title: Physical separation of HLA-A alleles by denaturing high-performance liquid chromatography.
abstract: Genomic typing of polymorphic loci may be hampered by ambiguous typing results. Moreover, robust methods for simultaneous sequencing of two alleles present in a given sample may be difficult to establish. We used denaturing high-performance liquid chromatography (DHPLC) for physical separation of HLA-A alleles before sequence-based genomic typing (SBT). Physical separation was achieved by resolution of heteroduplexes between the sample alleles and a modified reference probe by DHPLC followed by selective reamplification of the sample alleles present in heteroduplexes. Complementary strands of the reference probe and sample alleles for heteroduplex induction were obtained by lambda-exonuclease digestion. HLA-A genotyping of 101 individuals using DHPLC-SBT yielded better typing resolution compared with serological typing and genotyping by the sequence-specific primer-polymerase chain reaction (SSP-PCR) method. Physical separation of alleles using a modified reference probe allows for development of fully automated methods for genomic typing of highly polymorphic loci such as HLA.
authors.affiliation: Institute of Immunology, National University Hospital, 0027 Oslo, Norway.
authors.forename: G E
authors.initials: GE
authors.lastname: Etokebe
authors.forename: M
authors.initials: M
authors.lastname: Opsahl
authors.forename: A K
authors.initials: AK
authors.lastname: Tveter
authors.forename: B A
authors.initials: BA
authors.lastname: Lie
authors.forename: E
authors.initials: E
authors.lastname: Thorsby
authors.forename: F
authors.initials: F
authors.lastname: Vartdal
authors.forename: A
authors.initials: A
authors.lastname: Spurkland
mesh_terms: D000483:Alleles; D001483:Base Sequence; D002851:Chromatography, High Pressure Liquid / Q000379:methods*; D004247:DNA / Q000032:analysis*; D017931:DNA Primers; D005091:Exons; D005240:Feasibility Studies; D005784:Gene Amplification; D006680:HLA Antigens / Q000235:genetics* / Q000302:isolation & purification*; D020180:Heteroduplex Analysis; D006579:Heterozygote; D006650:Histocompatibility Testing; D006801:Humans; D009691:Nucleic Acid Denaturation; D009692:Nucleic Acid Heteroduplexes; D016133:Polymerase Chain Reaction; D017422:Sequence Analysis, DNA
chemical_list: D017931:DNA Primers; D006680:HLA Antigens; D009692:Nucleic Acid Heteroduplexes; D004247:DNA