Papilloma virus probes and in vitro methods for the diagnosis of papilloma virus infections
19 claims: 19 independent, 0 dependent
- 1Composition useful for the detection of papillomavirus in a biological medium which contains it, characterized in that it comprises one or several distinct cloned DNA-HPVs selected from the cloned DNAs deposited on November 30, 1984 at the C.N.C.M. (National Collection of Cultures of Micro-organisms of the PASTEUR INSTITUTE of Paris), under the numbers hereafter:- or one or several corresponding cloned DNAs which hybridize with any of those which have been filed at the C.N.C.M., under stringent conditions: heating of these recombinant DNAs, after denaturation and prior transfer on transfer filters for hybridization at 80°C for 4 hours, prehybridization overnight at 42°C of the filters in Denhardt solution, 2 x SSC, 50mM sodium phosphate (pH 6.5), calf thymus DNA (250 µg/ml) and 35 % deionized formamide, then hybridization in the same solution during 48 hours at 42°C with the ³²P - labeled viral DNA (2 x 10⁴ cpm/cm²) and washing of the filters by shaking over 30 minutes at 50°C in a 60 mM Tris-hydrochloride solution (pH8), 2 mM EDTA, 300 mM NaCl and 0.5% sodium dodecyl sulfate during 30 minutes at ambient temperature in a 3 mM Tris solution.- or one or several cloned fragments selected among the fragments obtained from the cloned HPV-DNAs filed at the CNCM under the abobe indicated numbers and which correspond to E1-;E6-;E7-;L1-;L2- regions or to intergenic regions of said cloned DNAs;- or one or several fragments of corresponding cloned DNAs which hybridize with any of the preceding ones under the said stringent conditions. Composition utilisable pour la détection de papillomavirus dans un milieu biologique le contenant, caractérisée en ce qu'elle contient un ou plusieurs ADN-HPVs distincts clonés choisis parmi les ADNs clonés déposés le 30 novembre 1984 à la C.N.C.M. (Collection Nationale de Cultures de Microorganismes de l'INSTITUT PASTEUR de Paris, sous les numéros ci-après :- ou un ou plusieurs ADNs clonés correspondants qui hybrident avec l'un de ceux qui ont été déposés auprès de la CNCM, dans des conditions strictes : chauffage de ces ADNs recombinants, après dénaturation et transfert préalable sur des filtres de transfert pour hybridation à 80°C pendant 4 heures, préhybridation pendant la nuit à 42°C des filtres dans une solution de Denhardt, 2 x SSC, phosphate de sodium 50 mM (pH 6,5), ADN de thymus de veau (250 µg/ml) et formamide déionisé 35%, puis hybridation dans la même solution pendant 48 heures à 42°C avec l'ADN viral marqué par ³²P (2 x 10⁴ cpm/cm²) et lavage des filtres sous agitation pendant 30 minutes à 50°C dans une solution de Tris-chlorhydrate 60 mM (pH8), EDTA 2 mM, NaCl 300 mM et dodécyl sulfate de sodium 0,5%, puis pendant 30 minutes à température ambiante dans une solution Tris 3 mM- ou un ou plusieurs fragments clonés choisis parmi les fragments issus des HPV-ADNs clonés déposés à la C.N.C.M. sous les numéros sus-indiqués et qui correspondent aux régions E1 ;E6 ;E7 ;L1 ;L2 ;ou à des régions intergéniques desdits ADN clonés- ou un ou plusieurs fragments d'ADN clonés correspondants qui hybrident avec l'un des précédents, dans les susdites conditions strictes. Mittel, verwendbar für den Nachweis des Papillomavirus in einem dieses enthaltenden biologischen Milieu, dadurch gekennzeichnet, daß es eine oder mehrere unterschiedliche clonierte HPV-DNAs enthält, die ausgewählt sind aus den clonierten DNAs, die am 30. November 1984 bei C.N.C.M. (Collection Nationale de Cultures de Microorganismes de l'Institut Pasteur de Paris) unter den folgenden Nummern hinterlegt wurden:- oder ein oder mehrere entsprechende clonierte DNAs, die mit einer dieser bei C.N.C.M. hinterlegten unter den folgenden stringenten Bedingungen hybridisieren: Erwärmung dieser rekombinanten DNAs nach Denaturierung und vorhergehendem Transfer auf Transferfilter für die Hybridisierung bei 80°C während 4 Stunden, Vorhybridisierung der Filter über Nacht bei 42°C in einer Denhardt-Lösung, 2 x SSC, 50 mM Natriumphosphat (pH 6,5), Kalbsthymus-DNA (250 µg/ml) und 35 % entionisiertes Formamid, danach Hybridisierung in der gleichen Lösung während 48 Stunden bei 42°C mit viraler DNA, die mit ³²P (2 x 10⁴ cpm/cm²) markiert ist, und Waschen der Filter unter Bewegung während 30 Minuten bei 50°C in einer Lösung von 60 mM Tris-Chlorhydrat (pH 8), 2 mM EDTA, 300 mM NaCl und 0,5% Natriumdodecylsulfat, danach während 30 Minuten bei Raumtemperatur in einer Lösung von 3mM Tris,- oder eines oder mehrere clonierte Fragmente, ausgewählt aus den Fragmenten, die von den clonierten HPV-DNAs stammen, die bei der C.N.C.M. unter den vorstehend angegebenen Nummern hinterlegt wurden und die den Bereichen E1, E6, E7, L1, L2 oder intergenischen Bereichen dieser clonierten DNAs entsprechen,- oder eines oder mehrere entsprechende clonierte DNA-Fragmente, die mit einem der vorangehenden unter den vorstehend angegebenen genauen Bedingungen hybridisieren.
- 2Mittel oder Kit, enthaltend eine Vielzahl von Sonden oder Gemischen von verschiedenen Sonden, gekennzeichnet durch neun Sondengruppen, von denen jede enthält:(1) mindestens die clonierte oder rekombinante DNA von HPV 2d (C.N.C.M. Nr. I-379);(2) mindestens eine DNA, ausgewählt aus den clonierten oder rekombinanten DNAs von HPV 10b (C.N.C.M. Nr. I-380 und Nr. I-381), HPV 28 (C.N.C.M. Nr. I-394) und HPV 29 (C.N.C.M. Nr. I-395);(3) mindestens eine DNA, ausgewählt aus den clonierten oder rekombinanten DNAs von HPV 17 (C.N.C.M. Nr. I-385 und Nr. I-386) und HPV 24 (C.N.C.M. Nr. I-392 und Nr. I-393);(4) mindestens eine DNA, ausgewählt aus den clonierten oder rekombinanten DNAs von HPV 14 (C.N.C.M. Nr. I-382 und Nr. I-383), HPV 15 (C.N.C.M. Nr. I-384), HPV 17 (C.N.C.M. Nr. I-385 und Nr. I-386), HPV 19 (C.N.C.M. Nr. I-387), HPV 20 (C.N.C.M. Nr. I-388), HPV 21 (C.N.C.M. Nr. I-389), HPV 22 (C.N.C.M. Nr. I-390) und HPV 23 (C.N.C.M. Nr. I-391);(5) mindestens eine DNA, ausgewählt aus den clonierten oder rekombinanten DNAs von HPV 15 (C.N.C.M. Nr. I-384) und HPV 17 (C.N.C.M. Nr. I-385 und Nr. I-386);(6) die clonierte oder rekombinante DNA von HPV 24 (C.N.C.M. Nr. I-392 und Nr. I-393);(7) mindestens eine DNA, ausgewählt aus den clonierten oder rekombinanten DNAs von HPV 14 (C.N.C.M. Nr. I-382 und Nr. I-383) und HPV 32 (C.N.C.M. Nr. I-397);(8) die clonierte oder rekombinante DNA von HPV 31 (C.N.C.M. Nr. I-396);(9) die clonierte oder rekombinante DNA von HPV 32 (C.N.C.M. Nr. I-397);mit der Maßgabe, - daß jede dieser rekombinanten oder clonierten DNAs durch eine entsprechende clonierte DNA oder durch ein DNA-Fragment ersetzt werden kann, das mit der vorangehenden unter den folgenden stringenten Bedingungen hybridisiert: Erwärmung dieser rekombinanten DNAs nach Denaturierung und vorangehendem Transfer auf Transferfilter für die Hybridisierung bei 80°C während 4 Stunden, Vorhybridisierung der Filter bei 42° über Nacht in einer Denhardt-Lösung, 2 x SSC, 50 mM Natriumphosphat (pH 6,5), Kalbsthymus-DNA (250 µg/ml) und 35 % entionisiertes Formamid, danach Hybridisierung in der gleichen Lösung während 48 Stunden bei 42°C mit viraler DNA, die mit ³²P (2 x 10⁴ cpm/cm²) markiert ist, und Waschen der Filter unter Bewegung während 30 Minuten bei 50°C in einer Lösung von 60 mM Tris-Chlorhydrat (pH 8), 2 mM EDTA, 300 mM NaCl und Natriumdodecylsulfat, anschließend während 30 Minuten bei Raumtemperatur in einer 3 mM Tris-Lösung,- daß die DNAs oder DNA-Fragmente der neun Gruppen so ausgewählt sind, daß sie unter allen Umständen voneinander verschieden sind, in dem Maß, in dem jede der neun Gruppen auf eine einzige der sie ausmachenden DNAs reduziert ist. Nécessaire ou kit comportant une pluralité de sondes ou mélanges de sondes distinctes, caractérisé par neuf groupes de sondes ;chacun desquels comporte : (1) au moins l'ADN cloné ou recombinant de l'HPV 2d (C.N.C.M. n° I-379) ;(2) au moins un ADN choisi parmi les ADNs clonés ou recombinants de HPV 10b (C.N.C.M. N° I-380 et n° I-381), HPV 28 (C.N.C.M. n° I-394) et HPV 29 (C.N.C.M. n° I-395) ;(3) au moins un ADN choisi parmi les ADNs clonés ou recombinants de HPV 17 (C.N.C.M. n° I-385 et n° I-386), et HPV 24 (C.N.C.M. n° I-392 et n° I-393) ;(4) au moins un ADN choisi parmi les ADNs clonés ou recombinants de HPV 14 (C.N.C.M. N° I-382 et n° I-383), HPV 15 (C.N.C.M. n° I-384), HPV 17 (C.N.C.M. n° I-385 et n° I-386), HPV 19 (C.N.C.M. n° I-387), HPV 20 (C.N.C.M. n° I-388), HPV 21 (C.N.C.M. n° I-389), HPV 22 (C.N.C.M. n° I-390) et HPV 23 (C.N.C.M. n° I-391) ;(5) au moins un ADN choisi parmi les ADNs clonés ou recombinants de HPV 15 (C.N.C.M. n° I-384) et HPV 17 (C.N.C.M. N° I-385 et n° I-386) ;(6) l'ADN cloné ou recombinant de HPV 24 (C.N.C.M. n° I-392 et n° I-393) ;(7) au moins un ADN choisi parmi les ADNs clonés ou recombinants de HPV 14 (C.N.C.M. N° I-382 et n° I-383), et HPV 32 (C.N.C.M. n° I-397) ;(8) l'ADN cloné ou recombinant de HPV 31 (C.N.C.M. n° I-396) ;(9) l'ADN cloné ou recombinant de HPV 32 (C.N.C.M. n° I-397) ;étant entendu - que chacun de ces ADNs recombinants ou clonés peut être remplacé par un ADN cloné correspondant ou fragment d'ADN qui hybride avec le précédent dans des conditions strictes : chauffage de ces ADNs recombinants après dénaturation et transfert préalable sur des filtres de transfert pour hybridation à 80°C pendant 4 heures, préhybridation pendant la nuit à 42°C des filtres dans une solution de Denhardt, 2 x SSC, phosphate de sodium 50 mM (pH 6,5), ADN de thymus de veau (250 µg/ml) et formamide déionisé 35%, puis hybridation dans la même solution pendant 48 heures à 42°C avec l'ADN viral marqué par ³²P (2 x 10⁴ cpm/cm²) et lavage des filtres sous agitation pendant 30 minutes à 50°C dans une solution de Tris-chlorhydrate 60 mM (pH8), EDTA 2 mM, NaCl 300 mM et dodécyl sulfate de sodium, puis pendant 30 minutes à température ambiante dans une solution Tris 3 mM,- que les ADNs ou fragments d'ADN des neuf groupes sont choisis de façon à être en toutes circonstances différents les uns des autres, dans la mesure où chacun des neuf groupes serait réduit à un seul des ADNs qui le composent. Set or kit comprizing a plurality of probes or mixture of distinct probes characterized by nine groups of probes, whereby each of them comprises: (1) at least the cloned or recombinant DNA of HPV 2d (C.N.C.M. n° I-379);(2) at least one DNA selected from the cloned or recombinant DNAs of HPV 10b (C.N.C.M. N° I-380 and n° I-381), HPV 28 (C.N.C.M. n° I-394) and HPV 29 (C.N.C.M. n° I-395);(3) at least one DNA selected from the cloned or recombinant DNAs of HPV 17 (C.N.C.M. n° I-385 and n° I-386), and HPV 24 (C.N.C.M. n° I-392 and n° I-393);(4) at least one DNA selected from the cloned or recombinant DNAs of HPV 14 (C.N.C.M. N° I-382 and n° I-383), HPV 15 (C.N.C.M. n° I-384), HPV 17 (C.N.C.M. n° I-385 and n° I-386), HPV 19 (C.N.C.M. n° I-387), HPV 20 (C.N.C.M. n° I-388), HPV 21 (C.N.C.M. n° I-389), HPV 22 (C.N.C.M. n° I-390) and HPV 23 (C.N.C.M. n° I-391)(5) at least one DNA selected from the cloned or recombinant DNAs of HPV 15 (C.N.C.M. n° I-384) and HPV 17 (C.N.C.M. N° I-385 et n° I-386);(6) the cloned or recombinant DNA of HPV 24 (C.N.C.M. n° I-392 and n° I-393)(7) at least one DNA selected from the cloned or recombinant DNAs of HPV 14 (C.N.C.M. N° I-382 and n° I-383), and HPV 32 (C.N.C.M. n° I-397) ;(8) the cloned or recombinant DNA of HPV 31 (C.N.C.M. n° I-396)(9) the cloned or recombinant DNA of HPV 32 (C.N.C.M. n° I-397);it been understood - that each of these recombinant or cloned DNAs can be replaced by a corresponding cloned DNA or DNA fragment which hybridizes with the preceding one under stringent conditions: heating of these recombinant DNAs, after denaturation and prior transfer on transfer filters for hybridization at 80°C for 4 hours, prehybridization overnight at 42°C of the filters in Denhardt solution, 2 x SSC, 50mM sodium phosphate (pH 6.5), calf thymus DNA (250 µg/ml) and 35 % deionized formamide, then hybridization in the same solution during 48 hours at 42°C with the ³²P - labeled viral DNA (2 x 10⁴ cpm/cm²) and washing of the filters by shaking over 30 minutes at 50°C in a 60 mM Tris-hydrochloride solution (pH8), 2 mM EDTA, 300 mM NaCl and 0.5 % sodium dodecyl sulfate during 30 minutes at ambient temperature in a 3 mM Tris solution,- that the DNAs of DNA fragments of the nine groups are selected such as to be different one from another under all circumstances, insofar as each of the nine group would be restricted to only one of the DNAs which form that group.
- 3Mittel oder Kit gemäß Anspruch 2, dadurch gekennzeichnet, daß sie folgende Gruppen enthalten:(1) ein Gemisch von clonierten oder rekombinanten DNAs v0n HPV 1, 2d, 4 oder ein Gemisch von Fragmenten dieser DNAs;(2) ein Gemisch von clonierten oder rekombinanten DNAs von DNA-HPV 3, 10a, 10b, 28 und 29 oder ein Gemisch von Fragmenten dieser DNAs;(3) ein Gemisch von clonierten oder rekombinanten DNAs von DNA-HPV 5, 17a und 24 oder ein Gemisch von Fragmenten dieser DNAs;(4) ein Gemisch von clonierten oder rekombinanten DNAs von DNA-HPV 5, 8, 12, 14a, 14b, 19, 20, 21, 22 und 23 oder ein Gemisch von Fragmenten dieser DNAs;(5) ein Gemisch von clonierten oder rekombinanten DNAs von DNA-HPVs 9, 15, 17a und 17b oder ein Gemisch von Fragmenten dieser DNAs;(6) eine clonierte oder rekombinante DNA von DNA-HVP24 oder ein Gemisch von Fragmenten dieser DNA;(7) ein Gemisch von clonierten oder rekombinanten DNAs von DNA-HPVs 5, 8, 14 und 32 oder ein Gemisch von Fragmenten dieser DNAs;(8) ein Gemisch clonierter oder rekombinanter DNAs von DNA-HPVs 18 und 31 oder ein Gemisch der Fragmente dieser DNAs;(9) eine clonierte oder rekombinante DNA von DNA-HPV 32. Nécessaire ou kit selon la revendication 2, caractérisé en ce que les groupes comportent respectivement : (1) un mélange d'ADNs clonés ou recombinants de HPV 1, 2d, 4 ou un mélange de fragments de ces ADNs ;(2) un mélange d'ADNs clonés ou recombinants de ADN-HPV 3, 10a, 10b, 28 et 29 ou un mélange de fragments de ces ADNs ;(3) un mélange d'ADNs clonés ou recombinants de ADN-HPV 5, 17a et 24 ou un mélange de fragments de ces ADNs ;(4) un mélange d'ADNs clonés ou recombinants de ADN-HPV 5, 8, 12, 14a, 14b, 19, 20, 21, 22, et 23 ou un mélange de fragments de ces ADNs ;(5) un mélange d'ADNs clonés ou recombinants de ADN-HPVs 9, 15, 17a et 17b ou un mélange de fragments de ces ADNS ;(6) un ADN cloné ou recombinant de ADN-HPV 24 ou un mélange de fragments de ces ADNs ;(7) un mélange d'ADNs clonés ou recombinants de ADN-HPVs 5, 8, 14b et 32 ou un mélange de fragments de ces ADNs ;(8) un mélange d'ADNs clonés ou recombinants de ADN-HPVs 18 et 31 ou un mélange de fragments de ces ADNs ;(9) un ADN cloné ou recombinant de ADN-HPV 32. Set or kit according to claim 2, characterized in that the groups respectively comprise: (1) a mixture of cloned or recombinant DNAs of HPV 1, 2d, 4 or a mixture of fragments of said DNAs;(2) a mixture of cloned or recombinant DNAs of DNA-HPV 3, 10a, 10b, 28 and 29 or a mixture of fragments of said DNAs;(3) a mixture of cloned or recombinant DNAs of DNA-HPV 5, 17a and 24 or a mixture of fragments of said DNAs;(4) a mixture of cloned or recombinant DNAs of DNA-HPV 5, 8, 12, 14a, 14b, 19, 20, 21, 22 and 23 or a mixture of fragments of said DNAs;(5) a mixture of cloned or recombinant DNAs of DNA-HPV 9, 15, 17a and 17b or a mixture of fragments of said DNAs;(6) a mixture of cloned or recombinant DNAs of DNA-HPV 24 or a mixture of fragments of said DNAs;(7) a mixture of cloned or recombinant DNAs of DNA-HPV 5, 8, 14b and 32 or a mixture of fragments of said DNAs;(8) a mixture of cloned or recombinant DNAs of DNA-HPV 18 and 31 or a mixture of fragments of said DNAs;(9) a cloned or recombinant DNA of HPV-HPV 32.
- 4Mittel oder Kit gemäß Anspruch 2 oder Anspruch 3, dadurch gekennzeichnet, daß die Gruppe 7) eine weitere clonierte oder rekombinante DNA von HPV IP-4 (C.N.C.M. Nr. I-449) oder ein cloniertes oder rekombinantes Fragment dieser DNA enthält, und daß dieses Mittel oder Kit eine zehnte Gruppe enthält, die ein Gemisch aus clonierten oder rekombinanten DNAs von HPV 16, HPV 18 und IP-2 (C.N.C.M. Nr. I-450) oder ein Gemisch der Fragmente dieser DNAs enthält. Nécessaire ou kit selon la revendication 2 ou la revendication 3, caractérisé en ce que le groupe 7) comporte en outre l'ADN cloné ou recombinant de HPV IP4 (C.N.C.M. N° I-449) ou un fragment cloné ou recombinant de cet ADN et en ce que ledit nécessaire ou kit comporte un dixième groupe comportant un mélange d'ADNs clonés ou recombinants de HPV 16, HPV 18 et IP 2 (C.N.C.M. n° I-450), ou un mélange de fragments de ces ADNs. Set or kit according to claim 2 or claim 3, characterized in that group 7) comprises furthermore the cloned or recombinant DNA of HPV IP4 (C.N.C.M. N° I-449) or a cloned or recombinant fragment of said DNA and in that said set or kit comprises a tenth group comprising a mixture of cloned of recombinant DNAs of HPV 16, HPV 18 and IP 2 (C.N.C.M. n° I-450), or a mixture of fragments of said DNAs.
- 5Mittel oder Kit gemäß Anspruch 4, dadurch gekennzeichnet, daß die in den Gruppen oder Gemischen verwendeten Fragmente den Bereichen E1, E6, E7, L1, L2 oder den intergenischen Bereichen dieser DNA-HPV-Fragmente entsprechen. Nécessaire ou kit selon la revendication 4, caractérisé en ce que les fragments mis en oeuvre dans les groupes ou mélanges correspondent aux régions E1 ;E6 ;E7 ;L1 ;L2 ;ou à des régions intergéniques desdits fragments d'ADN-HPV. Set or kit according to claim 4, characterized in that the fragments brought into play in said groups or mixtures corresponding to the E1;E6;E7;L1;L2 regions, or to intergenic regions of said DNA-HPV fragments.
- 6Mittel oder Kit gemäß einem der Ansprüche 2 oder 3, für die jeweilige in vitro-Diagnose von:(1) Haut- oder Schleimhautwarzen (insbesondere gewöhnliche Warzen oder Warzen der Fußsohle);Differentialdiagnose von warzenförmiger Epidermodysplasie;(2) flache oder intermediäre Haut- oder Schleimhautwarzen;intraepitheliale Neoplasien und Hautkrebs, Differentialdiagnose von warzenförmiger Epidermodysplasie;(3) warzenförmige Epidermodysplasie;intraepitheliale Neoplasien und Hautkrebs;(4) warzenförmige Epidermodysplasie;(5) warzenförmige Epidermodysplasie;(6) warzenförmige Epidermodysplasie;(7) aus warzenförmiger Epidermodysplasie entstehender Hautkrebs;intraepitheliale Neoplasien und Hautkrebs;(8) fokale Hyperplasie der Mundschleimhaut;Differentialdiagnose von intraepithelialen oralen Neoplasien;(9) intraepitheliale Neoplasien und Hautkrebs. Nécessaire ou kit selon l'une quelconque des revendications 2 ou 3, destiné aux diagnostics in vitro respectifs : (1) des verrues cutanées ou muqueuses (en particulier, verrues vulgaires et plantaires) ;diagnostic différentiel de l'épidermodysplasie verruciforme ;(2) des verrues planes ou intermédiaires cutanées ou muqueuses ;des néoplasies intraépithéliales et cancers cutanés ;diagnostic différentiel de l'épidermodysplasie verruciforme ;(3) de l'épidermodysplasie verruciforme ;des néoplasies intra-épithéliales et cancers cutanés ;(4) de l'épidermodysplasie verruciforme ;(5) de l'épidermodysplasie verruciforme ;(6) de l'épidermodysplasie verruciforme ;(7) des cancers cutanés de l'épidermodysplasie verruciforme ;des néoplasies intraépithéliales et cancers cutanés ;(8) de l'hyperplasie épithéliale focale orale ;du diagnostic différentiel des néoplasies intraépithéliales orales ;(9) des néoplasies intraépithéliales et cancers cutanés. Set or kit according to anyone of claims 2 or 3, applicable to in vitro diagnostics respectively: (1) of skin or mucous membrane warts (especially verruca and plantar warts);differential diagnosis of epidermodysplasia verruciformis;(2) of plane warts or intermediary skin or mucous membrane warts;intra-epithelial neoplasms and skin cancers;differential diagnosis of epidermodysplasia verruciformis;(3) of epidermodysplasia verruciformis;intra-epithelial neoplasms and skin cancers;(4) of epidermodysplasia verruciformis;(5) of epidermodysplasia verruciformis;(6) of epidermodysplasia verruciformis;(7) of skin cancers from epidermodysplasia verruciformis;intra-epithelial neoplasias and skin cancers;(8) of oral epithelial hyperplasia;differential diagnosis of oral epithelial neoplasms;(9) of intra-epithelial neoplasms and skin cancers.
- 7Mittel oder Kit gemäß Anspruch 4 oder Anspruch 5, für die jeweilige in vitro-Diagnose von:(1) Haut- oder Schleimhautwarzen (insbesondere gewöhnliche Warzen oder Warzen der Fußsohle);Differentialdiagnose von warzenförmiger Epidermodysplasie;(2) flache Warzen oder intermediäre Haut- oder Schleimhautwarzen;intraepitheliale Neoplasien und Hautkrebs;Differentialdiagnose von warzenförmiger Epidermodysplasie;(3) warzenförmige Epidermodysplasie;intraepitheliale Neoplasien und Hautkrebs;(4) warzenförmige Epidermodysplasie;(5) warzenförmige Epidermodysplasie;(6) warzenförmige Epidermodysplasie;(7) aus warzenförmiger Epidermodysplasie entstehender Hautkrebs;intraepitheliale Neoplasien und Hautkrebs;(8) fokale Hyperplasie der Mundschleimhaut;Differentialdiagnose von intraepithelialen oralen Neoplasien;(9) intraepitheliale Neoplasien und Hautkrebs;(10) Genital-Neoplasien und insbesondere Gebärmutterkrebs. Nécessaire ou kit selon la revendication 4 ou la revendication 5, destiné aux diagnostics in vitro respectifs : (1) des verrues cutanées ou muqueuses (en particulier, verrues vulgaires et plantaires) ;diagnostic différentiel de l'épidermodysplasie verruciforme ;(2) des verrues planes ou intermédiaires cutanées ou muqueuses ;des néoplasies intraépithéliales et cancers cutanés ;diagnostic différentiel de l'épidermodysplasie verruciforme ;(3) de l'épidermodysplasie verruciforme ;des néoplasies intra-épithéliales et cancers cutanés ;(4) de l'épidermodysplasie verruciforme ;(5) de l'épidermodysplasie verruciforme ;(6) de l'épidermodysplasie verruciforme ;(7) des cancers cutanés de l'épidermodysplasie verruciforme ;des néoplasies intraépithéliales et cancers cutanés ;(8) de l'hyperplasie épithéliale focale orale ;du diagnostic différentiel des néoplasies intraépithéliales orales ;(9) des néoplasies intraépithéliales et cancers cutanés ;(10) des néoplasies génitales et, en particulier, des cancers de l'utérus. Set or kit according to claim 4 or or to claim 5, applicable to respective in vitro diagnosis: (1) of skin or mucous membrane warts (especially verruca and plantar warts);differential diagnosis of epidermodysplasia verruciformis;(2) of plane warts or intermediary skin or mucous membrane warts;intra-epithelial neoplasms and skin cancers;differential diagnosis of epidermodysplasia verruciformis;(3) of epidermodysplasia verruciformis;intra-epithelial neoplasms and skin cancers;(4) of epidermodysplasia verruciformis;(5) of epidermodysplasia verruciformis;(6) of epidermodysplasia verruciformis;(7) of skin cancers from epidermodysplasia verruciformis;intra-epithelial neoplasias and skin cancers;(8) of oral epithelial hyperplasia;differential diagnosis of oral epithelial neoplasms;(9) of intra-epithelial neoplasms and skin cancers.(10) of genital neoplasms, and particularly, of uterus-cancers.
- 8Process of in vitro detection and identification of papillomavirus contained in a biological sample comprising the carrying out of distinct hybridization tests with the cloned or recombinant DNA-HPVs or the fragments of the DNA-HPVs of these sets or kits, according to anyone of claims 2 to 7 and the detection of those DNA-HPVs or cloned fragments which give rise to a preferential hybridization with the DNA-HPVs contained in the the biological sample. Procédé de détection et d'identification in vitro de papillomavirus contenus dans un échantillon biologique comprenant la réalisation d'essais d'hybridation distincts avec les ADN-HPVs clonés ou recombinants ou les fragments d'ADN-HPVs de ces nécessaires ou kits, selon l'une quelconque des revendications 2 à 7 et la détection de ceux des ADN-HPVs ou fragments clonés qui donnent lieu à une hybridation préférentielle avec les ADN-HPVs contenus dans l'échantillon biologique. Verfahren zum Nachweis und zur in vitro-Identifizierung des in einer biologischen Flüssigkeit enthaltenen Papillomavirus, umfassend die Durchführung verschiedener Hybridisierungstests mit den clonierten oder rekombinanten DNA-HPVs oder den Fragmenten von DNA-HPVs gemäß den Mitteln oder Kits der Ansprüche 2 bis 7 und Nachweis dieser clonierten DNA-HPVs oder Fragmente, die eine bevorzugte Hybridisierung mit den in der biologischen Flüssigkeit enthaltenen DNA-HPVs ergeben.
- 9Process according to claim 8, characterized in that the hybridization tests are carried out with the whole cloned DNAs or the DNA fragments corresponding to the E6 or E7 regions under stringent hybridization conditions. Procédé selon la revendication 8, caractérisé en ce que les essais d'hybridation sont faits avec les ADNs clonés entiers ou des fragments d'ADN correspondant aux régions E6 ou E7 dans les conditions d'hybridation stricte. Verfahren nach Anspruch 8, dadurch gekennzeichnet, daß die Hybridisierungstests unter den genauen Hybridisierungsbedingungen mit den vollständigen clonierten DNAs oder DNA-Fragmenten, die den Bereichen E6 oder E7 entsprechen, gemacht werden.
- 10ADN cloné ou recombinant de HPV 2d (C.N.C.M. n° I-379) ou ADN cloné correspondant de cet ADN cloné qui hybride avec le précédent dans des conditions strictes :chauffage de ces ADNs recombinants, après dénaturation et transfert préalable sur des filtres de transfert pour hybridation, à 80°C pendant 4 heures, préhybridation pendant la nuit à 42°C des filtres dans une solution de Denhardt, 2 x SSC, phosphate de sodium 50 mM (pH, 6,5), ADN de thymus de veau (250 µg/ml) et formamide déionisé 35%, puis hybridation dans la même solution pendant 48 heures à 42°C avec l'ADN viral marqué par ³²P (2 x 10⁴ cpm/cm²) et lavage des filtres sous agitation pendant 30 minutes à 50°C dans une solution de Tris-chlorhydrate 60 mM (pH8), EDTA 2 mM, NaCl 300 mM et dodécyl-sulfate de sodium 0,5%, puis pendant 30 minutes à température ambiante dans une solution Tris 3 mM ou fragments d'ADN correspondant à l'une des régions E1 ;E6 ;E7 ;L1 ;L2 ou à une région intergénique de cet ADN-HPV ou fragment d'ADN correspondant hybridant avec le précédent dans les susdites conditions strictes. Cloned or recombinant DNA of HPV 2d (C.N.C.M. n° I-379) or corresponding cloned DNA of said cloned DNA which hybridizes with the preceding one under stringent conditions: heating of said recombinant DNAs after denaturation and prior transfer on transfer filter for hybridization at 80°C for 4 hours, prehybridization overnight at 42°C of the filters in Denhardt solution, 2 x SSC, 50mM sodium phosphate (pH 6.5), calf thymus DNA (250 µg/ml) and 35 % deionized formamide, then hybridization in the same solution during 48 hours at 42°C with the ³²P - labeled viral DNA (2 x 10⁴ cpm/cm²) and washing of the filters by shaking over 30 minutes at 50°C in a 60 mM Tris-hydrochloride solution (pH8), 2 mM EDTA, 300 mM NaCl and 0.5% sodium dodecyl sulfate during 30 minutes at ambient temperature in a 3 mM Tris solution. or DNA fragments corresponding to the E1;E6;E7;L1;L2 regions or to one intergenic region of said DNA-HPV or corresponding DNA fragment which hybridizes with the preceding one under said stringent conditions. Clonierte oder rekombinante DNA von HPV 2d (C.N.C.M. Nr. I-379) oder clonierte DNA, die der clonierten DNA entspricht, die mit der vorangehenden unter den folgenden stringenten Bedingungen hybridisiert: Erwärmung dieser rekombinanten DNAs nach Denaturierung und vorangehendem Transfer auf die Transferfilter für die Hybridisierung bei 80°C während 4 Stunden, Vorhybridisierung der Filter bei 42°C über Nacht in einer Denhardt-Lösung, 2 x SSC, 50 mM Natriumphosphat (pH 6,5), Kalbsthymus-DNA (250 µg/ml) und 35 % entionisiertes Formamid, danach Hybridisierung in der gleichen Lösung während 48 Stunden bei 42°C mit viraler DNA, die mit ³²P (2 x 10⁴ cpm/cm²) markiert ist, und Waschen der Filter unter Bewegung während 30 Minuten bei 50°C in einer Lösung von 60 mM Tris-Chlorhydrat (pH 8), 2 mM EDTA, 300 mM NaCl und 0,5% Natriumdodecylsulfat, danach während 30 Minuten bei Raumtemperatur in einer Lösung von 3 mM Tris, oder DNA-Fragmente, die einem der Bereiche E1, E6, E7, L1, L2 oder einem intergenischen Bereich dieser DNA-HPV entsprechen, oder ein DNA-Fragment, das einer DNA entspricht, die mit dem vorangehenden unter den angegebenen stringenten Bedingungen hybridisiert.
- 11ADN cloné ou recombinant de HPV 10b (C.N.C.M. n° I-380 et n° I-381) ou ADN cloné correspondant de cet ADN cloné qui hybride avec le précédent dans des conditions strictes :chauffage de ces ADNs recombinants, après dénaturation et transfert préalable sur des filtres de transfert pour hybridation, à 80°C pendant 4 heures, préhybridation pendant la nuit à 42°C des filtres dans une solution de Denhardt, 2 x SSC, phosphate de sodium 50 mM (pH 6,5), ADN de thymus de veau (250 µg/ml) et formamide déionisé 35%, puis hybridation dans la même solution pendant 48 heures à 42°C avec l'ADN viral marqué par ³²P (2 x 10⁴ cpm/cm²) et lavage des filtres sous agitation pendant 30 minutes à 50°C dans une solution de Tris-chlorhydrate 60 mM (pH8), EDTA 2 mM, NaCl 300 mM et dodécyl-sulfate de sodium 0,5%, puis pendant 30 minutes à température ambiante dans une solution Tris 3 mM ou fragments d'ADN correspondant à l'une des régions E1 ;E6 ;E7 ;L1 ;L2 ou à une région intergénique de cet ADN-HPV ou fragment d'ADN correspondant hybridant avec le précédant dans les susdites conditions strictes. Cloned or recombinant DNA of HPV 10b (C.N.C.M. n° I-380 and n° I-381) or corresponding cloned DNA of said cloned DNA which hybridizes with the preceding one under stringent conditions: heating of said recombinant DNAs after denaturation and prior transfer on transfer filters for hybridization at 80°C for 4 hours, prehybridization overnight at 42°C of the filters in Denhardt solution, 2 x SSC, 50mM sodium phosphate (pH 6.5), calf thymus DNA (250 µg/ml) and 35 % deionized formamide, then hybridization in the same solution during 48 hours at 42°C with the ³²P - labeled viral DNA (2 x 10⁴ cpm/cm²) and washing of the filters by shaking over 30 minutes at 50°C in a 60 mM Tris-hydrochloride solution (pH8), 2 mM EDTA, 300 mM NaCl and 0.5% sodium dodecyl sulfate during 30 minutes at ambient temperature in a 3 mM Tris solution. or DNA fragments corresponding to the E1;E6;E7;L1;L2 regions or to one intergenic region of said DNA-HPV or corresponding DNA fragment which hybridizes with the preceding one under said stringent conditions. Clonierte oder rekombinante DNA von HPV 10bd (C.N.C.M. Nr. I-380 und Nr. I-381) oder clonierte DNA, die der clonierten DNA entspricht, die mit der vorangehenden unter den folgenden stringenten Bedingungen hybridisiert: Erwärmung dieser rekombinanten DNAs nach Denaturierung und vorangehendem Transfer auf die Transferfilter für die Hybridisierung bei 80°C während 4 Stunden, Vorhybridisierung der Filter bei 42°C über Nacht in einer Denhardt-Lösung, 2 x SSC, 50 mM Natriumphosphat (pH 6,5), Kalbsthymus-DNA (250 µg/ml) und 35 % entionisiertes Formamid, danach Hybridisierung in der gleichen Lösung während 48 Stunden bei 42°C mit viraler DNA, die mit ³²P (2 x 10⁴ cpm/cm²) markiert ist, und Waschen der Filter unter Bewegung während 30 Minuten bei 50°C in einer Lösung von 60 mM Tris-Chlorhydrat (pH 8), 2 mM EDTA, 300 mM NaCl und 0,5% Natriumdodecylsulfat, danach während 30 Minuten bei Raumtemperatur in einer Lösung von 3 mM Tris, oder DNA-Fragmente, die einem der Bereiche E1, E6, E7, L1, L2 oder einem intergenischen Bereich dieser DNA-HPV entsprechen, oder ein DNA-Fragment, das einer DNA entspricht, die mit dem vorangehenden unter den angegebenen stringenten Bedingungen hybridisiert.
- 12ADN cloné ou recombinant de HPV 28 (C.N.C.M. n° I-394) ou ADN cloné correspondant de cet ADN cloné qui hybride avec le précédent dans des conditions strictes :chauffage de ces ADNs recombinants, après dénaturation et transfert préalable sur des filtres de transfert pour hybridation, à 80°C pendant 4 heures, préhybridation pendant la nuit à 42°C des filtres dans une solution de Denhardt, 2 x SSC, phosphate de sodium 50 mM (pH 6,5), ADN de thymus de veau (250 µg/ml) et formamide déionisé 35%, puis hybridation dans la même solution pendant 48 heures à 42°C avec l'ADN viral marqué par ³²P (2 x 10⁴ cpm/cm²) et lavage des filtres sous agitation pendant 30 minutes à 50°C dans une solution de Tris-chlorhydrate 60 mM (pH8), EDTA 2 mM, NaCl 300 mM et dodécyl-sulfate de sodium 0,5%, puis pendant 30 minutes à température ambiante dans une solution Tris 3 mM ou fragments d'ADN correspondant à l'une des régions E1 ;E6 ;E7 ;L1 ;L2 ou à une région intergénique de cet ADN-HPV ou fragment d'ADN correspondant hybridant avec le précédant dans les susdites conditions strictes. Cloned or recombinant DNA of HPV 28 (C.N.C.M. n° I-394) or corresponding cloned DNA of said cloned DNA which hybridizes with the preceding one under stringent conditions: heating of said recombinant DNAs after denaturation and prior transfer on transfer filters for hybridization at 80°C for 4 hours, prehybridization overnight at 42°C of the filters in Denhardt solution, 2 x SSC, 50mM sodium phosphate (pH 6.5), calf thymus DNA (250 µg/ml) and 35 % deionized formamide, then hybridization in the same solution during 48 hours at 42°C with the ³²P - labeled viral DNA (2 x 10⁴ cpm/cm²) and washing of the filters by shaking over 30 minutes at 50°C in a 60 mM Tris-hydrochloride solution (pH8), 2 mM EDTA, 300 mM NaCl and 0.5% sodium dodecyl sulfate during 30 minutes at ambient temperature in a 3 mM Tris solution. or DNA fragments corresponding to the E1;E6;E7;L1;L2 regions or to one intergenic region of said DNA-HPV or corresponding DNA fragment which hybridizes with the preceding one under said stringent conditions. Clonierte oder rekombinante DNA von HPV 28 (C.N.C.M. Nr. I-394) oder clonierte DNA, die der clonierten DNA entspricht, die mit der vorangehenden unter den folgenden stringenten Bedingungen hybridisiert: Erwärmung dieser rekombinanten DNAs nach Denaturierung und vorangehendem Transfer auf die Transferfilter für die Hybridisierung bei 80°C während 4 Stunden, Vorhybridisierung der Filter bei 42°C über Nacht in einer Denhardt-Lösung, 2 x SSC, 50 mM Natriumphosphat (pH 6,5), Kalbsthymus-DNA (250 µg/ml) und 35 % entionisiertes Formamid, danach Hybridisierung in der gleichen Lösung während 48 Stunden bei 42°C mit viraler DNA, die mit ³²P (2 x 10⁴ cpm/cm²) markiert ist, und Waschen der Filter unter Bewegung während 30 Minuten bei 50°C in einerLösung von 60 mM Tris-Chlorhydrat (pH 8), 2 mM EDTA, 300 mM NaCl und 0,5% Natriumdodecylsulfat, danach während 30 Minuten bei Raumtemperatur in einer Lösung von 3 mM Tris, oder DNA-Fragmente, die einen der Bereiche E1, E6, E7, L1, L2 oder einem intergenischen Bereich dieser DNA-HPV entsprechen, oder ein DNA-Fragment, das einer DNA entspricht, die mit dem vorangehenden unter den angegebenen stringenten Bedingungen hybridisiert.
- 13ADN cloné ou recombinant de HPV 29 (C.N.C.M. n° I-395) ou ADN cloné correspondant de cet ADN cloné qui hybride avec le précédent dans des conditions strictes :chauffage de ces ADNs recombinants, après dénaturation et transfert préalable sur des filtres de transfert pour hybridation, à 80°C pendant 4 heures, préhybridation pendant la nuit à 42°C des filtres dans une solution de Denhardt, 2 x SSC, phosphate de sodium 50 mM (pH, 6,5), ADN de thymus de veau (250 µg/ml) et formamide déionisé 35%, puis hybridation dans la même solution pendant 48 heures à 42°C avec l'ADN viral marqué par ³²P (2 x 10⁴ cpm/cm²) et lavage des filtres sous agitation pendant 30 minutes à 50°C dans une solution de Tris-chlorhydrate 60 mM (pH8), EDTA 2 mM, NaCl 300 mM et dodécyl-sulfate de sodium 0,5%, puis pendant 30 minutes à température ambiante dans une solution Tris 3 mM ou fragments d'ADN correspondant à l'une des régions E1 ;E6 ;E7 ;L1 ;L2 ou à une région intergénique de cet ADN-HPV ou fragment d'ADN correspondant hybridant avec le précédant dans les susdites conditions strictes. Cloned or recombinant DNA of HPV 29 (C.N.C.M. n° I-395) or corresponding cloned DNA of said cloned DNA which hybridizes with the preceding one under stringent conditions: heating of said recombinant DNAs after denaturation and prior transfer on transfer filters for hybridization at 80°C for 4 hours, prehybridization overnight at 42°C of the filters in Denhardt solution, 2 x SSC, 50mM sodium phosphate (pH 6.5), calf thymus DNA (250 µg/ml) and 35 % deionized formamide, then hybridization in the same solution during 48 hours at 42°C with the ³²P - labeled viral DNA (2 x 10⁴ cpm/cm²) and washing of the filters by shaking over 30 minutes at 50°C in a 60 mM Tris-hydrochloride solution (pH8), 2 mM EDTA, 300 mM NaCl and 0.5% sodium dodecyl sulfate during 30 minutes at ambient temperature in a 3 mM Tris solution. or DNA fragments corresponding to the E1;E6;E7;L1;L2 regions or to one intergenic region of said DNA-HPV or corresponding DNA fragment which hybridizes with the preceding one under said stringent conditions. Clonierte oder rekombinante DNA von HPV 29 (C.N.C.M. Nr. I-395) oder clonierte DNA, die der clonierten DNA entspricht, die mit der vorangehenden unter den folgenden stringenten Bedingungen hybridisiert: Erwärmung dieser rekombinanten DNAs nach Denaturierung und vorangehendem Transfer auf die Transferfilter für die Hybridisierung bei 80°C während 4 Stunden, Vorhybridisierung der Filter bei 42°C über Nacht in einer Denhardt-Lösung, 2 x SSC, 50 mM Natriumphosphat (pH 6,5), Kalbsthymus-DNA (250 µg/ml) und 35 % entionisiertes Formamid, danach Hybridisierung in der gleichen Lösung während 48 Stunden bei 42°C mit viraler DNA, die mit ³²P (2 x 10⁴ cpm/cm²) markiert ist, und Waschen der Filter unter Bewegung während 30 Minuten bei 50°C in einer Lösung von 60 mM Tris-Chlorhydrat (pH 8), 2 mM EDTA, 300 mM NaCl und 0,5% Natriumdodecylsulfat, danach während 30 Minuten bei Raumtemperatur in einer Lösung von 3 mM Tris, oder DNA-Fragmente, die einem der Bereiche E1, E6, E7, L1, L2 oder einem intergenischen Bereich dieser DNA-HPV entsprechen, oder ein DNA-Fragment, das einer DNA entspricht, die mit dem vorangehenden unter den angegebenen stringenten Bedingungen hybridisiert.
- 14ADN cloné ou recombinant de HPV 31 (C.N.C.M. n° I-396) ou ADN cloné correspondant de cet ADN cloné qui hybride avec le précédent dans des conditions strictes :chauffage de ces ADNs recombinants, après dénaturation et transfert préalable sur des filtres de transfert pour hybridation, à 80°C pendant 4 heures, préhybridation pendant la nuit à 42°C des filtres dans une solution de Denhardt, 2 x SSC, phosphate de sodium 50 mM (pH 6,5), ADN de thymus de veau (250 µg/ml) et formamide déionisé 35%, puis hybridation dans la même solution pendant 48 heures à 42'C avec l'ADN viral marqué par ³²P (2 x 10⁴ cpm/cm²) et lavage des filtres sous agitation pendant 30 minutes à 50°C dans une solution de Tris-chlorhydrate 60 mM (pH8), EDTA 2 mM, NaCl 300 mM et dodécyl-sulfate de sodium 0,5%, puis pendant 30 minutes à température ambiante dans une solution Tris 3 mM ou fragments d'ADN correspondant à l'une des régions E1 ;E6 ;E7 ;L1 ;L2 ou à une région intergénique de cet ADN-HPV ou fragment d'ADN correspondant hybridant avec le précédant dans les susdites conditions strictes. Cloned or recombinant DNA of HPV 31 (C.N.C.M. n° I-396) or corresponding cloned DNA of said cloned DNA which hybridizes with the preceding one under stringent conditions: heating of said recombinant DNAs after denaturation and prior transfer on transfer filters for hybridization at 80°C for 4 hours, prehybridization overnight at 42°C of the filters in Denhardt solution, 2 x SSC, 50mM sodium phosphate (pH 6.5), calf thymus DNA (250 µg/ml) and 35 % deionized formamide, then hybridization in the same solution during 48 hours at 42°C with the ³²P - labeled viral DNA (2 x 10⁴ cpm/cm²) and washing of the filters by shaking over 30 minutes at 50°C in a 60 mM Tris-hydrochloride solution (pH8), 2 mM EDTA, 300 mM NaCl and 0.5% sodium dodecyl sulfate during 30 minutes at ambient temperature in a 3 mM Tris solution. or DNA fragments corresponding to the E1;E6;E7;L1;L2 regions or to one intergenic region of said DNA-HPV or corresponding DNA fragment which hybridizes with the preceding one under said stringent conditions. Clonierte oder rekombinante DNA von HPV 31 (C.N.C.M. Nr. I-396) oder clonierte DNA, die der clonierten DNA entspricht, die mit der vorangehenden unter den folgenden stringenten Bedingungen hybridisiert: Erwärmung dieser rekombinanten DNAs nach Denaturierung und vorangehendem Transfer auf die Transferfilter für die Hybridisierung bei 80°C während 4 Stunden, Vorhybridisierung der Filter bei 42°C über Nacht in einer Denhardt-Lösung, 2 x SSC, 50 mM Natriumphosphat (pH 6,5), Kalbsthymus-DNA (250 µg/ml) und 35 % entionisiertes Formamid, danach Hybridisierung in der gleichen Lösung während 48 Stunden bei 42°C mit viraler DNA, die mit ³²P (2 x 10⁴ cpm/cm²) markiert ist, und Waschen der Filter unter Bewegung während 30 Minuten bei 50°C in einer Lösung von 60 mM Tris-Chlorhydrat (pH 8), 2 mM EDTA, 300 mM NaCl und 0,5% Natriumdodecylsulfat, danach während 30 Minuten bei Raumtemperatur in einer Lösung Von 3 mM Tris, oder DNA-Fragmente, die einem der Bereiche E1, E6, E7, L1, L2 oder einem intergenischen Bereich dieser DNA-HPV entsprechen, oder ein DNA-Fragment, das einer DNA entspricht, die mit dem vorangehenden unter den angegebenen stringenten Bedingungen hybridisiert.
- 15ADN cloné ou recombinant de HPV 32 (C.N.C.M. n° I-397) ou ADN cloné correspondant de cet ADN cloné qui hybride avec le précédent dans des conditions strictes :chauffage de ces ADNs recombinants, après dénaturation et transfert préalable sur des filtres de transfert pour hybridation, à 80°C pendant 4 heures, préhybridation pendant la nuit à 42°C des filtres dans une solution de Denhardt, 2 x SSC, phosphate de sodium 50 mM (pH, 6,5), ADN de thymus de veau (250 µg/ml) et formamide déionisé 35%, puis hybridation dans la même solution pendant 48 heures à 42°C avec l'ADN viral marqué par ³²P (2 x 10⁴ cpm/cm²) et lavage des filtres sous agitation pendant 30 minutes à 50°C dans une solution de Tris-chlorhydrate 60 mM (pH8), EDTA 2 mM, NaCl 300 mM et dodécyl-sulfate de sodium 0,5%, puis pendant 30 minutes à température ambiante dans une solution Tris 3 mM ou fragments d'ADN correspondant à l'une des régions E1 ;E6 ;E7 ;L1 ;L2 ou à une région intergénique de cet ADN-HPV ou fragment d'ADN correspondant hybridant avec le précédant dans les susdites conditions strictes. Cloned or recombinant DNA of HPV 32 (C.N.C.M. n° I-397) or corresponding cloned DNA of said cloned DNA which hybridizes with the preceding one under stringent conditions: heating of said recombinant DNAs after denaturation and prior transfer on transfer filters for hybridization at 80°C for 4 hours, prehybridization overnight at 42°C of the filters in Denhardt solution, 2 x SSC, 50mM sodium phosphate (pH 6.5), calf thymus DNA (250 µg/ml) and 35 % deionized formamide, then hybridization in the same solution during 48 hours at 42°C with the ³²P - labeled viral DNA (2 x 10⁴ cpm/cm²) and washing of the filters by shaking over 30 minutes at 50°C in a 60 mM Tris-hydrochloride solution (pH8), 2 mM EDTA, 300 mM NaCl and 0.5% sodium dodecyl sulfate during 30 minutes at ambient temperature in a 3 mM Tris solution. or DNA fragments corresponding to the E1;E6;E7;L1;L2 regions or to one intergenic region of said DNA-HPV or corresponding DNA fragment which hybridizes with the preceding one under said stringent conditions. Clonierte oder rekombinante DNA von HPV 32 (C.N.C.M. Nr. I-397) oder clonierte DNA, die der clonierten DNA entspricht, die mit der vorangehenden unter den folgenden Bedingungen hybridisiert: Erwärmung dieser rekombinanten DNAs nach Denaturierung und vorangehendem Transfer auf die Transferfilter für die Hybridisierung bei 80°C während 4 Stunden, Vorhybridisierung der Filter bei 42°C über Nacht in einer Denhardt-Lösung, 2 x SSC, 50 mM Natriumphosphat (pH 6,5), Kalbsthymus-DNA (250 µg/ml) und 35 % entionisiertes Formamid, danach Hybridisierung in der gleichen Lösung während 48 Stunden bei 42°C mit viraler DNA, die mit ³²P (2 x 10⁴ cpm/cm²) markiert ist, und Waschen der Filter unter Bewegung während 30 Minuten bei 50°C in einer Lösung von 60 mM Tris-Chlorhydrat (pH 8), 2 mM EDTA, 300 mM NaCl und 0,5% Natriumdodecylsulfat, danach während 30 Minuten bei Raumtemperatur in einer Lösung von 3 mM Tris, oder DNA-Fragmente, die einem der Bereiche E1, E6, E7, L1, L2 oder einem intergenischen Bereich dieser DNA-HPV entsprechen, oder ein DNA-Fragment, das einer DNA entspricht, die mit dem vorangehenden unter den angegebenen stringenten Bedingungen hybridisiert.
- 16ADN cloné ou recombinant de HPV IP2 (C.N.C.M. n° I-450) ou ADN cloné correspondant de cet ADN cloné qui hybride avec le précédent dans des conditions strictes :chauffage de ces ADNs recombinants, après dénaturation et transfert préalable sur des filtres de transfert pour hybridation, à 80°C pendant 4 heures, préhybridation pendant la nuit à 42°C des filtres dans une solution de Denhardt, 2 x SSC, phosphate de sodium 50 mM (pH 6,5), ADN de thymus de veau (250 µg/ml) et formamide déionisé 35%, puis hybridation dans la même solution pendant 48 heures à 42°C avec l'ADN viral marqué par ³²P (2 x 10⁴ cpm/cm²) et lavage des filtres sous agitation pendant 30 minutes à 50°C dans une solution de Tris-chlorhydrate 60 mM (pH8), EDTA 2 mM, NaCl 300 mM et dodécyl-sulfate de sodium 0,5%, puis pendant 30 minutes à température ambiante dans une solution Tris 3 mM ou fragments d'ADN correspondant à l'une des régions E1 ;E6 ;E7 ;L1 ;L2 ou à une région intergénique de cet ADN-HPV ou fragment d'ADN correspondant hybridant avec le précédant dans les susdites conditions strictes. Cloned or recombinant DNA of HPV IP2 (C.N.C.M. n° I-450) or corresponding cloned DNA of said cloned DNA which hybridizes with the preceding one under stringent conditions: heating of said recombinant DNAs after denaturation and prior transfer on transfer filters for hybridization at 80°C for 4 hours, prehybridization overnight at 42°C of the filters in Denhardt solution, 2 x SSC, 50mM sodium phosphate (pH 6.5), calf thymus DNA (250 µg/ml) and 35 % deionized formamide, then hybridization in the same solution during 48 hours at 42°C with the ³²P - labeled viral DNA (2 x 10⁴ cpm/cm²) and washing of the filters by shaking over 30 minutes at 50°C in a 60 mM Tris-hydrochloride solution (pH8), 2 mM EDTA, 300 mM NaCl and 0.5% sodium dodecyl sulfate during 30 minutes at ambient temperature in a 3 mM Tris solution. or DNA fragments corresponding to the E1;E6;E7;L1;L2 regions or to one intergenic region of said DNA-HPV or corresponding DNA fragment which hybridizes with the preceding one under said stringent conditions. Clonierte oder rekombinante DNA von HPV IP2 (C.N.C.M. Nr. I-450) oder clonierte DNA, die der clonierten DNA entspricht, die mit der vorangehenden unter den folgenden stringenten Bedingungen hybridisiert: Erwärmung dieser rekombinanten DNAs nach Denaturierung und vorangehendem Transfer auf die Transferfilter für die Hybridisierung bei 80°C während 4 Stunden, Vorhybridisierung der Filter bei 42°C über Nacht in einer Denhardt-Lösung, 2 x SSC, 50 mM Natriumphosphat (pH 6,5), Kalbsthymus-DNA (250 µg/ml) und 35 % entionisiertes Formamid, danach Hybridisierung in der gleichen Lösung während 48 Stunden bei 42°C mit viraler DNA, die mit ³²P (2 x 10⁴ cpm/cm²) markiert ist, und Waschen der Filter unter Bewegung während 30 Minuten bei 50°C in einer Lösung von 60 mM Tris-Chlorhydrat (pH 8), 2 mM EDTA, 300 mM NaCl und 0,5% Natriumdodecylsulfat, danach während 30 Minuten bei Raumtemperatur in einer Lösung von 3 mM Tris, oder DNA-Fragmente, die einen der Bereiche E1, E6, E7, L1, L2 oder einem intergenischen Bereich dieser DNA-HPV entsprechen, oder ein DNA-Fragment, das einer DNA entspricht, die mit dem vorangehenden unter den angegebenen stringenten Bedingungen hybridisiert.
- 17ADN cloné ou recombinant de HPV I4a (C.N.C.M. n° I-382) ou ADN cloné correspondant de cet ADN cloné qui hybride avec le précédent dans des conditions strictes :chauffage de ces ADNs recombinants, après dénaturation et transfert préalable sur des filtres de transfert pour hybridation, à 80°C pendant 4 heures, préhybridation pendant la nuit à 42°C des filtres dans une solution de Denhardt, 2 x SSC, phosphate de sodium 50 mM (pH, 6,5), ADN de thymus de veau (250 µg/ml) et formamide déionisé 35%, puis hybridation dans la même solution pendant 48 heures à 42°C avec l'ADN viral marqué par ³²P (2 x 10⁴ cpm/cm²) et lavage des filtres sous agitation pendant 30 minutes à 50°C dans une solution de Tris-chlorhydrate 60 mM (pH8), EDTA 2 mM, NaCl 300 mM et dodécyl-sulfate de sodium 0,5%, puis pendant 30 minutes à température ambiante dans une solution Tris 3 mM ou fragments d'ADN correspondant à l'une des régions E1 ;E6 ;E7 ;L1 ;L2 ou à une région intergénique de cet ADN-HPV ou fragment d'ADN correspondant hybridant avec le précédant dans les susdites conditions strictes. Cloned or recombinant DNA of HPV I4a (C.N.C.M. n° I-382) or corresponding cloned DNA of said cloned DNA which hybridizes with the preceding one under stringent conditions: heating of said recombinant DNAs after denaturation and prior transfer on transfer filters for hybridization at 80°C for 4 hours, prehybridization overnight at 42°C of the filters in Denhardt solution, 2 x SSC, 50mM sodium phosphate (pH 6.5), calf thymus DNA (250 µg/ml) and 35 % deionized formamide, then hybridization in the same solution during 48 hours at 42°C with the ³²P - labeled viral DNA (2 x 10⁴ cpm/cm²) and washing of the filters by shaking over 30 minutes at 50°C in a 60 mM Tris-hydrochloride solution (pH8), 2 mM EDTA, 300 mM NaCl and 0.5% sodium dodecyl sulfate during 30 minutes at ambient temperature in a 3 mM Tris solution. or DNA fragments corresponding to the E1;E6;E7;L1;L2 regions or to one intergenic region of said DNA-HPV or corresponding DNA fragment which hybridizes with the preceding one under said stringent conditions. Clonierte oder rekombinante DNA von HPV I4a (C.N.C.M. Nr. I-382) oder clonierte DNA, die der clonierten DNA entspricht, die mit der vorangehenden unter den folgenden stringenten Bedingungen hybridisiert: Erwärmung dieser rekombinanten DNAs nach Denaturierung und vorangehendem Transfer auf die Transferfilter für die Hybridisierung bei 80°C während 4 Stunden, Vorhybridisierung der Filter bei 42°C über Nacht in einer Denhardt-Lösung, 2 x SSC, 50 mM Natriumphosphat (pH 6,5), Kalbsthymus-DNA (250 µg/ml) und 35 % entionisiertes Formamid, danach Hybridisierung in der gleichen Lösung während 48 Stunden bei 42°C mit viraler DNA, die mit ³²P (2 x 10⁴ cpm/cm²) markiert ist, und Waschen der Filter unter Bewegung während 30 Minuten bei 50°C in einer Lösung von 60 mM Tris-Chlorhydrat (pH 8), 2 mM EDTA, 300 mM NaCl und 0,5% Natriumdodecylsulfat, danach während 30 Minuten bei Raumtemperatur in einer Lösung von 3 mM Tris, oder DNA-Fragmente, die einem der Bereiche E1, E6, E7, L1, L2 oder einem intergenischen Bereich dieser DNA-HPV entsprechen, oder ein DNA-Fragment, das einer DNA entspricht, die mit dem vorangehenden unter den angegebenen stringenten Bedingungen hybridisiert.
- 18ADN cloné ou recombinant de HPV I4b (C.N.C.M. n° I-383) ou ADN cloné correspondant de cet ADN cloné qui hybride avec le précédent dans des conditions strictes :chauffage de ces ADNs recombinants, après dénaturation et transfert préalable sur des filtres de transfert pour hybridation, à 80°C pendant 4 heures, préhybridation pendant la nuit à 42°C des filtres dans une solution de Denhardt, 2 x SSC, phosphate de sodium 50 mM (pH, 6,5), ADN de thymus de veau (250 µg/ml) et formamide déionisé 35%, puis hybridation dans la même solution pendant 48 heures à 42°C avec l'ADN viral marqué par ³²P (2 x 10⁴ cpm/cm²) et lavage des filtres sous agitation pendant 30 minutes à 50°C dans une solution de Tris-chlorhydrate 60 mM (pH8), EDTA 2 mM, NaCl 300 mM et dodécyl-sulfate de sodium 0,5%, puis pendant 30 minutes à température ambiante dans une solution Tris 3 mM ou fragments d'ADN correspondant à l'une des régions E1 ;E6 ;E7 ;L1 ;L2 ou à une région intergénique de cet ADN-HPV ou fragment d'ADN correspondant hybridant avec le précédant dans les susdites conditions strictes. Cloned or recombinant DNA of HPV I4b (C.N.C.M. n° I-383) or corresponding cloned DNA of said cloned DNA which hybridizes with the preceding one under stringent conditions: heating of said recombinant DNAs after denaturation and prior transfer on transfer filters for hybridization at 80°C for 4 hours, prehybridization overnight at 42°C of the filters in Denhardt solution, 2 x SSC, 50mM sodium phosphate (pH 6.5), calf thymus DNA (250 µg/ml) and 35 % deionized formamide, then hybridization in the same solution during 48 hours at 42°C with the ³²P - labeled viral DNA (2 x 10⁴ cpm/cm²) and washing of the filters by shaking over 30 minutes at 50°C in a 60 mM Tris-hydrochloride solution (pH8), 2 mM EDTA, 300 mM NaCl and 0.5% sodium dodecyl sulfate during 30 minutes at ambient temperature in a 3 mM Tris solution. or DNA fragments corresponding to the E1;E6;E7;L1;L2 regions or to one intergenic region of said DNA-HPV or corresponding DNA fragment which hybridizes with the preceding one under said stringent conditions. Clonierte oder rekombinante DNA von HPV I4b (C.N.C.M. Nr. I-383) oder clonierte DNA, die der clonierten DNA entspricht, die mit der vorangehenden unter den folgenden stringenten Bedingungen hybridisiert: Erwärmung dieser rekombinanten DNAs nach Denaturierung und vorangehendem Transfer auf die Transferfilter für die Hybridisierung bei 80°C während 4 Stunden, Vorhybridisierung der Filter bei 42°C über Nacht in einer Denhardt-Lösung, 2 x SSC, 50 mM Natriumphosphat (pH 6,5), Kalbsthymus-DNA (250 µg/ml) und 35 % entionisiertes Formamid, danach Hybridisierung in der gleichen Lösung während 48 Stunden bei 42°C mit viraler DNA, die mit ³²P (2 x 10⁴ cpm/cm²) markiert ist, und Waschen der Filter unter Bewegung während 30 Minuten bei 50°C in einer Lösung von 60 mM Tris-Chlorhydrat (pH 8), 2 mM EDTA, 300 mM NaCl und 0,5% Natriumdodecylsulfat, danach während 30 Minuten bei Raumtemperatur in einer Lösung von 3 mM Tris, oder DNA-Fragmente, die einem der Bereiche E1, E6, E7, L1, L2 oder einem intergenischem Bereich dieser DNA-HPV entsprechen, oder ein DNA-Fragment, das einer DNA entspricht, die mit dem vorangehenden unter den angegebenen stringenten Bedingungen hybridisiert.
- 19Process of detection or identification of papillomavirus of a type or subtype corresponding to a DNA according to anyone of claims 10 to 17, possibly contained in a biological sample, comprising the carrying out of a hybridization test with the corresponding DNA or DNA-HPV fragment used in a form of a probe and the detection of the hybrid possibly formed between the DNA-HPV of the biological sample and the probe which has been used. Procédé de détection et d'identification de papillomavirus d'un type ou sous-type correspondant à un ADN de l'une quelconque des revendications 10 à 17, éventuellement contenus dans un échantillon biologique, comprenant la réalisation d'un essai d'hybridation avec l'ADN ou fragment d'ADN-HPV correspondant utilisé à titre de sonde, et la détection de l'hybride éventuellement formé entre les ADN-HPVs de l'échantillon biologique et la sonde utilisée. Verfahren zum Nachweis und zur Identifizierung des Papillomavirus eines Typs oder Subtyps, der einer DNA gemäß irgendeinem der Ansprüche 10 bis 17 entspricht, gegebenenfalls in einer biologischen Flüssigkeit enthalten, umfassend die Durchführung eines Hybridisierungstests mit der DNA oder einem entsprechenden DNA-HPV-Fragment, das als Sonde dient, und Nachweis des gegebenenfalls zwischen den DNA-HPVs der biologischen Flüssigkeit und der verwendeten Sonde gebildeten Hybrids.
Independent claims19
78 paragraphs in 1 section, as filed
The invention relates to papillomavirus DNAs, and more particularly to probes derived from these papillomaviruses, as well as methods using them for diagnosis. <u style="single">in</u><u style="single">vitro</u> papillomavirus infections.
The expression "papillomavirus" covers a large number of viruses having in common to be held responsible for several forms of viral infections spreading between skin warts or relatively benign mucous membranes and hyperplasias liable to degenerate into intra- neoplasias. epithelial and skin cancer. Among papillomavirus infections, mention will also be made more particularly of wart-shaped epidermodysplasia, which will sometimes be referred to below as "EV".
A number of types of papillomavirus have already been described. In the context of the present patent application, numerous new types and subtypes of papillomavirus will be described which have been isolated from warts or disseminated macular lesions, which may give rise to the early development of skin cancers in important proportions of patients affected.
Recent studies have revealed the importance of immune factors and the major role of various types of human papillomavirus (HPV), these factors adding to the role already described in the literature of various genetic factors and actinic radiation in pathogenesis papillomavirus infections.
The invention follows from observations which have been made as to the relative behaviors of a large number of newly isolated papillomaviruses, the essential genomic characteristics of which will be defined below.
The study of a small number of EV cases had already led to the characterization of six types of HPV after molecular cloning of their genomes (KREMSDORF, D. et al, 1982, J. Virol. <u style="single">43</u>: 436-447 and KREMSDORF et al, 1983, J. Virol. <u style="single">48</u>: 340-351). These HPVs were divided into three groups based on the absence of cross hybridization or very weak cross hybridization between genomes belonging to different groups. The first group included HPV3a and 10 which are associated with the flat warts seen in some EV patients and in the general population; DNA sequences related to those of HPV3a have been found in cancer of patients with EV. The second group included HPV5, 8 and 12, the genomes of HPV5 and 8 having been detected in cancers of patients with EV. The third group to date consists of a single virus, HPV9. With the exception of a recipient of a renal allograft with immunosuppression, who had been found to be infected with HPV5, the viruses of the last two groups had only been detected in patients with EV, most of them being infected by several viruses. It should be noted that among the 14 types of HPV currently mentioned in the literature (bibliographic references 1-5, 8.9, 13, 14, 16, 18-20 indicated below), four were found to be associated specifically with EV which is a rare disease.
The following papillomaviruses: HPV 14a, 14b, 15, 17a, 17b, 19, 20, 21, 22, 23 and 24 are described in the article by KREMSDORF and other authors in "Journal of Virology, Dec. 1984, pages 1013- 1018 ".
The work which led to the invention and which made it possible to isolate a large number of new types and subtypes of papillomavirus now makes it possible to envisage diagnostic techniques. <u style="single">in</u><u style="single">vitro</u> more refined. More particularly, the invention provides improved techniques for the identification of papillomaviruses, for example obtained from lesions or biopsy sections and makes it possible to make more precise diagnoses, which may also result in improved prognoses as to the possible evolution. of the lesions involved.
In general, it will be noted that the papillomaviruses, although very different from one another, have sizes of the order of 7000-8000 base pairs. In addition, their genomes may nevertheless have certain degrees of homology. In what follows, reference will be made to evaluations of the percentages of homologies between types and subtypes of papillomavirus, these percentages of homologies resulting from hybridization tests carried out under so-called non-stringent or non-strict conditions or even in stringent or strict hybridization conditions.
Among the papillomaviruses, there are several types of papillomavirus, these are distinguished by their percentages of homologies measured under strict or stringent conditions. It will be said that the papillomaviruses which, under these latter conditions, have percentages of homology of less than 50% belong to different types. It will be noted in this regard that the percentages of homology between viruses of different types can even drop to zero under said strict or stringent conditions. Viruses for which we observe, under these strict or stringent conditions, percentages of homology greater than 50% are considered to belong to the same type and form different subtypes within this same type.
Hybridization tests under non-strict or non-stringent conditions involve the mutual contacting of DNAs originating from two virus isolates under the following conditions described by HEILMAN CA et al, 1980, J. Virol., <u style="single">36</u>, 395-407, and CROISSANT et al, 1982, CR Acad. Sc. Paris,<u style="single">294</u>, 581-586 (heteroduplex molecules).
Hybridization tests under strict or stringent conditions involve the mutual contacting of DNAs originating from two virus isolates under the conditions described by KREMSDORF, D. et al. ((1982), J. Virol.<u style="single">43</u>: 436-447 and 1983, J. Virol. <u style="single">48</u>: 340-351) and DAVIS RW et al., 1971, Methods Enzymol., <u style="single">21</u>, 413-428 (heteroduplex molecules).
Schematically, it will be noted that the papillomaviruses belonging to the same type have hybridizable sequences having substantially identical nucleotide sequences over 80 to 100% of their entire length, these homologous sequences can be reduced to 60%, or even less in papillomaviruses of different types The degree of identity or of analogy of the sequences of papillomaviruses of different types which hybridize mutually under non-strict or non-stringent conditions, can obviously be lower than in the case of papillomavirus belonging to the same type.
The study carried out by the inventors has shown both that the degree of genetic heterogeneity between papillomaviruses of various types was greater than what was appreciated before and at the same time that the different types were often associated with forms. or variants of infections with some degree of specificity.
The invention therefore relates not only to DNAs capable of being isolated from the various new papillomaviruses which have been isolated and to the probes which may consist of all or part of these DNAs, but also to mixtures or "cocktails" of types. papillomaviruses which can be used more effectively for the diagnosis of various categories of infection, or even the risk levels that accompany the discovery in a patient of certain papillomaviruses. The number of papillomavirus probes described in the present application, to which are added, where appropriate, those formed from genomic papillomavirus DNAs already isolated previously and their associations in determined mixtures, would therefore allow more refined diagnoses to be made, in particular greater discrimination of the various categories of infections attributable to the various types of papillomavirus or likely to develop under the effect of these latter types and, within a category of specific infections, to better predict the degree of risk that the latter turn into more formidable diseases. For example, the invention aims to provide means allowing, in the case of infections manifested by epidermodysplasia verruciformis, to better appreciate the degree of risk that these latter evolve towards skin cancers.
In general, and with the aim of simplifying the description which follows, the whole genomes of papillomaviruses will be designated by the abbreviation "DNA-HPV".
For the same purpose of simplification, reference is made in the following to the drawings, in which the figures consist of physical restriction maps of DNA-HPVs, among which moreover DNA-HPVs of papillomavirus already known.
The physical maps give the position of sites of cleavage by various restriction endonucleases. The origin of the cards is generally formed by a single clipping site. Distances to origin are expressed as a percentage of genome length. One map unit represents 1% of genome length.
The invention firstly relates more specifically to each of the DNA-HPVs chosen from all of the DNAs which have sizes which range between 7000 and 8000 base pairs chosen from the cloned DNAs deposited on November 30, 1984 at the CNCM (National Collection of Cultures of Microorganisms from the INSTITUT PASTEUR of Paris), under the following numbers: <tables id="tabl0001" num="0001"><table frame="all"><tgroup cols="2" colsep="1" rowsep="0"><colspec colnum="1" colname="col1" colwidth="78.75mm" /><colspec colnum="2" colname="col2" colwidth="78.75mm" /><tbody valign="top"><row><entry namest="col1" nameend="col1" align="left">HPV 2d</entry><entry namest="col2" nameend="col2" align="left">n ° I-379</entry></row><row><entry namest="col1" nameend="col1" align="left">HPV 10bA</entry><entry namest="col2" nameend="col2" align="left">n ° I-380</entry></row><row><entry namest="col1" nameend="col1" align="left">HPV 10bB</entry><entry namest="col2" nameend="col2" align="left">n ° I-381</entry></row><row><entry namest="col1" nameend="col1" align="left">HPV 28</entry><entry namest="col2" nameend="col2" align="left">n ° I-394</entry></row><row><entry namest="col1" nameend="col1" align="left">HPV 29</entry><entry namest="col2" nameend="col2" align="left">n ° I-395</entry></row><row><entry namest="col1" nameend="col1" align="left">HPV 31</entry><entry namest="col2" nameend="col2" align="left">n ° I-396</entry></row><row><entry namest="col1" nameend="col1" align="left">HPV 32</entry><entry namest="col2" nameend="col2" align="left">n ° I-397</entry></row><row><entry namest="col1" nameend="col1" align="left">IP-2</entry><entry namest="col2" nameend="col2" align="left"># I-450</entry></row><row rowsep="1"><entry namest="col1" nameend="col1" align="left">IP-4</entry><entry namest="col2" nameend="col2" align="left">n ° I-449</entry></row></tbody></tgroup></table></tables>
The invention also relates to fragments of the preceding HPV DNAs or capable of hybridizing with them. especially under strict conditions. Likewise, it relates to the recombinant DNAs containing all or part of each of the DNA-HPVs mentioned above, and more particularly to the recombinant DNAs containing fragments corresponding to the genes E1, E6-E7, L1 and L2 respectively or else fragments containing sequences corresponding to the intergenic regions of said DNA-HPVS. Finally, it relates to the probes which can be formed from these respective DNA-HPVs or from the corresponding fragments and the diagnostic methods. <u style="single">in</u><u style="single">vitro</u> involving said probes.
DNA-HPV restriction maps obtained from papillomaviruses and which meet the designations HPV-2d, HPV 10b, HPV-14A, HPV-14B, HPV-15, HPV-17a, HPV-17b, HPV-19, HPV -20, HPV-21, HPV-22, HPV-23, HPV-24, HPV-28, HPV-29, HPV-31 and HPV-32, HPV-IP2 and HPV-IP4, appear in the drawings.
The viral DNA preparations were selectively extracted (LUTZNER, MA et al., 1983, Lancet ii: 422-424) from scraping products of benign lesions of six European patients with EV and two patients from South Americans with EV. The HPV DNAs were purified by equilibrium centrifugation in cesium chloride gradients and / or sedimentation in sucrose gradients in the presence of ethidium bromide, according to the procedures described above (articles by KREMSDORF, D. and al. already described and ORTH, G. et al., 1980, Cold Spring Harbor Conf. Cell Proliferation <u style="single">7</u>: 259-282). The DNA preparations were treated with restriction endonucleases and the digestion products were separated by electrophoresis on agarose gels (articles from KREMSDORF et al. Already mentioned). In addition to HPV5, 8 and 12 (articles from KREMSDORF et al. Already mentioned) and HPV2 (HEILMAN, CA et al., 1980, J. Virol.<u style="single">36</u>: 395-407 and ORTH, G. et al., 1980, Cold Spring Harbor Conf. Cell Proliferation<u style="single">7</u>: 259-282) found in the common warts of one of the patients, eleven strains were identified providing major models of cleavage by DNA restriction enzymes, different from those of the types previously characterized. New types of HPV have been given a number and subtypes of a type have been given the same number followed by a letter, in chronological order of their identification (COGGIN, JR et al., Cancer Res.<u style="single">39</u>: 545-546). The genomes of the 11 new HPVs have been cloned into<u style="single">Escherichia</u><u style="single">coli</u> K12, strain C600 (article by KREMSDORF, D. et al. (1983) already mentioned). The DNAs were inserted in the form of unit length molecules with the exception of two DNA fragments from HPV24 produced by the endonuclease BamHI. They were inserted either into the plasmid pBR322 (SUTCLIFFE, JG, 1978, Nucleic Acids Res.<u style="single">5</u>: 2721-2728), using the unique cleavage sites of AvaI, BamHI and HindIII, either in a recombinant plasmid having integrated the HindIII B fragment of the HPV5 DNA (article by KREMSDORF, D. et al. , 1982, already mentioned), which contains a single SacI site. More particularly, HPV17b and 22 were inserted in the form of DNA molecules of unit length after cleavage with an enzyme (SacI) which only cleaves HPV DNA and the recombinant plasmid pBR322 containing the HindIII B fragment once HPV5 DNA. HPV14a DNA was inserted into plasmid pBR322 as a unit length DNA molecule after incomplete digestion of the viral DNA preparation with HindIII, an enzyme that produces two fragments of 96.1 and 3 , 9% of the length of the genome. The BamHI A and B fragments of HPV24 (having sizes corresponding respectively to 83.1 and 16.9% of the length of the genome) were inserted separately into the plasmid pBR322.
The isolated clones and the sources of the corresponding HPVs result from Table I below:<tables id="tabl0002" num="0002"><img file="EP0192001B1_D0001.tif" /></tables>
To identify the recombinant plasmids, the electrophoretic mobilities of the digests of the recombinant DNAs and of the uncloned HPV DNAs were compared after treatment with a mixture of two restriction endonucleases comprising the endonuclease used for the insertion of the viral sequences into the plasmid. The number and size of the isolated fragments indicated that in each case the whole viral genomes were integrated. A heterogeneity in the sizes of the DNAs was observed when the DNAs of the HPVs, not cloned or excised from the plasmid sequences, were analyzed by agarose gel electrophoresis (data not shown). The DNAs of HPV14b, 19, 20 and 21 have sizes similar to those of HPV3a, 5, 8 and 12 (approximately 7700 pairs of nucleotides (articles by KREMSDORF, D. already mentioned), while the DNAs of HPV15, 17a, 17b, 22 and 23 have smaller sizes similar to that of HPV9 (approximately 7200 nucleotide pairs) (articles by KREMSDORF, D., 1982) and ORTH, G., 1980, already mentioned).
The sensitivity of the cloned viral genomes to 14 restriction endonucleases was analyzed and the physical maps were established (Figures 1 to 10). The restriction maps of some of the DNA-HPVs are repeated in some of the figures for the reasons explained below. Between 22 and 33 cleavage sites were located according to the methods previously described (9). No obvious analogy was detected between these cards, with the exception of those of HPV14a and 14b, on the one hand (figs.4a and 4b) and between those of HPV17a and 17b, on the other hand (Figure 5) , Among the 21 and 31 sites located respectively on the DNAs of HPV14a and 14b, 15 were found to be common when one of the two BamHI cleavage sites of the HPV14a DNA was aligned with the unique BamHI cleavage site of HPV14b DNA. Similarly, 21 of the 29 cleavage sites located on HPV17a DNA were also found on HPV17b DNA (with 26 sites), when the unique BamHI cleavage sites were aligned.
No obvious analogy was detected between these cards and those previously established for HPV associated with EV (HPV3a, 5, 8, 9, 10 and 12) (8,9, 16, 18, 20), to warts skin (HPV1, 2, 4 and 7), and mucocutaneous or mucous membrane lesions (HPV6b, 11a, 13 and 16) (1, 33, 19), with the exception of the closely related HPV14a map à la carte of an HPV isolated from a Japanese patient with EV (24). The latter isolate differs from HPV14a by an additional BamHI site and a HindII site, while the locations of the AvaI, BamHI, BglI, EcoRI, HindII and HindIII sites are similar in the two viruses. Cross-hybridization experiments have confirmed that these two viruses are very closely related.
It will also be noted that some sites (those indicated by the arrows) have not been located. Cleavage sites differing by less than 2% of the length of the genome by their location are considered to be preserved (*). The non-cleavage enzymes were PvuI, Sal I and SmaI for the DNAs of HPV14a and 23; PvuI, SacI, SalI and SmaI for HPV14b DNA: BglI, PvuI, SalI and SmaI for HPV15, 17a and 17b DNAs: BglI, SacI, SalI and SmaI for HPV19 DNA: EcoRI, PvuI, SacI and SmaI for HPV20 DNA: Sac I and SmaI for HPV21 DNA; BamHI, BglI, PvuI, PvuII and SalI for the DNA of HPV22: BglI, EcoRI, PvuI, SacI, SalI and SmaI for the DNA of HPV24.
The existence of sequence homologies between the DNAs of the newly characterized HPV DNAs as well as between these and the previously characterized EV HPV DNAs (HPV3a, 5, 8, 9, 10 and 12) of HPV associated with skin warts (HPV1, 2, 4 and 7), and HPV associated with lesions of the mucous membranes (HPV6b, 11a, 13 and 16) has been studied. Hybridization experiments by fixation on a filter paper and DNA-DNA hybridization in liquid phase at saturation followed by digestion with nuclease S1 were carried out under strict or stringent conditions previously described (8, 9). In particular, the HPV DNAs were labeled by nick-translation and fractionated by sedimentation in alkaline sucrose gradients (5 to 20%) as previously described (13). The labeled HPV DNAs (4000 cpm) were incubated in 0.48 M NaCl 1 mM EDTA (pH 6.8) at 68 ° C., in the presence of either calf thymus DNA (20 μg), either of unlabelled HPV DNA (0.20 μg) as previously described (8, 9). The specific activities of HPV DNA probes varied between 5.3 x 10⁷ and 2 x 10⁸ cpm / µg. The percentage of hybridization was determined by measuring the fractions resistant to nuclease S1. The numbers represent the values corrected for the spontaneous self-naturalization of the probes (4 to 15%) and normalized to 100% for the homologous hybridization (75 to 95%). The abbreviation ND means: not determined. The relative importance of the cross-hybridizations between the DNA-HPV under the conditions indicated above are expressed in% of hybridization between a labeled HPV DNA and an unlabelled HPV DNA.<tables id="tabl0003" num="0003"><img file="EP0192001B1_D0002.tif" /></tables>
There is the absence or virtual absence of cross hybridization between the genomes of HPV1, 2, 4, 6b, 7 and 11a and of newly cloned EV HPV DNAs labeled with ³²P or between the DNAs of HPV of unlabeled EV and specific probes of HPV13, 16 and 18. Similarly, no cross hybridization has been detected between the DNAs of HPV14a, 14b, 15, 17a, 17b, 19, 20, 21, 22, 23 and 24 and the DNAs of HPV1a and 11a by saturation reassociation (Table 2). Newly cloned HPV DNAs showed little or no cross-hybridization or showed less than 50% cross-hybridization with each other and with the genomes of other EV-associated HPVs (HPV3a, 5, 8, 9, 10 and 12), with the exception of HPV14a and 14b, on the one hand, and HPV17a and 17b, on the other hand, which exhibited strong cross-hybridization. These observations justify the classification of the new viruses into nine new types (HPV14, 15, 17, 19, 20, 21, 22, 23 and 24) plus two subtypes of types 14 (HPV14a and b) and 17 (HPV17a and b ).
Similarly, the various HPVs have been classified into groups, on the basis of their sequence homologies (or absence of homologies) under strict conditions of molecular hybridization. These groups, designated by the letters A to H, are listed in Table III below. This table lists the diseases which have been diagnosed in the carriers of these HPVs (isolated or in combination between them) and the oncogenic potentials which have been recognized for them.<tables id="tabl0004" num="0004"><img file="EP0192001B1_D0003.tif" /></tables>
The DNAs of HPV5, 8, 12, 14, 19, 20, 21, 22 and 23 show between them rates of cross-hybridization (group homologies) varying from 5 to 38%, and do not show a significant cross-hybridization (4 at 13%) than with the DNAs of HPV5, 8 and 12. These viruses therefore form part of a group of EV HPV previously defined (9).
Similarly, the DNAs of HPV9, 15 and 17 which exhibit between them a cross hybridization of approximately 20% and a cross hybridization of approximately 6% with the DNA of HPV9, also belong to a group of HPV of EV already described (9). HPVs types 13 and 31 can be considered to belong to the same group. Finally, the HPVs of types 1, 2, 4, 24 and 32 which show almost no homology with the genomes of the other HPVs are considered to form the first members of other groups distinct from each other and from the preceding groups.
The invention relates more particularly to DNA fragments, derived from the DNA-HPVs described above, and more particularly those corresponding respectively to the E6-E7 genes; E1: L2: L1 and their intergenic regions. The positions and relative lengths of these various fragments, with respect to the sites taken as origins (FIGS. 1 to 9) are indicated in Table IV which follows.<tables id="tabl0005" num="0005"><img file="EP0192001B1_D0004.tif" /></tables>
The localization of genes on the HPV1 genome has been deduced from the nucleotide sequence of this genome (Patent O. Danos, M. Katinka and M. Yaniv). The physical maps of the genomes of HPV3, 5, 8 ,, 9, 10a, 12, 14, 15, 17 and 24 were aligned with respect to the physical map and the genetic map of HPV1, and that of HPV31, with respect to to the physical and genetic maps of HPV6b (E. Schwarz et al, EMBO J., 1983, 2, 2341-2348), after analysis with an electron microscope of heteroduplex molecules formed under strict (Tm -29 ° C) or less strict (Tm -40 ° C) hybridization conditions . The physical maps of HPV10b, 28 and 29 were aligned with respect to the physical maps of HPV3a and 10a after juxtaposition of the conserved restriction enzyme sites.
The values of the coordinates given in Table IV indicate the position, on the physical maps presented in figs. 1-9, the 5 ′ and 3 ′ ends of the segments of the genomes homologous to the E6 and E7, E1, L2 and L1 genes and of the intergenic region with respect to the genome of HPV1a or, in the case of HPV31, with respect to the genome of HPV6b.
The intergenic region (comprising regulatory elements) and the adjacent genes E6 and E7 (presumably corresponding to the major transformation genes expressed in tumors) do not exhibit any sequence homology detectable by electron microscopic analysis of heteroduplex molecules formed, in non-strict hybridization conditions, between genomes of HPV types belonging to different groups, or formed, under strict hybridization conditions, between the genomes of most types of HPV belonging to the same group. The E1 gene (mainly involved in the replication of viral DNA) and the L1 gene (coding for the major protein of the viral capsid carrying the main antigenic determinants of virions) show sequence homologies detectable by analysis of heteroduplex formed, under non-strict hybridization conditions, between genomes of HPV types belonging to different or formed groups, under strict hybridization conditions, between genomes of HPV belonging to the same group.
Probes prepared from recombinant plasmids comprising the E1 and L1 regions can theoretically make it possible to detect the greatest number of types of HPV by molecular hybridization experiments carried out, as the case may be, under strict or non-strict conditions. Probes prepared from recombinant plasmids comprising the intergenic region and the E6 and E7 genes make it possible to specifically detect a type of HPV or related types of HPV.
The L2 region (coding for a minor constituent of the viral capsid) exhibits a variable degree of conservation of nucleotide sequences among the different types of HPV.
In what follows, the conditions under which the HPV-IP2 and HPV-IP4 viruses were isolated are further described in more detail, then the conditions under which the DNA-HPVs were obtained from these viruses.
Molecular cloning and characterization of a new type of HPV associated with neoplasias and genital cancers (HPV IP2)
.
A new type of HPV has been demonstrated in DNA extracted from cervical cancer, by hybridization, under non-strict conditions, with a radioactive probe specific for HPV type 16. No cross-hybridization n was detectable when the hybridization was carried out under strict hybridization conditions. A study of the sensitivity of the DNA of this HPV to several restriction enzymes has shown that the enzyme BglII cuts the viral DNA once. After digestion of the DNA extracted from the tumor with the endonuclease BglII, the fraction containing DNA molecules of 8 kb (size of a papillomavirus genome) were purified by centrifugation in a sucrose gradient. The 8 kb molecules were inserted, via the BglII site, into a vector consisting of the plasmid PL15.5 (containing a single site for cleavage by BglII and by BamHI) inserted by its BamHI site, into the DNA of the bacteriophage lambda L47. 1. After packaging of the recombinant DNA and infection of host bacteria (Escherichia coli, strain LA101), the lysis plaques corresponding to recombinant phages were detected by hybridization of replicates of the infected bacterial cultures, with a radioactive HPV16 DNA, in non-strict conditions. Several recombinant bacteriophages, containing all of the viral sequences, have been isolated: cleavage of phage DNA by the insertion enzyme BglII generates an 8 kb fragment hybridizing with the HPV16 probe under non-strict conditions; cutting the DNA of the recombinant phages and the DNA of the original tumor by mixing the enzymes BglII and PstI generates the same 5 fragments in the sum of the molecular weights is equal to the size of a papillomavirus genome. The DNA of the new HPV was excised from the DNA of the recombinant bacteriophages, purified by electroelution, and recloned in the plasmid PL15.5. A restriction map of viral DNA was established from the sensitivity of this DNA to 18 restriction endonucleases, which made it possible to locate 21 cleavage sites (FIG. 9). The map thus established is different from the map of the HPV genomes identified to date. The sequence homology between the DNA of the new HPV and the DNA of the HPVs identified to date has been analyzed by replica molecular hybridization experiments carried out under strict conditions. The homology detected was always less than 5%, the greatest homology being detected with the genome of HPV16. The new virus characterized from cervical cancer therefore constitutes a new type of HPV, provisionally known as HPVIP2.
The analysis, using an electron microscope, of heteroduplex molecules formed, under different conditions, between the DNA of HPVIP2 and the DNA of HPV1 made it possible to align the physical maps of these 2 genomes and to define the theoretical position of the different genes carried by the HPVIP2 DNA.
PUTATIVE LOCATION OF THE MAIN GENES AND THE INTRAGENIC REGION OF HPV-IP2 ON THE MAP OF THIS GENOME
<tables id="tabl0006" num="0006"><table frame="all"><tgroup cols="3" colsep="1" rowsep="0"><colspec colnum="1" colname="col1" colwidth="52.50mm" /><colspec colnum="2" colname="col2" colwidth="52.50mm" /><colspec colnum="3" colname="col3" colwidth="52.50mm" /><thead valign="top"><row><entry namest="col1" nameend="col1" /><entry namest="col2" nameend="col3" align="center">End coordinates</entry></row><row><entry namest="col1" nameend="col1" /><entry namest="col2" nameend="col2" align="center">5'</entry><entry namest="col3" nameend="col3" align="center">3'</entry></row></thead><tbody valign="top"><row><entry namest="col1" nameend="col1" align="left">E6-E7</entry><entry namest="col2" nameend="col2" align="left">62</entry><entry namest="col3" nameend="col3" align="left">71,5</entry></row><row><entry namest="col1" nameend="col1" align="left">E1</entry><entry namest="col2" nameend="col2" align="left">71</entry><entry namest="col3" nameend="col3" align="left">95</entry></row><row><entry namest="col1" nameend="col1" align="left">E2</entry><entry namest="col2" nameend="col2" align="left">95,5</entry><entry namest="col3" nameend="col3" align="left">11,5</entry></row><row><entry namest="col1" nameend="col1" align="left">L2</entry><entry namest="col2" nameend="col2" align="left">11</entry><entry namest="col3" nameend="col3" align="left">30,5</entry></row><row><entry namest="col1" nameend="col1" align="left">L1</entry><entry namest="col2" nameend="col2" align="left">31,5</entry><entry namest="col3" nameend="col3" align="left">52</entry></row><row rowsep="1"><entry namest="col1" nameend="col1" align="left">Intergenic region</entry><entry namest="col2" nameend="col2" align="left">52</entry><entry namest="col3" nameend="col3" align="left">63,5</entry></row></tbody></tgroup></table></tables>
The use of radioactive probes prepared from the purified HPVIP2 DNA made it possible to determine the pathogenic power of these viruses. The DNA of HPVIP2 was revealed in one case of bowenoid papules of the external genital organs out of the 14 studied, in 2 invasive cervical cancers out of the 51 studied and in 1 case of intraepithelial neoplasia of the cervix. of the 28 studied. HPVIP2 therefore constitutes a type of HPV with genital tropism having an oncogenic potential, the frequency of which is slightly lower than that of HPV18, and much lower than that of HPV16. It is necessary to incorporate it into any mixture of HPV DNA intended for the preparation of molecular probes, for the diagnosis or screening of the types of HPV constituting a risk for the development of genital neoplasias and, in particular, cervical cancer.
Molecular cloning and characterization of a new type of HPV associated with precancerous skin lesions (HPV IP4)
.
A new type of HPV has been demonstrated in DNA extracted from a biopsy of actinic keratosis, a precancerous skin lesion, by molecular hybridization, under strict conditions, with a mixture with radioactive probes specific for HPV type 5 , 8 and 14. No cross hybridization was detected when the hybridization was carried out with specific probes of the types 1,2,3,7,10,13,16,18,28, IP1 (previously called HPV31), IP2, and IP3 (previously called HPV32).
A study of the DNA sensitivity of this HPV to several restriction enzymes has shown that the EcoRI enzyme cuts once the viral DNA. After digestion of the DNA extracted from the biopsy with the EcoRI endonuclease, the fraction containing DNA molecules of 8 kb (size of a papillomavirus genome) was purified by centrifugation in a sucrose gradient. The 8kb molecules were inserted, through the EcoRI site, into the DNA of the bacteriophage λgt wes. λB. After packaging of the recombinant DNA and infection of host bacteria (Escherichia coli, strain LA101), the lysis plaques corresponding to recombinant phages were detected by hybridization of replicates of the infected bacterial cultures, with a radioactive mixture of the DNA of HPVs, 8, and 14, under non-strict conditions. Several recombinant bacteriophages, containing all the viral sequences have been isolated: the cleavage of phage DNA by the insertion enzyme EcoRI generates an 8kb fragment hybridizing with the specific probe of HPV5,8 and 14 under non-strict conditions ; cutting the DNA of recombinant phages and the DNA of the original lesion by mixing the enzymes EcoRI and PstI generates the same 6 fragments whose sum of molecular weights is equal to the size of a papillomavirus genome . The DNA of the new HPV was excised from the DNA of a recombinant bacteriophage, purified by electroelution, and recloned in the plasmid pSP65. A restriction map of the viral DNA was established from the sensitivity of this DNA to 15 restriction endonucleases, which made it possible to locate 23 cleavage sites (FIG. 10). The map thus established is different from the map of the HPV genomes identified to date. The sequence homology between the DNA of the new HPV and the DNA of the HPVs identified to date has been analyzed by replica molecular hybridization experiments carried out under strict conditions. Homology, less than 50%, has been detected between the DNA of the new HPV and the DNA of certain types of HPV previously identified in lesions of epidermodysplasia verruciformis (HPV5,8,12,14, -19,20 , 21 and 25), but no homology was detected with the other types of HPV. The new virus characterized from actinic keratosis therefore constitutes a new type of HPV provisionally called HPV-IP4.
The use of a radioactive probe prepared from the DNA of purified HPVIP4 made it possible to demonstrate HPVIP4 in 42% of the 17 patients with epidermodysplasia verruciformis studied and in x on y biopsies of actinic keratosis analyzed. . Due to its great frequency in patients with epidermodysplasia verruciformis, a disease characterized by the frequent development of skin cancers, and its association with a fraction of lesions of actinic keratosis considered as precursors of squamous cell cancer of the skin, HPVIP4 constitutes a type of skin tropism HPV with oncogenic potential. It is necessary to incorporate it into any mixture of HPV DNA intended for the preparation of molecular probes for the diagnosis or screening of the types of HPV constituting a risk for the development of precancerous or cancerous lesions of the skin.
The invention more particularly relates to mixtures or cocktails of different HPV DNAs (or probes containing these HPV DNAs or sequences thereof), which can be used in combination to carry out global diagnostics of the various forms of papillomavirus infections , possibly for the purpose of predicting the possible course of the infection. Preferred mixtures in accordance with the invention are identified in Table V which follows.<tables id="tabl0007" num="0007"><img file="EP0192001B1_D0005.tif" /></tables>
This table also indicates the natures of the conditions likely to be more particularly diagnosed by the use of the mixtures appearing on the left part of the table. It will be noted that the groupings of the restriction maps in figures 1 to 9 attached are in compliance with the groupings which are indicated in the "Constitution" column of Table V. This is also the reason why some of the probes have been reproduced several times in different figures of the attached drawings.
The invention also relates to a kit or kit comprising a plurality of probes or mixtures of distinct probes, characterized by nine groups of probes; each of which includes:<ul id="ul0001" list-style="none"><li>1) at least the cloned or recombinant DNA of HPV 2d (CNCM n ° I-379);</li><li>2) at least one DNA chosen from cloned or recombinant DNAs from HPV 10b (CNCM n ° I-380 and n ° I-381), HPV 28 (CNCM n ° I-394) and HPV 29 (CNCM n ° I- 395);</li><li>3) at least one DNA chosen from the cloned or recombinant DNAs of HPV 17 (CNCM n ° I-385 and n ° I-386), and HPV 24 (CNCM n ° I-392 and n ° I-393);</li><li>4) at least one DNA chosen from the cloned or recombinant DNAs of HPV 14 (CNCM n ° I-382 and n ° I-383), HPV 15 (CNCM n ° I-384), HPV 17 (CNCM n ° I- 385 and n ° I-386), HPV 19 (CNCM n ° I-387), HPV 20 (CNCM n ° I-388), HPV 21 (CNCM n ° I-389), HPV 22 (CNCM n ° I- 390) and HPV 23 (CNCM n ° I-391);</li><li>5) at least one DNA chosen from the cloned or recombinant DNAs of HPV 15 (CNCM n ° I-384) and HPV 17 (CNCM n ° I-385 and n ° I-386);</li><li>6) cloned or recombinant DNA of HPV 24 (CNCM n ° I-392 and n ° I-393);</li><li>7) at least one DNA chosen from the cloned or recombinant DNAs of HPV 14 (CNCM n ° I-382 and n ° I-383), and HPV 32 (CNCM n ° I-397);</li><li>8) cloned or recombinant DNA of HPV 31 (CNCM n ° I-396);</li><li>9) cloned or recombinant DNA from HPV 32 (CNCM n ° I-397);</li></ul> it being understood that each of these recombinant or cloned DNAs can be replaced by a corresponding cloned DNA or DNA fragment which hybridizes with the previous one under strict conditions: under the conditions described by KREMSDORF D. et al. (1983), J. Virol.<u style="single">48</u>: 340-351: heating of these recombinant DNAs, after denaturation and prior transfer to transfer filters for hybridization, at 80 ° C for 4 hours, prehybridization overnight at 42 ° C of the filters in a Denhardt solution, 2 x SSC, sodium phosphate 50 mM (pH 6.5), DNA from calf thymus (250 µg / ml) and 35% deionized formamide, then hybridization in the same solution for 48 hours at 42 ° C with viral DNA marked with ³²P (2 x 10⁴ cpm / cm²) and washing of the filters with stirring for 30 minutes at 50 ° C in a solution of 60 mM Trischlorhydrate ( pH8), 2 mM EDTA, 300 mM NaCl and sodium dodecyl sulfate, then for 30 minutes at room temperature in a 3 mM Tris solution that the DNAs or DNA fragments of the nine groups are chosen so as to be in all circumstances different from each other, insofar as each of the nine groups would be reduced to only one of the DNAs which compose it.
Given the great diversity of HPVs capable of being isolated from the different forms of warts or other skin or mucosal lesions, it is however preferred to use, for the diagnosis of each type of condition mentioned in the table, mixtures comprising more than one or two DNA-HPVs, since other DNA-HPVs have been recognized as being able to also intervene in the development of the same type of affection. The diagnosis of the nature of the infection and its possible evolution will be all the more effective as the number of probes used will be higher. In addition, hybridization tests carried out with different mixtures of probes will allow differential diagnoses having an equally greater degree of probability of the nature of the disease from which the patient suffers.
In Table V, only probes formed from DNA-HPVs isolated in the inventors' laboratory were mentioned. It goes without saying that, because of the above, the various mixtures can advantageously be supplemented with DNAs originating from HPVs obtained in other laboratories, as soon as they have been found on different occasions in patients affected by the same types of infections. For example, mixture 7 can only benefit from being supplemented by all other DNA-HPVSs encountered in verruciform epidermodysplasias at risk of transformation into intraepithelial neoplasias and skin cancers. It will be noted that in Table V, some of the mixtures are presented as characteristics of the same diseases to be diagnosed. It should be noted, however, that the different mixtures distinguish between infections with a low risk of cancerization and infections with a high risk of cancerization. For example, hybridization of a viral preparation from a patient under diagnosis with mixture 7 will show a greater risk of skin cancerization than in the case where hybridization will occur more with mixture 3.
Likewise, the EVs detected by the mixture 5 will show a greater risk of cancerization than the EVs detected by the mixture 6. The mixture 4 will detect EVs at even higher risk than those detected by the mixture 5.
Still described below are other mixtures or cocktails of different DNA-HPVs (or probes containing these DNA-HPVs or sequences thereof), which can be used in combination to carry out global diagnostics of the different forms of papillomavirus infections, possibly for the purpose of predicting the possible course of the infection.
Preferred mixtures in accordance with the invention are identified in Table V above.
The above table also indicates the natures of the conditions likely to be more particularly diagnosed by the use of the mixtures appearing on the left part of the table. It is recalled that the restriction maps of the other DNA-HPVs identified in the table above are contained in Figures 1 to 9.
It should be noted that HPV-IP2 can be considered to be particularly representative of probes which can be used for the detection of the risks of development of genital neoplasias and, in particular, of cancers of the cervix.
The invention therefore more particularly still relates to diagnostic kits or "kits" comprising at least 10 groups appearing in groups numbered from 1 to 10 in the table under the heading "Designation of mixtures".
In the foregoing, we have mainly considered the use, as probes, of cloned whole DNA-HPVs. These can however be substituted by cloned fragments of these different DNAs, in particular by the E1 or L1 genes and by the E6-E7 genes.
The basic principle of detections <u style="single">in</u><u style="single">vitro</u> DNA-HPV will naturally involve hybridizations carried out under strict or less strict conditions. One can operate for example as follows, it being understood of course that the diagnostic tests described cannot be considered as limiting the conditions of use of the probes or mixtures of probes according to the invention.
The object of examinations involving probes prepared from mixtures of DNAs of cloned HPVs is to highlight an HPV and to identify the type of HPV in a biopsy, in cells obtained by scraping lesions, or in biopsy sections fixed by the Carnoy mixture (ethanol, chloroform, 6: 3: 1 acetic acid) and included in the paraffin. The examination requires the prior extraction of DNA from the samples according to methods of which the principle is known and involves the analysis of this DNA by molecular hybridization experiments, carried out under strict or less strict conditions, to using radioactive probes (labeled with ³²P or ³⁵S) prepared from mixtures of HPVs DNAs. Each test usually requires the use of more than one probe mix.
Several hybridization methods can be used. One can, for example, implement the hybridization method on spot. This method comprises, after denaturation of the DNA, the deposition of an aliquot of DNA on membranes (nitrocellulose or Genescreenplus), the hybridization of each membrane, under the usual conditions, with a mixture of probes and the detection radioactive hybrids by exposure of the membranes in contact with an x-ray film. We can also use a replica hybridization method. This method comprises the electrophoretic separation in agarose gel of the DNA fragments generated after treatment of the DNA with restriction enzymes, the transfer of the fragments, after alkaline denaturation, on membranes (nitrocellulose, Genescreenplus) and their hybridization, under the usual conditions, with different mixtures of probes. The formation of radioactive hybrids is detected after exposure of the membranes in contact with an X-ray film.
The radioactive probes consist either of DNAs from HPVs labeled by the "nick-translation" method, or by RNAs prepared by transcription of viral DNAs inserted into a vector, for example of the SP6 type. The use of radioactive probes has the advantage of great sensitivity, but this does not exclude the use of non-radioactive probes, for example biotinylated and capable of being recognized by antibodies either labeled themselves or themselves. same recognized by antibodies carrying an enzymatic, fluorescent marker, etc.
The choice of probes depends on the nature of the samples. Thus, for example, in the case of a patient suspected of having EV, mixtures 1, 2, 3, 4, 5, 6 and 7 will be used. Mixtures 1 and 2 will make the differential diagnosis between EV and skin warts. Probe 3, including the most frequently detected member of each of the three groups of HPVs associated with the disease, and probe 7, containing the DNAs of the HPV types associated with EV cancers, will allow the diagnosis of the majority EV cases and, in particular, to identify patients infected with the types of HPVs presenting a risk for the development of cancers. The use of mixtures 4, 5 and 6 will make it possible to specify the type or types of HPV infecting the same patient.
The invention therefore also relates to kits or "kits" containing a plurality of the above-mentioned probes, in particular:<ul id="ul0002" list-style="dash"><li>either representatives of each of the 19 types and subtypes of DNA-HPVs mentioned above,</li><li>either mixtures of probes, preferably the various groups or mixtures of probes which have been defined above,</li></ul> these "kits" being intended for diagnostic studies "<u style="single">in vitro</u> by hybridization between viral preparations obtained from patients and the various groups or mixtures.
As goes without saying and as it already follows from the above, the invention is in no way limited to those of its modes of application and embodiments which have been more especially envisaged; on the contrary, it embraces all its variants; in particular the reference in the claims to a DNA-HPV designation followed by a determined number, and to which corresponds a DNA-HPV whose restriction map has been provided in the drawings, is understood to mean that these claims cover all DNA-HPVs which have in common with this particular DNA-HPV can be classified in the same type, according to the definition which was given above, and a fortiori to DNA-HPV belonging to the same subtype.
It is also noted, with regard more particularly to the DNA derived from HPV-32, which appears in the drawings, is not cut by AvaI, BalI, BamHI, ClaI, EcoRI, HindIII, NdeI, NruI, PvuI , PvuII, SacI, SalI, SmaI, TthIII, XmaI.
It should be noted that the recombinant DNAs designated below were deposited on November 30, 1984 at the CNCM (National Collection of Cultures of Micro-Organisms of the INSTITUT PASTEUR of Paris), under the numbers appearing below: <tables id="tabl0008" num="0008"><table frame="all"><tgroup cols="2" colsep="1" rowsep="0"><colspec colnum="1" colname="col1" colwidth="78.75mm" /><colspec colnum="2" colname="col2" colwidth="78.75mm" /><tbody valign="top"><row><entry namest="col1" nameend="col1" align="left">pBR322 / HPV2d</entry><entry namest="col2" nameend="col2" align="left">n ° I-379</entry></row><row><entry namest="col1" nameend="col1" align="left">pBR322 / HPV10bA</entry><entry namest="col2" nameend="col2" align="left">n ° I-380</entry></row><row><entry namest="col1" nameend="col1" align="left">pBR322 / HPV10bB</entry><entry namest="col2" nameend="col2" align="left">n ° I-381</entry></row><row><entry namest="col1" nameend="col1" align="left">pBR322 / HPV14a</entry><entry namest="col2" nameend="col2" align="left">n ° I-382</entry></row><row><entry namest="col1" nameend="col1" align="left">pBR322 / HPV14b</entry><entry namest="col2" nameend="col2" align="left">n ° I-383</entry></row><row><entry namest="col1" nameend="col1" align="left">pBR322 / HPV15</entry><entry namest="col2" nameend="col2" align="left">n ° I-384</entry></row><row><entry namest="col1" nameend="col1" align="left">pBR322 / HPV17a</entry><entry namest="col2" nameend="col2" align="left">n ° I-385</entry></row><row><entry namest="col1" nameend="col1" align="left">pHPV5 HindIIIB / HPV17b</entry><entry namest="col2" nameend="col2" align="left">n ° I-386</entry></row><row><entry namest="col1" nameend="col1" align="left">pBR322 / HPV19</entry><entry namest="col2" nameend="col2" align="left">n ° I-387</entry></row><row><entry namest="col1" nameend="col1" align="left">pBR322 / HPV20</entry><entry namest="col2" nameend="col2" align="left">n ° I-388</entry></row><row><entry namest="col1" nameend="col1" align="left">pBR322 / HPV21</entry><entry namest="col2" nameend="col2" align="left">n ° I-389</entry></row><row><entry namest="col1" nameend="col1" align="left">pHV5 HindIIIB / HPV22</entry><entry namest="col2" nameend="col2" align="left"># I-390</entry></row><row><entry namest="col1" nameend="col1" align="left">pBR322 / HPV23</entry><entry namest="col2" nameend="col2" align="left">n ° I-391</entry></row><row><entry namest="col1" nameend="col1" align="left">pBR322 / HPV24a</entry><entry namest="col2" nameend="col2" align="left">n ° I-392</entry></row><row><entry namest="col1" nameend="col1" align="left">pBR322 / HPV24b</entry><entry namest="col2" nameend="col2" align="left">n ° I-393</entry></row><row><entry namest="col1" nameend="col1" align="left">pBR322 / HPV28</entry><entry namest="col2" nameend="col2" align="left">n ° I-394</entry></row><row><entry namest="col1" nameend="col1" align="left">pBR322 / HPV29</entry><entry namest="col2" nameend="col2" align="left">n ° I-395</entry></row><row><entry namest="col1" nameend="col1" align="left">pBR322 / HPV31</entry><entry namest="col2" nameend="col2" align="left">n ° I-396</entry></row><row><entry namest="col1" nameend="col1" align="left">pSP64 / HPV32</entry><entry namest="col2" nameend="col2" align="left">n ° I-397</entry></row><row><entry namest="col1" nameend="col1" align="left">pLI55 / IP2</entry><entry namest="col2" nameend="col2" align="left"># I-450</entry></row><row rowsep="1"><entry namest="col1" nameend="col1" align="left">pSP65 / IP4</entry><entry namest="col2" nameend="col2" align="left">n ° I-449</entry></row></tbody></tgroup></table></tables>
The invention relates more particularly to the expression products of the E6 and E7 genes of the various papillomaviruses which have been mentioned in the foregoing and which can be used as active principles of vaccines capable of inducing, when administered to effective doses, host resistance to the development of papillomavirus-associated neoplasias.
The invention also relates to sera capable of being obtained by immunization of a mammal, sera which can be used for the preparation of sera which can be administered in effective doses to a patient, in particular parenterally, these sera then being capable of causing a regression of papillomavirus-induced infections of corresponding types or subtypes.
There is no need to insist on the capacity of a person skilled in the art to obtain polypeptide expression products of the genus in question, in particular by genetic engineering techniques consisting in incorporating the E6 and / or E7 sequences into a vector under the control of an appropriate promoter, then transforming a cellular host, the papillomaviruses of which are capable of recognizing the promoters in question and of expressing the sequences which are associated with it.
The invention therefore also relates to compositions for pharmaceutical use containing the principles of the genus in question (expression products or corresponding antibodies), in association with a physiologically acceptable pharmaceutical vehicle. In particular, the latter consists of a saturated solution for injection, in the case where the compositions of the genus in question are to be administered parenterally.
Reference is finally made to the articles whose bibliographic references follow, which supplement as necessary the description of the state of the prior art, to the extent that this could prove useful for the complete understanding of the text by the reader. . As such, the content of these articles should therefore be considered as part of the description.
BIBLIOGRAPHY
<ul id="ul0003" list-style="none"><li>(1) Dèrst, M. et al., 1983, Proc. Natl. Acad. Sci. USA,<u style="single">80</u>:3812-3815.</li><li>(2) Coggin, JR, Jr. et al., 1979, Cancer Res., <u style="single">39</u>:545-546.</li><li>(3) Gissmann, L. et al., 1982, J. Virol. <u style="single">44</u>:393-400.</li><li>(4) Green, M. et al., 1982, Proc. Natl. Acad. Sci. USA<u style="single">79</u>:4437-4441.</li><li>(5) Heilman, CA et al., 1980, Virol. <u style="single">36</u>:395-407.</li><li>(6) Jablonska, S. et al., 1972, Cancer Res., <u style="single">32</u>:583-589.</li><li>(7) Jablonska, S. et al., 1982, Springer Semin. Immunopathol.<u style="single">5</u>:33-62.</li><li>(8) Kremsdorf, D. et al., 1982, J. Virol. <u style="single">43</u>:436-447.</li><li>(9) Kremsdorf, D. et al., 1983, J. Virol. <u style="single">48</u>:340-351.</li><li>(10) Lutzner, MA et al., 1978, Bull. Cancer,<u style="single">65</u>:169-182.</li><li>(11) Lutzner, MA et al., 1983, Lancet ii: 422-424.</li><li>(12) Migozzi, M. et al., 1965, Bull. Soc. Franc. Derm. Syph.<u style="single">72</u>:747-748.</li><li>(13) Orth, G. et al., 1980, Cold Spring Harbor Conf. Cell Proliferation,<u style="single">7</u>:259-282.</li><li>(14) Orth, G. et al., 1981, J. Invest. Dermatol.<u style="single">76</u>:97-102.</li><li>(15) Orth, G. et al., 1979, Cancer Res. <u style="single">39</u>: 1074-1082.</li><li>(16) Ostrow, RS et al, 1982, Proc. Natl. Acad. Sci. USA,<u style="single">79</u>:1634-1638.</li><li>(17) Ostrow, RS et al., 1983, Ann. Acad. Dermatol.<u style="single">8</u>:398-404.</li><li>(18) Pfister, H. et al., 1983, Cancer Res. <u style="single">43</u>:1436-1441.</li><li>(19) Pfister, H. et al., 1983, J Virol. <u style="single">47</u>:363-366.</li><li>(20) Pfister, H. et al., 1981, Int. J Cancer,<u style="single">27</u>:645-650.</li><li>(21) Rueda, LA et al., 1976, Med. Cut. HE HAS<u style="single">2</u>:113-136.</li><li>(22) Ruiter, M. et al. J Invest. Dermatol.,<u style="single">47</u>:247-252.</li><li>(23) Sutcliffe, JG, 1978, Nucleic Acids Res. <u style="single">5</u>:2721-2728.</li><li>(24) Tsumori, T. et al., 1983, J. Gen. Virol.<u style="single">64</u>:967-969.</li></ul>
18 sheets
Sheet 1 Sheet 2 Sheet 3 Sheet 4 Sheet 5 Sheet 6 Sheet 7 Sheet 8 Sheet 9 Sheet 10 Sheet 11 Sheet 12 Sheet 13 Sheet 14 Sheet 15 Sheet 16 Sheet 17 Sheet 18
Every citation, both ways
| Document | Relation | Office | Cited during |
|---|---|---|---|
| US8389245B2 | Cited by | United States of America | Applicant |
| US7527948B2 | Cited by | United States of America | Applicant |
39 members in 10 offices
Priority claims8
| Document | Office | Kind | Date |
|---|---|---|---|
| 8418369 | France | A | |
| 8418369 | France | – | |
| 8507073 | France | A | |
| 8507073 | France | – | |
| 8418369 | – | – | – |
| 8507073 | – | – | – |
| FR19840018369 | – | – | – |
| FR19850007073 | – | – | – |
Members39
| Document | Office | Kind | |
|---|---|---|---|
| EP0192001A2 | European Patent Office (EPO) | A2 | |
| FR2578267A1 | France | A1 | |
| EP0192001A3 | European Patent Office (EPO) | A3 | |
| JPS61216700A | Japan | A | |
| FR2581655A2 | France | A2 | |
| DK52987D0 | Denmark | D0 | |
| DK52987A | Denmark | A | |
| FI870366A | Finland | A | |
| FR2593828A2 | France | A2 | |
| EP0235004A2 | European Patent Office (EPO) | A2 | |
| JPS62248492A | Japan | A | |
| FR2578267B1 | France | B1 | |
| FR2581655B2 | France | B2 | |
| EP0235004A3 | European Patent Office (EPO) | A3 | |
| FR2593828B2 | France | B2 | |
| CA1276575C | Canada | C | |
| EP0192001B1This record | European Patent Office (EPO) | B1 | |
| AT73501T | Austria | T | |
| DE3585613D1 | Germany | D1 | |
| EP0235004B1 | European Patent Office (EPO) | B1 | |
| AT91157T | Austria | T | |
| DE3786357D1 | Germany | D1 | |
| DE3786357T2 | Germany | T2 | |
| ES2056833T3 | Spain | T3 | |
| US5411857A | United States of America | A | |
| US5665571A | United States of America | A | |
| FI100407B | Finland | B | |
| US5712092A | United States of America | A | |
| JP2716120B2 | Japan | B2 | |
| JPH1099100A | Japan | A | |
| JP2742257B2 | Japan | B2 | |
| JP2791322B2 | Japan | B2 | |
| US5876922A | United States of America | A | |
| US5958674A | United States of America | A | |
| US2002051968A1 | United States of America | A1 | |
| US6391539B1 | United States of America | B1 | |
| US6827933B2 | United States of America | B2 | |
| US2005079182A1 | United States of America | A1 | |
| DK176083B1 | Denmark | B1 |
40 legal events, as 3 offices reported them to INPADOC
Over the term
Point at a mark for the eventEvents
| Event | Code | Office | |
|---|---|---|---|
| Be: patent expiredExpiredBE20 | BE20 | EP | |
| Nl: ceased due to reaching the maximum lifetime of a patentCeasedNLV7 | NLV7 | EP | |
| Se: european patent has lapsedLapsedEUG | EUG | EP | |
| Patent ceasedCeasedPL | PL | CH | |
| Patent expired after termination of 20 yearsExpiredPE20 | PE20 | GB | |
| Be: patent expiredExpiredBE20 | BE20 | EP | |
| Lapsed in a contracting state [announced via postgrant information from national office to epo]LapsedPG25 | PG25 | EP | |
| Lapsed in a contracting state [announced via postgrant information from national office to epo]LapsedPG25 | PG25 | EP | |
| Annual fee paid to national office [announced via postgrant information from national office to epo]GrantedPGFP | PGFP | EP | |
| Annual fee paid to national office [announced via postgrant information from national office to epo]GrantedPGFP | PGFP | EP | |
| Annual fee paid to national office [announced via postgrant information from national office to epo]GrantedPGFP | PGFP | EP | |
| Annual fee paid to national office [announced via postgrant information from national office to epo]GrantedPGFP | PGFP | EP | |
| Annual fee paid to national office [announced via postgrant information from national office to epo]GrantedPGFP | PGFP | EP | |
| Annual fee paid to national office [announced via postgrant information from national office to epo]GrantedPGFP | PGFP | EP | |
| Annual fee paid to national office [announced via postgrant information from national office to epo]GrantedPGFP | PGFP | EP | |
| Annual fee paid to national office [announced via postgrant information from national office to epo]GrantedPGFP | PGFP | EP | |
| Annual fee paid to national office [announced via postgrant information from national office to epo]GrantedPGFP | PGFP | EP | |
| Nl: assignments of ep-patentsNLS | NLS | EP | |
| Amendments to the register in respect of changes of name or changes affecting rights (sect. 32/1977)732E | 732E | GB | |
| AssignmentPUE | PUE | CH | |
| European patent in force as of 2002-01-01IF02 | IF02 | GB | |
| Se: european patent in force in swedenEAL | EAL | EP | |
| Lu: last paid annual feeEPTA | EPTA | EP | |
| No opposition filedOpposition26N | 26N | EP | |
| No opposition filed within time limitOppositionORIGINAL CODE: 0009261PLBE | PLBE | EP | |
| Information on the status of an ep patent application or granted ep patentGrantedSTATUS: NO OPPOSITION FILED WITHIN TIME LIMITSTAA | STAA | EP | |
| It: last paid annual feeITTA | ITTA | EP | |
| Gb: translation of ep patent filed (gb section 77(6)(a)/1977)GBT | GBT | EP | |
| It: translation for a ep patent filedITF | ITF | EP | |
| It: translation for a ep patent filedITF | ITF | EP | |
| Corresponds to:REF | REF | EP | |
| Designated contracting statesAK | AK | EP | |
| Corresponds to:REF | REF | EP | |
| (expected) grantORIGINAL CODE: 0009210GRAA | GRAA | EP | |
| First examination report despatched17Q | 17Q | EP | |
| Request for examination filed17P | 17P | EP | |
| Designated contracting statesAK | AK | EP | |
| Designated contracting statesAK | AK | EP | |
| Search report despatchedORIGINAL CODE: 0009013PUAL | PUAL | EP | |
| Public reference made under article 153(3) epc to a published international application that has entered the european phaseORIGINAL CODE: 0009012PUAI | PUAI | EP |
Numbers
- Publication
- 0192001
- Publication, DOCDB
- 0192001
- Publication, EPODOC
- EP0192001
- Application
- 85402362
- Application, DOCDB
- 85402362
- Application, EPODOC
- EP19850402362
Titles3
- English
- Papilloma virus probes and in vitro methods for the diagnosis of papilloma virus infections
- German
- Sonden für Papillomavirus und Verfahren zur Diagnose der Papillomavirusinfektionen
- French
- Sondes à papillomavirus et procédé de diagnostic in vitro d'infections à papillomavirus
Classification
- CPC, 3
- C07K14/005
- C12N2710/20022
- C12Q1/708
- IPC, 11
- G01N33 574
- C07K14 025
- C12N7 00
- C12N7 04
- C12N15 00
- C12N15 09
- C12Q1 68
- C12Q1 70
- C12R1 91
- C12R1 92
- G01N33 577
Designated states11
- Contracting states, 11
- Austria
- Belgium
- Switzerland
- Germany
- France
- United Kingdom
- Italy
- Liechtenstein
- Luxembourg
- Netherlands (Kingdom of the)
- Sweden
