Typing of HLA‐B*15 alleles using sequence‐specific primers

Yu, Neng; Ohashi, M.; Alosco, S.; Salazar, Mario; Cao, Kai; Viña, Marcelo Fernandez; Yunis, Edmond J.

doi:10.1111/j.1399-0039.1998.tb03041.x

Cited by 9 publications

(7 citation statements)

References 15 publications

(2 reference statements)

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“…Lastly, false‐positive reactivity to a multispecific serum (FP46/15), B46/B1511/B1508, resulted in assignment as the broad B15 (1/17, e.g., #980076). Therefore, samples exhibiting ambiguous serologic reactivity as well as B15 homozygous reactivity should be confirmed by a supplementary DNA‐based test, such as PCR‐SSOP, PCR‐SSP or PCR‐SBT for accurate assignment ( 6–8, 22). The PCR‐SSOP assignments of the 17 discrepant samples were confirmed by DNA sequence analysis.…”

Section: Resultsmentioning

confidence: 99%

HLA‐B*15 diversity in the Korean population

2000

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Alleles in the HLA-B*15 group encode molecules belonging to several serologic subgroups, B15 (B62, B63, B75, B76, B77) and B70 (B71, B72), representing many of the most problematic types to assign in routine clinical typing laboratories due to their serologic cross-reactivity resulting from structural similarity. More than 25% of Koreans express HLA-B molecules encoded by the HLA-B*15 alleles. To further characterize HLA-B*15 in this population, B*15-specific polymerase chain reaction (PCR) and sequence-specific oligonucleotide probe (SSOP) hybridization analysis using 39 digoxigenin-labeled probes were applied to DNA samples obtained from 237 B15/B70 serologically positive unrelated individuals. Nine B*15 alleles were identified. B*1501 was the most frequent allele (64.8%) followed by B*1511 (14.1%), B*1507 (8.6%), and B*1518 (5.5%) comprising more than 90% of B*15-positive samples. B62 molecules encoded by 4 of the identified alleles (B*1501, B*1507, B*1525, and B*1527) could not be discriminated by serologic reaction patterns. Among the fifteen B15/B70 apparent homozygotes, eight were heterozygotes carrying two different B*15 alleles. Several B*15 alleles exhibited strong associations with specific Cw, DRB1, and A allelic types (e.g., B*1507-Cw3 (22/22); B*1507-DRB1*04 (21/22), B*1507-A24 (17/22)). The data obtained in this study confirmed B*15 diversity in the study population and will be useful in hematopoietic stem cell donor searches as well as in determining the supplementary DNA typing strategy for B15/B70-positive samples in this population.

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Section: Resultsmentioning

confidence: 99%

HLA‐B*15 diversity in the Korean population

2000

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“…The HLA-C, -B and -DRB1 loci were typed by polymerase chain reaction sequencespecific oligonucleotide probe analysis (PCR-SSOP) as previously described. 20,21 Haplotypes 1 and 2 are from the same individual. In 30 of the 42 haplotypes examined, we found examples of one of four previously identified Amerindian HLA-B alleles (HLA-B*1522, HLA-B*4002, HLA-B*3905, and HLA-B*48).…”

Section: Resultsmentioning

confidence: 99%

TNF-α promoter single nucleotide polymorphisms are markers of human ancestry

et al. 2002

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We present a map of single nucleotide polymorphisms (SNPs) in the human tumor necrosis factor (TNF)-a promoter based upon exploratory sequencing of 333 human TNF-a gene promoters from individuals of distinct ancestral backgrounds. We detect 10 TNF-a promoter SNPs that occur with distinct frequencies in populations of different ancestry. Consistent with these findings, we show that two TNF-a SNPs, the À243 SNP and the À856 SNP, are the first SNP markers of a sub-Saharan African-derived extended haplotype and an Amerindian HLA haplotype, respectively. Comparisons of TNF-a promoter SNP allele frequencies can thus help elucidate variation of HLA haplotypes and their distribution among existing ethnic groups and shed light into the history of human populations.

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“…Genomic DNA was prepared from B cell lines or peripheral blood from HIV-1-infected subjects and controls according to standard techniques (27,28). The HLA-B and HLA-Cw (27) loci were typed by PCR-SSOP (PCR-single-stranded oligonucleotide probes) as previously described (29).…”

Section: Methodsmentioning

confidence: 99%

Control of HIV-1 viremia and protection from AIDS are associated with HLA-Bw4 homozygosity

Flores-Villanueva

Yunis

Delgado

et al. 2001

Proc. Natl. Acad. Sci. U.S.A.

225

149

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Certain HLA-B antigens have been associated with lack of progression to AIDS. HLA-B alleles can be divided into two mutually exclusive groups based on the expression of the molecular epitopes HLA-Bw4 and HLA-Bw6. Notably, in addition to its role in presenting viral peptides for immune recognition, the HLA-Bw4, but not HLA-Bw6, motif functions as a ligand for a natural killer cell inhibitory receptor (KIR). Here, we show that profound suppression of HIV-1 viremia is significantly associated with homozygosity for HLA-B alleles that share the HLA-Bw4 epitope. Furthermore, homozygosity for HLA-Bw4 alleles was also significantly associated with the ability to remain AIDS free and to maintain a normal CD4 T cell count in a second cohort of HIV-1-infected individuals with well defined dates of seroconversion. This association was independent of the presence of a mutation in CC chemokine receptor 5 (CCR5) associated with resistance to HIV-1 infection, and it was independent of the presence of HLA alleles that could potentially confound the results. We conclude that homozygosity for HLA-Bw4-bearing B alleles is associated with a significant advantage and that the HLA-Bw4 motif is important in AIDS pathogenesis.

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Typing of HLA‐B*15 alleles using sequence‐specific primers

Cited by 9 publications

References 15 publications

HLA‐B*15 diversity in the Korean population

HLA‐B*15 diversity in the Korean population

TNF-α promoter single nucleotide polymorphisms are markers of human ancestry

Control of HIV-1 viremia and protection from AIDS are associated with HLA-Bw4 homozygosity

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