growing culture, indicated by developing turbidity of the inoculum, was then transferred to a 1 liter flask for further overnight culture, using a temperature controlled shaker at 300 rpm. The main culture was initiated the following morning by inoculating each of 6 flasks containing 0.9 liter of LB Medium and 50 mg ampicillin/liter with 100 ml of the overnight culture. The flasks were shaken at 350 rpm for 1.5 hours. The cultures were induced by raising the temperature to 42° C. and maintained at that temperature for 4 hours. The cells were harvested by centrifugation (Sorvall, GSA Rotor, 7,000 rpm, 10 minutes in the cold), transferred to a storage container and typically stored frozen until used for purification.
The cell paste from 6 liter cultures (approximately 30 g of frozen bacteria) were thawed and suspended in an equal volume of 0.2 M phosphate buffer, pH 7.0, containing 10 mM EDTA and 10 mM benzamidine. Lysozyme (1 mg/g cell paste) and PMSF (0.2 mg/g cell paste) was added and the suspension stirred for approximately 30 minutes at room temperature. During this period, the material became very viscous. The cells were then placed in an ice bath and subjected to 3 minutes of sonication on ice with intervening cooling periods of 1-2 minutes.
Soluble materials were removed by centrifugation (Sorvall, SS-34 rotor, 20,000 rpm for 30 minutes) and the extraction procedure was repeated using 0.2 M phosphate buffer containing 10 mM EDTA and 10 mM benzamidine. The combined supernatants were discarded and the sediment suspended in 6 M urea containing 0.02 M Tris-HCl buffer, pH 8.6. The suspension was subjected to a further cycle of sonication on ice (60 seconds) and the centrifugation was repeated. The supernatant was saved and the sediment re-extracted once, using urea-tris buffer of the same composition. The combined supernatants were treated with ammonium sulfate (0.3 g/ml of solution), kept at 4° C. for about 30 minutes and then centrifuged as described above. A large precipitate had formed which was dissolved in approximately 20 ml of 6 M Guanidine-HCl, containing 0.1 M phosphate buffer, 5 mM EDTA, pH 7.0. The solubilized material was clarified by renewed centrifugation and then applied to a 5×105 cm column, containing Sepharose S-300 gel and equilibrated with 6 M Guanidine-HCl in 0.1 M phosphate-5 mM EDTA buffer, pH 7.0. Fractions (10 ml) were eluted and, following dialysis against 6 M urea of selected aliquots, analyzed by SDS gel electrophoresis. Based on the gel pattern, appropriate fractions containing gene products migrating to a position of the gel which corresponded to that reference proteins, or, if such was unavailable, similar to the band appearing as a consequence of the induction of cultures carrying the expression vector, were pooled and exhaustively dialyzed against 4 M urea containing 0.015 M Tris-HCl buffer, pH 8.6.
The dialyzed; clear solution was applied to a column (2.5×30 cm) of DEAE-Sepharose equilibrated with 4 M urea-0.015 M Tris-HCl buffer, pH 8.6. Following application of the sample and washing to remove non-bound constituents, the protein of interest was eluted with a salt gradient (250×250 ml, 0-0.1 M NaCl in the initial Tris-HCl buffer containing 4 M urea) and monitored by analysis in 16% SDS PAGE. Fractions containing the protein of interest were pooled and adjusted to pH 5.6 by addition of glacial acetic acid. The pH-adjusted pooled material was then applied to a column (2.5×20 cm) of CM Sepharose equilibrated with 20 mM sodium acetate buffer, pH 5.6 containing 4 M urea. A salt gradient (250×250 ml, 0-0.4M NaCl in the same urea-containing acetate buffer) was applied and fractions were collected. Fractions were again analyzed for the protein of interest. These fractions containing purified protein were pooled and stored at frozen at −20° C. FIG. 2 shows an analytical SDS gel of the three recombinant p24-gp41 hybrid proteins of subtype 0 after being purified in accordance with the above protocol.
To test for immune reactivity with HIV positive sera, polystyrene wells (Nunc, Polysorp) were coated with mixtures of the p24-gp41 hybrid proteins described above in concentrations of 1 μg/ml for 16 hours at 4° C. After blocking with 3% bovine serum albumin overnight, the plates were dried under vacuum and then used to analyze the immune reactivity against sequential dilutions of a serum known to test positive for HIV antibody. FIG. 5 shows a titration curve using the three newly synthesized antigens in comparison with the prototype gene product obtained from pGEXp24-gp41 as disclosed in U.S. Pat. No. 5,470,720. The three antigens produce strong immune reactivity with this serum, comparable to that seen with the reference protein.

Example 4

Formation of a Recombinant HCV Capsid Protein Gene Joined to pGEX7 for Synthesis of Carrier-free Polypeptide

A. Isolation of HCV Clones and Sequence Analysis

(1) Isolation of HCV RNA and Preparation of cDNA
As a source for HCV virions, blood was collected from a chimpanzee infected with the Hutchinson (Hutch) strain exhibiting acute phase HCV. Plasma was clarified by centrifugation and filtration. Virions were then isolated from the clarified plasma by immunoaffinity chromatography on a column of HCV IgG (Hutch strain) coupled to protein G sepharose. HCV RNA was eluted from the sepharose beads by soaking in guanidinium thiocyanate and the eluted RNA was then concentrated through a cesium chloride (CsCl) cushion. Maniatis et al., Molecular Cloning: A Laboratory Manual, Maniatis et al., eds. Cold Spring Harbor, N.Y. (1989).
The purified HCV RNA was used as a template in a primer extension reaction admixture containing random and oligo dT primers, dNTP's, and reverse transcriptase to form first strand cDNAs. The resultant first strand cDNAs were used as templates for synthesis of second strand cDNAs in a reaction admixture containing DNA polymerase I and RNAse H to form double stranded (ds) cDNAs (Maniatis et al., supra). The synthesized ds cDNAs were amplified using an asymmetric synthetic primer-adaptor system wherein sense and anti-sense primers were annealed to each other and ligated to the ends of the double stranded HCV cDNAs with T4 ligase under blunt-end conditions to form cDNA-adaptor molecules. Polymerase chain reaction (PCR) amplification was performed by admixing the cDNA-adaptor molecules with the same positive sense adaptor primers, dNTP's and TAQ polymerase to prepare amplified HCV cDNAs. The resultant amplified HCV cDNA sequences were then used as templates for subsequent amplification in a PCR reaction with specific HCV oligonucleotide primers.
(2) Synthesis of Oligonucleotides For Use in HCV Cloning
Oligonucleotides were selected to correspond to the 5′ sequence of Hepatitis C virus which encodes the HCV structural capsid and envelope proteins (HCJ1 sequence: Okamoto et al., Jap. J. Exp. Med., 60:167-177, 1990). The selected oligonucleotides were synthesized on a Pharmacia Gene Assembler according to the manufacturer's instruction, purified by polyacrylamide gel electrophoresis.
(3) PCR Amplification of HCV cDNA
PCR amplification was performed by admixing the primer-adapted amplified cDNA sequences prepared in Example 4.A.(1) with the synthetic oligonucleotide primer pair 690:694. (690: nucleotides 16-36 of SEQ ID NO:9; 694: complement of nucleotides 162-178 of SEQ ID NO:9). The resulting PCR reaction admixture contained the primer-adapted amplified cDNA template, oligonucleotides 690 and 694, dNTP's, salts (KCl and MgC1₂) and TAQ polymerase. PCR amplification of the cDNA was conducted by maintaining the admixture at a 37° C. annealing temperature for 30 cycles. Aliquots of samples from the first round of amplification were reamplified at a 55° C. annealing temperature for 30 cycles under similar conditions.
(4) Preparation of Vectors Containing PCR Amplified ds DNA
Aliquots from the second round of PCR amplification were subjected to electrophoresis on a 5% acrylamide gel. After separation of the PCR reaction products, the region of the gel containing DNA fragments corresponding to the expected 690:694 amplified product of approximately 224 bp was excised and purified following standard electroelution techniques (Maniatis et al., supra). The purified fragments were kinased and cloned into the pUC18 plasmid cloning vector at the SmaI polylinker site to form a plasmid containing the DNA segment 690:694 joined to pUC18.
The resulting mixture containing pUC18 and a DNA segment corresponding to the 690:694 sequence region was then transformed into the E. coli strain JM83. Plasmids containing inserts were identified as lac- (white) colonies on X-gal medium containing ampicillin. pUC18 plasmids which contained the 690:694 DNA segment were identified by restriction enzyme analysis and subsequent electrophoresis on agarose gels, and were designated pUC18 690:694.
(5) Sequencing of HCV Clones that Encode the Putative Capsid Protein
Two independent colonies believed to contain a pUC18 vector having the HCV Hutch strain 690:694 DNA segment (pUC18-690:694) that codes for the amino terminus of the capsid protein were amplified and used to prepare plasmid DNA by CsCl density gradient centrifugation by standard procedures (Maniatis et al., supra). The plasmids were sequenced using ³⁵S dideoxy procedures with pUC18 specific primers. The two plasmids were independently sequenced on both DNA strands to assure the accuracy of the sequence.
(6) Preparation of HCV Clones from the 5′ End of the Genome
To obtain a clone encoding the remainder of the of the HCV Hutch capsid region (Okamoto et al., supra), the oligonucleotide pair 693:691 (693: nucleotides 162-178 of SEQ ID NO:9; 691: complement of nucleotides 355-375 of SEQ ID NO:9) were used in PCR reactions. cDNA was prepared as described in Example 4.A.(1) from viral HCV RNA (Hutch) and used in PCR amplification as described in Example 4.A.(3) with the oligonucleotide pair 693:691. The resultant PCR amplified ds DNA was then cloned into pUC18 cloning vectors and screened for inserts as described in Example 4.A.(4) to form pUC18-693:691. Clones were then sequenced with pUC18 specific primers as described in Example 4.A.(5). Plasmid pUC18-693:691 was found to contain a HCV DNA segment that is 157 bp in length and corresponds to the HCV prototype HJC1 sequence (SEQ ID NO:9) from nucleotides 218-375.
B. Production of Recombinant DNA (rDNA) Encoding Fusion Proteins
(1) Introduction of the 690:694 Fragment into pGEX-3X for Expression of GST Fusion Protein
The pUC18-690:694 DNA was subjected to restriction enzyme digestion with EcoRI and BamHI to release a DNA segment containing the HCV 690:694 fragment. The released DNA segment was subjected to acrylamide electrophoresis and a DNA segment containing the 224 bp HCV insert plus portions of the pUC18 polylinker was then excised and eluted from the gel as described in Example 4.A.(4). The DNA segment was extracted with a mixture of phenol and chloroform, and precipitated.
The precipitated DNA segment was resuspended to a concentration of 25 μg/ml in water and treated with the Klenow fragment of DNA polymerase to fill in the staggered ends created by the restriction digestion. The resultant blunt-ended 690:694 containing segment was admixed with the bacterial expression vector pGEX-3X, (Pharmacia Inc., Piscataway, N.J.) which was linearized with the blunt end restriction enzyme SmaI. The admixed DNAs were then ligated by maintaining the admixture overnight at 16° C. in the presence of ligase buffer and 5 units of T4 DNA ligase to form a plasmid of 690:694 DNA segment joined to pGEX-3X.
(2) Selection and Verification of Correct Orientation of Ligated Insert
The ligation mixture containing the pGEX-3X vector and the 690:694 DNA containing segment was transformed into host E. coli strain W3110. Plasmids containing inserts were identified by selection of host bacteria containing vector in Luria broth (LB) media containing ampicillin. Bacterial cultures at stationary phase were subjected to alkaline lysis protocols to form a crude DNA preparation. To screen for a vector containing the 690:694 DNA segment, plasmid DNA was digested with the restriction enzyme XhoI, which cleaves within the 690:694 DNA segment, but not within the pGEX-3X vector.
Several 690:694 DNA segment-containing vectors were amplified and the resultant amplified vector DNA was purified by CsCl density gradient centrifugation. The DNA was sequenced across the inserted DNA segment ligation junctions by ³⁵S dideoxy methods with a primer which hybridized to the pGEX-3X Vectors containing 690:694 DNA segment having the correct coding sequence for in-frame translation of an HCV structural protein were thus identified and selected to form pGEX-3X-690:694.
(3) Structure of the Fusion Protein
The pGEX-3X vector is constructed to allow for inserts to be placed at the C terminus of Sj26, a 26-kDa glutathione-S-transferase (GST; EC 2.5.1.18) encoded by the parasitic helminth Schistosoma japonicum. The insertion of the 690:694 HCV fragment in-frame behind Sj26 allows for the synthesis of the Sj26-HCV fusion polypeptide. The HCV polypeptide can be cleaved from the GST carrier by digestion with the site-specific protease factor Xa (Smith et al., Gene, 67:31-40, 1988).
The resulting rDNA molecule, pGEX-3X-690:694, encodes an HCV fusion protein having an amino terminal polypeptide portion corresponding to residues 1 to 221 of GST, a four residue intermediate portion defining a cleavage site for the protease Factor Xa, a nine residue linker, a polypeptide portion corresponding to amino acid residue sequence 1 to 74 of SEQ ID NO:10 and a six residue tail.
(4) Introduction of the 690:694 Fragment into pGEX-3X
Plasmid pGEX-3X-693:691 was formed by first subjecting the plasmid pUC18-693:691 prepared in Example 4.A.(6) to restriction enzyme digestion with EcoRI and BamHI as in Example 4.B.(1). The purified DNA segment was admixed with and ligated to the pGEX-3X vector which was linearized by restriction enzyme digestion with EcoRI and BamHI in the presence of T4 ligase at 16° C. to form the plasmid pGEX-3X-693:691.
A pGEX-3X plasmid containing a 693:691 DNA segment was identified as in Example 4.B.(2) with the exception that crude DNA preparations were digested with EcoRI and BamHI to release the 693:691 insert. A pGEX-3X vector containing a 693:691 DNA segment having the correct coding sequence for in-frame translation of an HCV structural protein was identified by sequence analysis as performed in Example 4.B.(2) and selected to form pGEX-3X-693:691.
The resulting vector encodes a fusion protein (GST:HCV 693:691) that is comprised of an amino-terminal polypeptide portion corresponding to residues 1-221 of GST, an intermediate polypeptide portion corresponding to residues 222-225 and defining a cleavage site for the protease Factor Xa, a five residue linker portion, a carboxy-terminal polypeptide portion corresponding to amino acid residues 69 to 120 of the HCV capsid antigen, and a three residue tail.

C. Plasmids Encoding Complete Capsid Proteins

(1) Construction of a Vector Expressing a Composite Gene
To generate a composite gene spanning the entire amino acid region of 1-120 and to create an operative linkage of the gene to the first DNA segment of this invention, (i.e., AGGAAGGGTTTTTCAT, which corresponds to nucleotides 1 to 15 of SEQ ID NO: 1), the following experiments were conducted. The above described plasmids pGEX-3X-690:694 and pGEX-3X-691:693, containing base pairs 1-224 and 203-360, respectively, of an HCV capsid gene (U.S. Ser. No. 07/573,643) were used as target templates for each of two separate PCR reactions encompassing the following primer pairs.
A first PCR reaction was performed using a primer pair with sequences given by SEQ ID NO:22 and the complement of nucleotides 219-239 of SEQ ID NO:7 to amplify a 210 base pair fragment from plasmid pGEX-3X-690:694. The amplified fragment contains a single NdeI and EagI site at the 5′ and 3′ ends, respectively.
A second PCR reaction was performed using a primer pair (sequences given by SEQ ID NO:23 and nucleotides 219 to 239 of SEQ ID NO:7) to amplify a 150 bp fragment from plasmid pGEX-3X-691:693. The second amplified fragment contains an EagI site at the 5′ end and an EcoRI site at the 3′ of the amplimer.
The PCR products were cut with the NdeI and EagI (first PCR reaction product) and with EagI and EcoRI (second PCR reaction product). In a third digestion, the pGEX7 vector was digested with NdeI and EcoRI. Following isolation by preparative electrophoresis in 5% acrylamide of each DNA segment, a three-way ligation mixture containing the isolated and restricted PCR reaction products and isolated pGEX7 vector was formed, and allowed to incubate with T4 Ligase overnight at 16° C. The mixture was then transformed into competent cells, colonies were selected for plasmid mini-preparations and subsequently analyzed by redigestion with NdeI and EcoRI. The vector pGEX-C120H-V68 released an insert of the proper length upon restriction digestion with NdeI and EcoRI and had the nucleotide sequence shown in SEQ ID NO:7. Compared with the consensus sequence for the HUTCH strain, pGEX-C120H-V68 has amino acid substitutions at amino acid 4 (Ile instead of Asn) and amino acid 68 (Val instead of ala) shown in SEQ ID NO:8.
(2) Vectors Expressing Modified Capsid Proteins
The codon at position 68 is included in a stretch of the DNA molecule spanned by two Styl sites, (nucleotides 212 and 259 of SEQ ID NO:7 are the first base in the Styl recognition sites). A plasmid vector containing the HUTCH sequence in this Styl fragment is made by ligating a DNA fragment formed by annealing complementary synthetic oligonucleotides with sequences given by nucleotides 213 to 259 and the complement of nucleotides 217 to 263 of SEQ ID NO:9 into the Styl-digested PGEX-C120H-V68 vector. The proper orientation of the inserted DNA fragment is assured as the two Styl cohesive ends are different. The sequence of the resulting vector, pGEX-C120H, codes for alanine at amino acid 68 of the capsid sequence (SEQ ID NO:10).
Alternative modifications of the capsid structure which substitute specific sequences from other genotypes of HCV may be accomplished by the similar use of other synthetic oligonucleotide pairs with Styl/Styl cohesive ends. For example, an amino acid sequence corresponding to the HCV capsid of genotype 2 may be substituted by annealing a synthetic oligonucleotide pair with the sequences given by nucleotides 213 to 259 and the complement of nucleotides 217 to 263 of SEQ ID NO:11 and inserting the duplex into the Styl/Styl region. The capsid encoded by the resulting pGEX-C120H-ISO2 is given in SEQ ID NO:12. Plasmid pGEX-C120H-ISO3 encoding particular amino acids corresponding to an HCV capsid protein of genotype 3 (SEQ ID NO:14) is similarly obtained with the synthetic sequences given by nucleotides 213 to 259 and the complement of nucleotides 217 to 263 of SEQ ID NO:13.

Example 5

Preparation of Purified HCV 1-120 Capsid Proteins

A. Transformation and Growth of Bacteria

Competent E. coli (strain W3110, 100 ul bacterial suspension) were transformed with 1 ul of purified pGEX-C120H-V68 plasmid containing the insert shown in SEQ ID NO:7. After 60 minutes on ice, the bacteria were diluted to 1 ml with LB medium and incubated for a further 60 minutes at 30° C. Aliquots of the culture were than plated on Amp-containing agar plates which were incubated at 30° C. for at least 24 hours. A colony was picked and inoculated into 5 ml of LB medium. After approximately 6 hours at 30° C., 1 ml of the growing culture, indicated by developing turbidity of the inoculum, was then transferred to a 1 liter flask for further overnight sub-culturing, using a temperature controlled shaker at 300 rpm. The main culture was initiated the following morning by inoculating each of 6 flasks containing 0.9 liter of LB and 50 mg ampicillin/liter with 100 ml of the overnight culture. The flasks were shaken at 350 rpm for 2 hours and the cultures were then induced by raising the temperature to 42° C. for 4 hours. The cells were harvested by centrifugation and typically stored frozen until used for purification.
B. Isolation of HCV Capsid Protein from Induced Cultures.
The cell paste from 6 liter cultures (approximately 30 g of frozen bacteria) was thawed and suspended in an equal volume of 0.2 M phosphate buffer, pH 7.0, containing 10 mM EDTA and 10 mM benzamidine. Lysozyme (1 mg/g cell paste) and PMSF (0.2 mg/g cell paste) were added and the suspension stirred for approximately 30 minutes at room temperature. During this period, the material became very viscous. The cells were then placed in an ice bath and subjected to 3 minutes of sonication on ice with intervening cooling periods of 1-2 minutes. Soluble materials were removed by centrifugation (Sorvall, SS-34 rotor, 20,000 rpm for 30 minutes) and the extraction procedure was repeated using 0.2 M phosphate buffer containing 10 mM EDTA and 10 mM benzamidine. The combined supernatants were discarded and the sediment suspended in 0.02 M Tris-HCl buffer, pH 8.6, containing 6 M urea. The suspension was subjected to a further cycle of sonication on ice (60 seconds) and the centrifugation was repeated. The supernatant was saved and the sediment re-extracted once, using urea-tris buffer of the same composition. The combined supernatants were treated with ammonium sulfate (0.3 g/ml of solution), kept at 4° C. for about 30 minutes and then centrifuged as described above. A large precipitate had formed which was dissolved in approximately 20 ml of 0.1 M phosphate buffer, pH 7.0, containing 5 mM EDTA and 6 M guanidine-HCl. The solubilized material was clarified by renewed centrifugation and then applied to a 5×105 cm column, containing Sepharose S-300 gel and equilibrated with the same buffer. Fractions (10 ml) were eluted and, following dialysis against 6 M urea of selected aliquots, analyzed by SDS gel electrophoresis. Based on the gel pattern, appropriate fractions were pooled and exhaustively dialyzed against 4 M urea containing 0.1 M sodium acetate buffer, pH 5.4. The dialyzed, clear solution was applied to a column (2.5×20 cm) of CM-Sepharose equilibrated with 4 M urea-0.1 M acetate buffer, pH 5.4. Following application of the sample and washing to remove non-bound constituents, the protein of interest was eluted with a salt gradient (250×250 ml, 0-0.4 M NaCl in the initial urea-containing acetate buffer) and monitored by analysis of selected fractions by 16% SDS PAGE. Fractions containing pure protein were pooled and stored at frozen at −20° C. FIG. 3 shows an analytical SDS gel of purified capsid protein after being subjected to the procedure described.

Example 6

Formation of a Fusion Protein Comprising GST and Amino Acids 21-40 of the HCV Capsid Protein

A. Construction of Plasmids Encoding GST-Capsid Fusion Proteins

(1) Construction of a Hybrid Gene in pGEX-2T-CAP-B
Oligonucleotides 21-40(+) and 21-40(−) for constructing the vector pGEX-2T-CAP-B for expressing the CAP-B fusion protein were prepared as described in Example 4.A.(2) having nucleotide base sequences corresponding to SEQ ID NO:24 and SEQ ID NO:25, respectively.
Oligonucleotides 21-40 (+) and 21-40 (−) were admixed in equal amounts with the pGEX-2T expression vector (Pharmacia) that had been predigested with EcoRI and BamHI and maintained under annealing conditions to allow hybridization of the complementary oligonucleotides and to allow the cohesive termini of the resulting double-stranded oligonucleotide product to hybridize with pGEX-2T at the EcoRI and BamHI cohesive termini. After ligation the resulting plasmid, designated pGEX-2T-CAP-B contains a single copy of the double-stranded oligonucleotide product and contains a structural gene coding for a fusion protein designated CAP-B, having an amino acid residue sequence shown in SEQ ID NO:18 from residue 1 to residue 252.
(2) Insertion of Hybrid Gene into pGEX7-CAP-B1 for High Level Expression
A PCR reaction was performed using the primer pair with nucleotide sequences given by SEQ ID NO:26 and SEQ ID NO:27 to amplify a 759 base pair fragment from plasmid pGEX-2T-CAP-B. The amplified fragment will contain a single NdeI and EcoRI site at the 5′ and 3′ ends, respectively.
The PCR product was cut with the NdeI and EcoRI. In a second digestion, the pGEX7 vector is separately digested with NdeI and EcoRI. Following isolation by preparative electrophoresis in 5% acrylamide of each DNA segment, a ligation mixture containing the isolated and restricted PCR reaction product and pGEX7 vector is formed, and incubated with T4 Ligase overnight at 16° C. The mixture is then transformed into competent cells. Colonies are selected for plasmid mini-preparations which were subsequently analyzed by redigestion with NdeI and EcoRI. The resulting nucleotide sequence is shown in SEQ ID NO:17.

B. Structure of the Expressed CAP-B1 Protein

The fusion protein expressed by pGEX7-CAP-B is comprised of an amino-terminal polypeptide portion corresponding to residues 1-220 of glutathione-S-transferase, an intermediate polypeptide portion corresponding to residues 221-226 and defining a cleavage site for Thrombin, and a polypeptide portion corresponding to residues 227-246 defining a portion of the HCV capsid antigen that has the amino acid residue sequence 21-40 in SEQ ID NO:10. CAP-B1 is identical to CAP-B except that it lacks the 6 amino acid residue tail following the residues that correspond to amino acids 21-40 of the HCV capsid.

Example 7

Formation of Recombinant Carrier Free HCV Non-structural Antigen 794

A. Construction of Plasmid Comprising Gene for 794 Antigen Joined to pGEX7
The gene for the nonstructural 794 antigen was prepared from clone 20 (Table 9 p. 109), the latter disclosed in PCT application PCT/US91/06037 and encompassing 105 amino acids codons of the NS3 region inserted into the SmaI site of the vector pUC18. The pUC18 vector containing the insert was redigested with SmaI and EcoRI and subsequently inserted into a similarly digested pGST-2T vector (GenBank Accession number XXU13850). This resulted in an expression vector producing a fusion protein with a contiguous GST-HCV NS3 fusion sequence, GST translation beginning at nucleotide 258 of the vector, the NS3 protein beginning at nucleotide 936. The NS3 gene was re-isolated from this vector by digesting with SmaI and EcoRI, which released a 330 base-pair fragment isolated by preparative electrophoresis.
The pGEX7 vector was modified as follows. A pair of complementary synthetic oligonucleotides with sequences given by SEQ ID NO:28 and SEQ ID NO:29, when annealed, form a duplex with protruding NdeI and BamHI cohesive ends. The duplex encodes 6 histidine residues as well as a SmaI and EcoRI restriction site, the latter followed by stop codons in all three reading frames. To insert the DNA segment into pGEX7, the vector was first digested with NdeI and BamHI and the intervening polylinker removed by electrophoresis. Ligation of the digested vector with the synthetic oligonucleotide was followed by transformation and analysis of several mini-preparations. The plasmids were screened for a SmaI restriction site which is present in the insert but not the parent vector. Of ten colonies screened, all showed the presence of the SmaI restriction site. A colony was picked and used for preparing a sufficient quantity of modified pGEX7 plasmid. The plasmid was then linearized by digesting with SmaI and EcoRI the vector fragment was separated from the small SmaI-EcoRI fragment. The digested modified pGEX7 vector was used for ligation with the gene for the nonstructural NS3 antigen.
Ligation of the digested modified pGEX7 vector and the SmaI-EcoRI fragment encompassing the gene for the NS3 antigen was carried out overnight in the presence of 400 U of T4 DNA ligase and 1 mM ATP. Transformation of the ligase mixture was followed by screening of mini-preparations which identified several clones that contained the inserted gene for the 794 antigen as indicated by electrophoresis in a 5% acrylamide gel. Several of these clones also expressed a protein of the expected molecular size in mini-inductions. One of the clones was selected for a 6 liter fermentation experiment. The fermentation/induction was carried as described in Example 5A.
B. Purification of 794 Antigen from Fermentation Broths
Frozen cell paste from induced cultures was thawed, suspended in buffer (0.2 M phosphate, 10 mM EDTA, 10 mM Benzamidine) and treated with lysozyme (1 mg/g cell paste) and PMSF (0.2 mg/g cell paste) followed by sonication as described in Example 5B. Following centrifugation, it was discovered that the protein of interest was directly soluble in the aqueous supernatant. Therefore, the sediment was discarded and the supernatant subjected to gel chromatography on a column (2.5×110 cm) of Sepharose S-300 eluted with 0.02 M Tris-HCl, pH 8.6, containing 0.2 M NaCl. Fractions were monitored with SDS PAGE and those containing the protein of interest pooled. The pooled material was subsequently applied in aliquots to a column (1×5 cm) of iminodiacetic acid derivatized Sepharose which had been previously charged with 50 mM nickel chloride and washed with 0.02 M Tris-HCl, 0.2 M NaCl. After absorption of the hexahistidine derivative of the NS3 794 antigen, it was eluted using successive elution steps with 0.03M Imidazole and 0.3 M Imidazole, respectively, in the above buffer. The protein emerged as a sharp peak with 0.3 M imidazole and was subsequently stored frozen at −20° C. An SDS PAGE analysis of the purified material is shown in FIG. 4.

Example 8

Immune Reactivity of HCV Recombinant Antigens Expressed in pGEX7 Vectors

Polystyrene wells (Nunc, Polysorp) were coated with mixtures of the HCV capsid polypeptide (SEQ ID NO:8) in concentrations ranging between 1 and 4 μg/ml and the HCV 794 NS3 antigen (SEQ ID NO:16) at 0.2-0.5 μg/ml. After blocking with 3% bovine serum albumin the plates were dried under vacuum and then used to analyze the immune reactivity against sera from individuals undergoing seroconversion and therefore known to develop antibody against HCV. The results are shown in FIGS. 6-8, each of which provide the signal to cut off values recorded for the assay using the source materials of the present invention and compared with the data from commercial immunoassays as supplied by the manufacturer of the conversion panels. These assays detected antibody at least as early, or earlier than the state-of-the art assays.
I. Diagnostic Systems and Methods
1. Diagnostic Systems
A diagnostic system in kit form includes, in an amount sufficient for at least one assay according to the methods described herein, a NANBV structural protein or fusion protein of the present invention, as a separately packaged reagent. Instructions for use of the packaged reagent are also typically included.
“Instructions for use” typically include a tangible expression describing the reagent concentration or at least one assay method parameter such as the relative amounts of reagent and sample to be admixed, maintenance time periods for reagent/sample admixtures, temperature, buffer conditions and the like.
In preferred embodiments, a diagnostic system of the present invention further includes a label or indicating means capable of signaling the formation of a complex containing a recombinant protein.
As used herein, the terms “label” and “indicating means” in their various grammatical forms refer to single atoms and molecules that are either directly or indirectly involved in the production of a detectable signal to indicate the presence of a complex. Any label or indicating means can be linked to or incorporated in an antibody or monoclonal antibody or used separately, and those atoms or molecules can be used alone or in conjunction with additional reagents. Such labels are themselves well-known in clinical diagnostic chemistry and constitute a part of this invention only insofar as they are utilized with otherwise novel proteins, methods and/or systems.
The label can be a fluorescent labeling agent that chemically binds to antibodies or antigens without denaturing them to form a fluorochrome (dye) that is a useful immunofluorescent tracer. Suitable fluorescent labeling agents are fluorochromes such as fluorescein isocyanate (FIC), fluorescein isothiocyanite (FITC), 5-dimethylamine-1-naphthalenesulfonyl chloride (DANSC), tetramethylrhodamine isothiocyanate (TRITC), lissamine, rhodamine 8200 sulphonyl chloride (RB 200 SC), a chelate-lanthanide bound (e.g., Eu, Tb, Sm) and the like. A description of immunofluorescence analysis techniques is found in DeLuca, “Immunofluorescence Analysis”, in Antibody As a Tool, Marchalonis, et al., eds., John Wiley & Sons, Ltd., pp. 189-231 (1982), which is incorporated herein by reference.
In preferred embodiments, the label is an enzyme, such as horseradish peroxidase. (HRP), glucose oxidase, alkaline phosphatase or the like. In such cases where the principal label is an enzyme such as HRP or glucose oxidase, additional reagents are required to visualize the fact that an antibody-antigen complex (immunoreactant) has formed. Such additional reagents for HRP include hydrogen peroxide and an oxidation dye precursor such as diaminobenzidine. An additional reagent useful with HRP is 2,2′-azino-di-(3-ethyl-benzthiazoline-6-sulfonic acid) (ABTS).
Radioactive elements are also useful labeling agents and are used illustratively herein. An exemplary radiolabeling agent is a radioactive element that produces gamma ray emissions. Elements which themselves emit gamma rays, such as ¹²⁴I, ¹²⁵I, ¹²⁸I, ¹³¹I and ⁵¹Cr represent one class of gamma ray emission-producing radioactive element indicating groups. Particularly preferred is ¹²⁵I. Another group of useful labeling means are those elements such as ¹¹C, ¹⁸F, ¹⁵O and ¹³N which themselves emit positrons. The positrons so emitted produce gamma rays upon encounters with electrons present in the animal's body. Also useful is a beta emitter, such as ¹¹¹indium, ³H, ³⁵S, ¹⁴C, or ³²P.
Additional labels have been described in the art and are suitable for use in the diagnostic systems of this invention. For example, the specific affinity found between pairs of molecules can be used, one as a label affixed to the specific binding agent and the other as a means to detect the presence of the label. Exemplary pairs are biotin:avidin, where biotin is the label; and peroxidase: anti-peroxidase (PAP), where peroxidase is the label.
The linking of labels, i.e., labeling of, polypeptides and proteins is well known in the art. For instance, antibody molecules produced by a hybridoma can be labeled by metabolic incorporation of radioisotope-containing amino acids provided as a component in the culture medium. See, for example, Galfre et al., Meth. Enzumol., 73:3-46 (1981). The techniques of protein conjugation or coupling through activated functional groups are particularly applicable. See, for example, Aurameas et al., Scand. J. Immunol., Vol. 8 Suppl. 7:7-23 (1978), Rodwell et al., Biotech., 3:889-894 (1984), and U.S. Pat. No. 4,493,795.
The diagnostic system can also include, preferably as a separate package, a specific binding agent. A “specific binding agent” is a molecular entity capable of selectively binding a reagent species, which in turn is capable of reacting with a product of the present invention but is not itself a protein expression product of the present invention. Exemplary specific binding agents are antibody molecules such as anti-human IgG or anti-human IgM, complement proteins or fragments thereof, protein A, and the like. Preferably the specific binding agent can bind the anti-NANBV antibody to be detected when the antibody is present as part of an immunocomplex.
In preferred embodiments the specific binding agent is labeled. However, when the diagnostic systems includes a specific binding agent that is not labeled, the agent is typically used as an amplifying means or reagent. In these embodiments, the labeled specific binding agent is capable of specifically binding the amplifying means when the amplifying means is bound to a reagent species-containing complex.
The diagnostic kits of the present invention can be used in an “ELISA” format to detect the presence or quantity of antibodies in a body fluid sample such as serum, plasma or saliva. “ELISA” refers to an enzyme-linked immunosorbent assay that employs an antibody or antigen bound to a solid phase and an enzyme-antigen or enzyme-antibody conjugate to detect and quantify the amount of an antigen or antibody present in a sample. A description of the ELISA technique is found in Chapter 22 of the 4th Edition of Basic and Clinical Immunology by D. P. Sites et al., published by Lange Medical Publications of Los Altos, Calif. in 1982 and in U.S. Pat. No. 3,654,090; No. 3,850,752; and No. 4,016,043, which are all incorporated herein by reference.
Thus, in preferred embodiments, the NANBV structural protein or fusion protein of the present invention can be affixed to a solid matrix to form a solid support that is separately packaged in the subject diagnostic systems.
The reagent is typically affixed to the solid matrix by adsorption from an aqueous medium although other modes of affixation, well known to those skilled in the art, can be used.
Useful solid matrices are well known in the art. Such materials include the cross-linked dextran available under the trademark SEPHADEX from Pharmacia Fine Chemicals (Piscataway, N.J.); agarose; beads of polystyrene about 1 micron to about 5 millimeters in diameter available from Abbott Laboratories of North Chicago, Ill.; polyvinyl chloride, polystyrene, cross-linked polyacrylamide, nitrocellulose- or nylon-based webs such as sheets, strips or paddles; or tubes, plates or the wells of a microtiter plate such as those made from polystyrene or polyvinylchloride.
The NANBV structural protein, fusion protein, labeled specific binding agent or amplifying reagent of any diagnostic system described herein can be provided in solution, as a liquid dispersion or as a substantially dry powder, e.g., in lyophilized form. Where the indicating means is an enzyme, the enzyme's substrate can also be provided in a separate package of a system. A solid support such as the before-described microtiter plate and one or more buffers can also be included as separately packaged elements in this diagnostic assay system.
The packages discussed herein in relation to diagnostic systems are those customarily utilized in diagnostic systems. Such packages include glass and plastic (e.g., polyethylene, polypropylene and polycarbonate) bottles, vials, plastic and plastic-foil laminated envelopes and the like.
2. Diagnostic Methods
The present invention contemplates any diagnostic method that results in detecting anti-NANBV structural protein antibodies or NANBV structural antigens in a body fluid sample using a NANBV structural protein, fusion protein or anti-NANBV structural antigen antibody of this invention as an immunochemical reagent to form an immunoreaction product whose amount relates, either directly or indirectly, to the amount of material to be detected in the sample. Those skilled in the art will understand that there are numerous well known clinical diagnostic chemistry procedures in which an immunochemical reagent of this invention can be used to form an immunoreaction product whose amount relates to the amount of specified antibody or antigen present in a body sample.
Various heterogenous and homogenous protocols, either competitive or noncompetitive, can be employed in performing an assay method of this invention. Thus, while exemplary methods are described herein, the invention is not so limited.
To detect the presence of anti-NANBV structural protein antibodies in a patient, a bodily fluid sample such as blood, plasma, serum, urine or saliva from the patient is contacted by admixture under biological assay conditions with a NANBV structural protein, and preferably with a fusion protein of the present invention, to form an immunoreaction admixture. The admixture is then maintained for a period of time sufficient to allow the formation of a NANBV structural protein-antibody molecule immunoreaction product (immunocomplex). The presence, and preferably the amount, of complex can then be detected as described herein. The presence of the complex is indicative of anti-NANBV antibodies in the sample.
In preferred embodiments the presence of the immunoreaction product formed between NANBV structural protein and a patient's antibodies is detected by using a specific binding reagent as discussed herein. For example, the immunoreaction product is first admixed with a labeled specific binding agent to form a labeling admixture. A labeled specific binding agent comprises a specific binding agent and a label as described herein. The labeling admixture is then maintained under conditions compatible with specific binding and for a time period sufficient for any immunoreaction product present to bind with the labeled specific binding agent and form a labeled product. The presence, and preferably amount, of labeled product formed is then detected to indicate the presence or amount of immunoreaction product.
In preferred embodiments the diagnostic methods of the present invention are practiced in a manner whereby the immunocomplex is formed and detected in a solid phase, as disclosed for the diagnostic systems herein.
Thus, in a preferred diagnostic method, the NANBV structural protein is affixed to a solid matrix to form the solid phase. It is further preferred that the specific binding agent is protein A, or an anti-human Ig, such as IgC or IgM, that can complex with the ant-NANBV structural protein antibodies immunocomplexed in the solid phase with the NANBV structural protein. Most preferred is the use of labeled specific binding agents where the label is a radioactive isotope, an enzyme, biotin or a fluorescence marker such as lanthanide as described for the diagnostic systems, or detailed by references shown below.
In this solid phase embodiment, it is particularly preferred to use a recombinant protein that contains the antigen defined by the amino acid residue sequence shown in SEQ ID NO: 73 from residue 1 to residue 74, as embodied in the fusion protein as described in Example 15.
In another preferred diagnostic method, the NANBV structural protein of the invention is affixed to solid matrix as described above, and dilutions of the biological sample are subjected to the immunocomplexing step by contacting dilutions of sample with the solid surface and removing non-bound materials. Due to the multivalence of antibodies present in biological samples from infected individuals (bivalent for IgC, pentavalent for IgM) subsequent addition of labeled NANBV structural protein of the invention to this admixture will become attached to the solid phase by the sample antibody serving as a bridge between the solid phase NANBV structural protein of the invention and the soluble, labeled NANBV structural protein. The presence of label in the solid phase indicates the presence and preferably the amount of specific antibody in the sample. One skilled in the art can determine a range of dilutions and determine therefrom a concentration of labeled antigen in the solid phase. The biological sample and the labeled NANBV structural protein of the invention can be admixed prior to, or simultaneously with contacting the biological sample with the solid phase allowing the trimolecular complex to form at the solid phase by utilizing the bridging property of bivalent or multivalent specific antibody. As a particularly useful label, biotinylated NANBV structural protein of the invention can be the labeled antigen, allowing the subsequent detection by addition of an enzyme-streptavidin, or an enzyme-avidin complex, followed by the appropriate substrate. Enzymes such as horse-radish peroxidase, alkaline phosphatase, β-galactosidase or urease are frequently used and these, and other, along with several appropriate substrates are commercially available. Preferred labels with a marker which allows direct detection of the formed complex include the use of a radioactive isotope, such as, e.g., iodine, or a lanthanide chelate such as Europium.
In another embodiment designed to detect the presence of a NANBV structural antigen in a body fluid sample from a patient, the sample, (e.g. blood, plasma, serum, urine or saliva) is contacted by admixture under biological assay conditions with an anti-NANBV structural protein antibody of this invention, to form an immunoreaction admixture. The admixture is then maintained for a period of time sufficient to allow the formation of a antigen-antibody immunoreaction product containing NANBV structural antigens complexed with an antibody of this invention. The presence and preferably amount, of complex can then be determined, thereby indicating the presence of antigen in the body fluid sample.
In a preferred embodiment, the antibody is present in a solid phase. Still further preferred, the amount of immunocomplex formed is measured by a competition immunoassay format where the antigen in a patient's body fluid sample competes with a labeled recombinant antigen of this invention for binding to the solid phase antibody. The method comprises admixing a body fluid sample with (1) solid support having affixed thereto an antibody according to this invention and (2) a labeled NANBV structural protein of this invention to form a competition immunoreaction admixture that has both a liquid phase and a solid phase. The admixture is then maintained for a time period sufficient to form a labeled NANBV structural protein-containing immunoreaction product in the solid phase. Thereafter, the amount of label present in the solid phase is determined, thereby indicating the amount of NANBV structural antigen in the body fluid sample.
Enzyme immunoassay techniques, whether direct or competition assays using homogenous or heterogenous assay formats, have been extensively described in the art. Exemplary techniques can be found in Maggio, Enzyme Immunoassay, CRC Press, Cleveland, Ohio (1981); and Tijssen, “Practice and Theory of Enzyme Immunoassays”, Elsevier, Amsterdam (1988).
Biological assay conditions are those that maintain the biological activity of the NANBV structural protein and the anti-NANBV structural protein antibodies in the immunoreaction admixture. Those conditions include a temperature range of about 4 C to about 45 C, preferably about 37 C, a pH value range of about 5 to about 9, preferably about 7, and an ionic strength varying from that of distilled water to that of about one molar sodium chloride, preferably about that of physiological saline. Methods for optimizing such conditions are well known in the art.
Also contemplated are the immunological assays capable of detecting the presence of immunoreaction product without the use of a label. Such methods employ a “detection means”, which means are themselves well-known in clinical diagnostic chemistry and constitute a part of this invention only insofar as they are utilized with otherwise novel polypeptides, methods and systems. Exemplary detection means include methods known as biosensors and include biosensing methods based on detecting changes in the reflectivity of a surface (surface plasmon resonance), changes in the absorption of an evanescent wave by optical fibers or changes in the propagation of surface acoustical waves.
Another embodiment contemplates detection of the immunoreaction product employing time resolved fluorometry (TR-FIA), where the label used is able to produce a signal detectable by TR-FIA. Typical labels suitable for TR-FIA are metal-complexing agents such as a lanthanide chelate formed by a lanthanide and an aromatic beta-diketone, the lanthanide being bound to the antigen or antibody via an EDTA-analog so that a fluorescent lanthanide complex is formed.
The principle of time-resolved fluorescence is described by Soini et al., Clin. Chem., 25:353-361 (1979), and has been extensively applied to immunoassay. See for example, Halonen et al., Current Topics in Microbiology and Immunology, 104:133-146 (1985); Suonpaa et al., Clinica Chimica Acta, 145:341-348 (1985); Lovgren et al., Talanta, 31:909-916 (1984); U.S. Pat. Nos. 4,374,120 and 4,569,790; and published International Patent Application Nos. EPO 139 675 and WO87/02708. A preferred lanthanide for use in TR-FIA is Europium.
Regents and systems for practicing the TR-FIA technology are available through commercial suppliers (Pharmacia Diagnostics, Upsala, Sweden).
Particularly preferred are the solid phase immunoassays described herein in Example 15, performed as a typical “Western Blot”.
The present diagnostic methods may be practiced in combination with other separate methods for detecting the appearance of anti-NANBV antibodies in specifies infected with NANBV. For example, a composition of this invention may be used together with commercially available C-100-3 antigen (Ortho Diagnostics, Inc., Raritan, N.J.) in assays to determine the presence of either or both antibody species immunoreactive with the two antigens.

Example 9

Production of Recombinant DNA Molecules

A. Isolation of NANBV Clones and Sequence Analysis
(1) Isolation of NANBV RNA and Preparation of cDNA
As a source for NANB virions, blood was collected from a chimpanzee infected with the Hutchinson (Hutch) strain exhibiting acute phase NANBH. Plasma was clarified by centrifugation and filtration. NANB virions were then isolated from the clarified plasma by immunoaffinity chromatography on a column of NANBV IgC (Hutch strain) coupled to protein G sepharose. NANBV RNA was eluted from the sepharose beads by soaking in guanidinium thiocyanate and the eluted RNA was then concentrated through a cesium chloride (CsCl) cushion. Maniatis et al., Molecular Cloning: A Laboratory Manual, Maniatis et al., eds. Cold Spring Harbor, N.Y. (1989).
The purified NANBV RNA was used as a template in a primer extension reaction admixture containing random and oligo dT primers, dNTP's, and reverse transcriptase to form first strand cDNAs. The resultant first strand cDNAs were used as templates for synthesis of second strand cDNAs in a reaction admixture containing DNA polymerase I and RNAse H to form double stranded (ds) cDNAs (Maniatis et al., Supra). The synthesized ds cDNAs were amplified using an asymmetric synthetic primer-adaptor system wherein sense and anti-sense primers were annealed to each other and ligated to the ends of double stranded NANBV cDNAs with T4 ligase under blunt-end conditions to form cDNA-adaptor molecules. Polymerase chain reaction (PCR) amplification was performed by admixing the cDNA-adaptor molecules with the same positive sense adaptor primers, dNTP's and TAQ polymerase to prepare amplified NANBV cDNAs. The resultant amplified NANBV cDNA sequences were then used as templates for subsequent amplification in a PCR reaction with specific NANBV oligonucleotide primers.
(2) Synthesis of Oligonucleotides For Use in NANBV Cloning
Oligonucleotides were selected to correspond to the 5′ sequence of Hepatitis C which putatively encodes the NANBV structural capsid and envelope proteins (HCJ1 sequence: Okamoto et al., Jap. J. Exp. Med., 60:167-177, 1990). The selected oligonucleotides were synthesized on a Pharmacia Gene Assembler according to the manufacturer's instruction, purified by polyacrylamide gel electrophoresis and have nucleotide base sequences SEQ ID NOS. beginning with 32 and ending with 40 as shown in Table 1.

TABLE 1

Synthetic Oligonucleotides

Oligo-			SEQ
nucleotide	Putative NANBV	Oligonucleotide	ID
Designation^a	Region	Sequence	NO:

690 (+)	Capsid 1-21	ATGAGCACGATTCCCAAACCT	32

693 (+)	Capsid 146-162	GAGGAAGACTTCCGAGC	33

694 (−)	Capsid 208-224	GTCCTGCCCTCGGGCCG	34

691 (−)	Capsid 340-360	ACCCAAATTGCGCGACCTACG	35

14 (+)	Envelope 356-374	TGGGTAAGGTCATCGATAC	36

15 (+)	Envelope 361-377	AAGGTCATCGATACCCT	37

18 (−)	Envelope 512-529	AGATAGAGAAAGAGCAAC	38

16 (−)	Envelope 960-981	GGACCAGTTCATCATCATATAT	39

17 (−)	Envelone 957-976	CAGTTCATCATCATATCCCA	40

^aThe oligonucleotides are numerically defined and their polarity is indicated as (+) and (−) for sense and anti-sense, respectively.

(3) PCR Amplification of NANBV cDNA
PCR amplification was performed by admixing the primer-adapted amplified cDNA sequences prepared in Example 9.A.(1) with the synthetic oligonucleotides 690 and 694 as primer (primer pairs 690:694). As noted above, 690 contains nucleotides 16-36 of SEQ ID NO: 9 and 694 contains nucleotides 162-178 of SEQ ID NO: 9. The resulting PCR reaction admixture contained the primer-adapted amplified cDNA template, oligonucleotides 690 and 694, dNTP's, salts (KCl and MgCl₂) and TAQ polymerase. PCR amplification of the cDNA was conducted by maintaining the admixture at a 37 C annealing temperature for 30 cycles. Aliquots of samples from the first round of amplification were reamplified at a 55 C annealing temperature for 30 cycles under similar conditions.
(4) Preparation of Vectors Containing PCR Amplified ds DNA
Aliquots from the second round of PCR amplification were subjected to electrophoresis on a 5% acrylamide gel. After separation of the PCR reaction products, the region of the gel containing DNA fragments corresponding to the expected 690:694 amplified product of approximately 224 bp was excised and purified following standard electroelution techniques (Maniatis et al., Supra). The purified fragments were kinased and cloned into the pUC 18 plasmid cloning vector at the Sma I polylinker site to form a plasmid containing the DNA segment 690:694 operatively linked to pUC 18.
The resulting mixture containing pUC 18 and a DNA segment corresponding to the 690:694 sequence region was then transformed into the E. coli strain JM83. Plasmids containing inserts were identified as lac-(white) colonies on Xgal medium containing ampicillin. pUC 18 plasmids which contained the 690:694 DNA segment were identified by restriction enzyme analysis and subsequent electrophoresis on agarose gels, and were designated pUC 18 690:694 rDNA molecules.
(5) Sequencing of Hepatitis Clones that Encode the Putative Capsid Protein
Two independent colonies believed to contain a pUC 18 vector having the NANBV Hutch strain 690:694 DNA segment (pUC 18 690:694) that codes for the amino terminus of the putative capsid protein were amplified and used to prepare plasmid DNA by CsCl density gradient centrifugation by standard procedures (Maniatis et al., Supra). The plasmids were sequenced using ³⁵S dideoxy procedures with pUC 18 specific primers. The two plasmids were independently sequenced on both DNA strands to assure the accuracy of the sequence. The resulting sequence information is presented as nucleotides 1-224 of SEQ ID NO: 30.
Plasmid pUC 18 690:694 contains a NANBV DNA segment that is 224 bp in length and when compared to the HCJ1 prototype sequence reveals two nucleotide substitutions and one amino acid residue difference in the amino terminal region of the putative capsid protein.
(6) Preparation of NANBV Clones from the 5′ End of the Genome
To obtain the sequence of the NANBV Hutch genome encoding the remainder of the capsid region (Okamoto et al., Supra), the oligonucleotides 693 and 691 SEQ ID NO: 33 and SEQ ID NO: 35 (described in Table 1) were used in PCR reactions. cDNA was prepared as described in Example 9.A.(1) to viral NANBV RNA from (Hutch) and used in PCR amplification as described in Example 9.A.(3) with the oligonucleotide pair 693:691. The resultant PCR amplified ds DNA was then cloned into pUC 18 cloning vectors and screened for inserts as described in Example 9.A.(4) to form pUC 18 693:691. Clones were then sequenced with pUC 18 specific primers as described in Example 9.A.(5).
Plasmid pUC 18 693:691 contains a NANBV DNA segment that is 157 bp in length and spans nucleotides 203-360 (SEQ ID NO: 30). The clone is not complete to the 693 primer used for generating the fragment. The sequence of this fragment reveals three nucleotide differences when compared to the known sequence of HCJ1 and does not have any corresponding amino acid changes to the HCJ1 sequence.
To obtain the sequence of the NANBV Hutch genome encoding the putative envelope region (Okamoto et al., Supra), the oligonucleotide primers 14 (SEQ ID NO: 36) through 18 (SEQ ID NO: 38) (described in Table 1) were used in various combinations with NANBV Hutch RNA samples. As a source of NANBV RNA, a liver biopsy specimen from a chimpanzee inoculated with the Hutch strain at 4 weeks post-inoculation and exhibiting acute infection was used. The biopsied sample was first frozen and then ground. The resultant powder was then subjected to treatment with guanidine isothiocyanate for the extraction of RNA. RNA was extracted from the guanidium treated liver samples with phenol in the presence of SDS at 65 C. The liver samples were extracted a second time, and subjected to extraction with chloroform. The extracted RNA was precipitated at −20 C with isopropanol and sodium acetate.
The purified liver-derived RNA was used as a template in primer extension reactions with the oligonucleotides 18 (SEQ ID NO: 38) and 16 (SEQ ID NO: 39) to generate NANBV specific-cDNAs. To prepare cDNA to the Hutch strain amino-terminal protein coding sequences, anti-sense oligonucleotides, 18 (SEQ ID NO: 38) and 16 (SEQ ID NO: 39), were annealed to liver-derived Hutch RNA in the presence of dNTPs and reverse transcriptase at 42 C to form primer extension products. The first round of PCR amplification of the two cDNAs was performed by admixing the primer extension reaction products with separate pairs of oligonucleotides 14:16 (SEQ ID NO: 36:SEQ ID NO: 39) (16 primed DNA) and 14:18 (SEQ ID NO: 36:SEQ ID NO: 38) (18 primed cDNA) for 30 cycles at 55 C annealing temperature. The PCR reactions were performed on the above admixture as in 9.A.(3). Aliquots from the 14:16 (SEQ ID NO: 36:SEQ ID NO: 39) and 14:18 (SEQ ID NO: 36:SEQ ID NO: 38) amplifications were used as templates for the second round of amplification in which the oligonucleotide pairs 15:17 (SEQ ID NO: 37:SEQ ID NO: 40) and 15:18 (SEQ ID NO: 37:SEQ ID NO: 38), respectively, were used as primers.
PCR reaction products from each of the primer pair reactions were analyzed by electrophoresis on low melt agarose gels. Following separation, the regions of the gel containing DNA fragments corresponding to the expected 15:17 (SEQ ID NO: 37:SEQ ID NO: 40) and 15:18 (SEQ ID NO: 37:SEQ ID NO: 38) amplified products of approximately 617 bp and 168 bp, respectively, were excised and eluted from the gel slices at 65 C. The resultant eluted fragments were purified by phenol and chloroform extractions. To clone the 15:17 (SEQ ID NO: 37:SEQ ID NO: 40) and 15:18 (SEQ ID NO: 37:SEQ ID NO: 38) fragments, the purified fragments were separately treated with the Klenow fragment of DNA polymerase and kinase for subsequent subcloning into the Sma I site of the pBluescript plasmid vector (Stratagene Cloning Systems, La Jolla, Calif.). Transformed E. coli DH5 colonies were analyzed for plasmid insert by restriction enzyme analysis as described in Example 9.A.(4).
pBluescript plasmid containing 15:17 (SEQ ID NO: 37:SEQ ID NO: 40) or 15:18 (SEQ ID NO: 37:SEQ ID NO: 38) DNA segments were purified using large scale CsCl plasmid preparation protocols. The DNA segments present in the amplified and purified plasmids were each sequenced as described in Example 9.A.(5).
The sequence of the 15:17 DNA (SEQ ID NO: 37:SEQ ID NO: 40) segment is shown in SEQ ID NO: 30 from nucleotide 361 to 978. The sequence of the 15:18 (SEQ ID NO: 37:SEQ ID NO: 38) DNA segment is also presented in SEQ ID NO: 30 from nucleotide 361 to 529. These two clones overlap by 168 bp of the 15:18 (SEQ ID NO: 37:SEQ ID NO: 38) DNA segment.
The sequence results indicate that the 15:17 (SEQ ID NO: 37:SEQ ID NO: 40) DNA segment differs by 30 nucleotides when compared to the HCJ1 sequence (Okamoto et al., Supra) and also differs by ten amino acid residues. The 15:18 (SEQ ID NO: 37:SEQ ID NO: 38) DNA segment differs by seven nucleotides and by three amino acid residues when compared to HCJ1. In the overlap region, the two DNA segments differ at two nucleotide bases, namely, bases 510 and 511, where DNA segment 15:18 (SEQ ID NO: 37:SEQ ID NO: 38) contains a T in place of a C and a G in place of an A, respectively, which results in a change of a serine in place of a glycine amino acid residue, at residue 171 of SEQ ID NO:73. The reason for these differences is unknown and may be due to a PCR artifact.
B. Production of Recombinant DNA (rDNA) that Encodes a Fusion Protein
(1) Isolation of the 690:694 Fragment from the pUC 18 Clone and Introduction of the Fragment into the pGEX-3X Expression Vector
The pUC 18 vector containing the 690:694 DNA segment was subjected to restriction enzyme digestion with Eco RI and Bam HI to release the DNA segment having a sequence shown in SEQ ID NO:30 from base 1 to base 224 from the pUC 18 vector. The released DNA segment was subjected to acrylamide electrophoresis and a DNA segment containing the 224 bp NANBV insert plus portions of the pUC 18 polylinker was then excised and eluted from the gel as described in Example 9.A.(4). The DNA segment was extracted with a mixture of phenol and chloroform, and precipitated.
The precipitated DNA segment was resuspended to a concentration of 25 ug/ml in water and treated with the Klenow fragment of DNA polymerase to fill in the staggered ends created by the restriction digestion. The resultant blunt-ended 690:694 segment was admixed with the bacterial expression vector, pGEX-3X. (Pharmacia Inc, Piscataway, N.J.) which was linearized with the blunt end restriction enzyme Sma I. The admixed DNAs were then ligated by maintaining the admixture overnight at 16 C in the presence of ligase buffer and 5 units of T4 DNA ligase to form a plasmid of 690:694 DNA segment operatively linked to PGEX-3X.
(2) Selection and Verification of Correct Orientation of Ligated Insert
The ligation mixture containing the pGEX-3X and the 690:694 DNA segment was transformed into host E. coli strain W3110. Plasmids containing inserts were identified by selection of host bacteria containing vector in Luria broth (LB) media containing ampicillin. Bacterial cultures at stationary phase were subjected to alkaline lysis protocols to form a crude DNA preparation. The DNA was digested with the restriction enzyme Xho I. The single Xho I site, which cleaves within the 690:694 DNA segment between nucleotide position 173-178 (SEQ ID NO:30), but not within the pGEX-3X vector, was used to screen for vector containing the 690:694 DNA segment.
Several 690:694 DNA segment-containing vectors were amplified and the resultant amplified vector DNA was purified by CsCl density gradient centrifugation. The DNA was sequenced across the inserted DNA segment ligation junctions by ³⁵S dideoxy methods with a primer which hybridized to the pGEX-3X sequence at nucleotide positions 614 to 633 shown in SEQ ID NO: 31. Vectors containing 690:694 DNA segment having the correct coding sequence for in-frame translation of a NANBV structural protein were thus identified and selected to form pGEX-3X-690:694.
(3) Structure of the Fusion Protein
The pGEX-3X vector is constructed to allow for inserts to be placed at the C terminus of Sj26, a 26-kDa glutathione S-transferase (GST; EC 2.5.1.18) encoded by the parasitic helminth Schistosoma japonicum. The insertion of the 690:694 NANBV fragment in-frame behind Sj26 allows for the synthesis of the Sj26-NANBV fusion polypeptide. The NANBV polypeptide can be cleaved from the GST carrier by digestion with the site-specific protease factor Xa (Smith et al., Gene, 67:31-40, 1988).
The nucleotide and predicted amino acid sequence of the pGEX-3X-690:694 fusion transcript from the GST sequence through the 690:694 insert is presented in SEQ ID NO: 73 and SEQ ID NO: 74, respectively. The resulting rDNA molecule, pGEX-3X-690:694, is predicted to encode a NANBV fusion protein having the amino acid residue sequence shown in SEQ ID NO: 74 from amino acid residue 1 to residue 315. The resulting protein product generated from the expression of the plasmid is referred to as the NANBV capsid protein amino terminus (CAP-N).
C. Production of Recombinant DNAs (rDNAs) that Encode NANBV Capsid and Envelope Fusion Proteins
pGEX-3X-693:691: Plasmid pGEX-3X-693:691 was formed by first subjecting the plasmid pUC 18 693:691 prepared in Example 9.A.(6) to restriction enzyme digestion with Eco RI and Bam HI as performed in Example 9.B.(1). The resultant released DNA segment having a sequence shown in SEQ ID NO: 30 from base 205 to base 360 was purified as performed in Example 9.B.(1). The purified DNA segment was admixed with and ligated to the pGEX-3X vector which was linearized by restriction enzyme digestion with Eco RI and Bam HI in the presence of T₄ligase at 16 C to form the plasmid pGEX-3X-693:691.
A pGEX-3X plasmid containing a 693:691 DNA segment was identified by selection Example 9.B.(2) with the exception that crude DNA preparations were digested with Eco RI and Bam HI to release the 693:691 insert. A pGEX-3X vector containing a 693:691 DNA segment having the correct coding sequence for in-frame translation of a NANBV structural protein was identified by sequence analysis as performed in Example 9.B.(2) and selected to form pGEX-3X-693:691.
The resulting vector encodes a fusion protein (GST:NANBV 693:691) that is comprised of an amino-terminal polypeptide portion corresponding to residues 1-221 of GST as shown in SEQ ID NO: 74, an intermediate polypeptide portion corresponding to residues 222-225 and defining a cleavage site for the protease Factor Xa, a linker protein corresponding to residues 226-230 consisting of the amino acid residue sequence (SEQ ID NO: 41):
Gly Ile Pro Asn Ser

encoded by the nucleotide base sequence (SEQ ID NO: 42):
GGG ATC CCC AAT TCA, respectively;

a carboxy-terminal polypeptide portion corresponding to residues 231-282 defining a NANBV capsid antigen as shown by the amino acid residue sequence 69-120 in SEQ ID NO:73, and a carboxy-terminal portion corresponding to residues 283-287 consisting of the amino acid residue sequence (SEQ ID NO: 43):
Asn Ser Ser END.

encoded by the nucleotide base sequence (SEQ ID NO: 44):
AAT TCA TCG TGA, respectively.
pGEX-3X-15:18: Plasmid pGEX-3X-15:18 was formed by first subjecting the plasmid Bluescript 15:18 prepared in Example 9.A.(6) to restriction enzyme digestion with Eco RV and Bam HI and the Bam HI cohesive termini were filled in as performed in Example 9.B.(1). The resultant released DNA segment having a sequence shown in SEQ ID NO: 30 from base 361 to base 528 was purified as performed in Example 9.B.(1). The purified DNA segment was admixed with and ligated to the pGEX-3X vector which was linearized by restriction enzyme digestion with Sma I as performed in 9.B.(1) to form the plasmid pGEX-3X-15:18.
A pGEX-3X plasmid containing a 15:18 DNA segment was identified by selection as performed in Example 9.B.(2) and crude DNA preparations were cut with Eco RI and Bam HI to release the 15:18 inserts. A pGEX-3X vector containing a 15:18 DNA segment having the correct coding sequence for in-frame translation of a NANBV structural protein was identified as performed in Example 9.B.(2) and selected to form pGEX-3X-15:18.
The resulting vector encodes a fusion protein (GST:NANBV 15:18) that is comprised of an amino-terminal polypeptide portion corresponding to residues 1-221 of GST, an intermediate polypeptide portion corresponding to residues 222-225 and defining a cleavage site for the protease Factor Xa, a linker protein corresponding to residues 226-234 consisting of the amino acid residue sequence (SEQ ID NO: 45):
Gly Ile Pro Ile Glu Phe Leu Gln Pro,

encoded by the nucleotide base sequence (SEQ ID NO: 46):
GGG ATC CCC ATC GAA TTC CTG GAG CCC,

respectively; a carboxy-terminal polypeptide portion corresponding to residues 235-290 defining a NANBV envelope antigen as shown by the amino acid residue sequence 121-176 in SEQ ID NO: 73, and a carboxy-terminal linker portion corresponding to residues 291-298 consisting of a amino acid residue sequence (SEQ ID NO: 47):
Trp Gly Ile Gly Asn Ser Ser END

encoded by the nucleotide base sequence (SEQ ID NO: 48):
TGG GGG ATC GGG AAT TCA TCG TGA,

respectively.
pGEX-3X-15:17: Plasmid pGEX-3X-15:17 was formed by first subjecting the plasmid Bluescript 15:17 prepared in Example 9.A.(6) to restriction enzyme digestion with Eco RI and Bam HI and the cohesive termini were filled in as performed in Example 9.B.(1). The resultant released DNA segment having a sequence shown in SEQ ID NO: 30 from base 361 to base 978 was purified as performed in Example 9.B.(1). The purified DNA segment was admixed with and ligated to the pGEX-3X vector which was linearized by restriction enzyme digestion with Sma I as performed in Example 9.B.(1) to form the plasmid pGEX-3X-15:17.
A pGEX-3X plasmid containing a 15:17 DNA segment was identified by selection as performed in Example 9.B.(2) and DNA preparations were digested with Eco RI and Bam HI as indicated above. pGEX-3X vector containing a 15:17 DNA segment having the correct coding sequence for in-frame translation of a NANBV structural protein was identified as performed in Example 9.B.(2) and selected to form pGEX-3X-15:17.
The resulting vector encodes a fusion protein (GST:NANBV 15:17) that is comprised of an amino-terminal polypeptide portion corresponding to residues 1-221 of GST, an intermediate polypeptide portion corresponding to residues 222-225 and defining a cleavage site for the protease Factor Xa, a linker protein corresponding to residues 226-233 consisting of the amino acid residue sequence (SEQ ID NO: 49):
Gly Ile Pro Asn Leu Arg Ser Pro

encoded by the nucleotide base sequence (SEQ ID NO: 50):
GGG ATC CCC AAT TCC TGC AGC CCT,

respectively; a carboxy-terminal polypeptide portion corresponding to residues 234-439 defining a NANBV envelope antigen as shown by the amino acid residue sequence 121-326 in SEQ ID NO: 73, and a carboxy-terminal linker portion corresponding to residues 440-446 consisting of the amino acid residue sequence (SEQ ID NO: 51):
Gly Ile Gly Asn Ser Ser END

encoded by the nucleotide base sequence (SEQ ID NO: 52):
GGG ATC GGG AAT TCA TCG TGA, respectively.
pGEX-2T-15:17: Plasmid pGEX-2T-15:17 was formed by first subjecting the plasmid Bluescript 15:17 prepared in Example 9.A.(6) to restriction enzyme digestion with Eco RV and Bam HI and the Bam HI cohesive termini were filled in as performed in Example 9.B.(1). The resultant released DNA segment having a sequence shown in SEQ ID NO: 30 from base 361 to base 978 was purified as performed in Example 9.B.(1). The purified DNA segment was admixed with and ligated to the pGEX-2T vector (Pharmacia, INC.) which was linearized by restriction enzyme digestion with Sma I as performed in Example 9.B.(1) to form the plasmid pGEX-2T-15:17.
A pGEX-2T plasmid containing a 15:17 DNA segment was identified by selection as performed in Example 9.B.(2) and by digestion of crude DNA preparations with Eco RI and Bam HI. A pGEX-2T vector containing a 15:17 DNA segment having the correct coding sequence for in-frame translation of a NANBV structural protein was identified as performed in Example 9.B.(2) and selected to form pGEX-2T-15:17.
The resulting vector encodes a fusion protein (GST:NANBV 15:17) that is comprised of an amino-terminal polypeptide portion corresponding to residues 1-221 of GST, an intermediate polypeptide portion corresponding to residues 222-226 and defining a cleavage site for the protease Thrombin consisting of the amino acid residue sequence (SEQ ID NO: 53):
Val Pro Arg Gly Ser
encoded by the nucleotide base sequence (SEQ ID NO: 54):
GTT CCG CGT GGA TCC, respectively;

a linker protein corresponding to residues 227-233 consisting of an amino acid residue sequence (SEQ ID NO: 55):
Pro Ser Asn Leu Arg Ser Pro

encoded by a nucleotide base sequence (SEQ ID NO: 56):
CCA TCG AAT TCC TGC AGC CCT,

respectively; a carboxy-terminal polypeptide portion corresponding to residues 234-439 defining a NANBV envelope antigen, and a carboxy-terminal linker portion corresponding to residues 440-446 consisting of the amino acid residue sequence (SEQ ID NO: 57):
Gly Ile His Arg Asp END

encoded by the nucleotide base sequence (SEQ ID NO:58):
GGA ATT CAT CGT GAC TGA, respectively.
pGEX-3X-690:691: To obtain a DNA segment corresponding to the NANBV Hutch sequence shown from SEQ ID NO: 30 from base 1 to base 360, the oligonucleotides 690:691 are used in PCR reactions as performed in Example 9.A.(6). The resultant PCR amplified ds DNA is then cloned into pUC18 cloning vectors as described in Example 9A.(4) to form pUC 18 690:691. Clones are then sequenced with pUC 18 primers as described in Example 9.A.(5) to identify a plasmid containing the complete sequence. The resulting identified plasmid is selected, is designated pUC 18 690:691, and contains a NANBV DNA segment that is 360 bp in length and spans nucleotides 1-360 (SEQ ID NO: 30).
Plasmid pGEX-3X-690:691 is formed by first subjecting the plasmid pUC 18 690:691 to restriction enzyme digestion with Eco RI and Bam HI as performed in Example 9.B.(1). The resultant released DNA segment having a sequence shown in SEQ ID NO: 30 from base 1 to base 360 with pUC 18 polylinker sequence is purified as performed in Example 9.B.(1). The purified DNA segment is admixed with and ligated to the pGEX-3X vector which is linearized by restriction enzyme digestion with Sma I as performed in Example 9.B.(1) to form the plasmid pGEX-3X-690:691.
A pGEX-3X plasmid containing a 690:691 DNA segment is identified by selection as performed in Example 9.B.(2). pGEX-3X vector containing a 690:691 DNA segment having the correct coding sequence for in-frame translation of a NANBV structural protein is identified as performed in Example 9.B.(2) and selected to form pGEX-3X-690:691.
The resulting vector encodes a fusion protein (GST:NANBV 690:691) that is comprised of an amin-terminal polypeptide portion corresponding to residues 1-221 of GST, an intermediate polypeptide portion corresponding to residues 222-225 and defining a cleavage site for the protease Factor Xa, a linker protein corresponding to residues 226-234 consisting of the amino acid residue sequence (SEQ ID NO: 59):
Gly Ile Pro Asn Ser Ser Ser Val Pro

encoded by the nucleotide base sequence (SEQ ID NO: 60):
GGG ATC CCC AAT TCG AGC TCG GTA CCC

respectively; a carboxy-terminal polypeptide portion corresponding to residues 235-355 defining a NANBV capsid antigen, and a carboxy-terminal linker portion corresponding to residues 356-363 consisting of the amino acid residue sequence (SEQ ID NO: 61):
Thr Gly Ile Gly Asn Ser Ser END

encoded by the nucleotide base sequence (SEQ ID NO: 62):
ACG GGG ATC GGG AAT TCA TCG TGA,

respectively.

Example 10

Expression of the NANBV 690:694 Fusion Protein Using rDNA

The bacterial colonies which contain the pGEX-3X-690:694 plasmid in the correct orientation were selected examine the properties of the fusion protein. Bacterial cultures of pGEX-3X-690:694 were grown to a stationary phase in the presence of ampicillin (50 ug/ml final concentration) at 37 C. This culture was inoculated at a 1:50 dilution into fresh LB medium at 37 C in the presence of ampillicin and maintained at 37 C. with agitation at 250 rpm until the bacteria reached an optical density of 0.5 when measured using a spectrometer with a 550 nm wavelength light source detector. Isopropylthio-beta-D-galactoside (IPTG) was then admixed to the bacterial culture at a final concentration of 1 mM to initiate (induce) the synthesis of the fusion proteins under the control of the tac promoter in the pGEX-3X vector.
Beginning at zero time and at one hour intervals thereafter for three hours following admixture with IPTG (i.e., the induction phase), the bacterial culture was maintained as above to allow expression of recombinant protein. During this maintenance phase, the optical density of the bacterial culture was measured and 1 ml aliquots were removed for centrifugation. Each resultant cell pellet containing crude protein lysate was resuspended in Laemmli dye mix containing 1% beta-mercaptoethanol at a final volume of 50 microliters (ul) for each 0.5 OD 550 unit. Samples were boiled for 15 minutes and 10 ul of each sample was electrophoresed on a 10% SDS-PAGE Laemmli gel.

Example 11

Detection of Expressed Fusion Proteins

To visualize the IPTG-induced fusion proteins, the Laemmli gels were stained with Coomassie Blue and destained in acetic acid and methanol. Induced proteins from separate clones were examined and compared on the basis of the increase of a protein band in the predicted size range from time zero to time three hours post-IPTG treatment. Expression of fusion protein was observed in clones that exhibited an increase from zero time of the intensity of a protein band corresponding to the fusion protein.

Example 12

Western Blot Analysis

Samples from IPTG inductions were separated by gel electrophoresis and were transferred onto nitrocellulose for subsequent immunoblotting analysis. The nitrocellulose filter was admixed with antibody blocking buffer (20 mM sodium phosphate, pH 7.5, 0.5 M sodium chloride, 1% bovine serum albumin, and 0.05% Tween 40) for 3 to 12 hours at room temperature. Sera from humans or chimpanzees with NANB hepatitis believed to contain antibody immunoreactive with NANBV structural protein was diluted 1:500 in the antibody blocking buffer and admixed with the nitrocellulose and maintained for 12 hours at room temperature to allow the formation of an immunoreaction product on the solid phase. The nitrocellulose was then washed three times in excess volumes of antibody blocking buffer. The washes were followed by admixture of the nitrocellulose with 50 ul of ¹²⁵I protein A (New England Nuclear, Boston, Mass.) at a 1:500 dilution in antibody blocking buffer for one hour at room temperature to allow the labeled protein A to bind to any immunoreaction product present in the solid phase on the nitrocellulose. The nitrocellulose was then washed as described herein, dried and exposed to X-ray film for one to three hours at −70 C in order to visualize the label and therefore any immunoreaction product on nitrocellulose. Results of the Western blot immunoassay are shown in Tables 2 through 6. Samples prepared using pGEX-3X vector that produces control GST were also prepared as above and tested using the Western blot procedure as a control. No expressed protein (GST) was detectable having immunoreactivity with the sera shown to immunoreact with a fusion protein of this invention (GST:NANBV 690:694 fusion protein).

Example 13

Purification of the Expressed GST:NANBV 690:694 Fusion Protein

Cultures of E. coli strain W3110 transformed with recombinant pGEX-3×690:694 plasmids prepared in Example 10 were cultured for 3 hours following IPTG induction treatment. The cells were then centrifuged to form a bacterial cell pellet, the cells were resuspended in 1/200 culture volume in lysis buffer (MTPBS: 150 mM NaCl, 16 mM Na₂HPO₄, 4 mM NaH₂PO₄, pH 7.3), and the cell suspension was lysed with a French pressure cell. Triton X-100 was admixed to the cell lysate to produce a final concentration of 1%. The admixture was centrifuged at 50,000×g for 30 minutes at 4 C. The resultant supernatant was collected and admixed with 2 ml of 50% (w/v) glutathione agarose beads (Sigma, St. Louis, Mo.) preswollen in MTPBS. After maintaining the admixture for 5 minutes at 25 degrees C. to allow specific affinity binding between GST and glutathione in the solid phase, the beads were collected by centrifugation at 1000×g and washed in MTPBS three times.
The GST:NANBV 690:694 fusion protein was eluted from the washed glutathione beads by admixture and incubation of the glutathione beads with 2 ml of 50 mM Tris HCl, pH 8.0, containing 5 mM reduced glutathione for 2 minutes at 25 degrees C. to form purified GST:NANBV 690:694 fusion protein.
The above affinity purification procedure produced greater than 95% pure fusion protein as determined by SDS PAGE. That is, the purified protein was essentially free of procaryotic antigen and non-structural NANBV antigens as defined herein.
Alternatively, GST:NANBV 690:694 fusion protein was purified by anion exchange chromatography. Cultures were prepared as described above and cell pellets were resuspended in 8M guanidine and maintained overnight at 4 C to solubulize the fusion protein. The cell suspension was then applied to an S-300 sepharose chromatography column and peak fractions containing the GST:NANBV 690:694 fusion protein were collected, pooled, dialyzed in 4 M urea and subjected to anion exchange chromatography to form purified fusion protein.

Example 14

Protease Cleavage of Purified GST:NANBV 690:694 Fusion Protein

Purified GST:NANBV 690:694 fusion protein prepared in Example 13 is subjected to treatment with activated Factor (Xa) (Sigma) to cleave the GST carrier from the NANBV 690:694 fusion protein (Smith et al., Supra). Seven ug of Factor X are activated prior to admixture with purified fusion proteins by admixture and maintenance with 75 nanograms (ng) activation enzyme, 8 mM Tris Hcl (pH 8.0), 70 mM NaCl and 8 mM CaCl2 at 37 C for 5 minutes. Fifty ug of purified fusion protein are then admixed with 500 ng activated human factor Xa in the elution buffer described in Example 13 containing 50 mM Tris Hcl, 5 mM reduced glutathione, 100 mM NaCl, and 1 mM CaCl2, and maintained at 25 C for 30 minutes. The resulting cleavage reaction products are then absorbed on glutathione-agarose beads prepared in Example 13 to affinity bind and separate free GST from any cleaved NANBV structural antigen-containing protein. Thereafter the liquid phase is collected to form a solution containing purified NANBV structural protein having an amino acid residue sequence shown in SEQ ID NO: 74 from residue 226 to residue 315.

Example 15

Immunological Detection of Anti-NANBV Structural Protein Antibodies

NANBV Hutch strain virus was injected in chimpanzees and blood samples were collected at various intervals to analyze the immunological response to NANBV by five different diagnostic assays. Chimpanzees were categorized as either being in the acute or chronic phase of infection. The assays utilized in the evaluation of the immune response include: 1) Alanine aminotransferase (ALT) enzyme detection (Alter et al., JAMA, 246:630-634, 1981; Aach et al., N. Engl. J. Med., 304:989-994, 1981); 2)
Histological evaluation for NANBV virions by electron microscopy (EM); 3) Detection of anti-HCV antibodies using the commercially available kit containing C-100-3 antigen (Ortho Diagnostics, Inc.); 4) Detection of anti-CAP-N antibodies by immunoblot analysis as described in Example 12; and 5) Detection of virus by PCR amplification as described in Example 9.
In Table 2, results are presented from ALT, EM, anti-HCV, anti-CAP-N, and PCR assays on sera from a chimpanzee with acute NANB Hepatitis.

TABLE 2

CHIMP 59 -ACUTE NANB HEPATITIS

WEEK
POST				ANTI	PCR
INNOC	ALT	EM	ANTI HCV	CAP-N¹	690-691

8	26	++	−	−	−
10	26	+	−	+	−
12	107	+	−	+	−
14	115	+	+	+	−
16	26	+	+	+	+
18	17	ND	+	+	(+)
20	11	ND	+	+	−

¹A plus (+) indicates immunoreaction was observed between admixed serum and the fusion protein, designated “CAP-N” because it corresponds to the amino terminal of the putative NANBV capsid protein, using the Western blot immuonassay described in Example 12.

The results in Table 2 show immunoreaction between fusion protein and anti-NANBV structural protein antibodies in the sera tested. Furthermore, seroconversion is detectable by the immunoassay using fusion protein containing capsid antigen at times earlier than when the same sera is assayed in the C-100-3-based immunoassay.
In Table 3, results are presented from ALT, anti-HCV and anti-CAP-N assays on sera collected from a human with definitive NANB Hepatitis.

TABLE 3

NYU - 169 - DEFINITIVE NANB HEPATITIS

Week Post		Anti	Anti
Infect	ALT	HCV	CAP-N

2	34	−	−
6	8	−	−
10	150	−	−
12	118	−	−
14	183	−	+
16	317	−	+
19	213	−	+
23	53	−	+

The results in Table 3 show that in the human series 169 seroconversion sera samples, the CAP-N antigen present in the fusion protein detects NANBV-specific antibodies as early as 14 weeks post inoculation, whereas the C-100-3 based immunoassy does not detect any anti-NANBV antibody at the times studied.
In Table 4, results are presented from ALT, EM, anti-HCV, and anti-CAP-N assays on sera from a chimpanzee with a self limited infection presented.

TABLE 4

CHIMP 213 - SELF LIMITED INFECTION

Week Post

Anti

	Innoc	ALT	EM	Anti HCV	CAP-N

4	24	+	−	+
6	34	+	−	+
8	38	+	−	+
13	28	ND	−	+
16	25	ND	−	+
18	23	ND	+	+
20	25	−	+	+

The results in Table 4 show that the CAP-N antigen detects anti-NANBV antibodies earlier than the C-100-3 antigen when using sera sampled during the course of a self-limiting NANBV infection.
In Table 5, results are presented from ALT, anti-HCV and anti-CAP-N assays on sera from a chimpanzee that converted from an acute infection profile to a chronic one.

TABLE 5

CHIMP 10 - ACUTE/CHRONIC NANB HEPATITIS

	Week Post	Peak	Anti	Anti
Symptoms	Innoc	ALT	HCV	CAP-N

acute	2	223	−	+
chronic	40	223	+	+
chronic	42	223	+	+
chronic	44	223	+	+
chronic	51	223	+	−

The results in Table 5 indicate that the CAP-N antigen preferentially detects anti-NANBV antibodies in acute stages of NANBV infection.
In Table 6, results are presented from ALT, EM, anti-HCV and anti-Cap-N assays on sera collected at various intervals from several chimpanzees with acute or chronic NANB Hepatitis.

TABLE 6

Week Post	Week Post	Peak	Anti	Anti
Innoc	Alt Elev	ALT	HCV	CAP-N

ADDITIONAL ACUTE SERA

2	+1	73	−	+
14	+2	66	−	+
6	+2	197	−	+
11	+1	151	−	−
8	+4	125	−	+
15	+1	82	−	+
12	−4	73	ND	+

ADDITIONAL CHRONIC SERA

156	+131	110	+	+
156	−	89	+	+
160	−	89	+	+

The results in Table 6 indicate that the CAP-N antigen more often detected anti-NANBV antibodies in sera from acutely infected individuals than did the C-100-3 antigen.
The results of Tables 2-6 show that the NANBV structural protein of the invention, in the form of a fusion protein containing CAP-N antigen and produced by the vector pGEX-3X-690:694, detects antibodies in defined seroconversion at times in an infected patient or chimpanzee earlier than detectable by present state of the art methods using the C-100-3 antigen. In addition, the results show that CAP-N antigen is particularly useful to detect acute NANBV infection early in the infection.
Taken together, the results indicate that patients infected with NANBV contain circulating antibodies in their blood that are immunospecific for NANBV antigen designated herein as structural antigens, and particularly are shown to immunoreact with the putative capsid antigen defined by CAP-N. These antibodies are therefore referred to as anti-NANBV structural protein antibodies and are to be distinguished from the class of antibodies previously detected using the NANBV non-structural protein antigen C-100-3.
pGEX-2T-CAP-A: Oligonucleotides 1-20 (+) and 1-20 (−) for constructing the vector pGEX-2T-CAP-A for expressing the CAP-A fusion protein were prepared as described in Example 9A(2) having nucleotide base sequences corresponding to SEQ ID NO: 63 and SEQ ID NO: 64, respectively.
Oligonucleotides 1-20 (+) and 1-20 (−) were admixed in equal amounts with the expression vector pGEX-2T (Pharmacia) that had been predigested with Eco RI and Bam HI and maintained under annealing conditions to allow hybridization of the complementary oligonucleotides and to allow the cohesive termini of the resulting double-stranded (ds) oligonucleotide product to hybridize with pGEX-2T at the Eco RI and Bam HI cohesive termini. After ligation the resulting plasmid designated pGEX-2T-CAP-A contains a single copy of the ds oligonucleotide product and a structural gene coding for a fusion protein designated CAP-A having an amino acid residue sequence (encoded by nucleotide sequence SEQ ID NO: 65) shown in SEQ ID NO: 75 from residue 1 to residue 252.
The pGEX-2T vector is similar to the pGEX-3X vector described above, except that the resulting fusion protein is cleavable by digestion with the site specific protease thrombin.
pGEX-2T-CAP-B: Oligonucleotides 21-40 (+) and 21-40 (−) for constructing the vector pGEX-2T-CAP-B for expressing the CAP-B fusion protein were prepared as described in Example 9A(2) having nucleotide base sequences corresponding to SEQ ID NO: 66 and SEQ ID NO: 67, respectively.
Oligonucleotides 21-40 (+) and 21-40 (−) were admixed in equal amounts with the pGEX-2T expression vector that had been predigested with Eco RI and Bam HI and maintained under annealing conditions to allow hybridization of the complementary oligonucleotides and to allow the cohesive termini of the resulting double-stranded oligonucleotide product to hybridize with pGEX-2T at the Eco RI and Bam HI cohesive termini. After ligation the resulting plasmid designated as pGEX-2T-CAP-B contains a single copy of the ds oligonucleotide product and contains a structural gene coding for a fusion protein designated CAP-B having an amino acid residue sequence (encoded by nucleotide sequence SEQ ID NO: 68) shown in SEQ ID NO: 76 from residue 1 to residue 252.
pGEX-2T-CAP-A-B: Oligonucleotides for constructing the vector pGEX-2T-CAP-A-B for expressing the CAP-A-B fusion protein were prepared as described in Example 9A(2) having nucleotide base sequences corresponding to SEQ ID NO: 69 and SEQ ID NO: 70, respectively.
Oligonucleotides according to SEQ ID NO: 69 and SEQ ID NO: 70 were admixed in equimolar amounts with the plasmid pGEX-3X-690:694 described in Example 9B(2). The admixture was combined with the reagents for a polymerase chain reaction (PCR) and the two admixed oligonucleotides were used as primers on the admixed pGEX-3X-690:694 as template in a PCR reaction to form a PCR extension product consisting of a double-stranded nucleic acid molecule that encodes the amino acid residue sequence contained in SEQ ID NO: 73 from residue 2 to 40 and also includes PCR-added restriction sites for Bam HI at the 5′ terminus and Eco RI at the 3′ terminus. The PCR extension product was then cleaved with the restriction enzymes Bam HI and Eco RI to produce cohesive termini on the PCR extension product. The resulting product with cohesive termini was admixed in equal amounts with the pGEX-2T expression vector that had been predigested with Eco RI and Bam HI and maintained under annealing conditions to allow the cohesive termini of the double-stranded PCR extension product to hybridize with pGEX-2T at the Eco RI and Bam HI cohesive termini. After ligation the resulting plasmid designated pGEX-2T-CAP-A-B contains a single copy of the double-stranded PCR extension product and contains a structural gene coding for a fusion protein designated CAP-A-B having an amino acid residue sequence shown in SEQ ID NO: 72 from residue 1 to residue 271.
In Table 7, comparative results are presented from anti-HCV capsid fusion protein assays according to the basic immunoblot assay described in Example 12 using various chimp and human sera on the following HCV capsid fusion proteins: CAP-N, CAP-A, CAP-B and CAP-C.

TABLE 7

SERA	TYPE^a	CAP-N^b	CAP-A^c	CAP-B^d	CAP-C^e

C18	Chimp 10 (A)	+++	+	+	−
C10	Chimp 194 (A)	+++	+++	+++	−
59-16	Chimp 59 (A)	+++	+	+++	ND
59-12	Chimp 59 (A)	ND^f	++	+++	−
C9	Chimp 181 (A)	+++	−	+++	−
213-18	Chimp 213 (A)	ND	+	+	−
C2	Chimp 10 (C)	++	−	−	−
C1	Chimp 10 (C)	+++	−	−	−
C19	Chimp 10 (C)	+++	−	−	−
C4	Chimp 68 (C)	+++	+++	+++	ND
169-16	Human	ND	+++	+++	−
169-23	Human	ND	+++	+++	−
191-1	Human	+	+	+	ND
191-2	Human	+	+	++	ND
191-3	Human	+	+	+	ND
216-1	Human	−	+/−	+/−	ND
216-2	Human	+	+	+	ND
216-3	Human	+	+	+	ND

^aThe type of sera tested is indicated by the species (chimp or human), a chimp identification number if the sample is from a chimp, and a designation (in parenthesis) if the sera donor exhibits acute (A) or chronic (C) HCV infection at the time the sera was sampled.
^bCAP-N indicates the GST:NANBV 690:694 fusion protein produced in Example 13 that includes HCV capsid protein residues 1-74.
^cCAP-A indicates the GST:NANBV fusion protein produced in Example 13 that includes HCV capsid protein residues 1-20.
^dCAP-B indicates the GST:NANBV fusion protein produced in Example 13 that includes HCV capsid protein residues 21-40.
^eCAP-C indicates the GST:NANBV fusion protein produced in Example 13 that includes HCV capsid protein residues 41-60.
^f+, ++ and +++ indicate relative amounts of anti-HCV capsid antibody immunization product detected by the western blot assay, where + indicates a weak band after overnight exposure of the x-ray film, ++ indicates a strong band after overnight exposure of the x-ray film, +++ indicates a strong band after 1 to 2 hours exposure of the x-ray film, and +/− or − indicates a faint or no band, respectively, after overnight exposure of the x-ray film.
^g“ND” indicates not tested.

The results shown in Table 7 indicate that fusion proteins containing the CAP-A antigen or CAP-B antigen are immunoreactive with antibodies present in sera from HCV-infected humans or chimps. In addition, CAP-C antigen does not significantly immunoreact with sera from HCV infected humans or chimps.
Other GST:NANBV fusion proteins described herein were also expressed in cultures of E. coli Strain W3110 as described above using the GST fusion protein vectors produced in Example 9 after their introduction by transformation into the E. coli host. After induction and lysis of the cultures, the GST fusion proteins were purified as described above using glutathione agarose affinity chromatography to yield greater than 95% pure fusion protein as determined by SDS-PAGE. Thus, CAP-A, CAP-B and CAP-C fusion proteins were all expressed and purified as above using the pGEX-2T-CAP-A vector, the pGEX-2T-CAP-B vector, or the pGEX-2T-CAP-C vector, respectively, and CAP-A-B fusion protein is expressed and purified using the PGEX-2T-CAP-A-B vector.

Claims

1. A method for detecting seroconversion associated with NANBV infection at early times after infection comprising:

(a) initiating an immunoreaction by contacting a body fluid sample with a pure and isolated NANBV capsid antigen and C-100-3 antigen;

(b) maintaining said immunoreaction for a time period sufficient for allowing antibodies against the NANBV capsid and C-100-3 antigens present in said body fluid sample to immunoreact with said NANBV capsid and C-100-3 antigens to form immunoreaction products;

(c) detecting the presence of any of said immunoreaction products formed and thereby detecting early seroconversion and reducing the risk of a body fluid sample being erroneously characterized as non-reactive in the testing for NANBV hepatitis antibody.

2. A method for detecting seroconversion associated with NANBV infection at early times after infection comprising:

(a) initiating an immunoreaction by contacting a body fluid sample pure and isolated with NANBV capsid antigen having the amino acid sequence from residue 1 to 120 of SEQ ID NO: 73 and C-100-3 antigen;

(b) maintaining said immunoreaction for a time period sufficient for allowing antibodies against said NANBV capsid and C-100-3 antigens present in the body fluid sample to immunoreact with said NANBV capsid and C-100-3 antigens to form immunoreaction products; and

(c) detecting the presence of any said immunoreaction products formed and thereby detecting early seroconversion and reducing the risk of a body fluid sample being erroneously characterized as non-reactive in the testing for NANBV hepatitis antibody.

3. The method of claims 1 or 2 wherein said detecting in step (c) comprises the steps of:

(a) admixing said immunoreaction products formed in step (b) with a labeled specific binding agent to form a labeling admixture, said labeled specific binding agent comprising a specific binding agent and a label;

(b) maintaining said labeling admixture for a period of time sufficient for any of said immunoreaction products present to bind with said labeled product; and

(c) detecting the of any said labeled product formed, and thereby the presence of said immunoreaction products.

4. The method of claim 3 wherein said specific binding agent is selected from the group consisting of Protein A, anti-human IgG and anti-human IgM.

5. The method of claim 3, wherein said label is selected from the group consisting of lanthanide chelate, biotin, enzyme and radioactive isotope.

6. The method of claim 3, wherein said antigens are affixed to a solid matrix.

7. The method of claim 3, wherein said antigens are comprised of a fusion product.

8. The method of claim 1, wherein said pure and isolated NANBV capsid antigen is selected from the group consisting of:

(a) a NANBV capsid antigen having the amino acid sequence from the residue 1 to 120 of SEQ ID NO: 73;

(b) a NANBV capsid antigen having the amino acid sequence from the residue 1 to 20 of SEQ ID NO: 73;

(c) a NANBV capsid antigen having the amino acid sequence from the residue 21 to 40 of SEQ ID NO: 73;

(d) a NANBV capsid antigen having the amino acid sequence from the residue 1 to 74 of SEQ ID NO: 73;

(e) a NANBV capsid antigen having the amino acid sequence from the residue 69 to 120 of SEQ ID NO: 73; and

(f) a NANBV capsid antigen having the amino acid sequence from the residue 2 to 40 of SEQ ID NO: 73.

9. A method for detecting seroconversion associated with NANBV infection at early times after infection and thereby reducing the number of body fluid samples erroneously characterized as non-reactive in the testing of human body fluid for NANBV hepatitis antibody by employing for each body fluid sample, in a plurality of said samples from different subjects, a method comprising:

(a) initiating an immunoreaction by contacting each said body fluid sample with a pure and isolated NANBV capsid antigen and C-100-3 antigen;

(b) maintaining said immunoreaction for a time period sufficient for allowing antibodies against the NANBV capsid-C-100-3 antigens present in each body fluid sample to immunoreact with said NANBV capsid and C-100-3 antigens to form an immunoreaction product; and

(c) detecting the presence of any of said immunoreaction product formed and early seroconversion,

thereby reducing the number of body fluid samples in said plurality of samples erroneously characterized as non-reactive.