<i>Salmonella siiE</i>-derived peptides for manipulation of long-lived plasma cells
11261220 · 2022-03-01
Assignee
Inventors
Cpc classification
A61P37/06
HUMAN NECESSITIES
A61K39/00
HUMAN NECESSITIES
Y02A50/30
GENERAL TAGGING OF NEW TECHNOLOGICAL DEVELOPMENTS; GENERAL TAGGING OF CROSS-SECTIONAL TECHNOLOGIES SPANNING OVER SEVERAL SECTIONS OF THE IPC; TECHNICAL SUBJECTS COVERED BY FORMER USPC CROSS-REFERENCE ART COLLECTIONS [XRACs] AND DIGESTS
International classification
A61P37/06
HUMAN NECESSITIES
Abstract
An isolated polypeptide includes the amino acid sequence EEAEKAKEAAEKALNEAFE or an amino acid sequence with a sequence identity of least 70%, 80%, or 90% identity to that sequence. The polypeptide is no longer than 200 or 170 amino acids. A nucleic acid encodes the polypeptide, a gene therapy vector includes the nucleic acid and genetically modified cells express the polypeptide. The polypeptide, the nucleic acid, the gene therapy vector and/or the cell can be used for the treatment of a disease associated with pathogenic long-lived plasma cells.
Claims
1. An isolated polypeptide comprising the amino acid sequence according to SEQ ID NO 1 (EEAEKAKEAAEKALNEAFE), wherein the polypeptide is no longer than 200 amino acids.
2. The polypeptide according to claim 1, wherein the polypeptide comprises the amino acid sequence according to SEQ ID NO 2 (KEADKAKEEAEKAKEAAEKALNEAFEVQNSSKQIEEMLQN).
3. The polypeptide according to claim 1, wherein the polypeptide comprises the amino acid sequence according to SEQ ID NO 3 (SAQVEKKGNGKRRNKKEEEELKKQLDDAENAKKEADKAKEEAEKAKEAAEKA LNEAFEVQNSSKQIEEMLQNFL).
4. The polypeptide according to claim 1, wherein the polypeptide comprises the amino acid sequence according to SEQ ID NO 4 (MGNKSIQKFFADQNSVIDLSSLGNAKGAKVSLSGPDMNITTPRGSVIIVNGALY SSIKGNNLAVKFKDKTITGAKILGSVDLKDIQLERIDSSLVDSAQVEKKGNGKRRNKKEEEELKKQLDDAE NAKKEADKAKEEAEKAKEAAEKALNEAFEVQNSSKQIEEMLQNFL).
5. The polypeptide according to claim 1, wherein the polypeptide competes with laminin β1 interaction with long-lived plasma cells (LLPC).
6. A pharmaceutical composition for use in the treatment of a disease associated with pathogenic long-lived plasma cells comprising the polypeptide of claim 1, and a pharmaceutically accepted carrier.
7. An isolated nucleic acid molecule that encodes the polypeptide according to claim 1.
8. A cell, wherein the cell is a Salmonella bacterium comprising a nucleic acid region encoding a polypeptide according to claim 1, or the cell is genetically modified and comprises an exogenous nucleic acid region encoding a polypeptide according to claim 1, and wherein the exogenous nucleic acid region is operably linked to a promoter.
9. A pharmaceutical composition for use in the treatment of a disease associated with pathogenic long-lived plasma cells comprising a nucleic acid molecule according to claim 7 and a pharmaceutically accepted carrier.
10. A pharmaceutical composition for use in the treatment of a disease associated with pathogenic long-lived plasma cells comprising a cell according to claim 8, and a pharmaceutically accepted carrier.
11. A method of treating a disease associated with pathogenic long-lived plasma cells in a subject in need thereof, the method comprising administering to the subject the polypeptide according to claim 1.
12. The method according to claim 11, wherein the disease associated with pathogenic long-lived plasma cells is multiple myeloma.
13. The method according to claim 11, wherein the disease associated with pathogenic long-lived plasma cells is an auto-antibody-associated autoimmune disease.
14. The method according to claim 11, wherein the pathogenic long-lived plasma cells are IgG-secreting plasma cells and/or reside in the bone marrow and/or interact with laminin β1-positive stroma cells.
15. The method according to claim 13, wherein the disease associated with pathogenic long-lived plasma cells is rheumatoid arthritis or systemic lupus erythematosus.
Description
BRIEF DESCRIPTION OF THE DRAWINGS
(1) The invention is further described by the following figures. These are not intended to limit the scope of the invention, but represent preferred embodiments of aspects of the invention provided for greater illustration of the invention described herein.
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DETAILED DESCRIPTION
(17) All cited documents of the patent and non-patent literature are hereby incorporated by reference in their entirety.
(18) Amino acid sequences of preferred polypeptides of the present invention are listed under Table 1.
(19) TABLE-US-00001 TABLE 1 Amino acid sequences of preferred neuregulin proteins SEQ ID NO 1: EEAEKAKEAAEKALNEAFE Amino acid (AA) sequence of AA 136-154 of SiiE (large repetitive protein SiiE [Salmonella enterica subsp. enterica serovar Typhimurium]; GenBank: ASF67203.1 SEQ ID NO 2: KEADKAKEEAEKAKEAAEKALNEAFEVQNSSKQIEEMLQN Amino acid (AA) sequence of AA 129-168 of SiiE (large repetitive protein SiiE [Salmonella enterica subsp. enterica serovar Typhimurium]; GenBank: ASF67203.1 SEQ ID NO 3: SAQVEKKGNGKRRNKKEEEELKKQLDDAENAKKEADKAKEEAE Amino acid (AA) sequence KAKEAAEKALNEAFEVQNSSKQIEEMLQNFL of AA 97-170 of SiiE (large repetitive protein SiiE [Salmonella enterica subsp. enterica serovar Typhimurium]; GenBank: ASF67203.1 SEQ ID NO 4: MGNKSIQKFFADQNSVIDLSSLGNAKGAKVSLSGPDMNITTPRGS Amino acid (AA) sequence VIIVNGALYSSIKGNNLAVKFKDKTITGAKILGSVDLKDIQLERIDSS of AA 1-170 of SiiE (large LVDSAQVEKKGNGKRRNKKEEEELKKQLDDAENAKKEADKAKE repetitive protein SiiE EAEKAKEAAEKALNEAFEVQNSSKQIEEMLQNFL [Salmonella enterica subsp. enterica serovar Typhimurium]; GenBank: ASF67203.1 SEQ ID NO 5: Full length MGNKSIQKFFADQNSVIDLSSLGNAKGAKVSLSGPDMNITTPRGS SiiE (AA 1-5559) (large VIIVNGALYSSIKGNNLAVKFKDKTITGAKILGSVDLKDIQLERIDSS repetitive protein SiiE LVDSAQVEKKGNGKRRNKKEEEELKKQLDDAENAKKEADKAKE [Salmonella enterica subsp. EAEKAKEAAEKALNEAFEVQNSSKQIEEMLQNFLADNVAKDNLA enterica serovar QQSDASQQNTQAKATQASKQNDAEKVLPQPINKNTSTGKSNSS Typhimurium]; GenBank: KNEENKLDAESVKEPLKVTLALAAESNSGSKDDSITNFTKPQFVG ASF67203.1 STAPNATVIIKINGIAVGQAVADSLGNFTFTAPETLTDGTYNLEAEA KTADGSGSAKLVITIDSVTDKPTFELSPESSVSGHKGLTPTLTPSI VGTAEENAKVDIYVDNKLVASVDVDKDGNWSYEFKDNELSEGEN SIKVVAVDKAGNKNETTDSIITDTIAPEKPTIELDDSSDSGIKNDNIT NSTLPTFIGVAEPGSTVSIYLGLKHLGEVIVAKDGTWSYTLTTPLK DGEYNITATATDIAGHTSATANLPFTIDTRISYFSAEIETTNDSGIV GDNVTNNTRPTFTGKTEPNAIISVINSETGEEVIFKANDKGEWTFN FTSDSVEGINNLTFTVEDVAGNKKDFSFSYVIDTIAPVPPTVSLED YVVLPNGIILSGNDLPALVGTAEPKSTILLMRDGKLYDSIEVDSNG TWNYQFSNKFLQGAYDIEIISQDAAGNKSSTVKYSFTIQTEVVPPK AELDASDDSGAKGDWITNKHNALTLLGTADRFATVNILIDGKTIGV TTADADGNWNFDISRNLSDNVYKITVESIDPLGRTSSVDYQLTIDS FTPIPTVMLHDSADSGVKGDMITKINTPLFTGMAEANAKVSIYVDG VLSGEAIAGDDGVWNFQFTTALSDGSHDVTVKVEDIAGNTASSS AYNFQIVTQTQKPTIELVNDTGVDNTDHIINEKNPALTGTAAPYST VKLYIDGALIAEVRTNKDGRWEYTLKADQGLVDGDHRITASVEDI AGNIAHSDPFLISVDTAISIPIVSLSPDSDSGISDDNLTNIVKPTLHL KDIDPDIISVQVWDAMSDTQIGVATQQPDGSWAYTFTSDLTEGLH QVYVKVEDIAGNKANSAIFDFTIDTTVSTPVISLLSKDDTGVTGDN LTNINKPGFAISGVDADAHRVVVQVMHNGVSEEIELSHLNGSWLF IPGNTWADGSYTLTVKVEDKAGNTNYSAPLTVVIDTQIAIDGVELV NDSGVKGDNMTNDDRPHFRVTVPTDVNEVRLSIDGGNSWVQAT PGVAGSWEYIWPTDLADGQYTLTVEATDKAGNTVTKTIDFAVDT TLSVPVIVLDSADDTGIQGDNMTNSTQPTFALQHIDDDAVRVTVS VEHGGVTTTFDATKGTGGWTFTPPTSWADGDYTLSVSVEDKAG NTSHSASLTVTVDTQIAINNIELVNDSGIPDDNLTNNVRPHFQVTV PTDVNVVRLSIDGGKTWFNATQSATPGVWDYIWPDDVADGGYT LTVEATDEAGNKATQTLDFTIDTTLSVPTLSLDSADDSGIAGDNIT NVKTPGFTLNNIDTDVSRVIVEVMHNGIKQEVPLVQTGGQWRFA PTSDWADGDYILTVKVEDRAGNVKQSAPLTVTVDTHIAIDRIELVN DSGIPGDNLTNEARPHFQVTVPADVNGVRLSIDGGKTWFDATQS ATSGVWDYTWLTNVANGPHTLMVEASDKAGNKTTQKLDFTIDTI LSEPTITLDSADDSAAGDNITNVKMPGFTLGNIDADVTKVVVTVAH DGKNQQIELIKNGGVWRFTPGAAWTDGDYTLTVKVEDKAGNTN YSAPLTVTIDTQTSIDRIELLNDTGIVGDNLTNEARPQFHITVPTDV NSVQLSLDGGINWVNATLTSDGVWEYIWPTDLVENTYTLTVKAT DVAGNTATETLNFIIDTTLSTPTITLDSADDSGTANDNKTNVKTPG FIIGGIDSDVTQVVVQVMRDGHSEEVELTQTNGQWRFVPGSAWT DGDYTLTVTVKDEAGNIRHSAPLTVTIDTQITIDHIELVNDSGIPDD NLTNNVRPHFQVTVPTDVNVVRLSIDGGKTWFNATQSATPGVW DYTWLADVGEGKHTLTVEATDKAGNKTTQQLDFIIDTLLSEPTIVL DSTDDSGTKGDHLTNVNKPTFLLGNIDADARYVTVEVQHGGTKE VLTATKDATGNWSVTPTGTWADGDYTLTVRVEDEAGNEKHSAS LTVTVDTQITIDVIELVNDNGIPGDNMTNDAHPQFRVTVPGDVNE VSLSIDGGVTWVKATQSATPGVWNYTWPGTVPDGDYTLNVKAT DNAGNTVTETLHFTIDTTLSTPVIVLDSADDSGVHGDNMTNHTQP TFALQHIDDDAVRVTVSVEHGGVTTTFDATKDAGGWTFTPTGAW ADGDYTLSVSVEDKAGNTSHSASLTVTVDTQIAINNIELVNDSGIP DDNLTNNVRPHFQVTVPTDVNVVRLSIDGGKTWFNATQSATPGV WDYTWLADVGEGKHTLTVEATDKAGNKTTQQLDFIIDTLLSEPTI VLDNTDDSGTKGDNLTNVNKPTFLLGNIDADARYVTVEVQHGGT KEVLTATKGATGIWSVTPTGTWADGDYTLTVRVEDDAGNVKYSA PLTVTVDTQITIDVIELVNDNGIPGDNLTNDVRPHFRVTVPGDVNE VRLSIDGGNTWVRATQGTAGIWDYTWPKDVTDGLHTLTVEATDK AGNKTTQTLDFTIDTRLSTPTIAMDSRDDTGAIGDHITSVKRPGFTI GNIDADAHSVILRITQGGNSQEVTLTQVGGQWRFTPDADWADG SYTLTVEVTDNAGNVRQSTPLVVTVDTQTSITDITLVNDHGVPDD NLTNSTRPQFEITVPADVNSVQLSIDGGANWVSATQGIEGVWGY TWPTDMGDGKHTLTVMVTDRAGNTATQTLEFFIDTRLSTPTIALD STDDTGTPGDDMTNRTRPTFILQNIDSDVINVTVSVTHNGTTTSF TATQGAGGWSFTPPAPWGDGDYTLTVTVEDRAGNTRPSTPLTV TVDTQIAIDRIELVNDSGVPGDNVTKHVRPQFQISVPDDVEKVLLS IDGGTTWVTAIKSSTAGIWDYTWPTDMPEGQHTLTVEVTDGAGN KMTETLNFTIDITLLTPTIELAPDQDTGQNKNDNLTSVTQPVFVLG SIDKDVRHVELSIEHNGTFKTVVLTESADGWRYRPDSALADGSYT FTVTVTDVAGNQQTSAPLKVTIDGTLTTPVIELAAGEDSGTVGDR LTNHDRPVFDIHQVDSDVTRVMVKVTYNGKTHEEAAVFTNGQW RFTPSASWADGSYQLAVVVEDLAGNVKESAPFEVRIDTTTTINNI VLLNDTGVQNDQLTNVAKPSFRIDVPGDVVQVRVTLDGGANWN VIRKNADGQWIFDSPNTLVDGTYTLRVEATDEAGNIANKDLVFNI DTNIQVPTIALDAGQDTGANTADNITNISRPTFTIGNVDPDVIKVVV TIDGHDYNATKVGAGWQFTPGNAIPDGSYNITVTVEDKAGNTAT SKPLPVVIDTTAEIESVTLVTDSGDSDVDNITKVDKPQFSIVTADDI THVRVKIDNAANWIELTKGGDGRWIFNVGSALPDGQHTLLVDVT DIAGNVAQETLQFTIDTTLREPTIVLDPTHDTGDDTNDNLTRINKP VFIIGNVDNDVSHIVVHIDGRDYTIENTGGNLTFTPDQPLSDGQHT ISVTVTDIAGNTKTSAELRIEIDTQVQIDSVTLTTDSGVNDHDNVTN ATRPSFEIATPDDVTSVLVSFDGVNWTPISKNAAGQWEFTAGSA LPDGHYTLHVQATDRAGNTANSTLGFTVDTQIDGLSVVMLDDAG KDSTDGITNITSPRFEISAREPLQSVTVILNGKSSTLTQGAGNKWL FTPDTPLVDGTYKIEIVAEDIAGNKISKEVSFTIDTIVSDPSIDLLDA DDTGESAVDNITSVTTPRFVIGNVPADIDTVVIRINGVSYPVTANG NNLWEFQVPVALNDGVYEAVVVFRDIAGNTSETKLPFTIDTTTSV SVRMEPASDTGNSNSDNLTNKQNPKFEGTAEPNAKLVITIVDDKS GREVLKQTITVGADGNWSVTPNILPDGMYTINVVATDVAGNTAQ TQERFTIDTVTIDPTIRLSDPSIDDQHEATSLRPEFKGFAEAFSTIMI QWDGKVVGSANANANGEWSWTPPSVLAPGSYVVSIVAKDKAG NESSQVDFPVVIPVIDVTPPTIKLSEESDSGALGDFTTNNKTPTLIG STLPNTIVSIYVDGVKVGEATADTAGRYTFQLSEMKDGHYVVQV GIVNPRDNSELRSTAVDVTIDTEVAELVWNISGMHEGGYINTVTP EIGGTSEPNSKITIFVNGVEKAIAYTTGAGHWGVVLPALGNDGNY ELTFKVEDVAGNIREFGPQNVILDTVISPLTVVLREADDSGKVGD WITNKSHVTIDGTAEAGSTLTIRNPQGVVIATLVVGNDGRWSAEL DLREGSNAFVVVSEDKAGNSQQKEILIEHDTQIEISDISLSRDTNS GDKYDLITNNKSPVLVAMTDPGATVQVYINGVLQGTVEASSSGNI SYTMPANSADGEYQVQFVATDTAGNRVESAITTVTIDSQIAVFDID EDSLPALSNNRALSVSGVGEAGSQVSIFVDGKLVNVVMVEADGT WRAPILLQDDGTFNIHFSITDVAGNTEVSKDYSVDVDSSTDFPTL NLEDASNSGSLDDLITNHNKPVLVGTAEAGATIHIYVDEKIVANVL VLEDGTWSYQFDNALKDGEYSIRVVAEDPAGNTAESPRLLVTIDT STFIDNPAMVAGSDNGIFSNDSITSQTRPTFSIFGEMNQSVQIFID GVLVDTITVTDRNQVYRPESPLGDGSHSIYYVITDKAGNTATSKTL NFTIDTFNTTPVAIDSIGGQTLAEMTGSDGKIYITDTTRNLLFSGSA EPNSKIEIIINGLNVGEVWVNEKGHWQMPVNPLYFTEGQLDITVK STDRAGNVNQEKYSIWVDTHIKVFTSELDDNKSSSKTEWWSNSD LITMRGTGEIGATVSLIVAGVTLATAVVAATGRWELSTDKLPEGTY DISLVIEDSAGNRWEDVREIFIDRTPPNAPVVTYSDIVNDLIIMQGT AEAKSQLIITDSEGNTYTLTVPDNGKWSMAIPYPSEGKFTITSVDA IGNRSDDVPLDIMKEVPVISLSPDSDSGTVGDNITRDKQPTFIIGNL ESDVVVVQVDINGTVYNAEKNADGVWFFTPGTPLADGSYTISVIA SDAAGNQKNSLPITVTIDSTLTVPEIALAAGEDNGASDSDNVTNH TQPKFTLQHIDADVTGVTVNVTHNGVTDIYQATQGADGWTFTPP AAWNDGNYTLSVTVVDRAGNSQQSASLAVTVDSTVTVTADSQH DDASDDATATAVTPPESETVNAESATHLRTEPSAAEESVVKVTA YSITLLNADSGDEIDRSISQTPSFEISVPENIVNVSIMFEGEEFTLPI TNQKAIFEVPLSLEDGEYTMDVKFIDKDNDFLIKEKTFSVDHSSAD IVNAMNVRGKTEDDINDSPSTSSVGHNNNGAIDVFAVNEVTLPVD NQEEHA SEQ ID NO 6: mouse VTADMVKEALEEAEKAQVAAEKAIKQADEDIQGTQNLLTSIESE Laminin β1; AA 1638-1681; NCBI Reference Sequence: NP_032508.2 SEQ ID NO 7: human VTADMVKEALEEAEKAQVAAEKAIKQADEDIQGTQNLLTSIESE Laminin β1; AA 1590-1633; GenBank: EAL24388.1 SEQ ID NO 8: N-terminal MGNKSIQKFFADQNSVIDLSSLGNAKGAKVSLSGPDMNITTPRGS domain of SiiE (AA 1-404) VIIVNGALYSSIKGNNLAVKFKDKTITGAKILGSVDLKDIQLERIDSS (large repetitive protein SiiE LVDSAQVEKKGNGKRRNKKEEEELKKQLDDAENAKKEADKAKE [Salmonella enterica subsp. EAEKAKEAAEKALNEAFEVQNSSKQIEEMLQNFLADNVAKDNLA enterica serovar QQSDASQQNTQAKATQASKQNDAEKVLPQPINKNTSTGKSNSS Typhimurium]; GenBank: KNEENKLDAESVKEPLKVTLALAAESNSGSKDDSITNFTKPQFVG ASF67203.1 STAPNATVIIKINGIAVGQAVADSLGNFTFTAPETLTDGTYNLEAEA KTADGSGSAKLVITIDSVTDKPTFELSPESSVSGHKGLTPTLTPSI VGTAEENAKVDIYVDNKLVASVDVDKDGNWSYEFKDNELSEGE
(20) In one embodiment the invention therefore encompasses a polypeptide as described herein comprising or consisting of an amino acid sequence selected from the group consisting of:
(21) a) an amino acid sequence comprising or consisting of an amino acid sequence according to SEQ ID NO 1-4; wherein the polypeptide is preferably no longer than 200, preferably no longer than 170 amino acids;
(22) b) an amino acid sequence comprising or consisting of an amino acid sequence according to SEQ ID NO 1-4, wherein the length of the amino acid molecule is between 10 and 300 amino acids, preferably between 15 and 200 amino acids, most preferably between 19 and 170 amino acids, wherein the surrounding sequences are preferably provided as SiiE sequences flanking the amino acid sequences according to SEQ ID NO 1-4.
(23) c) an amino acid sequence having sufficient sequence identity to be functionally analogous/equivalent to an amino acid sequence according to a), comprising preferably a sequence identity to an amino acid sequence according to a) of at least 70%, 80%, preferably 90%, more preferably 95%; and
(24) d) an amino acid sequence of a), b) or c) which is modified by deletions, additions, substitutions, translocations, inversions and/or insertions and functionally analogous/equivalent to an amino acid sequence according to a), b) or c).
(25) Functionally analogous sequences refer preferably to the ability to encode a functional peptide comprising a homology to a conserved sequence of laminin β1. Preferably, the conserved sequence of laminin β1 corresponds to an amino acid sequence according to SEQ ID NO 6 or 7.
(26) In this context, functionality may refer to the ability of a peptide to interfere with or inhibit the interaction between long-live plasma cells and laminin β1 in the bone marrow.
(27) Embodiments of the invention may comprise a polypeptide as described herein comprising or consisting of an amino acid sequence SEQ ID NO 1-4, or variants of these sequences, wherein the sequence variant may comprise a sequence identity to SEQ ID NO 1-4 of 50, 55, 60, 65, 70, 75, 80, 81, 82, 83, 84, 85, 86, 87, 88, 89, 90, 91, 92, 93, 94, 95, 96, 97, 98 or 99%. Sequence identity may be determined using methods known to one skilled in the art, such as BLAST or other sequence alignment tools.
(28) In further preferred embodiments, the invention relates to a polypeptide comprising or consisting of an amino acid sequence derived from the N-terminal domain of Salmonella enterica serovar Typhimurium SiiE protein. Preferably, the amino acid sequence derived from the N-terminal domain of Salmonella enterica serovar Typhimurium SiiE protein comprises or consists of an amino acid sequence homologous to a conserved amino acid sequence of laminin β1. Preferably, the conserved amino acid sequence of laminin β1 has a length of at least 19 amino acids, more preferably 25 amino acids, most preferably 40 amino acids. Sequence homology refers to a sequence identity of more than 65%, preferably more than 70%. The N-terminal domain of of Salmonella enterica serovar Typhimurium SiiE protein comprises the amino acids 1-404 of SiiE protein.
(29) SiiE is a large protein of 5,559 amino acids or Salmonella enterica serovar Typhimurium, with 2 distinct regions in the N- and C-terminus and 53 repeated bacterial Ig domains in between (
(30) Protein modifications to the polypeptides of the present invention, which may occur through substitutions in amino acid sequence, and nucleic acid sequences encoding such molecules, are also included within the scope of the invention. Substitutions as defined herein are modifications made to the amino acid sequence of the protein, whereby one or more amino acids are replaced with the same number of (different) amino acids, producing a protein which contains a different amino acid sequence than the primary protein. In some embodiments this amendment will not significantly alter the function of the protein. Like additions, substitutions may be natural or artificial. It is well known in the art that amino acid substitutions may be made without significantly altering the protein's function. This is particularly true when the modification relates to a “conservative” amino acid substitution, which is the substitution of one amino acid for another of similar properties. Such “conserved” amino acids can be natural or synthetic amino acids which because of size, charge, polarity and conformation can be substituted without significantly affecting the structure and function of the protein. Frequently, many amino acids may be substituted by conservative amino acids without deleteriously affecting the protein's function.
(31) In general, the non-polar amino acids Gly, Ala, Val, lie and Leu; the non-polar aromatic amino acids Phe, Trp and Tyr; the neutral polar amino acids Ser, Thr, Cys, Gin, Asn and Met; the positively charged amino acids Lys, Arg and His; the negatively charged amino acids Asp and Glu, represent groups of conservative amino acids. This list is not exhaustive. For example, it is well known that Ala, Gly, Ser and sometimes Cys can substitute for each other even though they belong to different groups.
(32) The present invention encompasses gene therapy comprising the administration of a therapeutic gene encoding the polypeptide described herein.
(33) The term gene therapy preferably refers to the transfer of DNA into a subject in order to treat a disease. The person skilled in the art knows strategies to perform gene therapy using gene therapy vectors. Such gene therapy vectors are optimized to deliver foreign DNA into the host cells of the subject. In a preferred embodiment the gene therapy vectors may be a viral vector. Viruses have naturally developed strategies to incorporate DNA in to the genome of host cells and may therefore be advantageously used. Preferred viral gene therapy vectors may include but are not limited to retroviral vectors such as moloney murine leukemia virus (MMLV), adenoviral vectors, lentiviral, adenovirus-associated viral (AAV) vectors, pox virus vectors, herpes simplex virus vectors or human immunodeficiency virus vectors (HIV-1). However also non-viral vectors may be preferably used for the gene therapy such as plasmid DNA expression vectors driven by eukaryotic promoters or liposomes encapsulating the transfer DNA. Furthermore preferred gene therapy vectors may also refer to methods to transfer of the DNA such as electroporation or direct injection of nucleic acids into the subject. Moreover it may be preferred that the gene therapy vectors for example a viral gene therapy vector is adapted to target bone marrow cells and in particular stroma cells, hematopoietic cells or immune cells of the bone marrow or long-lived plasma cells. To this end the viral capsid may be conjugated with ligands binding to bone marrow cells and in particular stroma cells, hematopoietic cells or immune cells of the bone marrow or long-lived plasma cells such as monoclonal antibodies. It may also be preferred that the viral gene therapy vectors are genetically modified using inducible promoters or promoters that are specific for bone marrow cells and in particular stroma cells, hematopoietic cells or immune cells of the bone marrow or long-lived plasma cells to enhance the expression of the nucleic acid specifically within the bone marrow in the surrounding of pathogenic long-lived plasma cells. Preferred gene therapy vectors may therefore comprise vectors for an inducible or conditional expression of the polypeptides. The person skilled in the art knows how to choose preferred gene therapy vectors according the need of application as well as the methods on how to implement the nucleic acid into the gene therapy vector. (P. Seth et al., 2005, N. Koostra et, al. 2009., W. Walther et al. 2000, Waehler et al. 2007).
(34) The nucleic acid according to the invention and preferred embodiments thereof, in particular a nucleic acid encoding a polypeptide of the present invention, is particularly efficient for gene therapy due to a high therapeutic potential at a small size. This ensures a stable integration at high expression levels over extended periods of times.
(35) In a further preferred embodiment the invention relates to a cell for use as a medicament in the treatment of a disease associated with pathogenic long-lived plasma cells as described herein, wherein the cell is genetically modified and comprises an exogenous nucleic acid region encoding for a polypeptide according to the invention or preferred embodiments thereof and wherein the exogenous nucleic acid region is operably linked to a promoter.
(36) The person skilled in the art knows how to genetically modify cells in order to express the polypeptides according to the inventions. Advantageously by expressing the therapeutically effective polypeptides the cells may act as bio pump or drug factory that continuously expresses and provides the polypeptides to the subject. Thereby the amount of the polypeptides can be held at a therapeutic level over long periods. The person skilled in the art knows which cells may be preferably used to this end. In a preferred embodiment the cells are stem cells, characterized by a stable expression of the polypeptides. Stem cells may include but are not limited to, embryonic stem cells such as early embryonic stem cells and blastocyst embryonic stem cells; fetal stem cells; umbilical cord stem cells; and adult stem cells such as mesenchymal stem cells, hematopoietic stem cells, endothelial stem cells, peripheral blood stem cells, and multipotent somatic stem cells.
(37) In another preferred embodiment the cell may be a bacterial cell or a bacterium. Bacteria constitute a large domain of prokaryotic single cell microorganisms, which can be genetically modified by standard microbiology and molecular biology techniques. Besides naturally occurring bacteria, there a genetically modified bacteria and synthetic bacteria. A person skilled in the art is able to select preferably bacterial cells that may be used in the context of the present invention.
(38) Preferably, the bacterial cell is a Salmonella bacterium. Salmonella bacteria are gram-negative bacteria of the Enterobacteriaceae family. The genus of Salmonella bacteria comprises two species, Salmonella bongori and Salmonella enterica, the latter of which is divided into six subspecies (S. e. enterica, S. e. salamae, S. e. arizonae, S. e. diarizonae, S. e. houtenae, and S. e. indica), which contain more than 2500 serotypes (also serovars) defined on the basis of the somatic O (lipopolysaccharide) and flagellar H antigens. The full name of a serotype is given as, for example, Salmonella enterica subsp. enterica serotype Typhimurium, but can be abbreviated to Salmonella Typhimurium. Further differentiation of strains to assist clinical and epidemiological investigation may be achieved by antibiotic sensitivity testing and by other molecular biology techniques such as pulsed-field gel electrophoresis, multilocus sequence typing, and, increasingly, whole genome sequencing. Historically, Salmonellae have been clinically categorized as invasive (typhoidal) or noninvasive (nontyphoidal Salmonellae) based on host preference and disease manifestations in humans. A person skilled in the art can select suitable Salmonella bacterium that may be genetically modified or not that comprises a nucleic acid region encoding a polypeptide of the present invention.
(39) The cells may migrate to the site of the pathogenic long-lived plasma cells in order to locally express the polypeptides in vicinity of the pathogenic cells. Advantageously the cells may however also be transplanted at a different location as the polypeptides can also be transported by the vascular system throughout the body of the subject. Local administration of the cells e.g. by a subcutaneous injection may therefore contribute in a systemic manner largely irrespective of the location of the cells within the body of the subject.
(40) In a further preferred embodiment the cells for use as a medicament as described herein is characterized by introducing a therapeutically effective number of said cells to a subject within a biocompatible matrix. Preferred materials for the biocompatible matrix are agarose, carrageenan, alginate, chitosan, gellan gum, hyaluronic acid, collagen, cellulose and its derivatives, gelatin, elastin, epoxy resin, photo cross-linkable resins, polyacrylamide, polyester, polystyrene and polyurethane or polyethylene glycol (PEG). It is further preferred that the biocompatible matrix is a semi-permeable hydrogel matrix and the cells are entrapped by said matrix. Advantageously the biocompatible matrix allows for an efficient diffusion of nutrients, oxygens and other biomolecules to ensure a long lasting viability of the cells expressing the polypeptide, while immobilizing the cells. Thereby the cells can be concentrated at preferred locations within the subject. For instance the cells can be transplanted subcutaneously and/or in proximity of diseased regions of the subject i.e. close to a vestibular schwannoma. It is surprising that by introducing encapsulated cells, the cells function particularly efficiently as bio pumps and provide a high level of therapeutic polypeptides to the subject.
(41) In a preferred embodiment the invention further relate to pharmaceutical composition for use as a medicament in the treatment of a disease associated with pathogenic long-lived plasma cells as described herein, wherein the pharmaceutical composition comprises the polypeptide, the nucleic acid, the gene therapy vector and/or the cell, and optionally a pharmaceutically accepted carrier. Preferably the pharmaceutical composition is administered to the subject at a therapeutically effective amount at any administration route as described herein.
(42) In a preferred embodiment the pharmaceutical composition for use as a medicament as described herein is administered by introducing a therapeutically effective amount of the composition into the blood stream of a subject. This route of administration is particularly advantageous for an administration of the polypeptides.
(43) In a further preferred embodiment the pharmaceutical composition for use as a medicament as described herein is administered locally. It is particularly preferred that the pharmaceutical composition is administered locally to the site of the pathogenic long-lived plasma cells, such as the bone marrow. It may also be preferred that the local administration of the pharmaceutical composition to the bone marrow is achieved by injecting the polypeptide or the pharmaceutical composition of the present invention.
(44) Moreover in a preferred embodiment the local administration of the polypeptides may be preferably mediated by an implant such as a collagen sponge. To this end it may be preferred to soak the sponge in a pharmaceutical composition comprising the polypeptides and implant the sponge close to the site of the pathogenic long-lived plasma cells. By doing so the polypeptides advantageously diffuse locally and can therefore act site specifically.
(45) In further preferred embodiment the polypeptides may be locally administered by means of a hydrogel. Hydrogels are three-dimensional, cross-linked networks of water-soluble polymers. The person skilled in the art knows how to produce suitable hydrogels for the delivery of proteins or polypeptides (Hoare et al. 2008, Peppas et al. 2000, Hoffmann A. et al. 2012). In particular the density of the cross-linked network of the hydrogel may be advantageously optimized to achieve a porosity suited to load the polypeptides into the hydrogel. Subsequently the release of the polypeptides is governed by the diffusion of the peptides throughout the gel network. Therefore the release rate and thus the therapeutically effective amount of the polypeptides can be precisely tuned by optimizing the cross-linking density of the hydrogel. Moreover preferred hydrogels may also encompass an outer membrane optimized for the release of the polypeptides. The preferred hydrogels are biocompatible and are preferably implanted for a long term local supply of the polypeptides. In preferred embodiments the hydrogels may be implanted subcutaneously at or close to the site of the pathogenic long-lived plasma cells. Transdermal administration of the polypeptides by use of hydrogels may also be envisioned. By means hydrogels a therapeutically effective dose of polypeptides can be advantageously localized to the site of the pathogenic long-lived plasma cells, while minimizing the systemic dosage. Thereby a long term administration can be achieved with a sustained and site specific release and minimized side effects.
(46) As used herein, “nucleic acid” shall mean any nucleic acid molecule, including, without limitation, DNA, RNA and hybrids or modified variants thereof. An “exogenous nucleic acid” or “exogenous genetic element” relates to any nucleic acid introduced into the cell, which is not a component of the cells “original” or “natural” genome. Exogenous nucleic acids may be integrated or non-integrated, or relate to stably transfected nucleic acids.
(47) As used herein, “polypeptide” shall mean both peptides and proteins. In this invention, the polypeptides may be naturally occurring or recombinant (i.e., produced via recombinant DNA technology), and may contain mutations (e.g., point, insertion and deletion mutations) as well as other covalent modifications (e.g., glycosylation and labelling (via biotin, streptavidin, fluorescein, and radioisotopes)) or other molecular bonds to additional components. For example, PEGylate proteins are encompassed by the scope of the present invention. PEGylation has been widely used as a post-production modification methodology for improving biomedical efficacy and physicochemical properties of therapeutic proteins. Applicability and safety of this technology have been proven by use of various PEGylated pharmaceuticals for many years (refer Jevsevar et al, Biotechnol J. 2010 Jan;5(1):113-28). In some embodiments the polypeptides described herein are modified to exhibit longer in vivo half-lives and resist degradation when compared to unmodified polypeptides. Such modifications are known to a skilled person, such as cyclized polypeptides, polypeptides fused to Vitamin B12, stapled peptides, protein lipidization and the substitution of natural L-amino acids with D-amino acids (refer Bruno et al, Ther Deliv. 2013 Nov; 4(11): 1443-1467).
(48) In some embodiments of the invention the peptide, preferably according to sequences disclosed herein, may comprise a 0 to 10 amino acid addition or deletion at the N and/or C terminus of a sequence.
(49) As used herein the term “a 0 to 10 amino acid addition or deletion at the N and/or C terminus of a sequence” means that the polypeptide may have a) 0, 1, 2, 3, 4, 5, 6, 7, 8, 9 or 10 additional amino acids at its N terminus and 0, 1, 2, 3, 4, 5, 6, 7, 8, 9 or 10 amino acids deleted at its C terminus or b) 0, 1, 2, 3, 4, 5, 6, 7, 8, 9 or 10 additional amino acids at its C terminus and 0, 1, 2, 3, 4, 5, 6, 7, 8, 9 or 10 nucleotides deleted at its N terminus, c) 0, 1, 2, 3, 4, 5, 6, 7, 8, 9 or 10 additional amino acids at its N terminus and 0, 1, 2, 3, 4, 5, 6, 7, 8, 9 or 10 additional amino acids at its N terminus or d) 0, 1, 2, 3, 4, 5, 6, 7, 8, 9 or 10 amino acids deleted at its N terminus and 0, 1, 2, 3, 4, 5, 6, 7, 8, 9 or 10 amino acids deleted at its C terminus.
(50) Furthermore, in addition to the polypeptides described herein, peptidomimetics are also contemplated. Peptide analogs are commonly used in the pharmaceutical industry as non-peptide drugs with properties analogous to those of the template peptide. These types of non-peptide compound are termed “peptide mimetics” or “peptidomimetics” (Fauchere (1986) Adv. Drug Res. 15: 29; Veber and Freidinger (1985) TINS p. 392; and Evans et al. (1987) J. Med. Chem. 30: 1229) and are usually developed with the aid of computerized molecular modelling.
(51) Peptide mimetics that are structurally similar to therapeutically useful peptides may be used to produce an equivalent therapeutic or prophylactic effect. It may be preferred in some embodiments to use peptide mimetics in order to prolong the stability of the polypeptides, when administered to a subject. To this end peptide mimetics for the polypeptides may be preferred that are not cleaved by human proteasomes.
(52) The polypeptides, nucleic acid molecules, gene therapy vectors or cells described herein may comprise different types of carriers depending on whether they are to be administered in solid, liquid or aerosol form, and whether they need to be sterile for such routes of administration as injection.
(53) The active agent of present invention can be administered intravenously, intradermally, intraarterially, intraperitoneally, intralesionally, intracranially, intraarticularly, intraprostaticaly, intrapleurally, intratracheally, intranasally, intravitreally, intravaginally, intrarectally, topically, intratumorally, intramuscularly, intraperitoneally, subcutaneously, subconjunctival, intravesicularlly, mucosally, intrapericardially, intraumbilically, intraocularally, orally, topically, locally, inhalation (e.g., aerosol inhalation), injection, infusion, continuous infusion, directly, via a catheter, via a lavage, in cremes, in lipid compositions (e.g., liposomes), locally applied by sponges or by other method or any combination of the forgoing as would be known to one of ordinary skill in the art (see, for example, Remington's Pharmaceutical Sciences, 18th Ed. Mack Printing Company, 1990, incorporated herein by reference).
(54) The present invention encompasses treatment of a patient by introducing a therapeutically effective number polypeptides, nucleic acids, gene therapy vectors or cells of the present invention into a subject's bloodstream. As used herein, “introducing” polypeptides, nucleic acids, gene therapy vectors or cells into the subject's bloodstream shall include, without limitation, introducing such polypeptides, nucleic acids, gene therapy vectors or cells into one of the subject's veins or arteries via injection. Such administering can also be performed, for example, once, a plurality of times, and/or over one or more extended periods. A single injection is preferred, but repeated injections over time (e.g., quarterly, half-yearly or yearly) may be necessary in some instances. Such administering is also preferably performed using an admixture of polypeptides, nucleic acids, gene therapy vectors or cells and a pharmaceutically acceptable carrier. Pharmaceutically acceptable carriers are well known to those skilled in the art and include, but are not limited to, 0.01-0.1 M and preferably 0.05 M phosphate buffer or 0.8% saline.
(55) Administration may also occur locally, for example by injection into an area of the subject's body in proximity to a site where pathogenic long-lived plasma cells are localized. As used herein, in “proximity with” a tissue/site includes, for example, within 50 mm, 20 mm, 10 mm, 5 mm, within 1 mm of the tissue, within 0.5 mm of the tissue and within 0.25 mm of the tissue/site.
(56) As used herein, “pharmaceutically acceptable carrier” includes any and all solvents, dispersion media, coatings, antibacterial and antifungal agents, isotonic and absorption delaying agents and the like. The use of such media and agents for pharmaceutical active substances is well known in the art. Except insofar as any conventional media or agent is incompatible with the active ingredient, its use in the therapeutic compositions is contemplated. Supplementary active ingredients can also be incorporated into the compositions.
(57) Additionally, such pharmaceutically acceptable carriers can be aqueous or non-aqueous solutions, suspensions, and emulsions, most preferably aqueous solutions. Aqueous carriers include water, alcoholic/aqueous solutions, emulsions and suspensions, including saline and buffered media. Parenteral vehicles include sodium chloride solution, Ringer's dextrose, dextrose and sodium chloride, lactated Ringers and fixed oils. Intravenous vehicles include fluid and nutrient replenishers, electrolyte replenishers such as Ringer's dextrose, those based on Ringer's dextrose, and the like. Fluids used commonly for i.v. administration are found, for example, in Remington: The Science and Practice of Pharmacy, 20th Ed., p. 808, Lippincott Williams S-Wilkins (2000). Preservatives and other additives may also be present, such as, for example, antimicrobials, antioxidants, chelating agents, inert gases, and the like.
(58) The phrase “pharmaceutically acceptable” refers to molecular entities and compositions that do not produce an allergic or similar untoward reaction when administered to a human. The preparation of an aqueous composition that contains a protein as an active ingredient is well understood in the art. Typically, such compositions are prepared as injectables, either as liquid solutions or suspensions; solid forms suitable for solution in, or suspension in, liquid prior to injection can also be prepared. The preparation can also be emulsified.
(59) The composition can be formulated in a neutral or salt form. Pharmaceutically acceptable salts, include the acid addition salts (formed with the free amino groups of the protein) and which are formed with inorganic acids such as, for example, hydrochloric or phosphoric acids, or such organic acids as acetic, oxalic, tartaric, mandelic, and the like. Salts formed with the free carboxyl groups can also be derived from inorganic bases such as, for example, sodium, potassium, ammonium, calcium, or ferric hydroxides, and such organic bases as isopropylamine, trimethylamine, histidine, procaine and the like.
(60) Upon formulation, solutions will be administered in a manner compatible with the dosage formulation and in such amount as is therapeutically effective. The formulations are easily administered in a variety of dosage forms such as injectable solutions, drug release capsules and the like.
(61) As used herein, a “therapeutically effective amount” for the pharmaceutical composition includes, without limitation, the following amounts and ranges of amounts:
(62) For a composition comprising a polypeptide according to the invention or preferred embodiment thereof: (i) from about 1×10.sup.−3 to about 1×10.sup.6 μg/kg body weight; (ii) from about 1×10.sup.−2 to about 1×10.sup.5 μg/kg body weight; (iii) from about 1×10.sup.−1 to about 1×10.sup.4 μg/kg body weight; (iv) from about 1×10.sup.−1 to about 1×10.sup.3 μg/kg body weight; (v) from about 1×10.sup.−1 to about 1×10.sup.2 μg/kg body weight; (vi) from about 1×10.sup.−1 to about 0.5×10.sup.2 μg/kg body weight; (vii) about 1×10.sup.−2 μg/kg body weight; (viii) about 1×10.sup.1 μg/kg body weight; (ix) about 10 μg/kg body weight (x) about 1×1 0.sup.2 μg/kg body weight; (xi) about 5×10.sup.3 μg/kg body weight.
(63) For a composition comprising cells according to the invention or preferred embodiment thereof: (i) from about 1×10.sup.2 to about 1×10.sup.8 cells/kg body weight; (ii) from about 1×10.sup.3 to about 1×10.sup.7 cells/kg body weight; (iii) from about 1×10.sup.4 to about 1×10.sup.6 cells/kg body weight; (iv) from about 1×10.sup.4 to about 1×10.sup.5 cells/kg body weight; (v) from about 1×10.sup.5 to about 1×10.sup.6 cells/kg body weight; (vi) from about 5×10.sup.4 to about 0.5×10.sup.5 cells/kg body weight; (vii) about 1×10.sup.3 cells/kg body weight; (viii) about 1×10.sup.4 cells/kg body weight; (ix) about 5×10.sup.4 cells/kg body weight; (x) about 1×10.sup.5 cells/kg body weight; (xi) about 5×10.sup.5 cells/kg body weight; (xii) about 1×10.sup.6 cells/kg body weight; and (xiii) about 1×10.sup.7 cells/kg body weight.
(64) Human body weights envisioned include, without limitation, about 5 kg, 10 kg, 15 kg, 30 kg, 50 kg, about 60 kg; about 70 kg; about 80 kg, about 90 kg; about 100 kg, about 120 kg and about 150 kg.
(65) Dosages of the viral gene therapy vector will depend primarily on factors such as the condition being treated, the selected gene, the age, weight and health of the patient, and may thus vary among patients. For example, a therapeutically effective human dosage of the viral vectors may be preferably in the range of from about 1 to about 1000 ml, preferably 10 to 100 ml, preferably 20 to 50 ml of saline solution containing concentrations of from about 1×10.sup.5 to 1×10.sup.12 preferably 1×10.sup.6 to 1×10.sup.11 more preferably 1×10.sup.7 to 1×10.sup.10 plaque forming units (pfu)/ml viruses. The dosage will be adjusted to balance the therapeutic benefit against any side effects. The levels of expression of the selected gene can be monitored to determine the selection, adjustment or frequency of dosage administration.
(66) As used herein “inducible expression” or “conditional expression” relates to a state, multiple states or system of an expression of the polypeptide, wherein the polypeptide is preferably not expressed, or in some embodiments expressed at negligible or relatively low levels, unless there is the presence of one or more molecules (an inducer) or other set of conditions in the cell that allows for polypeptide expression. Inducible promoters may relate to either naturally occurring promoters that are expressed at a relatively higher level under particular biological conditions, or to other synthetic promoters comprising any given inducible element. Inducible promoters may refer to those induced by particular tissue- or micro-environments or combinations of biological signals present in particular tissue- or micro-environments, or to promoters induced by external factors, for example by administration of a small drug molecule or other externally applied signal.
(67) As used herein the term “bio pump” or “drug factory” preferably describe the function of cells as a continuously producing source of the polypeptide, preferably at a therapeutically effective dosage. By administering cells to a subject particularly stable levels of the polypeptides according to the invention or preferred embodiments thereof can be provided. In the sense the bio pump, that is the cells, allow for a continuous supply that maintain levels of the polypeptides at a particular high and stable state, for example it may compensate for losses of the polypeptides for instance due to a degeneration of the polypeptides through proteasomes.
(68) The terms “hydrogel”, “gel” and the like, are preferably used interchangeably herein to refer to a material which is not a readily flowable liquid and not a solid. The term hydrogel is preferably meant to be a water insoluble, water-containing material. Examples of hydrogels include synthetic polymers such as polyhydroxyethyl methacrylate, poly(ethylene glycol) and chemically or physically crosslinked polyvinyl alcohol, polyacrylamide, poly(N-vinyl pyrolidone), polyethylene oxide, and hydrolysed polyacrylonitrile. Examples of hydrogels which are organic polymers include DNA hydrogels or covalent or ionically crosslinked polysaccharide-based hydrogels such as the polyvalent metal salts of alginate, pectin, carboxymethyl cellulose, heparin, hyaluronate and hydrogels from chitin, chitosan, pullulan, gellan and xanthan.
(69) Plasma cells, are also called plasma B cells, plasmocytes, plasmacytes, or effector B cells. Plasma cells are white blood cells/immune cells that secrete large volumes of antibodies. Plasma cells are transported by the blood plasma and the lymphatic system and originate in the bone marrow; B cells differentiate into plasma cells that produce antibody molecules. Once released into the blood and lymph, these antibody molecules bind to the target antigen (foreign substance) and initiate its neutralization or destruction by means of the immune system. B cells can differentiate into memory B cells or plasma cells upon stimulation, mostly by T cells, which usually occurs in germinal centers of secondary lymphoid organs like the spleen and lymph nodes. Most of these B cells will become plasmablasts (or “immature plasma cells”), and eventually plasma cells, and begin producing large volumes of antibodies, while some B cells will undergo affinity maturation, which refers to the selection of antibodies with higher affinity for the antigen and the activation and growth of B cell clones able to secrete antibodies of higher affinity.
(70) After the process of affinity maturation in germinal centers, plasma cells have an indeterminate lifespan, ranging from days to months. A specific subclass of plasma cells has been shown to reside for much longer periods in the bone marrow. This class of plasma cells is referred to as “long-lived plasma cells” (LLPC). LLPC secrete high levels of antibodies, wherein LLPC comprise, without limitation, IgM-secreting LLPC, IgG-secreting LLPC, IgA-secreting LLPC and IgE-secreting LLPC. Furthermore, LLPC cannot switch antibody classes and cannot act as antigen-presenting cells. LLPC constitute an independent component of immunological memory. They are generated in the context of memory immune reactions and migrate to the bone marrow, where they persist for years and decades. Their survival is dependent on receiving distinct signals provided by cells forming a plasma cell survival niche. Displacement of a plasma cell or long-lived plasma cell from the survival niche might result in apoptosis of the cell.
(71) Long-lived plasma cells survive in a protected microenvironment for years or even a lifetime and provide humoral memory by establishing persistent Ab titers. The term “pathogenic long-lived plasma cell” refers to long-lived plasma cells, which may be for example autoreactive, malignant, and allergen-specific long-lived plasma cells. These pathogenic long-lived plasma cell are likewise protected in their survival niche and are refractory to immunosuppression, B cell depletion, and irradiation. Their elimination remains an essential therapeutic challenge. As a consequence of their longevity and persistence, long-lived plasma cells can support chronic inflammatory processes in autoimmune diseases by continuously secreting pathogenic antibodies, and they can contribute to flares of symptoms.
(72) Accordingly, the term “disease associated with pathogenic long-lived plasma cells” refers to, without limitation, plasma cell associated cancerous malignancies, such as plasmacytoma, multiple myeloma, Waldenström macroglobulinemia, Lymphoplasmacytic lymphoma (LPL), POEMS syndrome/osteosclerotic myeloma, Type I and II cryoglobulinemia, Primary Amyloidosis (AL), Heavy chain disease, Monoclonal gammopathy of undetermined significance (MGUS) and plasma cell leukemia; auto-antibody associated autoimmune diseases, such as rheumatoid arthritis, systemic lupus erythematosus (SLE), chronic immune thrombocytopenia, Sjögren's syndrome, or multiple sclerosis; and allergies through, for example, LLPCs that produce allergen-specific IgE antibodies. A skilled person is aware of diseases falling under this category and furthermore can determine these disease by employing established immunologic methods to interrogate long-lived plasma cells and their pathogenicity.
(73) According to a preferred embodiment of the invention, the pathogenic long-lived plasma cells interact with laminin β1-positive stroma cells. Laminin β1-positive stroma cells are stroma cells that can be identified as stroma cells that co-localize with laminin β1, for example in an microscopic analysis by immunofluorescence.
(74) Laminin β1 is a member of the family of laminin proteins, which are extracellular matrix glycoproteins, which are a major noncollagenous constituent of basement membranes. They have been implicated in a variety of processes including cell adhesion, differentiation, migration, signalling and metastasis. Laminins are composed of 3 non-identical chains: laminin alpha, beta and gamma (formerly A, B1, and B2, respectively). Each laminin chain is a multidomain protein encoded by a distinct gene. Several isoforms of each chain have been described. Different alpha, beta and gamma chain isomers combine to give rise to different heterotrimeric laminin isoforms, for example the alpha1-beta1-gamma1 heterotrimer is laminin 1. The beta chain isoform laminin β1has 7 structurally distinct domains, which it shares with other beta chain isomers. Laminin, beta 1 is expressed in most tissues that produce basement membranes, and is one of the 3 chains constituting laminin 1. A sequence in the beta 1 chain that is involved in cell attachment, chemotaxis, and binding to the laminin receptor was identified and shown to have the capacity to inhibit metastasis.
(75) The term “stroma cells” refers to various cells types that constitute the stroma of a tissue. The stroma is the part of a tissue or organ that has a connective and structural role. It consists of all the parts, which do not carry out the specific functions of the organ, for example, connective tissue, blood vessels, nerves, ducts, etc. The other part, the parenchyma, consists of the cells that perform the function of the tissue or organ. The stroma of the bone marrow is all tissue not directly involved in the bone marrow's primary function of hematopoiesis. The stroma of the bone marrow is indirectly involved in hematopoiesis, since it provides the hematopoietic microenvironment that facilitates hematopoiesis, for example by generating factors such as colony stimulating factors, which have a significant effect on hematopoiesis. Cell types that are comprised by the bone marrow stroma include, without limitation, fibroblasts (reticular connective tissue), macrophages, adipocytes, osteoblasts, osteoclasts and endothelial cells, which form the sinusoids, and endothelial stem cells.
(76) Multiple myeloma is a B cell malignancy of mature plasma cell morphology characterized by the neoplastic transformation of a single clone of these types of cells. These plasma cells proliferate in BM and may invade adjacent bone and sometimes the blood. Variant forms of multiple myeloma include overt multiple myeloma, smoldering multiple myeloma, plasma cell leukemia, non-secretory myeloma, IgD myeloma, osteosclerotic myeloma, solitary plasmacytoma of bone, and extramedullary Plasmacytoma.
(77) Auto-antibody associated autoimmune diseases that can be associated with pathogenic long-lived plasma cells and are comprised the diseases associated with long-lived plasma cells is preferably selected from Takayasu Arteritis, Giant-cell arteritis, familial Mediterranean fever, Kawasaki disease, Polyarteritis nodosa, cutanous Polyarteritis nodosa, Hepatitis-associated arteritis, Behcet's syndrome, Wegener's granulomatosis, ANCA-vasculitidies, Churg-Strauss syndrome, microscopic polyangiitis, Vasculitis of connective tissue diseases, Hennoch-Schönlein purpura, Cryoglobulinemic vasculitis, Cutaneous leukocytoclastic angiitis, Tropical aortitis, Sarcoidosis, Cogan's syndrome, Wiskott-Aldrich Syndrome, Lepromatous arteritis, Primary angiitis of the CNS, Thromboangiitis obliterans, Paraneoplastic ateritis, Urticaria, Dego's disease, Myelodysplastic syndrome, Eythema elevatum diutinum, Hyperimmunoglobulin D, Allergic Rhinitis, Asthma bronchiale, chronic obstructive pulmonary disease, periodontitis, Rheumatoid Arthritis, atherosclerosis, Amyloidosis, Morbus Chron, Colitis ulcerosa, Autoimmune Myositis, Diabetes mellitus, Guillain-Barre Syndrome, histiocytosis, Osteoarthritis, atopic dermatitis, periodontitis, chronic rhinosinusitis, Psoriasis, psoriatic arthritis, Microscopic colitis, Pulmonary fibrosis, glomerulonephritis, Whipple's disease, Still's disease, erythema nodosum, otitis, cryoglobulinemia, Sjogren's syndrome, Lupus erythematosus, preferably systemic lupus erythematosus (SLE), aplastic anemia, Osteomyelofibrosis, chronic inflammatory demyelinating polyneuropathy, Kimura's disease, systemic sclerosis, chronic periaortitis, chronic prostatitis, idiopathic pulmonary fibrosis, chronic granulomatous disease, Idiopathic achalasia, bleomycin-induced lung inflammation, cytarabine-induced lung inflammation, Autoimmunthrombocytopenia, Autoimmunneutropenia, Autoimmunhemolytic anemia, Autoimmunlymphocytopenia, Chagas' disease, chronic autoimmune thyroiditis, autoimmune hepatitis, Hashimoto's Thyroiditis, atropic thyroiditis, Graves disease, Autoimmune polyglandular syndrome, Autoimmune Addison Syndrome, Pemphigus vulgaris, Idiopathic thrombocytopenic purpura (ITP), Light chain deposition disease, Acute glomerulonephritis, Pemphigus and Pemphigoid disorders, and Epidermolysis bullosa acquisita, Pemphigus foliaceus, Dermatitis herpetiformis, Autoimmune alopecia, Vitiligo, Antiphospholipid syndrome, Myasthenia gravis, Stiff-man syndrome, Goodpasture's syndrome, Sympathetic ophthalmia, Folliculitis, Sharp syndrome and/or Evans syndrome, in particular hay fever, periodontitis, atherosclerosis, rheumatoid arthritis.
(78) Systemic lupus erythematosus (SLE), also known as lupus, is an autoimmune disease in which the body's immune system attacks healthy tissue in various parts of the body. Symptoms vary between people and may be mild to severe. Common symptoms include painful and swollen joints, fever, chest pain, hair loss, mouth ulcers, swollen lymph nodes, feeling tired, and a red rash which is most commonly on the face.
(79) Diseases associated with pathogenic long-lived plasma cells may also comprise B cell non-Hodgkin lymphoma, such as Burkitt lymphoma, chronic lymphocytic leukemia/small lymphocytic lymphoma (CLL/SLL), diffuse large B cell lymphoma, follicular lymphoma, immunoblastic large cell lymphoma, precursor B-lymphoblastic lymphoma, and mantle cell lymphoma.
(80) As used herein, “treatment” of a disease or “treating” a subject afflicted with a disorder shall mean slowing, stopping or reversing the disorder's progression. In the preferred embodiment, treating a subject afflicted with a disorder means reversing the disorder's progression, ideally to the point of eliminating the disorder itself. As used herein, ameliorating a disorder and treating a disorder are equivalent. The treatment of the present invention may also, or alternatively, relate to a prophylactic administration of the active agents described herein. Such a prophylactic administration may relate to the prevention of any given medical disorder, or the prevention of development of said disorder, whereby prevention or prophylaxis is not to be construed narrowly under all conditions as absolute prevention. Prevention or prophylaxis may also relate to a reduction of the risk of a subject developing any given medical condition, preferably in a subject at risk of said condition.
(81) According to a preferred embodiment of the present invention, the treatment comprises the combined administration of said polypeptide with an anti-B cell therapy, an immunosuppressive drug, an anti-tumor therapy or an anti-tumor chemotherapy.
(82) “Combined administration” may relate to concurrent and/or sequential administration of said polypeptide prior to, during and/or subsequent to said anti-B cell therapy, immunosuppressive drug and/or anti-tumor chemotherapy. Combined treatment shall also include a combination treatment regime comprising multiple administrations of either therapeutic component of the treatment. Further embodiments of combined administration are provided herein.
(83) Combined administration encompasses simultaneous treatment, co-treatment or joint treatment, and includes the administration of separate formulations of the polypepdide of the present invention with an anti-B cell therapy, an immunosuppressive drug or an anti-tumor chemotherapy, whereby treatment may occur within minutes of each other, in the same hour, on the same day, in the same week or in the same month or within 3 months as one another. Sequential administration of any given combination of combined agents is also encompassed by the term “combined administration”. A combination medicament, comprising one or more of said polypeptide with an anti-B cell therapy, an immunosuppressive drug and/or an anti-tumor chemotherapy, may also be used in order to co-administer the various components in a single administration or dosage.
(84) Anti-tumor therapies (or anti-cancer therapies) of the present invention comprise, without limitation, surgery, chemotherapy, radiotherapy, irradiation therapy, hormonal therapy, targeted therapy, immunotherapy, cell therapy and immune cell therapy.
(85) The term “anti-B cell therapy” refers to therapeutic approaches or compounds that are directed against B cells or pathogenic B cells, for example in the context of B cell mediated disease. B cell specific therapies known to a person skilled in the art and also the novel developments in the field with respect to recent advances are being monitored by the skilled person, so that suitable anti-B cell therapies can be identified. Anti-B cell therapies comprise, without limitation, antibodies and monoclonal antibodies and cell therapeutic agents that are directed against B cell antigens, such as the anti-CD20 monoclonal antibody Rituximab and anti-CD19 CAR T cells or B cell depletion.
(86) In the context of the present invention, chemotherapy refers to a category of cancer treatment that uses one or more anti-cancer drugs (chemotherapeutic agents) as part of a chemotherapy regimen. Chemotherapy may be given with a curative intent (which almost always involves combinations of drugs), or it may aim to prolong life or to reduce symptoms (palliative chemotherapy). Chemotherapy is one of the major categories of medical oncology (the medical discipline specifically devoted to pharmacotherapy for cancer). Chemotherapeutic agents are used to treat cancer and are administered in regimens of one or more cycles, combining two or more agents over a period of days to weeks. Such agents are toxic to cells with high proliferative rates such as cancer or tumor cells.
(87) Chemotherapeutic agents comprise, without limitation, Actinomycin, All-trans retinoic acid, Azacitidine, Azathioprine, Bleomycin, Bortezomib, Carboplatin, Capecitabine, Cisplatin, Chlorambucil, Cyclophosphamide, Cytarabine, Daunorubicin, Docetaxel, Doxifluridine, Doxorubicin, Epirubicin, Epothilone, Etoposide, Fluorouracil, Gemcitabine, Hydroxyurea, Idarubicin, Imatinib, Irinotecan, Mechlorethamine, Mercaptopurine, Methotrexate, Mitoxantrone, Oxaliplatin, Paclitaxel, Pemetrexed, Teniposide, Tioguanine, Topotecan, Valrubicin, Vinblastine, Vincristine, Vindesine, Vinorelbine.
(88) Irradiation or radiation therapy or radiotherapy in the context of the present invention relates to a therapeutic approach using ionizing or ultraviolet-visible (UVNis) radiation, generally as part of cancer treatment to control or kill malignant cells such as cancer cells or tumor cells. Radiation therapy may be curative in a number of types of cancer, if they are localized to one area of the body. It may also be used as part of adjuvant therapy, to prevent tumor recurrence after surgery to remove a primary malignant tumor (for example, early stages of breast cancer). Radiation therapy is synergistic with chemotherapy, and can been used before, during, and after chemotherapy in susceptible cancers. Radiation therapy is commonly applied to the cancerous tumor because of its ability to control cell growth. Ionizing radiation works by damaging the DNA of cancerous tissue leading to cellular death. Radiation therapy can be used systemically or locally.
(89) In the context of the present invention, immunosuppressive drugs refer to a class of drugs that suppress, or reduce, the strength of the body's immune system. Some of these drugs are used to make the body less likely to reject a transplanted organ, other immunosuppressant drugs are often used to treat autoimmune disorders. The person skilled in the art is able to identify suitable immunosuppressive drugs. Immunosuppressive drugs comprise, without limitation, corticosteroids, such as prednisone (Deltasone, Orasone), budesonide (Entocort EC), prednisolone (Millipred); Calcineurin inhibitors, such as cyclosporine (Neoral, Sandimmune, SangCya), tacrolimus (Astagraf XL, Envarsus XR, Prograf); mTOR inhibitors such as sirolimus (Rapamune), everolimus (Afinitor, Zortress); IMDH inhibitors, such as azathioprine (Azasan, Imuran), leflunomide (Arava), mycophenolate (CellCept, Myfortic); Biologics such as abatacept (Orencia), adalimumab (Humira), anakinra (Kineret), certolizumab (Cimzia), etanercept (Enbrel), golimumab (Simponi), infliximab (Remicade), ixekizumab (Taltz), natalizumab (Tysabri), rituximab (Rituxan), secukinumab (Cosentyx), tocilizumab (Actemra), ustekinumab (Stelara), vedolizumab (Entyvio); Monoclonal antibodies such as basiliximab (Simulect), daclizumab (Zinbryta), muromonab (Orthoclone OKT3).
(90) The present invention also relates to a mutant nontyphoidal Salmonella (NTS) bacterium for use as a vaccine in the prevention of a NTS infection in a subject, wherein the mutant NTS bacterium does not express a polypeptide comprising or consisting of a polypeptide of the present invention.
(91) In the context of the present invention, a “mutant” bacterium is a bacterium that carries genetic alteration in comparison to the “wild-type”, unmodified reference bacterium. Genetic alteration or mutations comprise insertions and deletions genetic material. Mutations may be spontaneous, due to error-prone replication bypass of naturally occurring DNA damage (also called error-prone translesion synthesis), due to errors introduced during DNA repair, or due to induction by mutagens. Also, mutations may be deliberately introduced through genetic manipulation.
(92) A deletion of genetic material is a mutation (a genetic aberration or alteration) in which a part of a chromosome or a sequence of DNA is lost, for example during DNA replication or through genetic engineering. Any number of nucleotides can be deleted, from a single base to several megabases or an entire piece of chromosome. Deletions that do not occur in multiples of three bases can cause a frameshift by changing the 3-nucleotide protein reading frame of the genetic sequence.
(93) In the context of the present invention, a “deletion of the SiiE encoding gene” can refers deletions of the entire genetic material or parts of the genetic material of a NTS bacterium encoding SiiE, wherein the expression of the protein by the NTS bacterium is prevented. Such deletions can also occur as mutations that prevent expression of SiiE, such as small deletions or even insertions of bases that lead to frame shift mutations leading to deletion of SiiE expression.
(94) Salmonella serotypes can be divided into two main groups-typhoidal and nontyphoidal Salmonella.
(95) Nontyphoidal serotypes comprise invasive and non-invasive nontyphoidal Salmonella. Nontyphoidal serotypes are more common, and usually cause self-limiting gastrointestinal disease. They can infect a range of animals, and are zoonotic, meaning they can be transferred between humans and other animals.
(96) Infection with nontyphoidal serotypes (NTS) of Salmonella generally causes food poisoning, wherein infants and young children are much more susceptible to infection. The organisms usually enter through the digestive tract, while inhalation might also lead to infection. Upon entry into the small intestine, the bacteria multiply in tissues and mostly cause gastrointestinal diseases such as enteritis. About 2,000 serotypes of nontyphoidal Salmonella are known to a person skilled in the art.
(97) Invasive strains of nontyphoidal Salmonellae have emerged as a prominent cause of bloodstream infection in African adults and children, with an associated case fatality of 20-25%, and include Salmonella enterica serovar Typhimurium. The clinical presentation of invasive non-typhoidal Salmonella disease in Africa is diverse: fever, hepatosplenomegaly, and respiratory symptoms are common, and features of enterocolitis are often absent. Most cases of invasive nontyphoidal Salmonella infection (iNTS) are caused by S. typhimurium or S. enteritidis. A new form of Salmonella typhimurium (ST313) emerged in the southeast of the African continent 75 years ago. The most important risk factors are HIV infection in adults, and malaria, HIV, and malnutrition in children.
(98) Typhoidal serotypes of Salmonella cause Typhoid fever, are strictly adapted to humans or higher primates and include Salmonella Typhi, Paratyphi A, Paratyphi B and Paratyphi C. In the systemic form of the disease, Salmonellae pass through the lymphatic system of the intestine into the blood of the patients (typhoid form) and are carried to various organs (liver, spleen, kidneys) to form secondary foci (septic form). Endotoxins first act on the vascular and nervous apparatus, resulting in increased permeability and decreased tone of the vessels, upset of thermal regulation, and vomiting and diarrhoea. In severe forms of the disease, enough liquid and electrolytes are lost to upset the water-salt metabolism, decrease the circulating blood volume and arterial pressure, and cause hypovolemic shock. Septic shock may also develop. Shock of mixed character (with signs of both hypovolemic and septic shock) is more common in severe salmonellosis. Oliguria and azotemia may develop in severe cases as a result of renal involvement due to hypoxia and toxemia.
(99) The term “vaccine” in the context of the present invention relates to a biological preparation that provides active acquired immunity to a particular disease, such as cancer, a pathogen or an infectious agent, such as bacteria or viruses. A vaccine can contain an agent or antigen that resembles or is derived from a disease-causing microorganism. Vaccines can be made from weakened, attenuated, mutated or killed forms of the pathogen, its toxins or one of its surface proteins. The agent stimulates the body's immune system to recognize the agent as a threat, destroy it, and recognize and destroy any pathogens or structures comprising the agent or antigen of the vaccine that it later encounters. Vaccines can be prophylactic (example: to prevent or ameliorate the effects of a future infection by a natural or “wild” pathogen), or therapeutic, such as specific cancer vaccines.
(100) In a preferred embodiment of NTS bacterium for use as a vaccine in the present invention, the subject is a human, galliformes, cattle, sheep, swine, horse or rodent. Galliformes is an order of heavy-bodied ground-feeding birds that includes turkey, grouse, chicken, New World quail and Old World quail, ptarmigan, partridge, pheasant, junglefowl and the Cracidae. Cattle, or cows, are raised livestock for meat (beef and veal), as dairy animals for milk and other dairy products. The term “swine” refers to domestic pigs. Rodents are mammals, which are characterized by a single pair of continuously growing incisors in each of the upper and lower jaws. Well-known rodents include mice, rats, squirrels, prairie dogs, porcupines, beavers, guinea pigs, hamsters, gerbils and capybaras.
EXAMPLES
(101) The invention is further described by the following examples. These are not intended to limit the scope of the invention, but represent preferred embodiments of aspects of the invention provided for greater illustration of the invention described herein.
(102) Methods Employed in the Examples
(103) Mice
(104) C57BL/6 mice were purchased from Charles River. CXCL12/GFP knock-in mice (Ara et al., 2003) were kindly provided by Dr. Takashi Nagasawa. Blimpgfp mice (Kallies et al., 2004) were generously supplied by Dr. Stephen L. Nutt. All mice were housed under specific pathogen-free conditions and were used at 6-16 weeks of age. All mouse experiments were performed in accordance with the German law for animal protection and with permission from the local veterinary offices, and in compliance with the guidelines of the Institutional Animal Care and Use Committee.
(105) Bacterial Strains and Growth Condition
(106) All Salmonella strains used in this study were derivatives of Salmonella enterica serovar Typhimurium X3306. Bacteria were grown in LB broth (1% Bacto tryptone (Difco), 0.5% Bacto yeast extract (Difco), 1% sodium chloride, pH7.4) and LB agar. When necessary, the medium was supplemented with chloramphenicol (20 μg/ml), kanamycin (25 μg/ml) and/or nalidixic acid (25 μg/ml). The bacterial strains used in this study are detailed in Table A. The number of viable bacteria in the organs of infected mice was determined by plating serial 10-fold dilutions of the homogenates on LB agar plates. Colonies were routinely counted 18 to 24 h later.
(107) TABLE-US-00002 TABLE A Bacterial strains used in this study Strains Relevant properties.sup.a References E. coli BB2395 Ion146::miniTn10 in MC4100 Tomoyasu et al., 2001 MC4100 F.sup.− araD139 Δ(argF-lac)U169 rpsL150 Our collection relA1 flbB5301 deoC1 ptsF25 rbsR Salmonella enterica serovar Typhimurium χ3306 Virulent strain, gyrA, WT Gulig and Curtiss III, 1987 CS2022 ΔIon::Cm in χ3306, ΔLon Takaya et al., 2002 CS2609 flhD::Tn10 in χ3306 Tomoyasu et al., 2003 CS3186 ΔIon::Cm in CS2609, ΔLonΔFlhD This study CS10044 ΔsiiE::Km in χ3306 This study CS10049 ΔsiiE::FRT in χ3306, ΔSiiE This study CS10063 ΔIon::Cm in CS10049, ΔLonΔSiiE This study .sup.aCm, chloramphenicol resistance; Km, kanamycin resistance.
ELISpot Assay and ELISA
(108) To count Ig-secreting cells, MultiScreen filter plates with PVDF membrane (Merck) were activated for 1 min with 35% ethanol followed by washing and were coated with 7.2 μg/ml of goat anti-mouse Ig, F(ab′)2 fragment (Jackson ImmunoResearch) overnight at 4° C. After washing and blocking with RPMI1640/10% FCS, diluted fresh cells were added and incubated for 5 h at 37° C. Following incubation, alkaline phosphatase-conjugated anti-IgG, IgG1, IgM or IgA (Southern Biotech) was added for 1 h at 37° C. and spots were visualized with BCIP/NBT Plus substrate (Mabtech) and were counted by ELISpot reader (AID). To measure total and anti-Salmonella antibodies, serum samples were incubated in plates coated with sonicated and filtrated Salmonella (10 μg/ml) or goat anti-mouse Ig, F(ab′)2 fragment. Isotype of antibodies was determined with alkaline phosphatase-conjugated antibodies to mouse IgG and IgM and pNPP substrate (Sigma) and was measured by SpectraMax i3x (Molecular Devices).
(109) Flow Cytometry
(110) Single-cell suspensions were prepared from the spleen, femur, small intestine and blood of individual mice. The viability of cells was assessed by Trypan blue exclusion. Blood cells were counted by Türk's solution (Merck). The absolute number of leukocytes in blood was enumerated based on the assumption that the total blood volume is 7.5% of the body weight. The total number of BM cells was calculated assuming that the cell number yielded from one femur corresponds to 6.3% of the entire BM population. For cell staining, cells were stained for 20 min at 4° C. with antibodies against B220 (RA3-6B2), IgD (11.26c), CD138 (REA104), CD44 (IM7), integrin α1 (REA493), α6 (GoH3), α7 (3C12), (Miltenyi Biotec), IgM (AF6-78), integrin α2 (HMa2), αV (RMV-7) (BioLegend), a3 (goat polyclonal), BCMA (161616) (R&D systems), integrin α4 (PS2, Abcam), CXCR4 (2B11, eBioscience), IgA (goat polyclonal anti-IgA; IgM- and IgG-absorbed, Southern Biotech) and 67-LR/RPSA (MLuC5, Santa Cruz Biotechnology). To exclude dead cells, we stained cells with 1 μg/ml propidium iodide (Sigma). For intracellular staining, cells were fixed with 2% formaldehyde (Sigma) for 15 min after cell surface staining and were stained with goat polyclonal anti-IgG Fc fragment (F(ab′)2 fragment, Jackson ImmunoResearch) in the presence of 0.5% saponin (Sigma). To test the binding of SiiE fragment to IgG-secreting plasma cells, BM or splenic cells were incubated with GST-SiiE 97-170 or GST protein in Iscove's Modified Dulbecco's Medium (IMDM) with 10% FCS and 1 mM MnCl2 on ice for 30 min, stained with antibodies against GST (B-14, Santa Cruz Biotechnology), CD138, IgM, IgA and B220 on ice for 20 min and analyzed by flow cytometry. IgM- and IgA-secreting plasma cells express surface Ig (Kamata et al., 2000; Reynolds et al., 2015). More than 95% of sorted IgM-IgA-CD138+B220-plasma cells were IgG-secreting cells when measured by ELISpot assay (data not shown). Stained samples were measured by BD FACS Cantoll or LSRII flow cytometer (BD Biosciences) and were analyzed by FlowJo software (Flowjo, LLC).
(111) Immunofluorescent Staining and Confocal Microscopy
(112) For immunofluorescence staining, as described previously (Tokoyoda et al., 2009), samples were fixed in 4% paraformaldehyde and equilibrated in 30% sucrose (Sigma). Cryosections of adult femurs were produced by Kawamoto's film method (Kawamoto and Kawamoto, 2014), blocked with 5% FCS in PBS for 30 min, stained with antibodies against laminin β1 (LT3, 1:100, Dianova), VCAM-1 (429, 1:10, Miltenyi Biotec), fibronectin (rabbit polyclonal, 1:700, Sigma), IgG Fc fragment (F(ab′)2 fragment, 1:400, Jackson ImmunoResearch) and IgM (11/41, 1:100, eBioscience) for over 2 h and mounted with fluorescent mounting medium (DakoCytomation). Affinity-purified rabbit polyclonal anti-SiiE antibodies were generated by GenScript. As secondary antibodies, Cy3-labelled anti-rat IgG (1:600, Jackson ImmunoResearch), AlexaFluor 546-labeled streptavidin or anti-rabbit IgG (1:2000 or 1:600, Life Technologies) were used. All histological analyses were carried out with a confocal laser microscope (LSM710, Carl Zeiss).
(113) RNA Preparation and Quantitative RT-PCR Analysis
(114) Total RNA was isolated using the Trizol reagent (Life Technologies). The complementary DNA was synthesized using oligo (dT) primers and High Capacity RNA-to-cDNA Kit (AppliedBiosystems). For quantitative RT-PCR analyses, the following primers were used: cxcll2 fwd AAACCAGTCAGCCTGAGCTACC (SEQ ID NO 14), rev GGCTCTGGCGATGTGGC (SEQ ID NO 15); april fwd CTGGAGGCCCAGGGAGACAT (SEQ ID NO 16), rev GCACGGTCAGGATCAGAAGG (SEQ ID NO 17); Igals1 fwd ATCCTCGCTTCAATGCCCATGG (SEQ ID NO 18), rev GGTGATGCACACCTCTGTGATG (SEQ ID NO 19); hprt fwd TCCTCCTCAGACCGCTTTT (SEQ ID NO 20), rev CATAACCTGGTTCATCATCGC (SEQ ID NO 21).
(115) Construction of Salmonella Mutant Strains
(116) The strain CS10044 (ΔsiiE::Km) was constructed as followed by λRed and flippase (FLP)-mediated recombination essentially as described by Datsenko and Wanner (Datsenko and Wanner, 2000). PCR products used to construct gene replacements were generated with template plasmid pKD4 and the primer set of siiE-P1-F (TTACCACGCCGCGTGGTTCAGTGATCATTGTCAATGGCGCTCGTGTAGGCTGGAGCTGCTT C) (SEQ ID NO 22) and siiE-P2-R (GTGCTGTCCAGCACGATAGTCGGTTCTGACAGTAGGGTATCGCATATGAATATCCTCCTTA G) (SEQ ID NO 23). 1.4-kbp fragment generated was purified and then introduced into strain χ3306 carrying pKD46 encoding the λRed recombinase, by transformation. The insertion of Km-resistant gene in siiE locus was verified by PCR amplification of the chromosomal DNA with the primer set of siiE-check-F (TAATGCCAAAGGCGCAAAAG) (SEQ ID NO 24) and siiE-check-R (TACGTTGGTCAGGTGATCGC) (SEQ ID NO 25) and by DNA sequencing. To construct CS10049 (ΔsiiE::FRT), pCP20 encoding FLP recombinase was introduced into CS10044 by transformation. The FRT insertion in siiE was checked by PCR.
(117) To construct CS3186 (ΔLonΔF1hD) and CS10063 (ΔLonΔSHE), bacteriophage P22 was propagated on CS2022, and the resultant lysates were used for infection of CS2609 and CS10049, respectively. The transductants were selected for chloramphenicol resistance.
(118) Purification of GST-Tapped Fusion SiiE 97-170 Protein
(119) A plasmid, pTKY1271, for purification of SiiE 97-170 protein fused to the C-terminus of the Glutathione S-transferase (GST) was amplified from the chromosome of X3306 by colony direct PCR, using GST-SiiE97-BamHI-F (5′-CTGGGATCCTCTGCTCAGGTAGAAAAGAAAGG-3′) (SEQ ID NO 26) and GST-SHE170-Sall-R (5′-CTCGAGTCGACTTACAAAAAGTTCTGCAGCATTTC-3′) (SEQ ID NO 27) primers. The fragment generated was cleaved with BamHI at the 5′ end and Sall at the 3′ end, and cloned into vector pGEX-6P-1.
(120) E. coli DH5αZ1 was transformed with the plasmid pTKY1271, and the transformants were grown at 37° C. to an OD600 of 0.5 in 31 of L broth containing 0.5% glucose and 50 μg/ml ampicillin before adding IPTG to 1 mM induced GST-tagged fusion SiiE 97-170 expression. After 3 h incubation at 37° C., cells were pelleted and resuspended in B-PERTM (PBS) Bacterial Protein Extraction Reagent (ThermoFisher) containing 50 μg/ml DNasel (Sigma-Aldrich). Cells were lysed for 30 min on ice and centrifuged at 8,000 ×g for 30 min at 4° C. The supernatant was added to a MagneGST Glutathione Particles (Promega) equilibrated with PBS and incubated with gentle mixing for 2 h at 4° C. After washing with PBS, the fusion protein was eluted with Elution buffer (50 mM Tris-HCl pH 8.1, 50 mM gultathione). To purified the GST-tagged fusion SiiE 97-170 protein, this fraction was run on gel chromatography (Superose6 10/300; GE Healthcare) with PBS. The peak fraction was concentrated with Centriprep YM-10 (Millipore) and then used as the purified GST-tagged fusion SiiE 97-170 protein.
(121) Characterization of Protein in Culture Supernatant
(122) CS3186 cells were grown in 6 liters of LB broth at 37° C. to an OD600 of 1.0 and removed by centrifugation at 6,000 ×g for 10 min at 4° C. The supernatant was filtered using an Express PLUS filter system (Millipore) and then proteins were precipitated by adding ammonium sulfate to a final concentration of 80%. The precipitated proteins were collected by centrifugation at 6,000 ×g for 10 min at 4° C. and dissolved with 10 ml of 50 mM Tris-HCl pH8.0. After desalting by PD-10 column (GE Healthcare), proteins were loaded onto RESOURSE Q column (1 ml, GE Healthcare), equilibrated in buffer A (20 mM Tris-HCl pH8.0, 10% glycerol) and eluted with buffer A containing a 0-1 M NaCl linear gradient. After dialysis with PBS, the ability to numerically diminish the plasma cells was assessed by inoculation of 200 μl of each fraction into C57BL/6 mice. Proteins in the fractions with this activity were recovered by TCA precipitation and were separated with 7.5% SDS-PAGE. The proteins visualized by Coomassie brilliant blue staining were analyzed by nano LC-MS/MS (Japan Bio Services Co.).
(123) In Vitro Cell Adhesion Assay
(124) As described previously (Hanazawa et al., 2013), 96-well plates (Greiner Bio-One) were immobilized with 30 μg/ml of murine laminin (Sigma) overnight at 4° C., dried, washed with PBS and blocked with 2% fatty acid-free bovine serum albumin for 2 h at 37° C. Ten thousand sorted CD138+B220-IgM-IgA-cells from BM of C57BL/6 mice were incubated with GST-SiiE 97-170 or GST protein in IMDM with 10% FCS and 1 mM MnCl2 on ice for 30 min and then incubated additionally with 1 ng/ml of phorbol 12-myristate 13-acetate for 1 h at 37° C. Following washing three times with pre-warm PBS including 1 mM CaCl2 and 0.5 mM MgCl2 with automatic microplate washer (Dispense speed 4, Aspirate speed 4, Bio-Tek), adherent cells were measured as viable cells using the Cell-titer Glo reagent (Promega) and a luminometer (SpectraMax, Molecular Devices).
(125) Statistical Analyses
(126) All statistical analyses were performed using two-tailed Student's t-tests.
(127) Growth Curve of Salmonella enterica serovar Typhimurium
(128) Bacterial cells of strains CS2022 (ΔLon, circle) and CS10063 (ΔLonΔSHE, square) were grown overnight at 37° C. and diluted 1:100 into fresh medium. At indicated time points, an aliquot of the culture was diluted with PBS and plated out on LB agar to determine the number of bacteria.
(129) TCA Precipitation of Secreted Proteins
(130) Bacterial cells were grown in 10 ml of LB broth at 37° C. to an OD600 of 1.0 and removed by centrifugation at 6,000×g for 10 min at 4° C. The supernatant was filtrated using a Minisart High Flow syringe filter (Sartrius), then mixed with pre-chilled trichloroacetic acid (TCA; final concentration 10%), chilled on ice for 20 min, and centrifuged at 6,000 ×g for 10 min at 4° C. The pellets were washed once with acetone and suspended in 100 μl of Laemmli's SDS-sample buffer. Proteins were detected by SDS-12.5% PAGE, followed by staining with Coomassie brilliant blue.
Results of the Examples
(131) Summary of the Results
(132) Serum IgG, which is mainly generated from IgG-secreting plasma cells in the bone marrow (BM), protects our body against various pathogens. Here we show that Salmonella specifically reduces numbers of IgG-secreting plasma cells but not IgM-secreting cells in the BM and consequently reduces IgG titers in serum, whilst Salmonella is undetectable in the BM. Using chromatography and mass spectrometry, we identified SiiE protein which is secreted from Salmonella and specifically reduces numbers of IgG-secreting plasma cells in the BM. The reduction was caused by a Salmonella protein SiiE but not by lipopolysaccharide (LPS), flagellin or reduced CXCL12. SiiE-deficient Salmonella failed to reduce numbers of BM IgG-secreting plasma cells and strongly induced production of Salmonella-specific IgG in the infected mice. A forty amino acid-long peptide from the N-terminal domain of SiiE protein with homology to murine laminin β1 also reduced numbers of IgG-secreting plasma cells in the BM, suggesting that SiiE inhibits the interaction between the plasma cells and laminin β1. Histological analysis revealed that laminin β1 specifically binds to IgG- but not IgM-secreting plasma cells. Our study demonstrates that laminin β1 is a component of distinct survival niches for IgG-secreting plasma cells in the BM. We suggest that Salmonella secretes SiiE and inhibits the retention of IgG-secreting plasma cells in the BM as a strategy to escape from humoral immunity. In applied terms, SiiE-deficient Salmonella is promising vaccine candidates and SiiE-derived components would be harnessed for the treatment of autoimmune diseases and multiple myeloma by depleting pathogenic memory plasma cells in the BM.
Example 1
Salmonella Specifically Reduces Numbers of IaG-Secreting Plasma Cells in the BM
(133) Salmonella escapes from humoral immunity and can survive in the body for long time periods, resulting in chronic infectious disease. Long-lasting persistence requires that Salmonella continues to relocate between short-lived macrophages via body fluids containing antibodies. We first examined the influence of Salmonella on the production of antibodies, using a chronic infection model, mimicked by intraperitoneal infection of attenuated Salmonella (Lon-depletion) (Takaya at el., 2002; Kodama et al., 2005). C57BL/6 mice received 104 colony-forming units (CFU) of the attenuated Salmonella intraperitoneally. Infected Salmonella expanded on days 4-7 in the spleen and liver and stayed there as a small population until day 20, the end of the observation period (
Example 2
Salmonella Protein SiiE Reduces BM IaG-Secreting Plasma Cells
(134) On day 4 after infection, most Salmonella could be detected in the spleen and liver but not in the BM (
(135) We fractionated proteins in the supernatant by ion-exchange chromatography and screened each fraction for its impact on BM IgG-secreting plasma cells in vivo. By sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE) and mass spectrometry, we then identified a protein, SiiE, as most likely active component. Supernatant from SiiE-deficient, attenuated Salmonella failed to reduce numbers of IgG-secreting plasma cells in the BM (
Example 3
Lamininβ1+CXCL12+Stromal Cells Organize Survival Niches for BM IgG-Secreting Plasma Cells
(136) Does laminin β1 bind to BM IgG-secreting plasma cells? Histological analysis showed that laminin β1 is ubiquitously distributed in the marrow (
Example 4
Loss of SiiE Enhances the Production of Anti-Salmonella IaG
(137) As shown above, SiiE inhibits the residency of BM IgG-secreting plasma cells, since culture supernatant of SiiE-deficient mutant fails to reduce plasma cell numbers. We thus expected that the SiiE mutant, because it does not impact on BM IgG-secreting plasma cells via SiiE, enhances production of antibodies against Salmonella. C57BL/6 mice infected with the SiiE mutant bacteria were analyzed for their titers of anti-Salmonella IgG. The SiiE-competent and the SiiE mutant strains of Salmonella did expand normally in vitro (
Example 5
CXCL12-Dependent Reduction of B Cells but not IaG-Secreting Plasma Cells by Salmonella
(138) Bacterial infection affects the innate and the adaptive immune system. Salmonella reduced numbers of B cells in the BM and increased numbers of B cells in the spleen on day 4 after infection (
Example 15
SiiE129 Peptide Reduce Numbers of DNA-Specific IaG-Secreting Plasma Cells in the Bone Marrow in a Murine Model of Systemic lupus Erythematosus
(139) NZB/VV Fl female mice (5-6 months old) received i.p. 100 μg peptide coding SiiE amino acid 129-168 on days 0, 3, 7 and 10 and on day 11 were analyzed for anti-DNA IgG-secreting cells in the BM by ELISpot assay. The data show that SiiE 129-168 reduces the number of Anti-DNA IgG-secreting cells in bone marrow (
(140) Discussion
(141) We here show that Salmonella specifically reduces numbers of IgG-secreting plasma cells in the BM, which are a main source of serum IgG, in an SiiE-dependent and CXCL12-independent manner. Since no Salmonella could be detected in the BM and the reduction was also induced by culture supernatant of Salmonella, we conclude that a secreted component of Salmonella is responsible. We have identified the Salmonella protein SiiE as the responsible component. A peptide of SiiE, which has high homology to murine laminin 61, was able to reduce numbers of BM IgG-secreting plasma cells. Histological analyses of the BM revealed that IgG- but not IgM-secreting plasma cells bind to laminin 61. Thus, laminin 61+CXCL12+ stromal cells are an integral part of the survival niches for IgG-secreting plasma cells in the BM, a lesson learnt from Salmonella.
(142) We had shown earlier that BM IgG+ plasma cells reside in CXCL12+ stromal niches (Tokoyoda et al., 2004). Although the character of IgM-secreting plasma cells remains controversial, they reside in the BM and are the main source of natural IgM in serum (Reynolds et al., 2015). Reynolds et al. suggested that IgM- and IgG-secreting plasma cells localize in distinct niches, because fewer IgM+ plasma cells are in contact with eosinophils in comparison to IgG+ plasma cells. Here we identify one essential difference between survival niches for IgM- and IgG-secreting plasma cells: the presence of laminin 61. The receptor of BM IgG-secreting plasma cells, as well as the intracellular signaling events, remain enigmatic, although more BM IgM-Blimp-1+ plasma cells, which include IgG-secreting plasma cells, express integrin a2 than BM IgM+Blimp-1+ and splenic Blimp-1 + plasma cells.
(143) We posed the question as to how the plasma cells disappeared, e.g. by egress or death. No egress of IgG-secreting plasma cells into the spleen and blood could be detected on day 4 after intraperitoneal infection. Slocombe et al. showed that on days 8 and 16 after intravenous infection with 106 CFU of attenuated Salmonella, BM Ig+ plasma cells migrated into the spleen and then failed to return to the BM, perhaps because of the reduced expression of CXCL12 in the BM (Slocombe et al., 2013). The longterm reduction until day 16 suggests that the plasma cells were detached from their survival niches by the Salmonella-specific protein SiiE and died by lack of survival factors.
(144) Salmonella affects the expression of CXCL12 but not fibronectin, VCAM-1 and APRIL. CXCL12 is required for the formation of long-lived memory plasma cells in the BM, because CXCR4-deficient fetal liver cells fail to generate the plasma cells (Hargreaves et al., 2001). However, it was controversial when CXCL12 is required during the formation; i.e. migration and/or maintenance. Hauser et al. showed that the migratory capacity of newly generated plasma cells is lost between day 8 and 12 after boost, suggesting that CXCL12 is required for the migration of plasma cells into their survival niches but not for their maintenance (Hauser et al., 2002). We here show that CXCR4 antagonist can inhibit the retention of B cells but not IgG-secreting plasma cells. Our data directly support the hypothesis that CXCL12 is not required for the retention and maintenance of IgG-secreting plasma cells in the BM.
(145) Our data suggest that SiiE inhibits the interaction of IgG-secreting plasma cells with laminin β1 in the BM. Salmonella thus modulates humoral immunity by reducing numbers of IgG-secreting plasma cells in the BM. Laminin β1 is also expressed on mucosal epithelia. In mice and cattle, the loss of SiiE attenuated the virulence of natural oral infection with Salmonella, but not of intraperitoneal infection with Salmonella (Morgan et al., 2004; Kiss et al., 2007). Orally-infected Salmonella secretes SiiE and invades into the gut, likely blocking the interaction of laminin β1 and its receptors on epithelia. The ability to persist in the gut may be utilized as a side effect to replace BM IgG-secreting plasma cells. The gain of SiiE in Salmonella may provide advantage for the residence in animal and human hosts.
(146) Salmonella specifically reduced all kinds of IgG-secreting plasma cells in the BM on day 4 after infection. In mice previously infected with Salmonella, newly invaded Salmonella can reduce long-lived anti- Salmonella IgG-secreting plasma cells which the main source of anti-Salmonella IgG in circulation. The depletion of humoral immune memory enables the new Salmonella to spread in the host. Infection with Salmonella induces humoral immune reaction (
(147) Infection with Salmonella enterica serovar Typhi, which is restricted to humans and causes severe and often fatal typhoid fever, can be prevented by vaccination with attenuated strains, e.g. Ty21a (Anwar et al., 2014). In contrast, vaccination against Salmonella enterica serovar Typhimurium, which causes severe food poisoning in humans, cattle, swine, sheep, horses, rodents and galliformes is not yet available. Diseases caused by these invasive nontyphoidal Salmonella (iNTS), including Salmonella enterica serovar Typhimurium, have been neglected, although the fatality rate at 20-25% is higher than that by infection with Salmonella enterica serovar Typhi (MacLennan et al., 2014). The SiiE gene in Salmonella enterica serovar Typhi has been reported as two distinct ORFs (9,852 bp and 6,771 bp, Typhimurium has 16,680 bp), suggesting that it is a pseudogene (Main-Hester et al., 2008). Furthermore, siiE gene in Salmonella enterica serovar Typhi has a mutation (148 A>T) within the sequence with closed homology to laminin β1. A lack of SiiE or non-functional SiiE in Salmonella enterica serovar Typhi may be a reason why potent vaccines against Salmonella Typhi are available. We show here that SiiE-deficient mutant of Salmonella enterica serovar Typhimurium can induce efficient immune responses, as compared to SiiE-competent Salmonella. To establish vaccines against iNTS, including Salmonella enterica serovar Typhimurium, we propose SiiE-deficient mutant attenuated Salmonella as a novel vaccine.
(148) SiiE peptide homologous to laminin β1 significantly reduced numbers of IgG-secreting plasma cells in the BM. This property could be exploited for the treatment of autoimmune diseases and multiple myeloma. Autoimmune diseases with a substantial contribution of pathogenic IgG autoantibodies, like systemic lupus erythematosous, can be refractory to conventional treatment, because BM plasma cells secreting these autoantibodies are protected in their BM niches (Hoyer et al., 2004; Hiepe et al., 2011; Cheng et al., 2013). The SiiE-derived laminin β1 homologue is a candidate for depletion of refractory autoantibody-secreting BM plasma cells. Multiple myeloma is caused by redundant titers of antibodies generated from plasma cell myeloma in the BM. It has been already reported that myeloma cell lines preferentially contact laminin in vitro (Kibler et al., 1998; Vande Broek et al., 2001), suggesting that targeting of adhesion molecules including laminin should be considered as novel therapy (Neri and Bahlis, 2012). The depletion of BM plasma cell myeloma may directly ameliorate disease.
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