|
|
|
|||||||||||||||||||||||||||||||||||||||
|
|
Link: Pharm/Biotech Resources
United States Patent: 6,921,536 Issued: July 26, 2005 Inventors: Jacobs; Antonius Arnoldus Christiaan (Kessel, NL); Vermeij; Paul (St. Anthonis, NL) Assignee: Akzo Nobel N.V. (Arnhem, NL) Appl. No.: 034500 Filed: December 20, 2001 Abstract The present invention relates i.a. to nucleic acid sequences encoding novel Lawsonia intracellularis proteins. It furthermore relates to DNA fragments, recombinant DNA molecules and live recombinant carriers comprising these sequences. Also it relates to host cells comprising such nucleic acid sequences, DNA fragments, recombinant DNA molecules and live recombinant carriers. Moreover, the invention relates to proteins encoded by these nucleotide sequences. The invention also relates to vaccines for combating Lawsonia intracellularis infections and methods for the preparation thereof. Finally the invention relates to diagnostic tests for the detection of Lawsonia intracellularis DNA, the detection of Lawsonia intracellularis antigens and of antibodies against Lawsonia intracellularis. SUMMARY OF THE INVENTION It was surprisingly found now, that Lawsonia intracellularis
produces three novel outer membrane proteins (OMPs) that, alone or in
combination, are capable of inducing protective immunity against Lawsonia
intracellularis. Also, one form of this embodiment of the invention relates to nucleic acid sequences encoding a novel Lawsonia intracellularis protein comprising an amino acid sequence as depicted in SEQ ID NO: 2, or an immunogenic fragment of that polypeptide. In a preferred form of that embodiment, that nucleic acid sequence has a homology of at least 90%, more preferably 95%, 98% or even 100% with the nucleic acid sequence as depicted in SEQ ID NO: 1. Also, one form of this embodiment of the invention relates to nucleic acid sequences encoding a novel Lawsonia intracellularis protein having an amino acid sequence as depicted in SEQ ID NO: 4, or an immunogenic fragment of said polypeptide. In a preferred form of that embodiment, that nucleic acid sequence has a homology of at least 90, more preferably 95%, 98% or even 100% % with the nucleic acid sequence as depicted in SEQ ID NO: 3. Since the present invention discloses nucleic acid sequences encoding novel Lawsonia intracellularis 37 kD and 50 kD proteins, it is now for the first time possible to obtain these proteins in sufficient quantities. This can e.g. be done by using expression systems to express the genes encoding the proteins. Therefore, in a more preferred embodiment, the invention relates to DNA fragments comprising a nucleic acid sequence according to the invention. Such DNA fragments can e.g. be plasmids, into which a nucleic acid sequence according to the invention is cloned. Such DNA fragments are e.g. useful for enhancing the amount of DNA for use as a primer, as described below. An essential requirement for the expression of the nucleic acid sequence is an adequate promoter functionally linked to the nucleic acid sequence, so that the nucleic acid sequence is under the control of the promoter. It is obvious to those skilled in the art that the choice of a promoter extends to any eukaryotic, prokaryotic or viral promoter capable of directing gene transcription in cells used as host cells for protein expression. Therefore, an even more preferred form of this embodiment relates to a recombinant DNA molecule comprising a DNA fragment or a nucleic acid sequence according to the invention that is placed under the control of a functionally linked promoter. This can be obtained by means of e.g. standard molecular biology techniques. (Maniatis/Sambrook (Sambrook, J. Molecular cloning: a laboratory manual, 1989. ISBN 0-87969-309-6). Functionally linked promoters are promoters that are capable of controlling the transcription of the nucleic acid sequences to which they are linked. Such a promoter can be a Lawsonia promoter e.g. the promoter involved in in vivo expression of the 19/21 kD, the 37 kD or the 50 kD gene, provided that that promoter is functional in the cell used for expression. It can also be a heterologous promoter. When the host cells are bacteria, useful expression control sequences which may be used include the Trp promoter and operator (Goeddel, et al., Nucl. Acids Res., 8, 4057, 1980); the lac promoter and operator (Chang, et al., Nature, 275, 615, 1978); the outer membrane protein promoter (Nakamura, K. and Inouge, M., EMBO J., 1, 771-775, 1982); the bacteriophage lambda promoters and operators (Remaut, E. et al., Nucl. Acids Res., 11, 4677-4688, 1983); the α-amylase (B. subtilis) promoter and operator, termination sequences and other expression enhancement and control sequences compatible with the selected host cell. When the host cell is yeast, useful expression control sequences include, e.g., α-mating factor. For insect cells the polyhedrin or p 10 promoters of baculoviruses can be used (Smith, G. E. et al., Mol. Cell. Biol. 3, 2156-65, 1983). When the host cell is of mammalian origin illustrative useful expression control sequences include the SV-40 promoter (Berman, P. W. et al., Science, 222, 524-527, 1983) or the metallothionein promoter (Brinster, R. L., Nature, 296, 39-42, 1982) or a heat shock promoter (Voellmy et al., Proc. Natl. Acad. Sci. USA, 82, 4949-53, 1985). Bacterial, yeast, fungal, insect and mammalian cell expression systems are very frequently used systems. Such systems are well-known in the art and generally available, e.g. commercially through Clontech Laboratories, Inc. 4030 Fabian Way, Palo Alto, Calif. 94303-4607, USA. Next to these expression systems, parasite-based expression systems are very attractive expression systems. Such systems are e.g. described in the French Patent Application with Publication number 2 714 074, and in U.S. NTIS Publication Ser. No. 08/043,109 (Hoffman, S. and Rogers, W.: Public. Date 1 Dec. 1993). A still even more preferred form of this embodiment of the invention relates to Live Recombinant Carriers (LRCs) comprising a nucleic acid sequence encoding the 19/21 kD, 37 kD or 50 kD protein or an immunogenic fragment thereof according to the invention, a DNA fragment according to the invention or a recombinant DNA molecule according to the invention. Such carriers are e.g. bacteria and viruses. These LRCs are micro-organisms or viruses in which additional genetic information, in this case a nucleic acid sequence encoding the 19/21 kD, 37 kD or 50 kD protein or an immunogenic fragment thereof according to the invention has been cloned. Animals infected with such LRCs will produce an immunogenic response not only against the immunogens of the carrier, but also against the immunogenic parts of the protein(s) for which the genetic code is additionally cloned into the LRC, e.g. the 19/21 kD, 37 kD or 50 kD gene. As an example of bacterial LRCs, attenuated Salmonella strains known in the art can attractively be used. Live recombinant carrier parasites have i.a. been described by Vermeulen, A. N. (Int. Journ. Parasitol. 28: 1121-1130 (1998)). Also, LRC viruses may be used as a way of transporting the nucleic acid sequence into a target cell. Live recombinant carrier viruses are also called vector viruses. Viruses often used as vectors are Vaccinia viruses (Panicali et al; Proc. Natl. Acad. Sci. USA, 79: 4927 (1982), Herpesviruses (E.P.A. 0473210A2), and Retroviruses (Valerio, D. et al; in Baum, S. J., Dicke, K. A., Lotzova, E. and Pluznik, D. H. (Eds.), Experimental Haematology today-1988. Springer Verlag, New York: pp. 92-99 (1989)). The technique of in vivo homologous recombination, well-known in the art, can be used to introduce a recombinant nucleic acid sequence into the genome of a bacterium, parasite or virus of choice, capable of inducing expression of the inserted nucleic acid sequence according to the invention in the host animal. Finally another form of this embodiment of the invention relates to a host cell comprising a nucleic acid sequence encoding a protein according to the invention, a DNA fragment comprising such a nucleic acid sequence or a recombinant DNA molecule comprising such a nucleic acid sequence under the control of a functionally linked promoter. This form also relates to a host cell containing a live recombinant carrier containing a nucleic acid molecule encoding a 19/21 kD, 37 kD or 50 kD protein or a fragment thereof according to the invention. A host cell may be a cell of bacterial origin, e.g. Escherichia coli, Bacillus subtilis and Lactobacillus species, in combination with bacteria-based plasmids as pBR322, or bacterial expression vectors as pGEX, or with bacteriophages. The host cell may also be of eukaryotic origin, e.g. yeast-cells in combination with yeast-specific vector molecules, or higher eukaryotic cells like insect cells (Luckow et al; Bio-technology 6: 47-55 (1988)) in combination with vectors or recombinant baculoviruses, plant cells in combination with e.g. Ti-plasmid based vectors or plant viral vectors (Barton, K. A. et al; Cell 32: 1033 (1983), mammalian cells like Hela cells, Chinese Hamster Ovary cells (CHO) or Crandell Feline Kidney-cells, also with appropriate vectors or recombinant viruses. Another embodiment of the invention relates to the novel proteins: the 19/21 kD protein, the 37 kD and 50 kD protein and to immunogenic fragments thereof according to the invention. The concept of immunogenic fragments will be defined below. One form of this embodiment relates i.a to Lawsonia intracellularis proteins that have an amino acid sequence that is at least 70% homologous to the amino acid sequence as depicted in SEQ ID NO: 2 and to immunogenic fragments of said protein. In a preferred form, the embodiment relates to such Lawsonia intracellularis proteins that have a sequence homology of at least 80%, preferably 90%, more preferably 95% homology to the amino acid sequence as depicted in SEQ ID NO: 2 and to immunogenic fragments of such proteins. Even more preferred is a homology level of 98% or even 100%. Another form of this embodiment relates i.a. to Lawsonia intracellularis proteins that have an amino acid sequence that is at least 70% homologous to the amino acid sequence as depicted in SEQ ID NO: 4 and to immunogenic fragments of said protein. A preferred form relates to such Lawsonia intracellularis proteins that have a sequence homology of at least 80%, preferably 90%, more preferably 95% homology to the amino acid sequence as depicted in SEQ ID NO: 4 and to immunogenic fragments of such proteins. Even more preferred is a homology level of 98% or even 100%. Still another form of this embodiment relates to a Lawsonia intracellularis Outer Membrane Protein having a molecular weight of 19/21 kD, which Outer Membrane Protein is obtainable by a process comprising the steps of In Example 1 (see original patent), an example of how to take these steps is explained in detail: first the step of isolation of L. intracellularis from infected porcine ilea is described, followed by a description, of how to obtain a L. intracellularis outer membrane protein preparation. Finally, under "Outer membrane protein sequencing" it is explained how to isolate the 19 or 21 kD band from the gel. In a preferred form this Lawsonia intracellularis protein or an immunogenic fragment of that protein has an internal amino acid sequence that is at least 70% homologous to the amino acid sequence as depicted in SEQ ID NO: 5, an internal amino acid sequence that is at least 70% homologous to the amino acid sequence as depicted in SEQ ID NO: 6 or an internal amino acid sequence that is at least 70% homologous to the amino acid sequence as depicted in SEQ ID NO: 7. In a more preferred form, this Lawsonia intracellularis protein or an immunogenic fragment of that protein has a sequence homology of at least 80%, preferably 90%, more preferably 95% homology to the amino acid sequence as depicted in SEQ ID NO: 5, 6 or 7. Even more preferred is a homology level of 98% or even 100%. The level of protein homology can be determined with the computer program "BLAST 2 SEQUENCES" by selecting sub-program: "BLASTP." A reference for this program is Tatiana A. Tatusova, Thomas L. Madden FEMS Microbiol. Letters 174: 247-250 (1999). Matrix used: "blosum62". Parameters used are the default parameters: It will be understood that, for the particular proteins embraced herein, natural variations can exist between individual Lawsonia intracellularis strains. These variations may be demonstrated by (an) amino acid difference(s) in the overall sequence or by deletions, substitutions, insertions, inversions or additions of (an) amino acid(s) in said sequence. Amino acid substitutions which do not essentially alter biological and immunological activities, have been described, e.g. by Neurath et al in "The Proteins" Academic Press New York (1979). Amino acid replacements between related amino acids or replacements which have occurred frequently in evolution are, inter alia, Ser/Ala, Ser/Gly, Asp/Gly, Asp/Asn, Ile/Val (see Dayhof, M. D., Atlas of protein sequence and structure, Nat. Biomed. Res. Found., Washington D.C., 1978, vol. 5, suppl. 3). Other amino acid substitutions include Asp/Glu, Thr/Ser, Ala/Gly, Ala/Thr, Ser/Asn, Ala/Val, Thr/Phe, Ala/Pro, Lys/Arg, Leu/Ile, Leu/Val and Ala/Glu. Based on this information, Lipman and Pearson developed a method for rapid and sensitive protein comparison (Science, 227, 1435-1441, 1985) and determining the functional similarity between homologous proteins. Such amino acid substitutions of the exemplary embodiments of this invention, as well as variations having deletions and/or insertions are within the scope of the invention as long as the resulting proteins retain their immune reactivity. This explains why Lawsonia intracellularis proteins according to the invention, when isolated from different field isolates, may have homology levels of about 70%, while still representing the same protein with the same immunological characteristics. Those variations in the amino acid sequence of a certain protein according to the invention that still provide a protein capable of inducing an immune response against infection with Lawsonia intracellularis or at least against the clinical manifestations of the infection are considered as "not essentially influencing the immunogenicity". When a protein is used for e.g. vaccination purposes or for raising antibodies, it is however not necessary to use the whole protein. It is also possible to use a fragment of that protein that is capable, as such or coupled to a carrier such as e.g. KLH, of inducing an immune response against that protein, a so-called immunogenic fragment. An "immunogenic fragment" is understood to be a fragment of the full-length protein that still has retained its capability to induce an immune response in the host, i.e. comprises a B- or T-cell epitope. At this moment, a variety of techniques is available to easily identify DNA fragments encoding antigenic fragments (determinants). The method described by Geysen et al (Patent Application WO 84/03564, Patent Application WO 86/06487, U.S. Pat. No. R. 4,833,092, Proc. Natl Acad. Sci. 81: 3998-4002 (1984), J. Imm. Meth. 102, 259-274 (1987), the so-called PEPSCAN method is an easy to perform, quick and well-established method for the detection of epitopes; the immunologically important regions of the protein. The method is used world-wide and as such well-known to man skilled in the art. This (empirical) method is especially suitable for the detection of B-cell epitopes. Also, given the sequence of the gene encoding any protein, computer algorithms are able to designate specific protein fragments as the immunologically important epitopes on the basis of their sequential and/or structural agreement with epitopes that are now known. The determination of these regions is based on a combination of the hydrophilicity criteria according to Hopp and Woods (Proc. Natl. Acad. Sci. 78: 38248-3828 (1981)), and the secondary structure aspects according to Chou and Fasman (Advances in Enzymology 47: 45-148 (1987) and U.S. Pat. No. 4,554,101). T-cell epitopes can likewise be predicted from the sequence by computer with the aid of Berzofsky's amphiphilicity criterion (Science 235, 1059-1062 (1987) and U.S. patent application NTIS Ser. No. 07/005,885). A condensed overview is found in: Shan Lu on common principles: Tibtech 9: 238-242 (1991), Good et al on Malaria epitopes; Science 235: 1059-1062 (1987), Lu for a review; Vaccine 10: 3-7 (1992), Berzowsky for HIV-epitopes; The FASEB Journal 5: 2412-2418 (1991). Therefore, one form of still another embodiment of the invention relates to vaccines capable of protecting pigs against Lawsonia intracellularis infection, that comprise one or more proteins or immunogenic fragments thereof, according to the invention as described above together with a pharmaceutically acceptable carrier. Still another embodiment of the present invention relates to the proteins according to the invention for use in a vaccine. Still another embodiment relates to the use of a protein according to the invention for the manufacturing of a vaccine for combating Lawsonia intracellularis infections. One way of making a vaccine according to the invention is by biochemical purification of the proteins or immunogenic fragments thereof according to the invention from bacteria obtained through mucosal scrapings taken from the infected intestine wall. This is however a very time-consuming way of making the vaccine. It is therefore much more convenient to use the expression products of the genes encoding the proteins or immunogenic fragments thereof according to the invention in vaccines. The nucleic acid sequences of the genes encoding the 37 kD and 50 kD proteins are presented in the present invention. The gene encoding the 19/21 kD protein can easily be located and isolated using mixed probe hybridisation as described in Maniatis (Maniatis/Sambrook (Sambrook, J. Molecular cloning: a laboratory manual, 1989. ISBN 0-87969-309-6). The amino acid sequences presented in SEQ ID NO: 5, 6 and 7 form the basis for mixed probes with the following sequences:
With the use of these sequences, the gene encoding the 19/21 kD protein
can be located and isolated, equal to the way the genes encoding the 37 kD
and 50 kD proteins have been isolated. Claim 1 of 5 Claims
1. An isolated and purified Lawsonia intracellularis outer membrane
protein, comprising the amino acid sequence as set forth in SEQ ID NO: 2
and having a molecular weight of about 37 kD as determined by sodium
dodecyl sulphate polyacrylamide gel electrophoresis. ____________________________________________
|
|||||||||||||||||||||||||||||||||||||||
|