# US 2014/0024017 A1 · IDENTIFICATION OF A NOVEL HUMAN POLYOMAVIRUS (IPPyV) AND APPLICATIONS > Agents: this data is available as JSON from the patentgrep API and MCP server — see https://patentgrep.com/llms.txt - Number: US 2014/0024017 A1 - Document ID: US20140024017A1 - Status: Published application - Kind: A1 - Application number: 13/977,043 - Filed: 2011-12-27 - Published: 2014-01-23 - Earliest claimed: 2010-12-30 - Inventors: Marc Eloit; Justine Cheval; Virginie Sauvage - Web page: https://patentgrep.com/patent/US20140024017A1 ## CPC - G01N 33/68: involving proteins, peptides or amino acids {(involving lipoproteins G01N33/92)} - C07K 14/005: from viruses - C12Q 1/701: {Specific hybridization probes} - A61K 39/00: Medicinal preparations containing antigens or antibodies (materials for immunoassay G01N33/53) - C12N 2710/20022: New viral proteins or individual genes, new structural or functional aspects of known viral proteins or genes - C12N 2710/22021: Viruses as such, e.g. new isolates, mutants or their genomic sequences - C12N 2710/22041: Use of virus, viral particle or viral elements as a vector - Y02A 50/30: Against vector-borne diseases, e.g. mosquito-borne, fly-borne, tick-borne or waterborne diseases whose impact is exacerbated by climate change - G01N: INVESTIGATING OR ANALYSING MATERIALS BY DETERMINING THEIR CHEMICAL OR PHYSICAL PROPERTIES (measuring or testing apparatus or processes other than immunoassay, involving enzymes or microorganisms C12M, C12Q) - C07K: PEPTIDES (peptides in foodstuffs A23; obtaining protein compositions for foodstuffs, working-up proteins for foodstuffs A23J; preparations for medicinal purposes A61K; peptides containing beta-lactam rings C07D; cyclic dipeptides not having in their molecule any other peptide link than those which form their ring, e.g. piperazine-2,5-diones, C07D; ergot alkaloids of the cyclic peptide type C07D519/02; macromolecular compounds having statistically distributed amino acid units in their molecules, i.e. when the preparation does not provide for a specific; but for a random sequence of the amino acid units, homopolyamides and block copolyamides derived from amino acids C08G69/00; macromolecular products derived from proteins C08H1/00; preparation of glue or gelatine C09H; single cell proteins, enzymes C12N; genetic engineering processes for obtaining peptides C12N15/00; compositions for measuring or testing processes involving enzymes C12Q; investigation or analysis of biological material G01N33/00) - C12Q: MEASURING OR TESTING PROCESSES INVOLVING ENZYMES, NUCLEIC ACIDS OR MICROORGANISMS (immunoassay G01N33/53); COMPOSITIONS OR TEST PAPERS THEREFOR; PROCESSES OF PREPARING SUCH COMPOSITIONS; CONDITION-RESPONSIVE CONTROL IN MICROBIOLOGICAL OR ENZYMOLOGICAL PROCESSES - A61K: PREPARATIONS FOR MEDICAL, DENTAL OR TOILETRY PURPOSES (devices or methods specially adapted for bringing pharmaceutical products into particular physical or administering forms A61J3/00; chemical aspects of, or use of materials for deodorisation of air, for disinfection or sterilisation, or for bandages, dressings, absorbent pads or surgical articles A61L; soap compositions C11D) - C12N: MICROORGANISMS OR ENZYMES; COMPOSITIONS THEREOF; PROPAGATING, PRESERVING, OR MAINTAINING MICROORGANISMS; MUTATION OR GENETIC ENGINEERING; CULTURE MEDIA (microbiological testing media C12Q1/00) - Y02A: TECHNOLOGIES FOR ADAPTATION TO CLIMATE CHANGE ## Abstract The invention relates to the identification of a novel human polyomavirus species (designated IPPyV) and applications derived from the identified features and properties of this virus. The IPPy virus species of the invention qualifies as a human virus, in view of the fact that it is capable of infecting a human host. Having identified a novel human polyomavirus species, IPPyV, the inventors have been able to propose means for the detection of exposure or infection by such a virus, especially detection in a biological sample previously obtained from a human host. The invention also concerns means suitable for obtaining an immune response in a host with a view to prevent the onset or the development of an infection with an IPPyV. ## Claims ### Claim at position 1 1-29. (canceled) ### Claim 30 A recombinant polynucleotide or non naturally occurring polynucleotide that comprises or consists of: A) the sequence shown in SEQ ID NO: 1 or in SEQ ID NO: 82; B) an inverse complement of the sequence shown in SEQ ID NO: 1 or in SEQ ID NO: 82; C) a fragment of at least 50 nucleotides of the sequence of A) or B); or D) a sequence that hybridizes under stringent conditions with at least one of A), B), and C). ### Claim 31 (depends on 30) The polynucleotide as claimed in claim 30, comprising or consisting of a sequence selected from: A) the sequence of SEQ ID NO: 2 (VP1) or a sequence at least 44.9% identical thereto; B) the sequence of SEQ ID NO: 4 (VP2) or a sequence at least 77.5% identical thereto; C) the sequence of SEQ ID NO: 6 (VP3) or a sequence at least 75.5% identical thereto; D) the sequence of SEQ ID NO: 83 (Large T) or a sequence at least 60.2% identical thereto; or E) the sequence of SEQ ID NO: 10 (Small T) or a sequence at least 78.6% identical thereto. ### Claim 32 (depends on 30) The polynucleotide as claimed in claim 30, comprising or consisting of a sequence selected from: A) the sequence of SEQ ID NO: 12; B) the sequence of SEQ ID NO: 14; C) the sequence of SEQ ID NO: 16; D) the sequence of SEQ ID NO: 85; E) the sequence of SEQ ID NO: 86; F) the sequence of SEQ ID NO: 87; or G) the sequence of SEQ ID NO: 88. ### Claim 33 (depends on 30) A vector comprising a polynucleotide as claimed in claim 30. ### Claim 34 A recombinant polypeptide of at least 20 amino acids comprising a polypeptide sequence encoded by a polynucleotide that: A) is the sequence shown in SEQ ID NO: 1 or in SEQ ID NO: 82; B) is an inverse complement of the sequence shown in SEQ ID NO: 1 or in SEQ ID NO: 82; C) is a fragment of at least 60 nucleotides of the sequence of A) or B); or D) is a sequence that hybridizes under stringent conditions with at least one of A), B), and C). ### Claim 35 (depends on 34) The recombinant polypeptide as claimed in claim 34, that is encoded by a polynucleotide sequence that is: A) the sequence of SEQ ID NO: 2 (VP1) or a sequence at least 44.9% identical thereto; B) the sequence of SEQ ID NO: 4 (VP2) or a sequence at least 77.5% identical thereto; C) the sequence of SEQ ID NO: 6 (VP3) or a sequence at least 75.5% identical thereto; D) the sequence of SEQ ID NO: 83 (Large T) or a sequence at least 60.2% identical thereto; or E) the sequence of SEQ ID NO: 10 (Small T) or a sequence at least 78.6% identical thereto. ### Claim 36 (depends on 34) The recombinant polypeptide as claimed in claim 34, that is: A) a polypeptide comprising the amino acid sequence of SEQ ID NO: 3, SEQ ID NO: 5, SEQ ID NO: 7, SEQ ID NO: 84, SEQ ID NO: 11, SEQ ID NO: 13, SEQ ID NO: 15, or SEQ ID NO: 17; B) a polypeptide that immunologically reacts with antibodies raised against a polypeptide comprising the amino acid sequence of SEQ ID NO: 3, SEQ ID NO: 5, SEQ ID NO: 7, SEQ ID NO: 84, SEQ ID NO: 11, SEQ ID NO: 13, SEQ ID NO: 15, or SEQ ID NO: 17; or C) a polypeptide that is at least 70% identical to the amino acid sequence of SEQ ID NO: 3, SEQ ID NO: 5, SEQ ID NO: 7, SEQ ID NO: 84, SEQ ID NO: 11, SEQ ID NO: 13, SEQ ID NO: 15, or SEQ ID NO: 17. ### Claim 37 (depends on 34) An isolated antibody that binds to a polypeptide as claimed in claim 34, wherein the antibody does not cross-react with the following human polyomaviruses: the JC virus, the BK virus, the KI polyomavirus, the WU polyomavirus, the Merkel cell polyomavirus, and the Trichodysphasia spinulosia-associated polyomavirus. ### Claim 38 (depends on 34) A kit for detecting a polyomavirus of the IPPyV species, comprising a recombinant polypeptide as claimed in claim 34 and an immunological detection reagent. ### Claim 39 (depends on 37) A kit for detecting a polyomavirus of the IPPyV species, comprising an antibody as claimed in claim 37 and an immunological detection reagent. ### Claim 40 (depends on 34) A method for detecting antibodies against a polyomavirus of the IPPyV species, comprising: A) providing a sample; B) contacting the sample with a polypeptide as claimed in claim 34; and C) assaying for an immunological reaction between an antibody in the sample and the polypeptide. ### Claim 41 (depends on 37) A method for detecting an antigen of a polyomavirus of the IPPyV species, comprising: A) providing a sample; B) contacting the sample with an antibody as claimed in claim 37; and C) assaying for an immunological reaction between the sample and the antibody. ### Claim 42 A method for detecting an IPPyV nucleic acid sequence, comprising: A) providing a sample; B) amplifying a IPPyV nucleic acid sequence in the sample; and C) detecting the amplified IPPyV nucleic acid sequence. ### Claim 43 (depends on 42) The method of claim 42, wherein the method comprises contacting the sample with a probe or primer that specifically binds to a target sequence selected from the sequence shown in SEQ ID NO: 1 and the inverse complement of the sequence shown in SEQ ID NO: 1 or in SEQ ID NO: 82. ### Claim 44 (depends on 42) The method of claim 42, wherein the method comprises detecting hybridization between a probe and the amplified IPPyV nucleic acid sequence. ### Claim 45 (depends on 42) The method of claim 42, wherein the method comprises detecting amplification of the amplified IPPyV nucleic acid sequence. ### Claim 46 (depends on 42) The method of claim 42, wherein the method comprises sequencing the amplified IPPyV nucleic acid sequence. ### Claim 47 (depends on 42) The method of claim 42, wherein the method comprises amplifying the IPPyV nucleic acid sequence by PCR. ### Claim 48 (depends on 43) The method of claim 43, wherein the probe or primer is the polynucleotide show in SEQ ID NO: 85, SEQ ID NO: 86, SEQ ID NO: 87, and SEQ ID NO: 88. ### Claim 49 (depends on 47) The method of claim 47, wherein the PCR is performed with the pair of primers shown in SEQ ID NO: 85 and SEQ ID NO: 86. ### Claim 50 (depends on 47) The method of claim 47, wherein the PCR is performed with the pair of primers shown in SEQ ID NO: 87 and SEQ ID NO: 88.