PMID- 35653364
OWN - NLM
STAT- MEDLINE
DCOM- 20220606
LR  - 20220716
IS  - 1932-6203 (Electronic)
IS  - 1932-6203 (Linking)
VI  - 17
IP  - 6
DP  - 2022
TI  - Super high-resolution single-molecule sequence-based typing of HLA class I 
      alleles in HIV-1 infected individuals in Ghana.
PG  - e0269390
LID - 10.1371/journal.pone.0269390 [doi]
LID - e0269390
AB  - Polymorphisms in human leukocyte antigen (HLA) class I loci are known to have a 
      great impact on disease progression in HIV-1 infection. Prevailing HIV-1 subtypes 
      and HLA genotype distribution are different all over the world, and the HIV-1 and 
      host HLA interaction could be specific to individual areas. Data on the HIV-1 and 
      HLA interaction have been accumulated in HIV-1 subtype B- and C-predominant 
      populations but not fully obtained in West Africa where HIV-1 subtype CRF02_AG is 
      predominant. In the present study, to obtain accurate HLA typing data for 
      analysis of HLA association with disease progression in HIV-1 infection in West 
      African populations, HLA class I (HLA-A, -B, and -C) four-digit allele typing was 
      performed in treatment-naive HIV-1 infected individuals in Ghana (n = 324) by a 
      super high-resolution single-molecule sequence-based typing (SS-SBT) using 
      next-generation sequencing. Comparison of the SS-SBT-based data with those 
      obtained by a conventional sequencing-based typing (SBT) revealed incorrect 
      assignment of several alleles by SBT. Indeed, HLA-A*23:17, HLA-B*07:06, 
      HLA-C*07:18, and HLA-C*18:02 whose allele frequencies were 2.5%, 0.9%, 4.3%, and 
      3.7%, respectively, were not determined by SBT. Several HLA alleles were 
      associated with clinical markers, viral load and CD4+ T-cell count. Of note, the 
      impact of HLA-B*57:03 and HLA-B*58:01, known as protective alleles against HIV-1 
      subtype B and C infection, on clinical markers was not observed in our cohort. 
      This study for the first time presents SS-SBT-based four-digit typing data on 
      HLA-A, -B, and -C alleles in Ghana, describing impact of HLA on viral load and 
      CD4 count in HIV-1 infection. Accumulation of these data would facilitate 
      high-resolution HLA genotyping, contributing to our understanding of the HIV-1 
      and host HLA interaction in Ghana, West Africa.
FAU - Nii-Trebi, Nicholas I
AU  - Nii-Trebi NI
AD  - AIDS Research Center, National Institute of Infectious Diseases, Tokyo, Japan.
AD  - Joint Research Center for Human Retrovirus Infection, Kumamoto University, 
      Kumamoto, Japan.
AD  - Department of Medical Laboratory Sciences, School of Biomedical and Allied Health 
      Sciences, University of Ghana, Accra, Ghana.
FAU - Matsuoka, Saori
AU  - Matsuoka S
AD  - AIDS Research Center, National Institute of Infectious Diseases, Tokyo, Japan.
FAU - Kawana-Tachikawa, Ai
AU  - Kawana-Tachikawa A
AD  - AIDS Research Center, National Institute of Infectious Diseases, Tokyo, Japan.
AD  - Joint Research Center for Human Retrovirus Infection, Kumamoto University, 
      Kumamoto, Japan.
AD  - Institute of Medical Science, University of Tokyo, Tokyo, Japan.
FAU - Bonney, Evelyn Y
AU  - Bonney EY
AUID- ORCID: 0000-0002-6634-8742
AD  - Department of Virology, Noguchi Memorial Institute for Medical Research, 
      University of Ghana, Accra, Ghana.
FAU - Abana, Christopher Z
AU  - Abana CZ
AD  - Department of Virology, Noguchi Memorial Institute for Medical Research, 
      University of Ghana, Accra, Ghana.
FAU - Ofori, Sampson B
AU  - Ofori SB
AD  - Department of Medicine, Koforidua Government Hospital, Eastern Region, Ghana.
FAU - Mizutani, Taketoshi
AU  - Mizutani T
AD  - Institute of Medical Science, University of Tokyo, Tokyo, Japan.
FAU - Ishizaka, Aya
AU  - Ishizaka A
AD  - Institute of Medical Science, University of Tokyo, Tokyo, Japan.
FAU - Shiino, Teiichiro
AU  - Shiino T
AD  - AIDS Research Center, National Institute of Infectious Diseases, Tokyo, Japan.
FAU - Ohashi, Jun
AU  - Ohashi J
AD  - Department of Biological Sciences, Graduate School of Sciences, University of 
      Tokyo, Tokyo, Japan.
FAU - Naruse, Taeko K
AU  - Naruse TK
AD  - Department of Protozoology, Institute of Tropical Medicine, Nagasaki University, 
      Nagasaki, Japan.
AD  - Department of Molecular Pathogenesis, Medical Research Institute, Tokyo Medical 
      and Dental University, Tokyo, Japan.
FAU - Kimura, Akinori
AU  - Kimura A
AD  - Department of Molecular Pathogenesis, Medical Research Institute, Tokyo Medical 
      and Dental University, Tokyo, Japan.
AD  - Institute of Research, Tokyo Medical and Dental University, Tokyo, Japan.
FAU - Kiyono, Hiroshi
AU  - Kiyono H
AD  - Institute of Medical Science, University of Tokyo, Tokyo, Japan.
AD  - Future Medicine Education and Research Organization, Chiba University, Chiba, 
      Japan.
AD  - CU-UCSD Center for Mucosal Immunology, Allergy and Vaccines, Department of 
      Medicine, University of California San Diego, San Diego, California, United 
      States of America.
FAU - Ishikawa, Koichi
AU  - Ishikawa K
AD  - AIDS Research Center, National Institute of Infectious Diseases, Tokyo, Japan.
FAU - Ampofo, William K
AU  - Ampofo WK
AD  - Department of Virology, Noguchi Memorial Institute for Medical Research, 
      University of Ghana, Accra, Ghana.
FAU - Matano, Tetsuro
AU  - Matano T
AUID- ORCID: 0000-0003-3096-6749
AD  - AIDS Research Center, National Institute of Infectious Diseases, Tokyo, Japan.
AD  - Joint Research Center for Human Retrovirus Infection, Kumamoto University, 
      Kumamoto, Japan.
AD  - Institute of Medical Science, University of Tokyo, Tokyo, Japan.
LA  - eng
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
DEP - 20220602
PL  - United States
TA  - PLoS One
JT  - PloS one
JID - 101285081
RN  - 0 (HLA-A Antigens)
RN  - 0 (HLA-B Antigens)
RN  - 0 (HLA-C Antigens)
RN  - 0 (Histocompatibility Antigens Class I)
SB  - IM
MH  - Alleles
MH  - Disease Progression
MH  - Ghana
MH  - *HIV Infections
MH  - *HIV Seropositivity/genetics
MH  - *HIV-1/genetics
MH  - HLA-A Antigens/genetics
MH  - HLA-B Antigens/genetics
MH  - HLA-C Antigens/genetics
MH  - Histocompatibility Antigens Class I/genetics
MH  - Humans
PMC - PMC9162337
COIS- The authors have declared that no competing interests exist.
EDAT- 2022/06/03 06:00
MHDA- 2022/06/07 06:00
PMCR- 2022/06/02
CRDT- 2022/06/02 13:34
PHST- 2021/09/05 00:00 [received]
PHST- 2022/05/19 00:00 [accepted]
PHST- 2022/06/02 13:34 [entrez]
PHST- 2022/06/03 06:00 [pubmed]
PHST- 2022/06/07 06:00 [medline]
PHST- 2022/06/02 00:00 [pmc-release]
AID - PONE-D-21-28770 [pii]
AID - 10.1371/journal.pone.0269390 [doi]
PST - epublish
SO  - PLoS One. 2022 Jun 2;17(6):e0269390. doi: 10.1371/journal.pone.0269390. 
      eCollection 2022.