title: DRB3 alleles with variations in the annealing sites of commonly used amplification primers.
abstract: New HLA alleles are often identified initially from observing uncommon patterns found in low-resolution typing performed via polymerase chain reaction using sequence-specific oligonucleotide probes (PCR-SSOP). Recently, the HLA-DR oligotyping analysis of two Caucasian, one Caucasian/American Indian and two African American individuals resulted in the identification of three novel DRB3 alleles. Using DRB-specific primer sets commonly employed in amplification-based typing, all four individuals were originally characterized as DRB3 negative. Direct sequencing identified DRB3*0104 (variation at codon 8, TCG instead of TTG), and DRB3*0101202 (variation at intron (-13), G instead of C). One individual appeared to carry a DR52-associated DRB1 allele without an associated DRB3 allele. Lack of conservation at the junction of intron 1 and exon 2 of the DRB3 gene suggests that commonly used DRB-specific primer sets may need to be modified.
authors.affiliation: Department of Pediatrics, Georgetown University Medical Center, Washington, DC 20007, USA.
authors.forename: G J
authors.initials: GJ
authors.lastname: Coquillard
authors.forename: T F
authors.initials: TF
authors.lastname: Tang
authors.forename: N
authors.initials: N
authors.lastname: Steiner
authors.forename: L
authors.initials: L
authors.lastname: Perlee
authors.forename: J
authors.initials: J
authors.lastname: Ng
authors.forename: R
authors.initials: R
authors.lastname: Hartzman
authors.forename: C K
authors.initials: CK
authors.lastname: Hurley
mesh_terms: D000483:Alleles; D020029:Base Pairing / Q000235:genetics*; D001483:Base Sequence; D017931:DNA Primers / Q000138:chemical synthesis / Q000378:metabolism; D005784:Gene Amplification; D014644:Genetic Variation / Q000276:immunology*; D006684:HLA-DR Antigens / Q000235:genetics*; D059826:HLA-DRB3 Chains; D006650:Histocompatibility Testing; D006801:Humans; D008969:Molecular Sequence Data; D021141:Nucleic Acid Amplification Techniques
chemical_list: D017931:DNA Primers; D006684:HLA-DR Antigens; D059826:HLA-DRB3 Chains