Method for detecting and typing of cutaneous HPV and primers and probes for use therein

摘要

Detecting cutaneous supergroup B human papilloma virus (HPV) in a sample comprises DNA amplification using bi-directional primers collectively substantially complementary to DNA of all cutaneous supergroup B HPVs. Detecting cutaneous supergroup B HPV comprises: (a) providing a sample suspected of harboring cutaneous supergroup B HPVs; (b) providing a several pairs of bi-directional primers collectively substantially complementary to DNA of all cutaneous supergroup B HPVs; (c) performing a reaction to amplify DNA derived from the sample using the primers; and (d) detecting DNA amplification products from cutaneous supergroup B HPV from the sample. Independent claims are also included for: (1) typing of cutaneous supergroup B HPVs comprising: (a) providing DNA amplification products by amplifying DNA of cutaneous supergroup B HPV using several pairs of bi-directional primers; and (b) detecting DNA amplification products from one or more supergroup B HPV types by hybridizing the amplification products to at least one cutaneous supergroup B HPV probe that is substantially complementary to the DNA of at least one but not all cutaneous supergroup B HPV types; (2) bi-directional primers comprising a sequence selected from 9 sequences of 21 or 28 bp given in the specification, or which are collectively substantially complementary to a first and a second consensus region in the L1 ORF of all supergroup B HPVs, for use in the method above; (3) generic detection probes comprising a sequence selected from 3 sequences of 30 bp given in the specification, or which are collectively substantially complementary to a region in the L1 ORF of all supergroup B HPVs between nucleotide positions 6539 and 6610 of HPV 4 and corresponding region of the other cutaneous supergroup B HPV types, for detecting cutaneous supergroup B HPVs; (4) detection probes which are substantially complementary to a region in the L1 ORF of at least one but not all cutaneous supergroup B HPV types between nucleotide positions 6539 and 6610 of HPV 4 and corresponding region of the other cutaneous supergroup B HPV types, for detecting cutaneous supergroup B HPV types; and (5) type-specific detection probes comprising a sequence selected from 24 sequences of 18-23 bp given in the specification, or which are substantially complementary to a region in the L1 ORF of exactly one type of cutaneous supergroup B HPV type between nucleotide positions 6539 and 6610 of HPV 4 and corresponding region of the other cutaneous supergroup B HPV types for detecting cutaneous supergroup B HPV types.