Two novel <scp>HLA</scp> alleles, <scp>HLA‐DRB1</scp>*12:90 and HLA‐<scp>DQB1</scp>*03:458, identified by next‐generation sequencing

Loginova, Maria; Smirnova, Daria; Kutyavina, Svetlana; Paramonov, Igor

doi:10.1111/tan.14313

Cited by 4 publications

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“…The novel allele was identified using software NovAT. 15 Six alleles [16][17][18][19] were confirmed by sequence-based typing (SBT) method with HLAssure SE SBT Kit (TBG Corp., New Taipei City, Taiwan), exons 1-5 of the HLA-A and -B genes, exons 1-7 of the HLA-C gene, exons 1-3 of the HLA-DRB1 gene and exons 2-3 of the HLA-DQB1 gene were amplified by PCR and sequenced on an ABI 3500xl Genetic Analyzer (Thermo Fisher Scientific, Waltham, Massachusetts). Sequences were analyzed with AccuType software (TBG Corp., New Taipei City, Taiwan).…”

Section: Identification Of the New Allelesmentioning

confidence: 99%

Distributions of HLA‐A, ‐B, ‐C, ‐DRB1 and ‐DQB1 alleles typed by next generation sequencing in Russian volunteer donors

Smirnova

Loginova

Druzhinina

et al. 2023

HLA

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HLA genes play a major role for successful hematopoietic stem cell transplantation (HSCT). While the success of HSCT depends on a HLA compatibility between donor and patient, finding a suitable donor remains challenging because of the high polymorphic nature of HLA genes. In this study, HLA‐A, ‐B, ‐C, ‐DRB1 and ‐DQB1 alleles were genotyped at the 3‐fields resolution level using MiSeq Illumina of 3341 Russian volunteers from the Kirov bone marrow Registry. Full gene of HLA‐A, ‐B and ‐C, exons 2–4 of HLA‐DRB1 and exons 1–5 of HLA‐DQB1 were amplified by multiplex long‐range polymerase chain reaction (PCR) and each allele was determined by matching the targeted regions and the reference sequence consisting of the IPD‐IMGT/HLA Database. A total of 79 alleles of HLA‐A, 115 alleles of HLA‐B, 67 alleles of HLA‐C, 71 alleles of HLA‐DRB1 and 34 alleles of HLA‐DQB1 were identified. According to common, intermediate and well‐documented catalogs, 38 alleles in HLA‐A, 69 in HLA‐B, 39 in HLA‐C, 48 in HLA‐DRB1 and 21 in HLA‐DQB1 locus were common alleles, and 5, 7, 7, 7, 2 kinds, accordingly, to written above were well‐documented alleles. A total of 12 novel alleles including 3 alleles in HLA‐A, 3 alleles in HLA‐B, 1 allele in HLA‐C, 2 alleles in HLA‐DRB1 and 3 alleles in HLA‐DQB1 loci were found. Six haplotypes with a frequency of more than 1.0% accounted for 13.19% of the total haplotype frequencies. This information on rare and novel alleles found by HLA typing with NGS may be helpful for unrelated HSCT among Russians.

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Section: Identification Of the New Allelesmentioning

confidence: 99%

Distributions of HLA‐A, ‐B, ‐C, ‐DRB1 and ‐DQB1 alleles typed by next generation sequencing in Russian volunteer donors

Smirnova

Loginova

Druzhinina

et al. 2023

HLA

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Nomenclature for factors of the HLA system, update July, August and September 2021

Marsh¹

2022

Human Immunology

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Nomenclature for factors of the HLA system, update July, August and September 2021

Marsh

2022

Int J Immunogenetics

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following agreed policy, have been assigned official allele designations [2]. Full details of all sequences will be published in a forthcoming report.Below are listed the newly assigned sequences (Table 1) and confirmations of previously reported sequences (Table 2). The accession number of each sequence is given and these can be used to retrieve the sequence files from the EMBL, GenBank or DDBJ data libraries. Although accession numbers have been assigned by the data-libraries and most sequences are already available, there is still the possibility that an author may not yet have allowed the sequence to be released; in such a case you will have to contact the submitting author directly. Additional information pertaining to new sequences is often included in the publications describing these alleles; a listing of recent publications that describe new HLA sequences is given in Table 3.

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Two novel HLA alleles, *HLA‐DRB1**12:90 and HLA‐DQB103:458*, identified by next‐generation sequencing

Abstract: Two novel HLA alleles DRB112:90 and DQB103:458 have non‐synonymous mutations in exon 3.

Cited by 4 publications

References 2 publications

Distributions of HLA‐A, ‐B, ‐C, ‐DRB1 and ‐DQB1 alleles typed by next generation sequencing in Russian volunteer donors

Distributions of HLA‐A, ‐B, ‐C, ‐DRB1 and ‐DQB1 alleles typed by next generation sequencing in Russian volunteer donors

Nomenclature for factors of the HLA system, update July, August and September 2021

Nomenclature for factors of the HLA system, update July, August and September 2021

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Two novel HLA alleles, HLA‐DRB1*12:90 and HLA‐DQB1*03:458, identified by next‐generation sequencing

Abstract: Two novel HLA alleles DRB1*12:90 and DQB1*03:458 have non‐synonymous mutations in exon 3.

Cited by 4 publications

References 2 publications

Distributions of HLA‐A, ‐B, ‐C, ‐DRB1 and ‐DQB1 alleles typed by next generation sequencing in Russian volunteer donors

Distributions of HLA‐A, ‐B, ‐C, ‐DRB1 and ‐DQB1 alleles typed by next generation sequencing in Russian volunteer donors

Nomenclature for factors of the HLA system, update July, August and September 2021

Nomenclature for factors of the HLA system, update July, August and September 2021

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Two novel HLA alleles, *HLA‐DRB1**12:90 and HLA‐DQB103:458*, identified by next‐generation sequencing

Abstract: Two novel HLA alleles DRB112:90 and DQB103:458 have non‐synonymous mutations in exon 3.