Two new HLA DPB1 alleles identified by sequence‐based typing: DPB1*8201 and DPB1*8301

Voorter, C. E. M.; Tilanus, Marcel G.J.; Berg‐Loonen, Ella M. van den

doi:10.1034/j.1399-0039.2000.560613.x

Cited by 10 publications

(6 citation statements)

References 11 publications

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“…Additional polymerase chain reaction-sequence-specific primer or SBT reactions were used if necessary to determine differences located in other exons. The amplification and sequencing primers used for SBT of DRB1, DRB3/4/5, DQB1 and DPB1 were as described previously (27)(28)(29)(30)(31)(32)(33)(34). The amplification reaction was set up in a mixture of volume 60 ml, containing polymerase chain reaction (PCR) buffer (10 mM Tris-HCl, pH 8.3; 50 mM KCl; 1.5 mM MgCl 2 ), 6 mg cresol red, 200 mM each dNTP, 5% glycerol, 20 pmol of biotinylated primer, 40 pmol of unlabeled primer, 600 ng DNA and 2.0 U AmpliTaq polymerase.…”

Section: High-resolution Hla Typingmentioning

confidence: 99%

HLA class II amino acid epitopes as susceptibility markers of sarcoidosis

et al. 2007

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Sarcoidosis is a multisystemic disorder of unknown etiology, affecting primarily the lung and characterized by epithelioid granulomas. Disease association studies showed human leukocyte antigen (HLA) class II to be related to sarcoidosis. Initially, we studied the association of sarcoidosis with DQB1, and in the present study, we evaluated all amino acid variants of the HLA-DPB1, -DQB1, -DRB1, -DRB3, -DRB4 and -DRB5 genes to identify possible polymorphisms associated with the disease. Patients and controls were typed for class II genes to the allele level by sequence-based typing. Multiple logistic regression models showed DRAla71 and DQPhe9 to be independently associated with the disease. Subdivision of patients according to their radiographic stage resulted in identification of DRArg74 as independent associated residue in the RS I group, whereas DRAla71 and DQTyr30 were associated with RS II-IV groups. Polymorphic residues specifically associated with sarcoidosis shed new light on the characteristics of sarcoidosis-triggered peptides. Overall, pocket 9 of DQ and pocket 4 of DR seem to be the most important areas involved in the association with sarcoidosis.

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Section: High-resolution Hla Typingmentioning

confidence: 99%

HLA class II amino acid epitopes as susceptibility markers of sarcoidosis

et al. 2007

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“…Sequence‐based typing (SBT) of the DPB1 locus was performed according to Voorter et al with some modifications. Genomic DNA was extracted from the anticoagulated cord blood using the Puregene ® DNA purification Kit (Gentra Systems) at the time of cryopreservation.…”

Section: Methodsmentioning

confidence: 99%

GWAS identifying HLA‐DPB1 gene variants associated with responsiveness to hepatitis B virus vaccination in Koreans: Independent association of HLA‐DPB104:02* possessing rs1042169 G ‐ rs9277355 C ‐ rs9277356 A

Chung

Roh

Park

et al. 2019

Journal of Viral Hepatitis

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Recently, HLA class II loci, including HLA-DPB1, have been reported to be associated with interindividual variance in the hepatitis B (HB) vaccine response. In this study, we investigated significant single nucleotide polymorphisms (SNPs) for anti-HBs antibody levels in 6867 healthy Koreans using a genome-wide association study (GWAS).In GWAS, the top 20 SNPs that showed significant association with anti-HBs levels (P < 1.0 × 10 −29 ) all resided in HLA-DPB1. Utilizing PCR sequencing, we verified the relationship of the top 3 most significant SNPs (rs1042169, rs9277355 and rs9277356) from the GWAS and genotypes of HLA-DPB1 with the HB vaccine response in Korean infants who received a scheduled vaccination. The DPB1*04:02 allele has G, C and A nucleotides for the 3SNP sites, and was significantly more frequent in responders than in nonresponders (10.9% vs 1.0%, P c = 0.018). DPB1*05:01 was significantly more frequent in nonresponders than in responders (49.0% vs 31.1%, P c = 0.018).In multivariate logistic regression, DPB1*04:02 showed a significant association with both vaccine response (P = 0.037, OR = 8.465) and high-titre response (P = 0.027, OR = 9.860). The haplotypes rs1042169 G -rs9277355 C -rs9277356 A showed a significant association with a high-titre response only (P = 0.002, OR = 2.941). In conclusion, DPB1*04:02 possessing rs1042169 G -rs9277355 C -rs9277356 A is an independent predictor of the HB vaccine response in Koreans. K E Y W O R D Shepatitis B virus, HLA-DPB1, Korean, vaccine response

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“…High resolution HLA‐DPB1 typing was performed by sequence‐based typing, starting with a heterozygous approach for exon 2, followed by group‐specific amplification and sequencing exon 2 of the separated alleles and/or amplification and sequencing other exons if necessary. Amplification and sequencing primers have previously been described .…”

Section: Methodsmentioning

confidence: 99%

Allele and haplotype frequencies of HLA‐DPA1 and ‐DPB1 in the population of Guadeloupe

et al. 2014

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Genetic polymorphism of human leukocyte antigen (HLA)-DPA1 and -DPB1 loci was studied in 154 unrelated individuals from Guadeloupe, an archipelago of five islands located in the Carribean Sea. Thirty different DPB1 and eight different DPA1 alleles were observed with a heterozygosity index of 0.87 and 0.78, respectively. This high degree of heterozygosity corresponds with those found in African populations. The DPB1* 01:01:01 allele was most frequent (0.260), followed by 02:01:02 (0.143) and 04:01:01 (0.127). The DPA1 alleles 01:03 (0.380), 02:01 (0.302), 02:02 (0.175) and 03:01 (0.123) were identified in >35 individuals each, whereas 01:04, 01:05 and 04:01 were present only once. Haplotype estimations revealed the presence of 39 different haplotypes, with DPB1*01:01:01-DPA1*02:02 and DPB1*02:01:02-DPA1*01:03 as the most frequent (0.143 and 0.140, respectively). A striking difference was observed in DPB1/DPA1 associations between DPB1*04:02 and *105:01, that have identical exon 2 sequences. DPB1*04:02 was exclusively associated with DPA1*01:03, whereas DPB1*105:01 was present with DPA1*03:01, *03:02 or *04:01. This implies that the DP molecules are actually different, and this difference is relevant to consider in studies on the function of HLA-DP molecules in transplantation. Overall, HLA-DPA1 and DPB1 allele frequencies and haplotypes of the population of Guadeloupe were most similar to African populations, with characteristic alleles and haplotypes that bespeaks the admixture with other ethnicities.

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Two new HLA DPB1 alleles identified by sequence‐based typing: DPB18201 and DPB18301

Cited by 10 publications

References 11 publications

HLA class II amino acid epitopes as susceptibility markers of sarcoidosis

HLA class II amino acid epitopes as susceptibility markers of sarcoidosis

GWAS identifying HLA‐DPB1 gene variants associated with responsiveness to hepatitis B virus vaccination in Koreans: Independent association of HLA‐DPB104:02* possessing rs1042169 G ‐ rs9277355 C ‐ rs9277356 A

Allele and haplotype frequencies of HLA‐DPA1 and ‐DPB1 in the population of Guadeloupe

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Two new HLA DPB1 alleles identified by sequence‐based typing: DPB1*8201 and DPB1*8301

Cited by 10 publications

References 11 publications

HLA class II amino acid epitopes as susceptibility markers of sarcoidosis

HLA class II amino acid epitopes as susceptibility markers of sarcoidosis

GWAS identifying HLA‐DPB1 gene variants associated with responsiveness to hepatitis B virus vaccination in Koreans: Independent association of HLA‐DPB1*04:02 possessing rs1042169 G ‐ rs9277355 C ‐ rs9277356 A

Allele and haplotype frequencies of HLA‐DPA1 and ‐DPB1 in the population of Guadeloupe

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Two new HLA DPB1 alleles identified by sequence‐based typing: DPB18201 and DPB18301

GWAS identifying HLA‐DPB1 gene variants associated with responsiveness to hepatitis B virus vaccination in Koreans: Independent association of HLA‐DPB104:02* possessing rs1042169 G ‐ rs9277355 C ‐ rs9277356 A