Sequence-based HLA-A, B, C, DP, DQ, and DR typing of 159 individuals from the Worcester region of the Western Cape province of South Africa

Alba Grifoni; John Sidney; Chelsea Carpenter; Elizabeth Phillips; Simon Mallal; Thomas J Scriba; Alessandro Sette; Cecilia S Lindestam Arlehamn

doi:10.1016/j.humimm.2018.01.004

Sequence-based HLA-A, B, C, DP, DQ, and DR typing of 159 individuals from the Worcester region of the Western Cape province of South Africa

Hum Immunol. 2018 Mar;79(3):143-144. doi: 10.1016/j.humimm.2018.01.004.

Authors

Alba Grifoni¹, John Sidney¹, Chelsea Carpenter¹, Elizabeth Phillips², Simon Mallal², Thomas J Scriba³, Alessandro Sette⁴, Cecilia S Lindestam Arlehamn⁵

Affiliations

¹ Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, CA 92037, USA.
² Institute for Immunology and Infectious Diseases, Murdoch University, Perth, Western Australia 6150, Australia; Vanderbilt University School of Medicine, Nashville, TN 37235, USA.
³ South African Tuberculosis Vaccine Initiative, Institute of Infectious Disease and Molecular Medicine, Division of Immunology, Department of Pathology, University of Cape Town, Cape Town, South Africa.
⁴ Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, CA 92037, USA; Department of Medicine, University of California San Diego, La Jolla, CA 92093, USA.
⁵ Division of Vaccine Discovery, La Jolla Institute for Allergy and Immunology, La Jolla, CA 92037, USA. Electronic address: cecilia@lji.org.

PMID: 29398200
DOI: 10.1016/j.humimm.2018.01.004

Abstract

DNA sequence-based typing at the HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, -DRB1, and -DRB3/4/5 loci was performed on samples provided by 159 individuals from the Worcester region of the Western Cape province of South Africa. The purpose of the study was to characterize allele frequencies in the local population, to support studies of T cell immunity against pathogens, including Mycobacterium tuberculosis. There are no detectable deviations from Hardy Weinberg proportions for the HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, and -DRB1 loci. A minor deviation was detected at the HLA-DQB1 locus due to an excess of homozygotes. The genotype data are available in the Allele Frequencies Net Database under identifier 3425.

Keywords: HLA alleles; HLA typing; South Africa; Western Cape; Worcester.

MeSH terms

Databases, Genetic
Gene Frequency
Genotype
HLA-A Antigens / genetics*
HLA-B Antigens / genetics*
HLA-C Antigens / genetics*
HLA-DQ Antigens / genetics*
HLA-DR Antigens / genetics*
Humans
Lymphocyte Activation
Mycobacterium tuberculosis / immunology*
Sequence Analysis, DNA
South Africa
T-Lymphocytes / immunology*
T-Lymphocytes / microbiology
Tuberculosis / immunology*

Substances

HLA-A Antigens
HLA-B Antigens
HLA-C Antigens
HLA-DQ Antigens
HLA-DR Antigens