Identification of an HLA‐B7 serological variant and its characterization by sequencing based typing

Morrell, G.; Whalley, J. M.; Stewart, Arthur J.; Day, S.; Lewis, L. James; Makar, Y.; Fuggle, S; Ross, Joe; Dunn, P. P. J.

doi:10.1034/j.1399-0039.2000.550114.x

Cited by 17 publications

(5 citation statements)

References 12 publications

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“…In exon 6 of 2DL4 , the cluster of 9 or 10 adenines (9A/10A) were typed by sequencing ( 35 ). HLA-A , B , C typing was by sequencing locus-specific PCR products (minimally exons 2 and 3, but also exon 4 for some samples) with adaptations from Dunn et al ( 53 ) and PCR-SSOP (Sequence-Specific Oligonucleotide Probing), using LABType SSO Typing Tests (One Lambda).…”

Section: Methodsmentioning

confidence: 99%

Roles for HLA and KIR polymorphisms in natural killer cell repertoire selection and modulation of effector function

Yawata

Draghi

et al. 2006

The Journal of Experimental Medicine

475

643

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Interactions between killer cell immunoglobulin-like receptors (KIRs) and human leukocyte antigen (HLA) class I ligands regulate the development and response of human natural killer (NK) cells. Natural selection drove an allele-level group A KIR haplotype and the HLA-C1 ligand to unusually high frequency in the Japanese, who provide a particularly informative population for investigating the mechanisms by which KIR and HLA polymorphism influence NK cell repertoire and function. HLA class I ligands increase the frequencies of NK cells expressing cognate KIR, an effect modified by gene dose, KIR polymorphism, and the presence of other cognate ligand–receptor pairs. The five common Japanese KIR3DLI allotypes have distinguishable inhibitory capacity, frequency of cellular expression, and level of cell surface expression as measured by antibody binding. Although KIR haplotypes encoding 3DL1*001 or 3DL1*005, the strongest inhibitors, have no activating KIR, the dominant haplotype encodes a moderate inhibitor, 3DL1*01502, plus functional forms of the activating receptors 2DL4 and 2DS4. In the population, certain combinations of KIR and HLA class I ligand are overrepresented or underrepresented in women, but not men, and thus influence female fitness and survival. These findings show how KIR–HLA interactions shape the genetic and phenotypic KIR repertoires for both individual humans and the population.

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Section: Methodsmentioning

confidence: 99%

Roles for HLA and KIR polymorphisms in natural killer cell repertoire selection and modulation of effector function

Yawata

Draghi

et al. 2006

The Journal of Experimental Medicine

475

643

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“…Ideally, SBT methods involve amplification and nucleotide sequence analysis of entire polymorphic exon(s). For class I, locus‐specific amplification primers which anneal in introns 1 and 3 have been described (6, 7), and methods for the SBT of exons 2 and 3 of such amplified loci have been documented (8–10). Similar methods for class II have been slower to evolve although a comprehensive SBT approach for DRB1, 3, 4, and 5 based on allele‐group sequences in introns 1 and DRB2 has been described (11).…”

mentioning

confidence: 99%

HLA‐DQB1 sequencing‐based typing using newly identified conserved nucleotide sequences in introns 1 and 2

Dunn¹,

Day²,

Williams³

et al. 2005

Tissue Antigens

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Sequencing-based typing (SBT) human leukocyte antigen (HLA) class I and II genes should examine entire exon sequences where polymorphisms lie. Primers for the amplification of complete exons therefore anneal in introns and their design relies on accurate intron sequences being available. We decided to develop a SBT method for HLA-DQB1 using amplification primers which anneal in introns 1 and 2, yet the amount of intron sequence data previously available in databases was sparse. Therefore, we undertook a systematic sequencing of introns 1 and 2 using DNA from cell lines homozygous for DQB1. This study confirmed an earlier report that the non-coding regions of this gene are the most polymorphic seen in the human genome. Intron sequences within an allele group were largely identical, the exceptions being DQB1*0301 differing from other DQB1*03 allele groups and DQB1*0601 differing from all other DQB1*06 alleles. A retroviral Alu element, related to the AluYa5a2 subfamily, was identified uniquely inserted in intron 2 of DQB1*02 alleles. For the typing approach, six amplification primers were designed based on conserved allele group sequences covering all of the HLA DQB antigens, and two sequencing primers were also designed which anneal in intron 2. This method has proved to be very robust and has been used as part of a referral DNA sequencing service for a number of years.

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“…Amplification and sequencing were performed as previously described by Dunn et al (1) using an ABI 373 automated DNA sequencer (Perkin Elmer, Applied Biosystems, Warrington, Cheshire, UK).…”

Section: Amplification and Sequencing Primers Used In Hla‐drb1 Sequenmentioning

confidence: 99%

Identification of a new allele, HLA‐DRB1*1360, on a DRB5 haplotype in a Brazilian individual

Testa

Bunce²,

Sheldon³

et al. 2004

Tissue Antigens

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The application of DNA-based methods for human leukocyte antigen (HLA) genotyping has revealed an ever-increasing degree of polymorphism within the HLA-DRB loci and has resulted in the discovery of new alleles. We have identified a new DRB1 allele that was subsequently named DRB1*1360 by the WHO Nomenclature Committee. This allele is unusual for a DRB1*13 allele, as it is present on a DRB5 haplotype rather than the normal DRB3 haplotype found in association with DRB1*13 alleles.

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Identification of an HLA‐B7 serological variant and its characterization by sequencing based typing

Cited by 17 publications

References 12 publications

Roles for HLA and KIR polymorphisms in natural killer cell repertoire selection and modulation of effector function

Roles for HLA and KIR polymorphisms in natural killer cell repertoire selection and modulation of effector function

HLA‐DQB1 sequencing‐based typing using newly identified conserved nucleotide sequences in introns 1 and 2

Identification of a new allele, HLA‐DRB1*1360, on a DRB5 haplotype in a Brazilian individual

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