Identification of an HLA‐B*07 allele variant (B*0740) in the Chinese Han population

Wang, Chuyu; Pan, Qinghua; Xue, Mei; Miao, Kou‐Rong; Fei, X.M.; Zhou, Xianju; Zhao, Xu; Kukuruga, Debra; Osowski, Lori D.; Poore, Brad; Beattie, R Mark; Shi, W.X.; Zhang, H.

doi:10.1111/j.1399-0039.2005.00438.x

Cited by 8 publications

(5 citation statements)

References 3 publications

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“…HLA is a well‐known genetic system with its highest polymorphism found in human genome. With the rapid development of CDMP in recent years, HLA allele distribution in Chinese populations is now being disclosed, and new HLA allele discovery in Chinese populations has been in an unprecedented speed (Wang et al ., 2005; Miao et al ., 2006, 2007). Existence of new allele of Cw*0339 described in this paper was first suggested through routine low resolution PCR‐SSP typing of HLA‐B locus with an unexplainable reaction pattern.…”

Section: Discussionmentioning

confidence: 99%

“…Nevertheless, discovery of new HLA alleles from Chinese Han population was seldom reported before the 21st century, even it is the biggest population in the world. In the recent years, more and more new HLA alleles have been reported from China due to the rapid development of Chinese Marrow Donor Program (CMDP) and the increasing performance of HLA typing in clinic bone marrow transplantation (BMT) or organ transplantations using DNA‐based tying technique including DNA sequencing (Miao et al ., 2005, 2006; Wang et al ., 2005).…”

Section: Introductionmentioning

confidence: 99%

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Unusual amplification pattern by SSP HLA‐B typing led to discovery of a novel HLA‐C allele

Miao

Pan

et al. 2008

Int J Immunogenetics

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We report here the unique sequence of a novel human leucocyte antigen (HLA)-C allele resulted in amplification of a product with a primer pair used in sequence-specific primer (SSP) HLA-B typing, which led subsequently to identification of a new allele of Cw*0339 by sequence-based typing method. This new allele is closely related to Cw*031101 with only two nucleotide changes from T to G at position 97, and T to C at position 105 in the exon 2 region of HLA-C locus. The first nucleotide substitution causes an amino acid alteration from tyrosine to aspartic acid at amino acid residue 9 (Y to D), while the second one keeps alanine at residue 11 unchanged. Most interestingly, the nucleotide change from T to G at position 97 makes it identical to the 3' end sequence of one SSP of the commercial HLA-B SSP typing kit we were using. In this specific case, it resulted in amplification of a product of HLA-C gene instead of B gene.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Unusual amplification pattern by SSP HLA‐B typing led to discovery of a novel HLA‐C allele

Miao

Pan

et al. 2008

Int J Immunogenetics

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“…Haplotype specific extraction provides a rapid, automated method for determining true (i.e. non-statistically derived) and previously unknown haplotypes, directly from genomic DNA, without requiring any familial information [4][5][6][7][8][9][10]. The method does not rely on amplification-based phasing methods which can be affected by polymorphic variation and eliminates the need for cloning or subcloning for the characterization of new alleles.…”

Section: Discussionmentioning

confidence: 99%

Identification of a New HLA-B Allele (B*1576) by Haplotype Specific Extraction

et al. 2007

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Routine typing of a potential bone marrow donor by sequence-specific oligonucleotide probes and sequence based typing produced inconclusive subtyping results, suggesting a new allele. A magnetic bead-based method, haplotype specific extraction (HSE), was used to separate the diploid sample into its haploid components. The sample was then re-typed using standard sequence-based typing (SBT), revealing a new human leukocyte antigen (HLA) allele, since named B*1576. HSE used in conjunction with standard SBT is a convenient and simple tool for resolving ambiguous and novel allele combinations without the need for amplification or subcloning.

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“…DNA enrichment by allele‐specific hybridization (DEASH) has been shown to be an effective means to retrieve individual DNA sequences based on the targeting of a SNP or complex sequence motif by a biotinylated oligonucleotide probe bound to streptavidin‐coated paramagnetic beads (9). Haploprep™ is a DEASH process that has been used to enrich human leucocyte antigen alleles from genomic DNA samples (10). We have combined the gene specificity of our KIR2DL4 PCR protocol with the allele specificity of the Haploprep™ DEASH system to enrich both alleles of KIR2DL4 from a genomic DNA sample and to assign an unambiguous genotype.…”

Section: (A) Oligonucleotides Used In This Study Their Sequences Tamentioning

confidence: 99%

Enrichment of individual KIR2DL4 sequences from genomic DNA using long‐template PCR and allele‐specific hybridization to magnetic bead‐bound oligonucleotide probes

2007

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DNA enrichment by allele-specific hybridization (DEASH) was used as a means to isolate individual alleles of the killer cell immunoglobulin-like receptor (KIR2DL4) gene from heterozygous genomic DNA. Using long-template polymerase chain reaction (LT-PCR), the complete KIR2DL4 gene was amplified from a cell line that had previously been characterized for its KIR gene content by PCR using sequence-specific primers (PCR-SSP). The whole gene amplicons were sequenced and we identified two heterozygous positions in accordance with the predictions of the PCR-SSP. The amplicons were then hybridized to allele-specific, biotinylated oligonucleotide probes and through binding to streptavidin-coated beads, the targeted alleles were enriched. A second PCR amplified only the exonic regions of the enriched allele, and these were then sequenced in full. We show DEASH to be capable of enriching single alleles from a heterozygous PCR product, and through sequencing the enriched DNA, we are able to produce complete coding sequences of the KIR2DL4 alleles in accordance with the typing predicted by PCR-SSP.

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Identification of an HLA‐B07 allele variant (B0740) in the Chinese Han population

Cited by 8 publications

References 3 publications

Unusual amplification pattern by SSP HLA‐B typing led to discovery of a novel HLA‐C allele

Unusual amplification pattern by SSP HLA‐B typing led to discovery of a novel HLA‐C allele

Identification of a New HLA-B Allele (B*1576) by Haplotype Specific Extraction

Enrichment of individual KIR2DL4 sequences from genomic DNA using long‐template PCR and allele‐specific hybridization to magnetic bead‐bound oligonucleotide probes

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