1
|
Choi EJ, Baek IC, Park S, Kim HJ, Kim TG. Development of cost-effective and fast KIR genotyping by multiplex PCR-SSP. HLA 2024; 103:e15191. [PMID: 37688498 DOI: 10.1111/tan.15191] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2023] [Revised: 07/24/2023] [Accepted: 08/01/2023] [Indexed: 09/11/2023]
Abstract
Killer-cell immunoglobulin-like receptors (KIR) control natural killer (NK) cell functions by recognizing HLA molecules and modulating the activity of NK cells. The KIR gene cluster contains polymorphic and highly homologous genes. Diversity of the KIR region is achieved through differences in gene content, allelic polymorphism, and gene copy number, which result in unrelated individuals having different KIR genotypes and individualized immune responses that are relevant to multiple aspects of human health and disease. Therefore, KIR genotyping is increasingly used in epidemiological studies. Here, we developed multiplex polymerase chain reaction with sequence-specific primers (PCR-SSP) to compensate for the shortcomings of the conventional PCR-SSP method, which is most commonly used for KIR analysis. Multiplex PCR-SSP method involves six multiplex reactions that detect 16 KIR genes and distinguish variant types of some KIR genes by adding two reactions. The assay was evaluated in a blind survey using a panel of 40 reference DNA standards from the UCLA KIR Exchange Program. The results are 100% concordant with the genotype determined using Luminex-based reverse sequence-specific oligonucleotide typing systems. Additionally, we investigated the currently known 16 KIR genes and their common variants in 120 unrelated Korean individuals. The results were consistent with the KIR genotype previously reported by Hwang et al. This multiplex PCR-SSP is an efficient method for analyzing KIR genotypes in both small- and large-scale studies with minimal labor, reagents, and DNA. Furthermore, by providing a better definition of KIR polymorphisms it can contribute to developments in immunogenetics.
Collapse
Affiliation(s)
- Eun-Jeong Choi
- Hematopoietic Stem Cell Bank, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - In-Cheol Baek
- Hematopoietic Stem Cell Bank, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - Silvia Park
- Department of Internal Medicine, Catholic Blood and Marrow Transplantation Center, Leukemia Research Institute, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - Hee-Je Kim
- Department of Internal Medicine, Catholic Blood and Marrow Transplantation Center, Leukemia Research Institute, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - Tai-Gyu Kim
- Hematopoietic Stem Cell Bank, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
- Department of Microbiology, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| |
Collapse
|
2
|
BAZIE MOMEIYIMICHEE, DJIGMA FLORENCIAWENDKUUNI, SANOU MAHAMOUDOU, SORGHO PEGDWENDÉABEL, OUATTARA ABDOULKARIM, OBIRI-YEBOAH DORCAS, KAPIEKO NADÈGE, SOMBIE HERMANKARIM, BADO PROSPER, YELEMKOURE EDWIGETAMPOUBILA, KIENDREBEOGO ISABELLETOUWENDPOULIMDÉ, NAGALO MARIUSBOLNI, YONLI ALBERTTHÉOPHANE, SIMPORE JACQUES. Killer cell immunoglobulin-like receptor alleles influence susceptibility to occult hepatitis B infection in West African population. J Public Health Afr 2023; 14:2586. [PMID: 37908389 PMCID: PMC10615156 DOI: 10.4081/jphia.2023.2586] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/21/2023] [Accepted: 04/12/2023] [Indexed: 11/02/2023] Open
Abstract
Occult hepatitis B infection (OBI) is a public health problem in Burkina Faso. OBI represents a risk factor for the development of cirrhosis and hepatocellular carcinoma (HCC). OBI could be due to mutant viruses undetectable by HBsAg assays or a strong suppression of viral replication and gene expression under the pression of the host immune system. To investigate the role of killer cell immunoglobulin-like receptor (KIR) gene polymorphisms in patients with OBI in Burkina Faso compared to healthy and chronic hepatitis B subjects. A total of 286 participants was recruited, including 42 cases of OBI, 110 cases of chronic hepatitis B and 134 HBV negative subjects. SSP-PCR was performed to search for the presence of KIR genes. The HBV viral load was determined by qPCR. The frequencies of the activator gene KIR2DS5 (P=0.045) and the pseudogene KIR2DP1 (P<0.001) in patients with OBI were higher than those in patients with chronic hepatitis B. These genes are associated with susceptibility of occult hepatitis B infection. The frequencies of the inhibitory KIR gene KIR2DL3 (P=0.01) of patients with occult hepatitis B were lower than those in chronic hepatitis B patients. This gene KIR2DL3 is associated with protection against occult hepatitis B infection. Also, the frequencies of the inhibitory KIR genes KIR2DL2 (P<0.001), KIR2DL3 (P<0.001) and activators KIR2DS2 (P<0.001) in chronic hepatitis B patients were higher compared to the frequencies of the KIR genes in healthy subjects. These genes KIR2DL3, KIR2DL5 (A, B), KIR3DL3, KIR3DS1, KIR2DL2 and KIR2DS2 are thought to be genes associated with the susceptibility to OBI. The KIR2DS5 and KIR2DP1 genes could be associated with susceptibility to OBI. As for the KIR gene KIR2DL3 could be associated with protection against occult hepatitis B infection.
Collapse
Affiliation(s)
- MOMEIYI MICHEE BAZIE
- Molecular Biology and Genetics Laboratory (LABIOGENE), Department of Biochemistry-Microbiology, Joseph Ki-Zerbo University, Ouagadougou
- Pietro Annigoni Biomolecular Research Center (CERBA), Ouagadougou
| | - FLORENCIA WENDKUUNI DJIGMA
- Molecular Biology and Genetics Laboratory (LABIOGENE), Department of Biochemistry-Microbiology, Joseph Ki-Zerbo University, Ouagadougou
- Pietro Annigoni Biomolecular Research Center (CERBA), Ouagadougou
| | - MAHAMOUDOU SANOU
- Department of Pharmacy, Joseph Ki-Zerbo University, Ouagadougou, Burkina Faso
| | - PEGDWENDÉ ABEL SORGHO
- Molecular Biology and Genetics Laboratory (LABIOGENE), Department of Biochemistry-Microbiology, Joseph Ki-Zerbo University, Ouagadougou
- Pietro Annigoni Biomolecular Research Center (CERBA), Ouagadougou
| | - ABDOUL KARIM OUATTARA
- Molecular Biology and Genetics Laboratory (LABIOGENE), Department of Biochemistry-Microbiology, Joseph Ki-Zerbo University, Ouagadougou
- Pietro Annigoni Biomolecular Research Center (CERBA), Ouagadougou
| | - DORCAS OBIRI-YEBOAH
- Department of Microbiology and Immunology, School of Medical Sciences, University of Cape Coast, Ghana
| | - NADÈGE KAPIEKO
- Molecular Biology and Genetics Laboratory (LABIOGENE), Department of Biochemistry-Microbiology, Joseph Ki-Zerbo University, Ouagadougou
- Pietro Annigoni Biomolecular Research Center (CERBA), Ouagadougou
| | - HERMAN KARIM SOMBIE
- Molecular Biology and Genetics Laboratory (LABIOGENE), Department of Biochemistry-Microbiology, Joseph Ki-Zerbo University, Ouagadougou
- Pietro Annigoni Biomolecular Research Center (CERBA), Ouagadougou
| | - PROSPER BADO
- Molecular Biology and Genetics Laboratory (LABIOGENE), Department of Biochemistry-Microbiology, Joseph Ki-Zerbo University, Ouagadougou
- Pietro Annigoni Biomolecular Research Center (CERBA), Ouagadougou
| | - EDWIGE TAMPOUBILA YELEMKOURE
- Molecular Biology and Genetics Laboratory (LABIOGENE), Department of Biochemistry-Microbiology, Joseph Ki-Zerbo University, Ouagadougou
- Pietro Annigoni Biomolecular Research Center (CERBA), Ouagadougou
| | - ISABELLE TOUWENDPOULIMDÉ KIENDREBEOGO
- Molecular Biology and Genetics Laboratory (LABIOGENE), Department of Biochemistry-Microbiology, Joseph Ki-Zerbo University, Ouagadougou
- Pietro Annigoni Biomolecular Research Center (CERBA), Ouagadougou
| | - MARIUS BOLNI NAGALO
- Division of Hematology and Oncology, Mayo Clinic, Scottsdale, Arizona, United States
| | - ALBERT THÉOPHANE YONLI
- Molecular Biology and Genetics Laboratory (LABIOGENE), Department of Biochemistry-Microbiology, Joseph Ki-Zerbo University, Ouagadougou
- Pietro Annigoni Biomolecular Research Center (CERBA), Ouagadougou
| | - JACQUES SIMPORE
- Molecular Biology and Genetics Laboratory (LABIOGENE), Department of Biochemistry-Microbiology, Joseph Ki-Zerbo University, Ouagadougou
- Pietro Annigoni Biomolecular Research Center (CERBA), Ouagadougou
| |
Collapse
|
3
|
Gao GF, Liu D, Zhan X, Li B. Analysis of KIR gene variants in The Cancer Genome Atlas and UK Biobank using KIRCLE. BMC Biol 2022; 20:191. [PMID: 36002830 PMCID: PMC9400285 DOI: 10.1186/s12915-022-01392-2] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2021] [Accepted: 08/15/2022] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND Natural killer (NK) cells represent a critical component of the innate immune system's response against cancer and viral infections, among other diseases. To distinguish healthy host cells from infected or tumor cells, killer immunoglobulin receptors (KIR) on NK cells bind and recognize Human Leukocyte Antigen (HLA) complexes on their target cells. However, NK cells exhibit great diversity in their mechanism of activation, and the outcomes of their activation are not yet understood fully. Just like the HLAs they bind, KIR receptors exhibit high allelic diversity in the human population. Here we provide a method to identify KIR allele variants from whole exome sequencing data and uncover novel associations between these variants and various molecular and clinical correlates. RESULTS In order to better understand KIRs, we have developed KIRCLE, a novel method for genotyping individual KIR genes from whole exome sequencing data, and used it to analyze approximately sixty-thousand patient samples in The Cancer Genome Atlas (TCGA) and UK Biobank. We were able to assess population frequencies for different KIR alleles and demonstrate that, similar to HLA alleles, individuals' KIR alleles correlate strongly with their ethnicities. In addition, we observed associations between different KIR alleles and HLA alleles, including HLA-B*53 with KIR3DL2*013 (Fisher's exact FDR = 7.64e-51). Finally, we showcased statistically significant associations between KIR alleles and various clinical correlates, including peptic ulcer disease (Fisher's exact FDR = 0.0429) and age of onset of atopy (Mann-Whitney U FDR = 0.0751). CONCLUSIONS We show that KIRCLE is able to infer KIR variants accurately and consistently, and we demonstrate its utility using data from approximately sixty-thousand individuals from TCGA and UK Biobank to discover novel molecular and clinical correlations with KIR germline variants. Peptic ulcer disease and atopy are just two diseases in which NK cells may play a role beyond their "classical" realm of anti-tumor and anti-viral responses. This tool may be used both as a benchmark for future KIR-variant-inference algorithms, and to better understand the immunogenomics of and disease processes involving KIRs.
Collapse
Affiliation(s)
- Galen F Gao
- School of Medicine, University of Texas Southwestern Medical Center, Dallas, TX, USA.,Lyda Hill Department of Bioinformatics, University of Texas Southwestern Medical Center, Dallas, TX, USA
| | - Dajiang Liu
- Institute for Personalized Medicine, College of Medicine, Pennsylvania State University, Hershey, PA, 17033, USA
| | - Xiaowei Zhan
- Department of Population and Data Sciences, University of Texas Southwestern Medical Center, Dallas, TX, USA.
| | - Bo Li
- Lyda Hill Department of Bioinformatics, University of Texas Southwestern Medical Center, Dallas, TX, USA.
| |
Collapse
|
4
|
Lallogo TD, Djigma FW, Sorgho PA, Martinson JJ, Rebeca Compaore T, Traore L, Bado P, Bapio Valérie Elvira Jean Télesphore Bazie, Amegnona LJ, Kagone TS, Alice Ouedraogo R, Ilboudo DP, Obiri-Yeboah D, Yonli AT, Simpore J. KIR2DL5B and HLA DRB1*12 alleles seems to be associated with protection against HIV-1 in serodiscordant couples in Burkina Faso. J Med Virol 2022; 94:4425-4432. [PMID: 35501290 DOI: 10.1002/jmv.27821] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/09/2022] [Revised: 04/25/2022] [Accepted: 04/28/2022] [Indexed: 11/05/2022]
Abstract
INTRODUCTION The Human Immunodeficiency Virus (HIV) belongs to the Retroviridae family and remains a public health problem in sub-Saharan Africa. Recent reports from WHO have shown that 33 million people died from HIV infections. HIV is one of the most serious fatal human diseases of the 20th and 21st centuries. However, variations in genetic and immunological factors are associated with protection against HIV infection in uninfected people exposed to HIV. This is the case with Naturals Killers which play an important role in the progression or regression of HIV infection. The objective of this study is to characterize certain HLA (Human Leukocyte Antigen) class II genes and KIR genes in HIV-1 serodiscordant couples in Burkina Faso. METHODS This study was carried out at Burkina Faso among nineteen (19) HIV-1 serodiscordant couples. Classical multiplex PCR (SSP-PCR) was used to characterize the presence or absence of the KIR genes and certain class II HLAs (DRB1*11 and DRB1*12). RESULTS The characterization of the KIR and HLA genes DRB1*11, DRB1*12 in this study demonstrated that the inhibitor KIR2DL5B, would confer protection against HIV-1 infection in seronegative partners [OR = 0.13 (0.02-0.72) and p = 0.029)], and the HLA DRB1*12 allele was associated with protection against HIV-1 infection in seronegative partners [OR = 0.16 (0.03-0.77) and p = 0.038]. AA and Bx haplotypes were not found to be associated with HIV-1 infection in serodiscordant couples. CONCLUSION This study confirms the involvement of the KIR genes in viral pathologies such as HIV-1 infection. Future larger-scale studies may provide a better understanding of the molecular mechanism by which the KIR Haplotype and combination of KIR/HLA are associated with protection against HIV infection. This article is protected by copyright. All rights reserved.
Collapse
Affiliation(s)
- Tatiana Doriane Lallogo
- Molecular Biology and Genetics Laboratory (LABIOGENE), Department of Biochemistry and Microbiology, University Joseph KI-ZERBO, PO Box 7021, Ouagadougou, 03, Burkina Faso
| | - Florencia W Djigma
- Molecular Biology and Genetics Laboratory (LABIOGENE), Department of Biochemistry and Microbiology, University Joseph KI-ZERBO, PO Box 7021, Ouagadougou, 03, Burkina Faso.,Pietro Annigoni Biomolecular Research Center (CERBA), PO Box 364, Ouagadougou, 01, Burkina Faso
| | - Pegdwendé Abel Sorgho
- Pietro Annigoni Biomolecular Research Center (CERBA), PO Box 364, Ouagadougou, 01, Burkina Faso
| | - Jeremy James Martinson
- Laboratory of Infectious Diseases/Microbiology, University of Pittsburgh, Pittsburgh, USA
| | - T Rebeca Compaore
- Institute for Research in Health Sciences, IRSS, Ouagadougou, Burkina Faso
| | - Lassina Traore
- Molecular Biology and Genetics Laboratory (LABIOGENE), Department of Biochemistry and Microbiology, University Joseph KI-ZERBO, PO Box 7021, Ouagadougou, 03, Burkina Faso
| | - Prosper Bado
- Molecular Biology and Genetics Laboratory (LABIOGENE), Department of Biochemistry and Microbiology, University Joseph KI-ZERBO, PO Box 7021, Ouagadougou, 03, Burkina Faso
| | | | - Lanyo Jospin Amegnona
- Molecular Biology and Genetics Laboratory (LABIOGENE), Department of Biochemistry and Microbiology, University Joseph KI-ZERBO, PO Box 7021, Ouagadougou, 03, Burkina Faso
| | - Thérèse S Kagone
- National Institute of Public Health, Center Muraz, 01 BP 390 Bobo-Dioulasso 01, Burkina Faso
| | - R Alice Ouedraogo
- Molecular Biology and Genetics Laboratory (LABIOGENE), Department of Biochemistry and Microbiology, University Joseph KI-ZERBO, PO Box 7021, Ouagadougou, 03, Burkina Faso
| | | | - Dorcas Obiri-Yeboah
- Department of Microbiology and Immunology, School of Medical Sciences, University of Cape Coast, PMB, Cape Coast, Ghana
| | - Albert Théophane Yonli
- Molecular Biology and Genetics Laboratory (LABIOGENE), Department of Biochemistry and Microbiology, University Joseph KI-ZERBO, PO Box 7021, Ouagadougou, 03, Burkina Faso.,Pietro Annigoni Biomolecular Research Center (CERBA), PO Box 364, Ouagadougou, 01, Burkina Faso
| | - Jacques Simpore
- Molecular Biology and Genetics Laboratory (LABIOGENE), Department of Biochemistry and Microbiology, University Joseph KI-ZERBO, PO Box 7021, Ouagadougou, 03, Burkina Faso.,Pietro Annigoni Biomolecular Research Center (CERBA), PO Box 364, Ouagadougou, 01, Burkina Faso
| |
Collapse
|
5
|
Duygu B, Olieslagers TI, Groeneweg M, Voorter CEM, Wieten L. HLA Class I Molecules as Immune Checkpoints for NK Cell Alloreactivity and Anti-Viral Immunity in Kidney Transplantation. Front Immunol 2021; 12:680480. [PMID: 34295330 PMCID: PMC8290519 DOI: 10.3389/fimmu.2021.680480] [Citation(s) in RCA: 17] [Impact Index Per Article: 5.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2021] [Accepted: 06/14/2021] [Indexed: 12/12/2022] Open
Abstract
Natural killer (NK) cells are innate lymphocytes that can kill diseased- or virally-infected cells, mediate antibody dependent cytotoxicity and produce type I immune-associated cytokines upon activation. NK cells also contribute to the allo-immune response upon kidney transplantation either by promoting allograft rejection through lysis of cells of the transplanted organ or by promoting alloreactive T cells. In addition, they protect against viral infections upon transplantation which may be especially relevant in patients receiving high dose immune suppression. NK cell activation is tightly regulated through the integrated balance of signaling via inhibitory- and activating receptors. HLA class I molecules are critical regulators of NK cell activation through the interaction with inhibitory- as well as activating NK cell receptors, hence, HLA molecules act as critical immune checkpoints for NK cells. In the current review, we evaluate how NK cell alloreactivity and anti-viral immunity are regulated by NK cell receptors belonging to the KIR family and interacting with classical HLA class I molecules, or by NKG2A/C and LILRB1/KIR2DL4 engaging non-classical HLA-E or -G. In addition, we provide an overview of the methods to determine genetic variation in these receptors and their HLA ligands.
Collapse
Affiliation(s)
- Burcu Duygu
- Department of Transplantation Immunology, Maastricht University Medical Center, Maastricht, Netherlands.,GROW, School for Oncology and Developmental Biology, Maastricht University, Maastricht, Netherlands
| | - Timo I Olieslagers
- Department of Transplantation Immunology, Maastricht University Medical Center, Maastricht, Netherlands.,GROW, School for Oncology and Developmental Biology, Maastricht University, Maastricht, Netherlands
| | - Mathijs Groeneweg
- Department of Transplantation Immunology, Maastricht University Medical Center, Maastricht, Netherlands.,GROW, School for Oncology and Developmental Biology, Maastricht University, Maastricht, Netherlands
| | - Christina E M Voorter
- Department of Transplantation Immunology, Maastricht University Medical Center, Maastricht, Netherlands.,GROW, School for Oncology and Developmental Biology, Maastricht University, Maastricht, Netherlands
| | - Lotte Wieten
- Department of Transplantation Immunology, Maastricht University Medical Center, Maastricht, Netherlands.,GROW, School for Oncology and Developmental Biology, Maastricht University, Maastricht, Netherlands
| |
Collapse
|
6
|
He M, Zheng ZZ, He QQ, Li DY, Liao KZ, An L, Weng Q, Wang NJ, Wang LP, Sun Q, Wang J, Xiao PL, Du KM, Jiang M. Distribution of killer cell immunoglobulin-like receptor (KIR) genes in a large, multi-centre cohort of Chinese donors. Ann Hum Biol 2021; 48:133-141. [PMID: 34097546 DOI: 10.1080/03014460.2021.1913223] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/21/2022]
Abstract
BACKGROUND The killer cell immunoglobulin-like receptor (KIR), which mediates the killing function of NK cells, is an attractive candidate for adoptive cellular therapy. The ethnic distribution for China provides a unique opportunity to investigate KIR gene distribution. AIM The aim of this study was to explore the relationship between population history and the rapidly evolving KIR genetic diversity. SUBJECTS AND METHODS 8050 Chinese donors from 184 hospitals were included to analyse frequency, haplotype, and B-content data of 16 KIR genes, by PCR-SSP for KIR genotyping. RESULTS KIR gene carrier frequencies were found similar to those observed in other studies on Han, but different from Thais, Japanese, Africans, and populations of West Eurasian ancestry. High-frequency KIR genotype profiles found in the present population were consistent with other studies on Han populations but different from those conducted on other cohorts. The majority of our cohort carried group A KIR gene motifs. Additionally, populations with similar geographic locations in China were shown clustered together, while Hainan and Xinjiang provinces were slightly separated from these. CONCLUSION The distribution of KIR genes varies by geographic region, and different ethnic groups may be a confounding factor of KIR diversity.
Collapse
Affiliation(s)
- Min He
- Hematologic Disease Center, First Affiliated Hospital of Xinjiang Medical University, Urumqi, China.,Xinjiang Uygur Autonomous Region Research Institute of Hematology, Urumqi, China
| | | | - Qing-Qing He
- Shanghai Tissuebank Biotechnology Co., Ltd., Shanghai, China
| | - Dai-Yang Li
- Shanghai Tissuebank Biotechnology Co., Ltd., Shanghai, China
| | - Kuan-Zhen Liao
- Shanghai Tissuebank Biotechnology Co., Ltd., Shanghai, China
| | - Lin An
- Shanghai Tissuebank Biotechnology Co., Ltd., Shanghai, China
| | - Qi Weng
- Shanghai Tissuebank Biotechnology Co., Ltd., Shanghai, China
| | - Ning-Juan Wang
- Shanghai Tissuebank Biotechnology Co., Ltd., Shanghai, China
| | - Li-Ping Wang
- Shanghai Tissuebank Biotechnology Co., Ltd., Shanghai, China
| | - Qin Sun
- Shanghai Tissuebank Biotechnology Co., Ltd., Shanghai, China
| | - Jian Wang
- Shanghai Tissuebank Biotechnology Co., Ltd., Shanghai, China
| | - Pei-Li Xiao
- Shanghai Tissuebank Biotechnology Co., Ltd., Shanghai, China
| | - Ke-Ming Du
- Xinjiang Uygur Autonomous Region Research Institute of Hematology, Urumqi, China
| | - Ming Jiang
- Hematologic Disease Center, First Affiliated Hospital of Xinjiang Medical University, Urumqi, China.,Xinjiang Uygur Autonomous Region Research Institute of Hematology, Urumqi, China
| |
Collapse
|
7
|
Vargas LDB, Dourado RM, Amorim LM, Ho B, Calonga-Solís V, Issler HC, Marin WM, Beltrame MH, Petzl-Erler ML, Hollenbach JA, Augusto DG. Single Nucleotide Polymorphism in KIR2DL1 Is Associated With HLA-C Expression in Global Populations. Front Immunol 2020; 11:1881. [PMID: 32983108 PMCID: PMC7478174 DOI: 10.3389/fimmu.2020.01881] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2020] [Accepted: 07/13/2020] [Indexed: 12/13/2022] Open
Abstract
Regulation of NK cell activity is mediated through killer-cell immunoglobulin-like receptors (KIR) ability to recognize human leukocyte antigen (HLA) class I molecules as ligands. Interaction of KIR and HLA is implicated in viral infections, autoimmunity, and reproduction and there is growing evidence of the coevolution of these two independently segregating gene families. By leveraging KIR and HLA-C data from 1000 Genomes consortium we observed that the KIR2DL1 variant rs2304224 * T is associated with lower expression of HLA-C in individuals carrying the ligand HLA-C2 (p = 0.0059). Using flow cytometry, we demonstrated that this variant is also associated with higher expression of KIR2DL1 on the NK cell surface (p = 0.0002). Next, we applied next generation sequencing to analyze KIR2DL1 sequence variation in 109 Euro and 75 Japanese descendants. Analyzing the extended haplotype homozygosity, we show signals of positive selection for rs4806553 * G and rs687000 * G, which are in linkage disequilibrium with rs2304224 * T. Our results suggest that lower expression of HLA-C2 ligands might be compensated for higher expression of the receptor KIR2DL1 and bring new insights into the coevolution of KIR and HLA.
Collapse
Affiliation(s)
- Luciana de Brito Vargas
- Programa de Pós-Graduação em Genética, Departamento de Genética, Universidade Federal do Paraná, Curitiba, Brazil
| | - Renata M Dourado
- Programa de Pós-Graduação em Genética, Departamento de Genética, Universidade Federal do Paraná, Curitiba, Brazil
| | - Leonardo M Amorim
- Programa de Pós-Graduação em Genética, Departamento de Genética, Universidade Federal do Paraná, Curitiba, Brazil
| | - Brenda Ho
- Department of Neurology, Weill Institute for Neurosciences, University of California, San Francisco, San Francisco, CA, United States
| | - Verónica Calonga-Solís
- Programa de Pós-Graduação em Genética, Departamento de Genética, Universidade Federal do Paraná, Curitiba, Brazil
| | - Hellen C Issler
- Programa de Pós-Graduação em Genética, Departamento de Genética, Universidade Federal do Paraná, Curitiba, Brazil
| | - Wesley M Marin
- Department of Neurology, Weill Institute for Neurosciences, University of California, San Francisco, San Francisco, CA, United States
| | - Marcia H Beltrame
- Programa de Pós-Graduação em Genética, Departamento de Genética, Universidade Federal do Paraná, Curitiba, Brazil
| | - Maria Luiza Petzl-Erler
- Programa de Pós-Graduação em Genética, Departamento de Genética, Universidade Federal do Paraná, Curitiba, Brazil
| | - Jill A Hollenbach
- Department of Neurology, Weill Institute for Neurosciences, University of California, San Francisco, San Francisco, CA, United States
| | - Danillo G Augusto
- Programa de Pós-Graduação em Genética, Departamento de Genética, Universidade Federal do Paraná, Curitiba, Brazil.,Department of Neurology, Weill Institute for Neurosciences, University of California, San Francisco, San Francisco, CA, United States
| |
Collapse
|
8
|
Jiang M, Guo X, Yuan L, Gao J, Huo L, Li Q. Killer cell immunoglobulin-like receptor gene cluster predisposes to susceptibility to B-cell acute lymphoblastic leukemia in Chinese children. INTERNATIONAL JOURNAL OF CLINICAL AND EXPERIMENTAL PATHOLOGY 2020; 13:536-542. [PMID: 32269692 PMCID: PMC7136999] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Subscribe] [Scholar Register] [Received: 01/10/2020] [Accepted: 02/07/2020] [Indexed: 06/11/2023]
Abstract
B-cell acute lymphoblastic leukemia (B-ALL) is the most common malignancy in children. Killer cell immunoglobulin-like receptors (KIRs) are mainly expressed on natural killer (NK) cells and regulate killing of cancer cells. To investigate the possible association of KIR genes with B-ALL in Chinese children, we used polymerase chain reaction with sequence-specific primers (PCR-SSP) to determine the KIR genotypes of 137 B-ALL patients and 288 healthy children of Chinese Han origin. Herein we report no significant difference in the carrying frequency of individual KIR genes and haplotypes between patients and controls; however, individuals carrying C4Tx genotypes were more frequent in the B-ALL group compared with healthy controls (11.7% vs. 5.9%, P=0.038). In addition, the centromeric KIR gene cluster, KIR2DS2-2DL2-2DS3-2DL5, was significantly increased in the B-ALL group compared with healthy controls (13.9% vs. 7.3%, P=0.030). These data suggest that the C4Tx genotype and centromeric KIR gene cluster (KIR2DS2-2DL2-2DS3-2DL5) might predispose to susceptibility to B-ALL in Chinese children.
Collapse
Affiliation(s)
- Mingyan Jiang
- Department of Pediatric Hematology and Oncology, West China Second University Hospital, Sichuan UniversityChengdu, Sichuan Province, China
- Key Laboratory of Birth Defects and Related Diseases of Women and Children (Sichuan University), Ministry of EducationChengdu, Sichuan Province, China
| | - Xia Guo
- Department of Pediatric Hematology and Oncology, West China Second University Hospital, Sichuan UniversityChengdu, Sichuan Province, China
- Key Laboratory of Birth Defects and Related Diseases of Women and Children (Sichuan University), Ministry of EducationChengdu, Sichuan Province, China
| | - Lixing Yuan
- Department of Pediatric Hematology and Oncology, West China Second University Hospital, Sichuan UniversityChengdu, Sichuan Province, China
- Key Laboratory of Birth Defects and Related Diseases of Women and Children (Sichuan University), Ministry of EducationChengdu, Sichuan Province, China
| | - Ju Gao
- Department of Pediatric Hematology and Oncology, West China Second University Hospital, Sichuan UniversityChengdu, Sichuan Province, China
- Key Laboratory of Birth Defects and Related Diseases of Women and Children (Sichuan University), Ministry of EducationChengdu, Sichuan Province, China
| | - Li Huo
- Department of Pediatric Hematology and Oncology, West China Second University Hospital, Sichuan UniversityChengdu, Sichuan Province, China
- Department of Emergency, West China Second University Hospital, Sichuan UniversityChengdu, Sichuan Province, China
- Key Laboratory of Birth Defects and Related Diseases of Women and Children (Sichuan University), Ministry of EducationChengdu, Sichuan Province, China
| | - Qiang Li
- Department of Pediatric Hematology and Oncology, West China Second University Hospital, Sichuan UniversityChengdu, Sichuan Province, China
- Key Laboratory of Birth Defects and Related Diseases of Women and Children (Sichuan University), Ministry of EducationChengdu, Sichuan Province, China
| |
Collapse
|
9
|
Sorgho PA, Djigma FW, Martinson JJ, Yonli AT, Nagalo BM, Compaore TR, Diarra B, Sombie HK, Simpore A, Zongo AW, Ouattara AK, Soubeiga STR, Traore L, Yelemkoure ET, Kiendrebeogo IT, Roberts LR, Simpore J. Role of Killer cell immunoglobulin-like receptors (KIR) genes in stages of HIV-1 infection among patients from Burkina Faso. Biomol Concepts 2019; 10:226-236. [PMID: 31863692 DOI: 10.1515/bmc-2019-0024] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2019] [Accepted: 11/14/2019] [Indexed: 12/16/2022] Open
Abstract
Objectives A cluster of specialized KIR genes of specialized KIR genes has been shown to be associated with susceptibility or resistance to viral infections in humans. Therefore, this pilot study, this pilot investigation sought to determine the frequencies of KIR genes human immunodeficiency virus type 1( HIV-1) patients and establish their potential clinical involvement in disease progression and staging. Methods HIV-1 infected and healthy individuals were selected for this study. Hepatitis B surface antigen (HBsAg), anti-HCV antibodies and anti-HIV-1/2 antibody/ antigen were screened using a 4th generation ELISA assay (Cobas e 411 Analyzer, Roche Diagnostics GmbH Mannheim, Germany). SSP-PCR was used to evaluate the frequencies of KIR genes. CD4+ T counts and HIV-1 viral load were measured in patients using respectively BD FACSCount and Abbott m2000rt instruments. Results We found a significant association between the frequencies of KIR2DL2 (OR=4.41; p < 0.001), KIR2DS2 (OR=4.76; p < 0.001), KIR2DS3 (OR=2.27; p=0.004), KIR2DS4 (OR=1.76; p=0.026), KIR3DS1 (OR=2.43; p=0.016) and HIV-1 infection; whilst the KIR3DL1 gene (OR= 0.39; p < 0.001) was associated with protection against HIV-1 infection. HIV-1 replication was found to be associated with the presence of KIR2DS2 (OR=6.08, p = 0.024). In contrary the pseudogene KIR2DP1 (OR=0.39; p=0.026) were linked to a protective status with the highest number of lymphocyte T CD4 counts. Conclusion Our data showed that KIR2DL2, KIR2DS2, KIR2DS3, KIR2DS4, and KIR3DS1 were significantly associated with HIV-1 infection whereas KIR3DL1 was associated with protection against HIV-1 infection. Further investigations are needed to fully comprehend the clinical significance of KIR genes in HIV disease progression.
Collapse
Affiliation(s)
- Pegdwendé Abel Sorgho
- Laboratory of Molecular Biology and Genetics (LABIOGENE), University Joseph Ki-Zerbo, Ouagadougou, Burkina Faso.,Pietro Annigoni Biomolecular Research Center (CERBA), Ouagadougou, Burkina Faso
| | - Florencia Wendkuuni Djigma
- Laboratory of Molecular Biology and Genetics (LABIOGENE), University Joseph Ki-Zerbo, Ouagadougou, Burkina Faso.,Pietro Annigoni Biomolecular Research Center (CERBA), Ouagadougou, Burkina Faso
| | - Jeremy James Martinson
- Laboratory of Infectious Diseases/ Microbiology, University of Pittsburgh, Pittsburgh, USA
| | - Albert Théophane Yonli
- Laboratory of Molecular Biology and Genetics (LABIOGENE), University Joseph Ki-Zerbo, Ouagadougou, Burkina Faso.,Pietro Annigoni Biomolecular Research Center (CERBA), Ouagadougou, Burkina Faso
| | - Bolni Marius Nagalo
- Division of Hematology & Oncology, Mayo Clinic, Arizona, Scottsdale Arizona, USA
| | - Tégwindé Rebeca Compaore
- Laboratory of Molecular Biology and Genetics (LABIOGENE), University Joseph Ki-Zerbo, Ouagadougou, Burkina Faso.,Institut de Recherche en Sciences de la Sante, IRSS, Ouagadougou, Burkina Faso
| | - Birama Diarra
- Laboratory of Molecular Biology and Genetics (LABIOGENE), University Joseph Ki-Zerbo, Ouagadougou, Burkina Faso
| | - Herman Karim Sombie
- Laboratory of Molecular Biology and Genetics (LABIOGENE), University Joseph Ki-Zerbo, Ouagadougou, Burkina Faso.,Pietro Annigoni Biomolecular Research Center (CERBA), Ouagadougou, Burkina Faso
| | - Abibou Simpore
- Laboratory of Molecular Biology and Genetics (LABIOGENE), University Joseph Ki-Zerbo, Ouagadougou, Burkina Faso
| | - Arsène Wendpagnangdé Zongo
- Laboratory of Molecular Biology and Genetics (LABIOGENE), University Joseph Ki-Zerbo, Ouagadougou, Burkina Faso
| | - Abdoul Karim Ouattara
- Laboratory of Molecular Biology and Genetics (LABIOGENE), University Joseph Ki-Zerbo, Ouagadougou, Burkina Faso
| | - Serge Théophile R Soubeiga
- Laboratory of Molecular Biology and Genetics (LABIOGENE), University Joseph Ki-Zerbo, Ouagadougou, Burkina Faso.,Pietro Annigoni Biomolecular Research Center (CERBA), Ouagadougou, Burkina Faso
| | - Lassina Traore
- Laboratory of Molecular Biology and Genetics (LABIOGENE), University Joseph Ki-Zerbo, Ouagadougou, Burkina Faso
| | - Edwige T Yelemkoure
- Laboratory of Molecular Biology and Genetics (LABIOGENE), University Joseph Ki-Zerbo, Ouagadougou, Burkina Faso.,Pietro Annigoni Biomolecular Research Center (CERBA), Ouagadougou, Burkina Faso
| | - Isabelle Touwendpoulimdé Kiendrebeogo
- Laboratory of Molecular Biology and Genetics (LABIOGENE), University Joseph Ki-Zerbo, Ouagadougou, Burkina Faso.,Pietro Annigoni Biomolecular Research Center (CERBA), Ouagadougou, Burkina Faso
| | - Lewis R Roberts
- Division of Gastroenterology and Hepatology, Mayo Clinic, Rochester, Minnesota,USA
| | - Jacques Simpore
- Laboratory of Molecular Biology and Genetics (LABIOGENE), University Joseph Ki-Zerbo, Ouagadougou, Burkina Faso
| |
Collapse
|
10
|
Amorim LM, Santos THS, Hollenbach JA, Norman PJ, Marin WM, Dandekar R, Ribeiro EMSF, Petzl-Erler ML, Augusto DG. Cost-effective and fast KIR gene-content genotyping by multiplex melting curve analysis. HLA 2019; 92:384-391. [PMID: 30468002 DOI: 10.1111/tan.13430] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2018] [Revised: 11/05/2018] [Accepted: 11/20/2018] [Indexed: 12/14/2022]
Abstract
Killer cell immunoglobulin-like receptor (KIR) genes encode cell surface molecules that recognize HLA molecules and modulate the activity of natural killer (NK) cells. KIR genes exhibit presence and absence polymorphism, which generates a variety of gene-content haplotypes in worldwide populations. KIR gene-content variation is implicated in many diseases and is also important for placentation and transplantation. Because of the complexity of KIR polymorphism, variation in this family is still mostly studied at the gene-content level, even with the advent of next-generation sequencing (NGS) methods. Gene-content determination is generally expensive and/or time-consuming. To overcome these difficulties, we developed a method based on multiplex polymerase chain reaction with specific sequence primers (PCR-SSP) followed by melting curve analysis that allows cost-effective, precise and fast generation of results. Our method was 100% concordant with a gel-based method and 99.9% concordant with presence and absence determination by NGS. The limit of detection for accurate typing was 30 ng of DNA (0.42 μM) with 260/230 and 260/280 ratios as low as 0.19 and of 0.44. In addition, we developed a user-friendly Java-based computational application called killerPeak that interprets the raw data generated by Viia7 or QuantStudio 7 quantitative PCR machines and reliably exports the final genotyping results in spreadsheet file format. The combination of a reliable method that requires low amount of DNA with an automated interpretation of results allows scaling the KIR genotyping in large cohorts with reduced turnaround time.
Collapse
Affiliation(s)
- Leonardo M Amorim
- Laboratório de Genética Molecular Humana, Universidade Federal do Paraná, Curitiba, Brazil
| | - Tiago H S Santos
- Laboratório de Genética Molecular Humana, Universidade Federal do Paraná, Curitiba, Brazil
| | - Jill A Hollenbach
- Department of Neurology, University of California San Francisco, San Francisco, California
| | - Paul J Norman
- Division of Biomedical Informatics and Personalized Medicine, and Department of Immunology, University of Colorado, Denver
| | - Wesley M Marin
- Department of Neurology, University of California San Francisco, San Francisco, California
| | - Ravi Dandekar
- Department of Neurology, University of California San Francisco, San Francisco, California
| | - Enilze M S F Ribeiro
- Laboratório de Citogenética Humana e Oncogenética, Universidade Federal do Paraná, Curitiba, Brazil
| | - Maria L Petzl-Erler
- Laboratório de Genética Molecular Humana, Universidade Federal do Paraná, Curitiba, Brazil
| | - Danillo G Augusto
- Laboratório de Genética Molecular Humana, Universidade Federal do Paraná, Curitiba, Brazil.,Department of Neurology, University of California San Francisco, San Francisco, California.,Setor de Ciências Biológicas, Universidade Estadual de Santa Cruz, Ilhéus, Brazil
| |
Collapse
|
11
|
Li Y, Liu S, Hong C, Ma Q, Tan F, Liu C, Kuśnierczyk P, Li C, Shi L, Yao Y. The association of HLA/KIR genes with non-small cell lung cancer (adenocarcinoma) in a Han Chinese population. J Cancer 2019; 10:4731-4738. [PMID: 31598144 PMCID: PMC6775512 DOI: 10.7150/jca.33566] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2019] [Accepted: 06/26/2019] [Indexed: 01/29/2023] Open
Abstract
The host immune system plays a crucial role in the surveillance, recognition and elimination of tumor cells. Recent studies found that Human lymphocyte antigen class I (HLA I) genes, Killer cell immunoglobulin-like receptor (KIR) genes and HLA/KIR combinations play a role in the defense against tumor cells. To evaluated the associations between HLA I genes, KIR genes and HLA/KIR combinations and non-small cell lung cancer (NSCLC) in a Chinese Han population, a total of 229 patients with NSCLC (adenocarcinoma) and 217 healthy individuals were studied. Our results showed that the HLA-C*08:01 allele occurred at a significantly higher frequency in the NSCLCs compared with the controls (P=0.034). The HLA haplotype frequencies bearing HLA-A, -B, and -C loci between the NSCLC and control groups were not different (P>0.05). And there were no differences in the KIR gene, genotype and haplotype frequencies between the NSCLC and control groups (P>0.05). Also, there were no differences between the HLA/KIR combinations in the KIR3D genes and HLA-A3/A11, HLA-Bw4 ligands and KIR2D genes and HLA-C1/C2 ligands between the NSCLC and control groups (P>0.05). Our results indicate that the HLA-C*08:01 allele could be a risk factor for NSCLC (adenocarcinoma) in the Chinese Han population (OR=2.395; 95% CI: 1.359-4.221).
Collapse
Affiliation(s)
- Yingfu Li
- Department of Geriatrics, The No.1 Affiliated Hospital of Kunming Medical University, Kunming 650032, China
| | - Shuyuan Liu
- Institute of Medical Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Kunming 650118, China
| | - Chao Hong
- Institute of Medical Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Kunming 650118, China
| | - Qianli Ma
- Department of Thoracic Surgery, The No.3 Affiliated Hospital of Kunming Medical University, Kunming 650118, China
| | - Fang Tan
- Department of Geriatrics, The No.1 Affiliated Hospital of Kunming Medical University, Kunming 650032, China
| | - Chengxiu Liu
- Institute of Medical Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Kunming 650118, China
| | - Piotr Kuśnierczyk
- Laboratory of Immunogenetics and Tissue Immunology, Ludwik Hirszfeld Institute of Immunology and Experimental Therapy, Polish Academy of Sciences, Wrocław, Poland
| | - Chuanyin Li
- Institute of Medical Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Kunming 650118, China
| | - Li Shi
- Institute of Medical Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Kunming 650118, China
| | - Yufeng Yao
- Institute of Medical Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Kunming 650118, China
| |
Collapse
|
12
|
Abstract
Cluster of differentiation 8 (CD8) is a cell surface glycoprotein, which is expressed as 2 forms, αα homodimer or αβ heterodimer. Peptide-loaded major histocompatibility complex class I (pMHC-I) molecules are major ligands for both forms of CD8. CD8αβ is a coreceptor for the T cell receptor (TCR) and binds to the same cognate pMHC-I as the TCR, thus enabling or augmenting T cell responses. The function of CD8αα homodimers is largely unknown. While CD8αβ heterodimer is expressed exclusively on CD8+ T cells, the CD8αα homodimer is present in subsets of T cells and human natural killer (NK) cells. Here, we report that the CD8αα homodimer functions as a coreceptor for KIR3DL1, an inhibitory receptor of NK cells that is specific for certain MHC-I allotypes. CD8αα enhances binding of pMHC-I to KIR3DL1, increases KIR3DL1 clustering at the immunological synapse, and augments KIR3DL1-mediated inhibition of NK cell activation. Additionally, interactions between pMHC-I and CD8αα homodimers regulate KIR3DL1+ NK cell education. Together, these findings reveal another dimension to the modulation of NK cell activity.
Collapse
|
13
|
Augusto DG, Norman PJ, Dandekar R, Hollenbach JA. Fluctuating and Geographically Specific Selection Characterize Rapid Evolution of the Human KIR Region. Front Immunol 2019; 10:989. [PMID: 31156615 PMCID: PMC6533848 DOI: 10.3389/fimmu.2019.00989] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2019] [Accepted: 04/16/2019] [Indexed: 01/04/2023] Open
Abstract
The killer-cell immunoglobulin-like receptor (KIR) region comprises a fast-evolving family of genes that encode receptors for natural killer (NK) cells and have crucial role in host defense. Evolution of KIR was examined in the context of the human genome. Gene-content diversity and single nucleotide polymorphisms (SNP) in the KIR genes and flanking regions were compared to >660,000 genome-wide SNPs in over 800 individuals from 52 populations of the human genome diversity panel (HGDP). KIR allelic diversity was further examined using next generation sequencing in a subset of 56 individuals. We identified the SNP rs587560 located in KIR3DL3 as a marker of KIR2DL2 and KIR2DL3 and, consequently, Cen A and Cen B haplotypes. We also show that combinations of two KIR2DL4 SNPs (rs35656676 and rs592645) distinguish KIR3DL1 from KIR3DS1 and also define the major KIR3DL1 high- and low-expressing alleles lineages. Comparing the diversity of the SNPs within the KIR region to remainder of the genome, we observed a high diversity for the centromeric KIR region consistent with balancing selection (p < 0.01); in contrast, centromeric KIR diversity is significantly reduced in East Asian populations (p < 0.01), indicating purifying selection. By analyzing SNP haplotypes in a region spanning ~500 kb that includes the KIR cluster, we observed evidence of strong positive selection in Africa for high-expressing KIR3DL1 alleles, favored over the low-expressing alleles (p < 0.01). In sharp contrast, the strong positive selection (p < 0.01) that we also observed in the telomeric KIR region in Oceanic populations tracked with a high frequency of KIR3DS1. In addition, we demonstrated that worldwide frequency of high-expression KIR3DL1 alleles was correlated with virus with virus (r = 0.64, p < 10−6) and protozoa (r = 0.69, p < 10−6) loads, which points to selection globally on KIR3DL1 high-expressing alleles attributable to pathogen exposure.
Collapse
Affiliation(s)
- Danillo G Augusto
- Department of Neurology, University of California, San Francisco, San Francisco, CA, United States
| | - Paul J Norman
- Division of Biomedical Informatics and Personalized Medicine, Department of Immunology, University of Colorado, Denver, CO, United States
| | - Ravi Dandekar
- Department of Neurology, University of California, San Francisco, San Francisco, CA, United States
| | - Jill A Hollenbach
- Department of Neurology, University of California, San Francisco, San Francisco, CA, United States
| |
Collapse
|
14
|
Li Q, Liu S, Zhang S, Liu C, Sun M, Li C, Zhang X, Chen J, Yao Y, Shi L. Human leucocyte antigen but not KIR alleles and haplotypes associated with chronic HCV infection in a Chinese Han population. Int J Immunogenet 2019; 46:263-273. [PMID: 30932338 DOI: 10.1111/iji.12425] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2018] [Revised: 02/28/2019] [Accepted: 03/07/2019] [Indexed: 12/12/2022]
Abstract
The host immune system plays a key role in the elimination of infected cells which depend on killer-cell immunoglobulin-like receptors (KIR), human leucocyte antigen (HLA) class I molecules and their combinations. To evaluate the roles of HLAclass I, KIR genes and their combination in Chronic hepatitis C virus (HCV) infection (CHC), a total of 301 CHCs and 239 controls in a Chinese Han population were included for HLA and KIR genotyping using next-generation sequencing and multiplex PCR sequence-specific priming, respectively. The allele frequency of HLA-C*08:01 was significantly higher in the CHCs than that of the controls (0.088 vs. 0.040, OR = 2.332, 95%CI: 1.361-3.996, p = 0.022), while the frequencies of B*13:01 (0.032 vs. 0.084, OR = 0.357, 95%CI: 0.204-0.625, p = 0.009) and C*08:04 (0.008 vs. 0.038, OR = 0.214, 95%CI: 0.079-0.581, p = 0.022) were significantly lower in the CHCs. The frequencies of haplotype A*11:01-C*08:01 were higher in the CHCs (0.058 vs. 0.019, OR = 3.096, 95%CI: 1.486-6.452, p = 0.026), while haplotype B*13:01-C*03:04 were lower in the CHCs compared to the controls (0.028 vs. 0.071, OR = 0.377, 95%CI: 0.207-0.685, p = 0.012). No association of CHC with KIR genes, genotypes, or haplotypes, as well as HLA/KIR combinations was observed. Our results indicated that HLA-C*08:01 was a risk factor for CHC, while HLA-C*08:04 and HLA-B*13:01 were protective factors against CHC. Haplotypes HLA-A*11:01-C*08:01 could increase susceptibility to CHC, while HLA-B*13:01-C*03:04 could be protective against CHC in the Chinese Han population.
Collapse
Affiliation(s)
- Qiongfen Li
- Division for Expended Program of Immunization of Yunnan Center for Disease Control and Prevention, Kunming, China
| | - Shuyuan Liu
- Institute of Medical Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Yunnan Key Laboratory of Vaccine Research & Development on Severe Infectious Disease, Kunming, China
| | | | - Chengxiu Liu
- Institute of Medical Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Yunnan Key Laboratory of Vaccine Research & Development on Severe Infectious Disease, Kunming, China
| | - Mingbo Sun
- Institute of Medical Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Yunnan Key Laboratory of Vaccine Research & Development on Severe Infectious Disease, Kunming, China
| | - Chuanyin Li
- Institute of Medical Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Yunnan Key Laboratory of Vaccine Research & Development on Severe Infectious Disease, Kunming, China
| | - Xinwen Zhang
- Institute of Medical Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Yunnan Key Laboratory of Vaccine Research & Development on Severe Infectious Disease, Kunming, China
| | - Jun Chen
- Institute of Medical Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Yunnan Key Laboratory of Vaccine Research & Development on Severe Infectious Disease, Kunming, China
| | - Yufeng Yao
- Institute of Medical Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Yunnan Key Laboratory of Vaccine Research & Development on Severe Infectious Disease, Kunming, China
| | - Li Shi
- Institute of Medical Biology, Chinese Academy of Medical Sciences & Peking Union Medical College, Yunnan Key Laboratory of Vaccine Research & Development on Severe Infectious Disease, Kunming, China
| |
Collapse
|
15
|
Lisovsky I, Kant S, Tremblay-McLean A, Isitman G, Kiani Z, Dupuy FP, Gilbert L, Bruneau J, Shoukry NH, Lebouché B, Bernard NF. Differential contribution of education through KIR2DL1, KIR2DL3, and KIR3DL1 to antibody-dependent (AD) NK cell activation and ADCC. J Leukoc Biol 2019; 105:551-563. [PMID: 30698860 PMCID: PMC6916277 DOI: 10.1002/jlb.4a0617-242rrr] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2018] [Revised: 12/07/2018] [Accepted: 12/09/2018] [Indexed: 11/11/2022] Open
Abstract
The engagement of activating NK receptors (aNKR) stimulates NK cell activity, provided that interactions between inhibitory NK receptors (iNKR) with their HLA ligands do not override them. Abs bound to target cells can also activate NK cells by engaging the CD16 aNKR. NK cell education status is an important factor for Ab‐dependent NK cell activation (ADNKA) of some NK cell subsets. However, whether NK cell education also influences Ab‐dependent cellular cytotoxicity (ADCC) levels is not fully known. ADCC‐GranToxiLux (GTL) assays measured ADCC activity as the frequency of granzyme B positive (%GzB+) target cells. Target cells were anti‐HIV Immunoglobulin G (HIVIG)‐opsonized CEM‐NKr.CCR5 (CEM) cells. Lymphocytes and sorted single positive (SP) NKG2A+, KIR2DL1+, KIR2DL3+, and KIR3DL1+ NK cells, to self‐ and nonself HLA, were used as effectors in ADCC‐GTL assays to examine how education status influenced ADCC activity. ADNKA activity was assessed by stimulating lymphocytes with HIVIG‐opsonized CEMs and measuring the frequency of NK cell populations defined by their expression of iNKRs, along with IFN‐γ, CCL4, and CD107a functions. ADCC: the %GzB+ CEM cells generated by self‐ versus nonself HLA‐specific SPiNKR did not differ. ADNKA: More NK cells educated through KIR2DL1 and KIR3DL1, but not KIR2DL3, responded to ADNKA than their uneducated counterparts. CD16 engagement induced ADCC and ADNKA activity. With the proviso that groups’ sizes were small, our results support the notion that NK cell education does not influence ADCC levels but does contribute to ADNKA activity.
Collapse
Affiliation(s)
- Irene Lisovsky
- Research Institute of the McGill University Health Center (RI-MUHC), Montreal, Quebec, Canada.,Division of Experimental Medicine, McGill University, Montreal, Quebec, Canada
| | - Sanket Kant
- Research Institute of the McGill University Health Center (RI-MUHC), Montreal, Quebec, Canada.,Division of Experimental Medicine, McGill University, Montreal, Quebec, Canada
| | - Alexandra Tremblay-McLean
- Research Institute of the McGill University Health Center (RI-MUHC), Montreal, Quebec, Canada.,Division of Experimental Medicine, McGill University, Montreal, Quebec, Canada
| | - Gamze Isitman
- Research Institute of the McGill University Health Center (RI-MUHC), Montreal, Quebec, Canada.,Division of Experimental Medicine, McGill University, Montreal, Quebec, Canada
| | - Zahra Kiani
- Research Institute of the McGill University Health Center (RI-MUHC), Montreal, Quebec, Canada.,Division of Experimental Medicine, McGill University, Montreal, Quebec, Canada
| | - Franck P Dupuy
- Research Institute of the McGill University Health Center (RI-MUHC), Montreal, Quebec, Canada
| | - Louise Gilbert
- Research Institute of the McGill University Health Center (RI-MUHC), Montreal, Quebec, Canada
| | - Julie Bruneau
- Centre de Recherche du Centre Hospitalier de l'Université de Montréal (CRCHUM), Montreal, Quebec, Canada.,Department of Family and Emergency Medicine, Université de Montréal, Montreal, Quebec, Canada
| | - Naglaa H Shoukry
- Centre de Recherche du Centre Hospitalier de l'Université de Montréal (CRCHUM), Montreal, Quebec, Canada
| | - Bertrand Lebouché
- Research Institute of the McGill University Health Center (RI-MUHC), Montreal, Quebec, Canada.,Department of Family Medicine, McGill University, Montréal, Québec, Canada.,Chronic Viral Illness Service, McGill University Health Centre, Montreal, Quebec, Canada
| | - Nicole F Bernard
- Research Institute of the McGill University Health Center (RI-MUHC), Montreal, Quebec, Canada.,Division of Experimental Medicine, McGill University, Montreal, Quebec, Canada.,Chronic Viral Illness Service, McGill University Health Centre, Montreal, Quebec, Canada.,Division of Clinical Immunology, McGill University Health Centre, Montreal, Quebec, Canada
| |
Collapse
|
16
|
Closa L, Vidal F, Herrero MJ, Caro JL. Design and Validation of a Multiplex KIR and HLA Class I Genotyping Method Using Next Generation Sequencing. Front Immunol 2018; 9:2991. [PMID: 30619344 PMCID: PMC6305729 DOI: 10.3389/fimmu.2018.02991] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2018] [Accepted: 12/04/2018] [Indexed: 01/07/2023] Open
Abstract
Killer cell immunoglobulin-like receptors (KIR), considered the most polymorphic natural killer (NK) cell regulators, bind HLA class-I molecules or still unknown ligands. Interest in KIR genotyping is increasing because of the importance of these receptors for identifying the best possible donor in hematopoietic stem cell transplantation to obtain a graft-versus-leukemia effect. Currently, routine protocols to determine the gene content of the KIR cluster are exclusively performed by PCR-SSO and PCR-SSP. To improve the study of these genes, we developed a multiplex, long-range PCR strategy suitable for simultaneous, high-resolution HLA class I and KIR genotyping by next generation sequencing (NGS). This protocol allows amplification of the 14 KIR genes, 2 KIR pseudogenes, and HLA class I genes, with subsequent sequencing on an Illumina platform. The bioinformatics analysis for KIR genotyping was performed by virtual hybridization of gene-specific probes, and HLA genotyping was done by GenDx NGSengine software. To validate the method reliability, 192 genomic DNA samples previously characterized by PCR-SSO were used. When a specific KIR gene was present, a large number of gene-specific virtual probes were detected, whereas when it was absent, very few or none were found, enabling cutoff establishment. Concordance for both the KIR and HLA assignments as compared with the previous characterization was 100%. In conclusion, the multiplex PCR NGS-based strategy presented could provide an efficient, less costly method for KIR-ligand genotyping by gene presence/absence. Furthermore, allele resolution will be possible when KIR-specific software becomes available.
Collapse
Affiliation(s)
- Laia Closa
- Histocompatibility and Immunogenetics Laboratory, Blood and Tissue Bank, Barcelona, Spain.,Transfusional Medicine Group, Vall d'Hebron Research Institute, Barcelona, Spain
| | - Francisco Vidal
- Transfusional Medicine Group, Vall d'Hebron Research Institute, Barcelona, Spain.,Congenital Coagulopathy Laboratory, Blood and Tissue Bank, Barcelona, Spain.,CIBER of Cardiovascular Diseases, Madrid, Spain
| | - Maria J Herrero
- Histocompatibility and Immunogenetics Laboratory, Blood and Tissue Bank, Barcelona, Spain
| | - Jose L Caro
- Histocompatibility and Immunogenetics Laboratory, Blood and Tissue Bank, Barcelona, Spain.,Transfusional Medicine Group, Vall d'Hebron Research Institute, Barcelona, Spain
| |
Collapse
|
17
|
Insights into the Interplay between KIR Gene Frequencies and Chronic HBV Infection in Burkina Faso. Mediterr J Hematol Infect Dis 2018; 10:e2018060. [PMID: 30416692 PMCID: PMC6223576 DOI: 10.4084/mjhid.2018.060] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2018] [Accepted: 10/01/2018] [Indexed: 12/13/2022] Open
Abstract
Background/Objective Hepatitis B virus (HBV) infection is the leading risk factor for cirrhosis and hepatocellular carcinoma (HCC). The objective of this investigation was to assess the association between “Killer Cell Immunoglobulin-Like Receptor” (KIR) gene frequencies and chronic HBV infection. Methods Chronic HBV carriers and healthy patients were selected for this study. The viral load for HBV were performed, and SSP-PCR was used to characterize the frequencies of KIR genes. Results The study suggested that inhibitory genes KIR2DL2 (crude OR = 2.82; p < 0.001), KIR2DL3 (crude OR = 2.49; p < 0.001) and activator gene KIR2DS2 (crude OR = 3.95; p< 0.001) might be associated with chronic stages of HBV infection. Conversely the inhibitory genes KIR3DL1 (crude OR = 0.49; p = 0.0018) and KIR3DL2 (crude OR = 0.41; p = 0.005), the activator gene KIR2DS1 (crude OR = 0.48; p = 0.014) and the pseudo gene KIR2DP1 (crude OR = 0.49; p = 0.008) could be associated with immunity against HBV infection. Chronic HBV patients who are carriers for the KIR3DL3 gene (crude OR = 8; p = 0.048) were positive for HBeAg and patients who carried the KIR3DL2 gene (crude OR = 3.21; p = 0.012) had a high HBV viral load compared to the rest of the study population. Conclusion Our data showed evidence of a correlation between the risk of developing chronic HBV infection and certain KIR gene frequencies and also show that KIR3DL1, KIR3DL2, KIR2DS1 might confer a protective status against chronic HBV infection.
Collapse
|
18
|
Amorim LM, van Tong H, Hoan NX, Vargas LDB, Ribeiro EMDSF, Petzl-Erler ML, Boldt ABW, Toan NL, Song LH, Velavan TP, Augusto DG. KIR-HLA distribution in a Vietnamese population from Hanoi. Hum Immunol 2017; 79:93-100. [PMID: 29191786 DOI: 10.1016/j.humimm.2017.11.011] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/01/2017] [Revised: 11/14/2017] [Accepted: 11/24/2017] [Indexed: 12/22/2022]
Abstract
The KIR (killer cell immunoglobulin-like receptors) gene family codifies a group of receptors that recognize human leukocyte antigens (HLA) and modulate natural killer (NK) cells response. Genetic diversity of KIR genes and HLA ligands has not yet been deeply investigated in South East Asia. Here, we characterized KIR gene presence and absence polymorphism of 14 KIR genes and two pseudogenes, as well as the frequencies of the ligands HLA-Bw4, HLA-C1 and HLA-C2 in a Vietnamese population from Hanoi (n = 140). Genotyping was performed by polymerase chain reaction with specific sequence primers (PCR-SSP). We compared KIR frequencies and performed principal component analysis with 43 worldwide populations of different ancestries. KIR carrier frequencies in Vietnamese were similar to those reported for Thai and Chinese Han, but differed significantly from other geographically close populations such as Japanese and South Korean. This similarity was also observed in KIR gene-content genotypes and is in accordance with the origin from Southern China and Thailand proposed for the Vietnamese population. The frequencies of HLA ligands observed in Vietnamese did not differ from those reported for other East-Asian populations (p > .05). Studies regarding KIR-HLA in populations are of prime importance to understand their evolution, function and role in diseases.
Collapse
Affiliation(s)
| | - Hoang van Tong
- Institute of Tropical Medicine, University of Tübingen, Tübingen, Germany; Department of Pathophysiology, Vietnam Military Medical University, Hanoi, Viet Nam; Vietnamese - German Center for Excellence in Medical Research, Hanoi, Viet Nam
| | - Nghiem Xuan Hoan
- Institute of Tropical Medicine, University of Tübingen, Tübingen, Germany; Vietnamese - German Center for Excellence in Medical Research, Hanoi, Viet Nam; Institute of Clinical Infectious Diseases, 108 Military Central Hospital, Hanoi, Viet Nam
| | | | | | | | - Angelica B W Boldt
- Laboratório de Genética Molecular Humana, Universidade Federal do Paraná, Curitiba, Brazil
| | - Nguyen Linh Toan
- Department of Pathophysiology, Vietnam Military Medical University, Hanoi, Viet Nam; Vietnamese - German Center for Excellence in Medical Research, Hanoi, Viet Nam
| | - Le Huu Song
- Vietnamese - German Center for Excellence in Medical Research, Hanoi, Viet Nam; Institute of Clinical Infectious Diseases, 108 Military Central Hospital, Hanoi, Viet Nam
| | - Thirumalaisamy P Velavan
- Institute of Tropical Medicine, University of Tübingen, Tübingen, Germany; Department of Pathophysiology, Vietnam Military Medical University, Hanoi, Viet Nam; Vietnamese - German Center for Excellence in Medical Research, Hanoi, Viet Nam.
| | - Danillo G Augusto
- Laboratório de Genética Molecular Humana, Universidade Federal do Paraná, Curitiba, Brazil; Departamento de Ciências Biológicas, Universidade Estadual de Santa Cruz, Ilhéus, Brazil.
| |
Collapse
|
19
|
Jackson E, Zhang CX, Kiani Z, Lisovsky I, Tallon B, Del Corpo A, Gilbert L, Bruneau J, Thomas R, Côté P, Trottier B, LeBlanc R, Rouleau D, Tremblay C, Tsoukas CM, Routy JP, Ni X, Mabanga T, Bernard NF. HIV exposed seronegative (HESN) compared to HIV infected individuals have higher frequencies of telomeric Killer Immunoglobulin-like Receptor (KIR) B motifs; Contribution of KIR B motif encoded genes to NK cell responsiveness. PLoS One 2017; 12:e0185160. [PMID: 28938026 PMCID: PMC5609756 DOI: 10.1371/journal.pone.0185160] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2017] [Accepted: 09/07/2017] [Indexed: 11/18/2022] Open
Abstract
Previously, we showed that Killer Immunoglobulin-like Receptor (KIR)3DS1 homozygotes (hmz) are more frequent in HIV exposed seronegative (HESN) than in recently HIV infected (HIV+) individuals. KIR3DS1 encodes an activating Natural Killer (NK) cell receptor (NKR). The link between KIR genotype and HIV outcomes likely arises from the function that NK cells acquire through expression of particular NKRs. An initial screen of 97 HESN and 123 HIV+ subjects for the frequency of KIR region gene carriage observed between-group differences for several telomeric KIR region loci. In a larger set of up to 106 HESN and 439 HIV+ individuals, more HESN than HIV+ subjects were KIR3DS1 homozygotes, lacked a full length KIR2DS4 gene and carried the telomeric group B KIR haplotype motif, TB01. TB01 is characterized by the presence of KIR3DS1, KIR2DL5A, KIR2DS3/5 and KIR2DS1, in linkage disequilibrium with each other. We assessed which of the TB01 encoded KIR gene products contributed to NK cell responsiveness by stimulating NK cells from 8 HIV seronegative KIR3DS1 and TB01 motif homozygotes with 721.221 HLA null cells and evaluating the frequency of KIR3DS1+/-KIR2DL5+/-, KIR3DS1+/-KIR2DS1+/-, KIR3DS1+/-KIR2DS5+/- NK cells secreting IFN-γ and/or expressing CD107a. A higher frequency of NK cells expressing, versus not, KIR3DS1 responded to 721.221 stimulation. KIR2DL5A+, KIR2DS1+ and KIR2DS5+ NK cells did not contribute to 721.221 responses or modulate those by KIR3DS1+ NK cells. Thus, of the TB01 KIR gene products, only KIR3DS1 conferred responsiveness to HLA-null stimulation, demonstrating its ligation can activate ex vivo NK cells
Collapse
Affiliation(s)
- Elise Jackson
- Research Institute of the McGill University Health Center (RI-MUHC), Montreal, Quebec, Canada
- Department of Microbiology and Immunology, McGill University, Montreal, Quebec, Canada
| | - Cindy Xinyu Zhang
- Research Institute of the McGill University Health Center (RI-MUHC), Montreal, Quebec, Canada
- Department of Microbiology and Immunology, McGill University, Montreal, Quebec, Canada
| | - Zahra Kiani
- Research Institute of the McGill University Health Center (RI-MUHC), Montreal, Quebec, Canada
- Division of Experimental Medicine, McGill University, Montreal, Quebec, Canada
| | - Irene Lisovsky
- Research Institute of the McGill University Health Center (RI-MUHC), Montreal, Quebec, Canada
- Division of Experimental Medicine, McGill University, Montreal, Quebec, Canada
| | - Benjamin Tallon
- Research Institute of the McGill University Health Center (RI-MUHC), Montreal, Quebec, Canada
- Division of Experimental Medicine, McGill University, Montreal, Quebec, Canada
| | - Alexa Del Corpo
- Research Institute of the McGill University Health Center (RI-MUHC), Montreal, Quebec, Canada
| | - Louise Gilbert
- Research Institute of the McGill University Health Center (RI-MUHC), Montreal, Quebec, Canada
| | - Julie Bruneau
- Centre de Recherche du Centre Hospitalier de l’Université de Montréal (CR-CHUM), Montreal, Quebec, Canada
- Department of Family Medicine, Université de Montréal, Montreal, Quebec, Canada
| | - Réjean Thomas
- Clinique Médicale l’Actuel, Montréal, Québec, Canada
- Centre Hospitalier de l’Université de Montréal (CHUM), Montreal, Quebec, Canada
| | - Pierre Côté
- Clinique Médicale du Quartier Latin, Montreal, Quebec, Canada
| | - Benoit Trottier
- Clinique Médicale du Quartier Latin, Montreal, Quebec, Canada
| | | | - Danielle Rouleau
- Département de Microbiologie, Infectiologie et Immunologie, Montreal, Quebec, Canada
| | - Cécile Tremblay
- Centre de Recherche du Centre Hospitalier de l’Université de Montréal (CR-CHUM), Montreal, Quebec, Canada
- Département de Microbiologie, Infectiologie et Immunologie, Montreal, Quebec, Canada
| | - Christos M. Tsoukas
- Research Institute of the McGill University Health Center (RI-MUHC), Montreal, Quebec, Canada
- Division of Experimental Medicine, McGill University, Montreal, Quebec, Canada
- Chronic Viral Illness Service, MUHC, Montreal, Quebec, Canada
- Division of Clinical Immunology, MUHC, Montreal, Quebec, Canada
| | - Jean-Pierre Routy
- Research Institute of the McGill University Health Center (RI-MUHC), Montreal, Quebec, Canada
- Division of Experimental Medicine, McGill University, Montreal, Quebec, Canada
- Chronic Viral Illness Service, MUHC, Montreal, Quebec, Canada
- Division of Hematology, MUHC, Montreal, Quebec, Canada
| | - Xiaoyan Ni
- Research Institute of the McGill University Health Center (RI-MUHC), Montreal, Quebec, Canada
| | - Tsoarello Mabanga
- Research Institute of the McGill University Health Center (RI-MUHC), Montreal, Quebec, Canada
| | - Nicole F. Bernard
- Research Institute of the McGill University Health Center (RI-MUHC), Montreal, Quebec, Canada
- Division of Experimental Medicine, McGill University, Montreal, Quebec, Canada
- Chronic Viral Illness Service, MUHC, Montreal, Quebec, Canada
- Division of Clinical Immunology, MUHC, Montreal, Quebec, Canada
- * E-mail:
| | | |
Collapse
|
20
|
Malnati MS, Ugolotti E, Monti MC, Battista DD, Vanni I, Bordo D, Sironi F, Larghero P, Marco ED, Biswas P, Poli G, Vicenzi E, Riva A, Tarkowski M, Tambussi G, Nozza S, Tripodi G, Marras F, Maria AD, Pistorio A, Biassoni R. Activating Killer Immunoglobulin Receptors and HLA-C: a successful combination providing HIV-1 control. Sci Rep 2017; 7:42470. [PMID: 28211903 PMCID: PMC5304173 DOI: 10.1038/srep42470] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/30/2016] [Accepted: 01/11/2017] [Indexed: 11/29/2022] Open
Abstract
Several studies demonstrated a relevant role of polymorphisms located within the HLA-B and -C loci and the Killer Immunoglobulin Receptors (KIRs) 3DL1 and 3DS1 in controlling HIV-1 replication. KIRs are regulatory receptors expressed at the surface of NK and CD8+ T-cells that specifically bind HLA-A and -B alleles belonging to the Bw4 supratype and all the -C alleles expressing the C1 or C2 supratype. We here disclose a novel signature associated with the Elite Controller but not with the long-term nonprogressor status concerning 2DS activating KIRs and HLA-C2 alleles insensitive to miRNA148a regulation. Overall, our findings support a crucial role of NK cells in the control of HIV-1 viremia.
Collapse
Affiliation(s)
- Mauro S. Malnati
- Unit of Human Virology, Division of Immunology, transplantation and Infectious Diseases IRCCS Ospedale San Raffaele, Milan, Italy
| | | | - Maria Cristina Monti
- Department of Public Health Unit of biostatistics and clinical epidemiology University of Pavia, Pavia Italy
| | - Davide De Battista
- Unit of Human Virology, Division of Immunology, transplantation and Infectious Diseases IRCCS Ospedale San Raffaele, Milan, Italy
| | | | | | - Francesca Sironi
- Unit of Human Virology, Division of Immunology, transplantation and Infectious Diseases IRCCS Ospedale San Raffaele, Milan, Italy
| | | | | | - Priscilla Biswas
- Unit of Human Virology, Division of Immunology, transplantation and Infectious Diseases IRCCS Ospedale San Raffaele, Milan, Italy
| | - Guido Poli
- Vita-Salute San Raffaele University, School of Medicine, Milan, Italy
| | - Elisa Vicenzi
- Unit of Viral Pathogens and Biosafety, Division of Immunology, Transplantation and Infectious Diseases, IRCCS Ospedale San Raffaele, Milan, Italy
| | - Agostino Riva
- Department of Clinical Sciences Chair of Infectious Diseases and Tropical Medicine University of Milan,“L. Sacco” Hospital, Milan, Italy
| | - Maciej Tarkowski
- Department of Clinical Sciences Chair of Infectious Diseases and Tropical Medicine University of Milan,“L. Sacco” Hospital, Milan, Italy
| | - Giuseppe Tambussi
- Department of Infectious Diseases, IRCCS Ospedale San Raffaele, Milan, Italy
| | - Silvia Nozza
- Department of Infectious Diseases, IRCCS Ospedale San Raffaele, Milan, Italy
| | | | | | - Andrea De Maria
- IRCCS AOU San Martino-IST, Genoa, Italy
- Department of Health Science, DISSAL and Center for excellence in Biomedical Research CEBR University of Genoa, Genoa, Italy
| | | | | |
Collapse
|
21
|
Lin Z, Kuroki K, Kuse N, Sun X, Akahoshi T, Qi Y, Chikata T, Naruto T, Koyanagi M, Murakoshi H, Gatanaga H, Oka S, Carrington M, Maenaka K, Takiguchi M. HIV-1 Control by NK Cells via Reduced Interaction between KIR2DL2 and HLA-C ∗12:02/C ∗14:03. Cell Rep 2016; 17:2210-2220. [PMID: 27880898 PMCID: PMC5184766 DOI: 10.1016/j.celrep.2016.10.075] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/04/2016] [Revised: 09/12/2016] [Accepted: 10/20/2016] [Indexed: 11/28/2022] Open
Abstract
Natural killer (NK) cells control viral infection in part through the interaction between killer cell immunoglobulin-like receptors (KIRs) and their human leukocyte antigen (HLA) ligands. We investigated 504 anti-retroviral (ART)-free Japanese patients chronically infected with HIV-1 and identified two KIR/HLA combinations, KIR2DL2/HLA-C∗12:02 and KIR2DL2/HLA-C∗14:03, that impact suppression of HIV-1 replication. KIR2DL2+ NK cells suppressed viral replication in HLA-C∗14:03+ or HLA-C∗12:02+ cells to a significantly greater extent than did KIR2DL2- NK cells in vitro. Functional analysis showed that the binding between HIV-1-derived peptide and HLA-C∗14:03 or HLA-C∗12:02 influenced KIR2DL2+ NK cell activity through reduced expression of the peptide-HLA (pHLA) complex on the cell surface (i.e., reduced KIR2DL2 ligand expression), rather than through reduced binding affinity of KIR2DL2 to the respective pHLA complexes. Thus, KIR2DL2/HLA-C∗12:02 and KIR2DL2/HLA-C∗14:03 compound genotypes have protective effects on control of HIV-1 through a mechanism involving KIR2DL2-mediated NK cell recognition of virus-infected cells, providing additional understanding of NK cells in HIV-1 infection.
Collapse
Affiliation(s)
- Zhansong Lin
- Center for AIDS Research, Kumamoto University, Chuo-ku, Kumamoto 860-0811, Japan
| | - Kimiko Kuroki
- Laboratory of Biomolecular Science, Faculty of Pharmaceutical Sciences, Hokkaido University, Kita-ku, Sapporo 060-0812, Japan
| | - Nozomi Kuse
- Center for AIDS Research, Kumamoto University, Chuo-ku, Kumamoto 860-0811, Japan
| | - Xiaoming Sun
- Center for AIDS Research, Kumamoto University, Chuo-ku, Kumamoto 860-0811, Japan
| | - Tomohiro Akahoshi
- Center for AIDS Research, Kumamoto University, Chuo-ku, Kumamoto 860-0811, Japan
| | - Ying Qi
- Cancer and Inflammation Program, Laboratory of Experimental Immunology, Leidos Biomedical Research, Inc., Frederick National Laboratories for Cancer Research, Frederick, MD 21701, USA
| | - Takayuki Chikata
- Center for AIDS Research, Kumamoto University, Chuo-ku, Kumamoto 860-0811, Japan
| | - Takuya Naruto
- Center for AIDS Research, Kumamoto University, Chuo-ku, Kumamoto 860-0811, Japan
| | - Madoka Koyanagi
- Center for AIDS Research, Kumamoto University, Chuo-ku, Kumamoto 860-0811, Japan
| | - Hayato Murakoshi
- Center for AIDS Research, Kumamoto University, Chuo-ku, Kumamoto 860-0811, Japan
| | - Hiroyuki Gatanaga
- Center for AIDS Research, Kumamoto University, Chuo-ku, Kumamoto 860-0811, Japan; AIDS Clinical Center, National Center for Global Health and Medicine, Shinjuku-ku, Tokyo 162-8655, Japan
| | - Shinichi Oka
- Center for AIDS Research, Kumamoto University, Chuo-ku, Kumamoto 860-0811, Japan; AIDS Clinical Center, National Center for Global Health and Medicine, Shinjuku-ku, Tokyo 162-8655, Japan
| | - Mary Carrington
- Cancer and Inflammation Program, Laboratory of Experimental Immunology, Leidos Biomedical Research, Inc., Frederick National Laboratories for Cancer Research, Frederick, MD 21701, USA; Ragon Institute of MGH, MIT, and Harvard, Cambridge, MA 02139-3583, USA
| | - Katsumi Maenaka
- Laboratory of Biomolecular Science, Faculty of Pharmaceutical Sciences, Hokkaido University, Kita-ku, Sapporo 060-0812, Japan
| | - Masafumi Takiguchi
- Center for AIDS Research, Kumamoto University, Chuo-ku, Kumamoto 860-0811, Japan.
| |
Collapse
|
22
|
Jiang L, Su P, Yang T, Zhu X, Yao F, Che Z, Ma H, Wang J, Chen Q. Diversity of killer cell immunoglobulin-like receptor genes in Drung Chinese. HLA 2016; 89:14-19. [PMID: 27807936 DOI: 10.1111/tan.12923] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2016] [Revised: 09/16/2016] [Accepted: 10/13/2016] [Indexed: 11/30/2022]
Abstract
Killer cell immunoglobulin-like receptor (KIR) genes are variably distributed among populations from distinct geographic areas and ethnic origins. We describe, for the first time, KIR gene diversity in 152 unrelated and healthy Drung individuals, as measured by sequence-specific polymerase chain reaction. All 16 known KIR genes were detected. Of these, the framework genes KIR2DL4, 3DL2, 3DL3, and 3DP1 were present in all individuals as expected, along with the non-framework genes KIR2DL1, 2DL3, and 2DP1. In contrast, KIR2DL2, 2DS2, and 2DS5 were unusually rare, suggesting that KIR gene distribution was relatively concentrated. Ten different KIR genotypes were found, of which the most common consisted of nine genes (KIR2DL1, 2DL3, 2DL4, 2DS4, 3DL1, 3DL2, 3DL3, 2DP1, and 3DP1) and accounted for 66.4% of participants. There were eight different haplotypes present, of which the A haplotype was the most common (81.9%). Principal components and dendrogram analysis confirmed that the Drung Chinese are most closely related to the Japanese, the Zhejiang Han, and the Yunnan Han. In conclusion, distinctive frequencies of KIR genes, haplotypes, and genotypes are observed in Chinese Drung.
Collapse
Affiliation(s)
- L Jiang
- Clinical Transfusion Research Center, Institute of Blood Transfusion, Chinese Academy of Medical Sciences and Peking Union Medical College, Chengdu, China
| | - P Su
- Transfusion Medicine Research Department, Yunnan Kunming Blood Center, Yunnan Kunming, China
| | - T Yang
- Transfusion Medicine Research Department, Yunnan Kunming Blood Center, Yunnan Kunming, China
| | - X Zhu
- Transfusion Medicine Research Department, Yunnan Kunming Blood Center, Yunnan Kunming, China
| | - F Yao
- Transfusion Medicine Research Department, Yunnan Kunming Blood Center, Yunnan Kunming, China
| | - Z Che
- Transfusion Medicine Research Department, Yunnan Kunming Blood Center, Yunnan Kunming, China
| | - H Ma
- Transfusion Medicine Research Department, Yunnan Kunming Blood Center, Yunnan Kunming, China
| | - J Wang
- Clinical Transfusion Research Center, Institute of Blood Transfusion, Chinese Academy of Medical Sciences and Peking Union Medical College, Chengdu, China
| | - Q Chen
- Clinical Transfusion Research Center, Institute of Blood Transfusion, Chinese Academy of Medical Sciences and Peking Union Medical College, Chengdu, China.,HLA Typing Laboratory, Sichuan Cord Blood Bank, Chengdu, China
| |
Collapse
|
23
|
Isitman G, Tremblay-McLean A, Lisovsky I, Bruneau J, Lebouché B, Routy JP, Bernard NF. NK Cells Expressing the Inhibitory Killer Immunoglobulin-Like Receptors (iKIR) KIR2DL1, KIR2DL3 and KIR3DL1 Are Less Likely to Be CD16+ than Their iKIR Negative Counterparts. PLoS One 2016; 11:e0164517. [PMID: 27732638 PMCID: PMC5061331 DOI: 10.1371/journal.pone.0164517] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2016] [Accepted: 09/25/2016] [Indexed: 11/18/2022] Open
Abstract
Natural Killer (NK) cell education, which requires the engagement of inhibitory NK cell receptors (iNKRs) by their ligands, is important for generating self-tolerant functional NK cells. While the potency of NK cell education is directly related to their functional potential upon stimulation with HLA null cells, the influence of NK cell education on the potency of the antibody dependent cellular cytotoxicity (ADCC) function of NK cells is unclear. ADCC occurs when the Fc portion of an immunoglobulin G antibody bridges the CD16 Fc receptor on NK cells and antigen on target cells, resulting in NK cell activation, cytotoxic granule release, and target cell lysis. We previously reported that education via the KIR3DL1/HLA-Bw4 iNKR/HLA ligand combination supported higher KIR3DL1+ than KIR3DL1- NK cell activation levels but had no impact on ADCC potency measured as the frequency of granzyme B positive (%GrB+) targets generated in an ADCC GranToxiLux assay. A lower frequency of KIR3DL1+ compared to KIR3DL1- NK cells were CD16+, which may in part explain the discrepancy between NK cell activation and target cell effects. Here, we investigated the frequency of CD16+ cells among NK cells expressing other iNKRs. We found that CD16+ cells were significantly more frequent among NK cells negative for the inhibitory KIR (iKIR) KIR2DL1, KIR2DL3, and KIR3DL1 than those positive for any one of these iKIR to the exclusion of the others, making iKIR+ NK cells poorer ADCC effectors than iKIR- NK cells. The education status of these iKIR+ populations had no effect on the frequency of CD16+ cells.
Collapse
MESH Headings
- Antibody-Dependent Cell Cytotoxicity
- Cells, Cultured
- GPI-Linked Proteins/analysis
- GPI-Linked Proteins/immunology
- Humans
- Killer Cells, Natural/immunology
- Receptors, IgG/analysis
- Receptors, IgG/immunology
- Receptors, KIR2DL1/analysis
- Receptors, KIR2DL1/immunology
- Receptors, KIR2DL3/analysis
- Receptors, KIR2DL3/immunology
- Receptors, KIR3DL1/analysis
- Receptors, KIR3DL1/immunology
Collapse
Affiliation(s)
- Gamze Isitman
- Research Institute of the McGill University Health Centre (RI-MUHC), Montreal, Quebec, Canada
- Division of Experimental Medicine, McGill University, Montreal, Quebec, Canada
| | - Alexandra Tremblay-McLean
- Research Institute of the McGill University Health Centre (RI-MUHC), Montreal, Quebec, Canada
- Division of Experimental Medicine, McGill University, Montreal, Quebec, Canada
| | - Irene Lisovsky
- Research Institute of the McGill University Health Centre (RI-MUHC), Montreal, Quebec, Canada
- Division of Experimental Medicine, McGill University, Montreal, Quebec, Canada
| | - Julie Bruneau
- Centre de Recherche du Centre Hospitalier de l’Université de Montréal (CRCHUM), Montreal, Quebec, Canada
- Department of Family Medicine, Université de Montréal, Montreal, Quebec, Canada
| | - Bertrand Lebouché
- Research Institute of the McGill University Health Centre (RI-MUHC), Montreal, Quebec, Canada
- Chronic Viral Illness Service, MUHC, Montreal, Quebec, Canada
- Department of Family Medicine, McGill University, Montreal, Quebec, Canada
| | - Jean-Pierre Routy
- Research Institute of the McGill University Health Centre (RI-MUHC), Montreal, Quebec, Canada
- Division of Experimental Medicine, McGill University, Montreal, Quebec, Canada
- Chronic Viral Illness Service, MUHC, Montreal, Quebec, Canada
- Division of Hematology, MUHC, Montreal, QC, Canada
| | - Nicole F. Bernard
- Research Institute of the McGill University Health Centre (RI-MUHC), Montreal, Quebec, Canada
- Division of Experimental Medicine, McGill University, Montreal, Quebec, Canada
- Chronic Viral Illness Service, MUHC, Montreal, Quebec, Canada
- Division of Clinical Immunology, MUHC, Montreal, Quebec, Canada
- * E-mail:
| |
Collapse
|
24
|
Lisovsky I, Isitman G, Tremblay-McLean A, Song R, DaFonseca S, Lebouchẻ B, Routy JP, Bruneau J, Bernard NF. The differential impact of natural killer (NK) cell education via KIR2DL3 and KIR3DL1 on CCL4 secretion in the context of in-vitro HIV infection. Clin Exp Immunol 2016; 186:336-346. [PMID: 27506421 DOI: 10.1111/cei.12849] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 08/02/2016] [Indexed: 11/30/2022] Open
Abstract
Carriage of certain inhibitory natural killer (NK) cell receptor (iNKR)/HLA ligand pairs is associated with protection from infection and slow time to AIDS implicating NK cells in HIV control. NK cells acquire functional potential through education, which requires the engagement of iNKRs by their human leucocyte antigen (HLA) ligands. HIV infection down-regulates cell surface HLA-A/B, but not HLA-C/E. We investigated how NK cell populations expressing combinations of the iNKRs NKG2A, KIR2DL3 (2DL3) and KIR3DL1 (3DL1) responded to autologous HIV infected CD4 (iCD4) cells. Purified NK cells from HIV-uninfected individuals were stimulated with autologous HIV iCD4 or uninfected CD4 T cells. Using flow cytometry we gated on each of the 8 NKG2A+/- 2DL3+/- 3DL1+/- populations and analysed all possible combinations of interferon (IFN)-γ, CCL4 and CD107a functional subsets responding to iCD4 cells. Infected CD4 cells induced differential frequencies of NKG2A+/- 2DL3+/- 3DL1+/- populations with total IFN-γ+ , CCL4+ and CD107a+ functional profiles. 2DL3+ NKG2A+ NK cells had a higher frequency of responses to iCD4 than other populations studied. A higher frequency of 2DL3+ NK cells responded to iCD4 from individuals that were not HLA-C1 homozygotes. These results show that 2DL3+ NK cells are mediators of HIV-specific responses. Furthermore, responses of NK cell populations to iCD4 are influenced not only by NK cell education through specific KIR/HLA pairs, but also by differential HIV-mediated changes in HLA expression.
Collapse
Affiliation(s)
- I Lisovsky
- Research Institute of the McGill University Health Centre (MUHC), Montreal, Quebec, Canada.,Division of Experimental Medicine, McGill University, Montreal, Quebec, Canada
| | - G Isitman
- Research Institute of the McGill University Health Centre (MUHC), Montreal, Quebec, Canada.,Division of Experimental Medicine, McGill University, Montreal, Quebec, Canada
| | - A Tremblay-McLean
- Research Institute of the McGill University Health Centre (MUHC), Montreal, Quebec, Canada.,Division of Experimental Medicine, McGill University, Montreal, Quebec, Canada
| | - R Song
- Research Institute of the McGill University Health Centre (MUHC), Montreal, Quebec, Canada.,Division of Experimental Medicine, McGill University, Montreal, Quebec, Canada
| | - S DaFonseca
- Research Institute of the McGill University Health Centre (MUHC), Montreal, Quebec, Canada
| | - B Lebouchẻ
- Research Institute of the McGill University Health Centre (MUHC), Montreal, Quebec, Canada.,Chronic Viral Illness Service, MUHC, Glen Site, Montreal, Quebec, Canada.,Department of Family Medicine, McGill University, Montreal, Quebec, Canada
| | - J-P Routy
- Division of Experimental Medicine, McGill University, Montreal, Quebec, Canada.,Chronic Viral Illness Service, MUHC, Glen Site, Montreal, Quebec, Canada.,Division of Hematology, MUHC, Glen Site, Montreal, Quebec, Canada
| | - J Bruneau
- Department of Family Medicine, Université de Montréal, Montreal, Quebec, Canada.,Centre de Recherche du Centre Hospitalier de l'Université de Montréal, Montreal, Quebec, Canada
| | - N F Bernard
- Research Institute of the McGill University Health Centre (MUHC), Montreal, Quebec, Canada.,Division of Experimental Medicine, McGill University, Montreal, Quebec, Canada.,Chronic Viral Illness Service, MUHC, Glen Site, Montreal, Quebec, Canada.,Division of Clinical Immunology, MUHC, Montreal, Quebec, Canada
| |
Collapse
|
25
|
Stelma F, Jansen L, Sinnige MJ, van Dort KA, Takkenberg RB, Janssen HLA, Reesink HW, Kootstra NA. HLA-C and KIR combined genotype as new response marker for HBeAg-positive chronic hepatitis B patients treated with interferon-based combination therapy. J Viral Hepat 2016; 23:652-9. [PMID: 26945896 DOI: 10.1111/jvh.12525] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 11/25/2015] [Accepted: 01/20/2016] [Indexed: 12/24/2022]
Abstract
Current treatment for chronic hepatitis B infection (CHB) consists of interferon-based therapy. However, for unknown reasons, a large proportion of patients with CHB do not respond to this treatment. Hence, there is a pressing need to establish response markers to select patients who will benefit from therapy and to spare potential nonresponders from unnecessary side effects of antiviral therapy. Here, we assessed whether HLA-C and KIR genotypes were associated with treatment outcome for CHB. Twelve SNPs in or near the HLA-C gene were genotyped in 86 CHB patients (41 HBeAg positive; 45 HBeAg negative) treated with peginterferon alfa-2a + adefovir. Genotyping of killer immunoglobin-like receptors (KIRs) was performed by SSP-PCR. One SNP in HLA-C (rs2308557) was significantly associated with combined response in HBeAg-positive CHB patients (P = 0.003). This SNP is linked to the HLA-C group C1 or C2 classification, which controls KIR binding. The combination of KIR2DL1 with its ligand HLA-C2 was observed significantly more often in HBeAg-positive patients with a combined response (13/14) than in nonresponders (11/27, P = 0.001). Patients with the KIR2DL1/C2 genotype had significantly higher baseline ALT levels (136 vs 50 U/L, P = 0.002) than patients without this combination. Furthermore, KIR2DL1-C2 predicted response independent of HBV genotype and ALT at baseline. HLA-C and KIR genotype is strongly associated with response in HBeAg-positive CHB patients treated with interferon-based therapy. In combination with other known response markers, HLA-C/KIR genotype could enable the selection of patients more likely to respond to interferon-based therapy.
Collapse
Affiliation(s)
- F Stelma
- Department of Gastroenterology and Hepatology, Academic Medical Center, Amsterdam, the Netherlands.,Department of Experimental Immunology, Academic Medical Center, Amsterdam, the Netherlands
| | - L Jansen
- Department of Gastroenterology and Hepatology, Academic Medical Center, Amsterdam, the Netherlands.,Department of Experimental Immunology, Academic Medical Center, Amsterdam, the Netherlands
| | - M J Sinnige
- Department of Experimental Immunology, Academic Medical Center, Amsterdam, the Netherlands
| | - K A van Dort
- Department of Experimental Immunology, Academic Medical Center, Amsterdam, the Netherlands
| | - R B Takkenberg
- Department of Gastroenterology and Hepatology, Academic Medical Center, Amsterdam, the Netherlands
| | - H L A Janssen
- Department of Gastroenterology and Hepatology, Erasmus Medical Center, Rotterdam, the Netherlands.,Toronto Centre for Liver Disease, Toronto Western & General Hospital, University Health Network, Toronto, Canada
| | - H W Reesink
- Department of Gastroenterology and Hepatology, Academic Medical Center, Amsterdam, the Netherlands.,Department of Experimental Immunology, Academic Medical Center, Amsterdam, the Netherlands
| | - N A Kootstra
- Department of Experimental Immunology, Academic Medical Center, Amsterdam, the Netherlands
| |
Collapse
|
26
|
Lu W, Chen S, Lai C, Lai M, Fang H, Dao H, Kang J, Fan J, Guo W, Fu L, Andrieu JM. Suppression of HIV Replication by CD8(+) Regulatory T-Cells in Elite Controllers. Front Immunol 2016; 7:134. [PMID: 27148256 PMCID: PMC4834299 DOI: 10.3389/fimmu.2016.00134] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2015] [Accepted: 03/24/2016] [Indexed: 12/25/2022] Open
Abstract
We previously demonstrated in the Chinese macaque model that an oral vaccine made of inactivated SIV and Lactobacillus plantarum induced CD8(+) regulatory T-cells, which suppressed the activation of SIV(+)CD4(+) T-cells, prevented SIV replication, and protected macaques from SIV challenges. Here, we sought whether a similar population of CD8(+) T-regs would induce the suppression of HIV replication in elite controllers (ECs), a small population (3‰) of HIV-infected patients with undetectable HIV replication. For that purpose, we investigated the in vitro antiviral activity of fresh CD8(+) T-cells on HIV-infected CD4(+) T-cells taken from 10 ECs. The 10 ECs had a classical genomic profile: all of them carried the KIR3DL1 gene and 9 carried at least 1 allele of HLA-B:Bw4-80Ile (i.e., with an isoleucine residue at position 80). In the nine HLA-B:Bw4-80Ile-positive patients, we demonstrated a strong viral suppression by KIR3DL1-expressing CD8(+) T-cells that required cell-to-cell contact to switch off the activation signals in infected CD4(+) T-cells. KIR3DL1-expressing CD8(+) T-cells withdrawal and KIR3DL1 neutralization by a specific anti-killer cell immunoglobulin-like receptor (KIR) antibody inhibited the suppression of viral replication. Our findings provide the first evidence for an instrumental role of KIR-expressing CD8(+) regulatory T-cells in the natural control of HIV-1 infection.
Collapse
Affiliation(s)
- Wei Lu
- Institut de Recherche sur les Vaccins et l'Immunothérapie des Cancers et du Sida, Université de Paris Descartes, Paris, France; Sino-French Collaborative Laboratory, Tropical Medicine Institute, Guangzhou University of Chinese Medicine, Guangzhou, China
| | - Song Chen
- Sino-French Collaborative Laboratory, Tropical Medicine Institute, Guangzhou University of Chinese Medicine , Guangzhou , China
| | - Chunhui Lai
- Sino-French Collaborative Laboratory, Tropical Medicine Institute, Guangzhou University of Chinese Medicine , Guangzhou , China
| | - Mingyue Lai
- Xishuangbanna Center for Disease Control and Prevention , Jinghong , China
| | - Hua Fang
- Xishuangbanna Center for Disease Control and Prevention , Jinghong , China
| | - Hong Dao
- Xishuangbanna Center for Disease Control and Prevention , Jinghong , China
| | - Jun Kang
- Xishuangbanna Center for Disease Control and Prevention , Jinghong , China
| | - Jianhua Fan
- Xishuangbanna Center for Disease Control and Prevention , Jinghong , China
| | - Weizhong Guo
- Sino-French Collaborative Laboratory, Tropical Medicine Institute, Guangzhou University of Chinese Medicine , Guangzhou , China
| | - Linchun Fu
- Sino-French Collaborative Laboratory, Tropical Medicine Institute, Guangzhou University of Chinese Medicine , Guangzhou , China
| | - Jean-Marie Andrieu
- Institut de Recherche sur les Vaccins et l'Immunothérapie des Cancers et du Sida, Université de Paris Descartes , Paris , France
| |
Collapse
|
27
|
Time to seroconversion in HIV-exposed subjects carrying protective versus non protective KIR3DS1/L1 and HLA-B genotypes. PLoS One 2014; 9:e110480. [PMID: 25330014 PMCID: PMC4201542 DOI: 10.1371/journal.pone.0110480] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2014] [Accepted: 09/17/2014] [Indexed: 11/21/2022] Open
Abstract
Natural killer (NK) cells play a role in the clearance of viral infections. Combinations of alleles at the polymorphic HLA-B locus and the NK cell surface killer immunoglobulin-like receptor locus KIR3DL1/S1 have been shown to influence time to AIDS in HIV-infected individuals and risk of seroconversion in HIV exposed seronegative (HESN) subjects. Here, we assessed time to seroconversion or duration of seronegative status in a group of 168 HIV exposed individuals, including 74 seroconverters and 94 HESN based on carriage or not of KIR3DL1/S1/HLA-B genotypes previously shown to be associated with protection from infection and/or slow time to AIDS. KIR3DL1/S1 genotyping was performed by sequence-specific primer polymerase chain reaction using two pairs of specific primers for each locus. The MHC class IB locus was typed to four-position resolution to resolve Bw4 and Bw6 alleles and the amino acid present at position 80. KIR3DL1/S1 heterozygotes became HIV infected significantly faster than KIR3DS1 homozygotes. Individuals who carried both KIR3DS1 and Bw4*80I did not remain HIV seronegative longer than those from a control group who were homozygous for HLA-Bw6 and carried no HLA-A locus Bw4 alleles Subjects who were *h/*y+B*57 showed a trend towards slower time to serconversion than those with other KIR3DL1 homozygous and KIR3DL1/S1 heterozygous genotypes. Thus, KIR3DS1 homozygosity is associated with protection from HIV infection while co-carriage of KIR3DS1 and Bw4*80I is not. The requirements for protection from HIV infection can differ from those that influence time to AIDS in HIV infected individuals.
Collapse
|
28
|
Kim HJ, Choi HB, Jang JP, Baek IC, Choi EJ, Park M, Kim TG, Oh ST. HLA-Cw polypmorphism and killer cell immunoglobulin-like receptor (KIR) gene analysis in Korean colorectal cancer patients. Int J Surg 2014; 12:815-20. [PMID: 24998207 DOI: 10.1016/j.ijsu.2014.06.012] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2014] [Revised: 06/03/2014] [Accepted: 06/22/2014] [Indexed: 11/24/2022]
Abstract
PURPOSE Natural killer cells (NK cells) play important roles in protecting the patient from the early development of cancers, and are activated or inhibited by killer cell immunoglobulin-like receptors (KIR), which bind to HLA class I. In the present study, we investigated the KIR genotype of Korean colorectal cancer patients. METHODS DNA samples were extracted from peripheral blood cell samples taken from Korean colorectal cancer patients and a control group. KIR genes were amplified using PCR-SSP methods, and HLA-Cw genes were characterized using PCR methods. The results were analyzed to assess the difference between colorectal cancer patients and the normal control group. RESULTS In the present study, the frequency of KIR2DS5 (33.2% vs. 20.8%, p-value < 0.007) was higher in the colorectal cancer group, and in the rectal cancer subgroup, the frequencies of KIR3DL1 (93.2%, vs. 98.1%, p-value < 0.05), KIR2DS2 (7.8% vs. 19.5%, p-value < 0.01), and KIR2DS4 (93.2% vs. 98.1%, p-value < 0.05) were lower significantly. The frequencies of HLA-Cw6 (9.1% vs. 15.7%, p-value < 0.05) and HLA-Cw7 (17.4% vs. 27.7%, p-value < 0.02) were lower in the colorectal cancer group. Of the patients with HLA-C1 homozygote, the frequency of KIR2DS2 was decreased significantly (5.8% vs. 14.5%, p-value < 0.004). CONCLUSIONS The frequency of KIR2DS5 is higher in Korean colorectal cancer patients, and in the rectal cancer subgroup, the frequencies of KIR3DL1, KIR2DS2 and KIR2DS4 are lower. Among the patients with HLA-C1 homozygote, the frequency of KIR2DS2 is decreased. Therefore, KIR2DS2 in presence of its ligand (HLA-C1 group) may have a protective effect against colorectal cancer.
Collapse
Affiliation(s)
- Hyung-Jin Kim
- Department of Surgery, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - Hae-Baeg Choi
- Hematopoietic Stem Cell Bank, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - Jung-Pil Jang
- Department of Microbiology, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - In-Cheol Baek
- Department of Microbiology, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - Eun-Jeong Choi
- Hematopoietic Stem Cell Bank, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - Miyoung Park
- Hematopoietic Stem Cell Bank, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea
| | - Tai-Gyu Kim
- Department of Microbiology, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea; Hematopoietic Stem Cell Bank, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea.
| | - Seong-Taek Oh
- Department of Surgery, College of Medicine, The Catholic University of Korea, Seoul, Republic of Korea.
| |
Collapse
|
29
|
Killer cell immunoglobulin-like receptors in Thai patients with leukemia and diffuse large B-cell lymphoma. Hum Immunol 2014; 75:673-6. [DOI: 10.1016/j.humimm.2014.04.004] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/01/2013] [Revised: 01/06/2014] [Accepted: 04/06/2014] [Indexed: 02/02/2023]
|
30
|
Schellekens J, Gagne K, Marsh SGE. Natural killer cells and killer-cell immunoglobulin-like receptor polymorphisms: their role in hematopoietic stem cell transplantation. Methods Mol Biol 2014; 1109:139-58. [PMID: 24473783 DOI: 10.1007/978-1-4614-9437-9_9] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/22/2023]
Abstract
Natural killer (NK) cells are important effector cells in the early control of infected, malignant, and "nonself" cells. Various receptor families are involved in enabling NK cells to detect and efficiently eliminate these target cells. The killer-cell immunoglobulin-like receptor (KIR) family is a set of receptors that are very polymorphic with regard to gene content, expression level, and expression pattern. KIRs are responsible for the induction of a NK cell alloreactive response through their interaction with HLA class I molecules. The role of NK cells in hematopoietic stem cell transplantation (HSCT) has been studied for many years, and induction of antileukemic responses by donor NK cells has been reported. Conflicting data still exist on the exact circumstances in which the KIR repertoire affects and influences clinical outcome after HSCT. More large-scale studies are needed on well-defined cohorts to unravel the mechanism of action of the NK cell-mediated alloresponse in an HSCT setting.
Collapse
|
31
|
Shahid A, Chopera DR, Martin E, Penney KA, Milloy MJ, Brumme ZL. A method for killer-cell immunoglobulin-like receptor (KIR) 3DL1/3DS1 genotyping using DNA recovered from frozen plasma. J Immunol Methods 2013; 391:154-62. [PMID: 23524032 DOI: 10.1016/j.jim.2013.03.005] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2013] [Revised: 03/10/2013] [Accepted: 03/12/2013] [Indexed: 11/30/2022]
Abstract
We describe a reliable and semi-automated method for killer-cell immunoglobulin-like receptor (KIR) 3DL1/S1 genotyping using DNA recovered from frozen plasma. The primers and protocol were first validated using two independent genomic DNA reference panels. To confirm the approach using plasma-derived DNA, total nucleic acids were extracted from 69 paired frozen PBMC and plasma specimens representing all common KIR3DL1/S1 genotypes (3DS1/3DS1, 3DS1/3DL1 and 3DL1/3DL1, including rare allele 3DL1*054), and analyzed in a blinded fashion. The method involves independent nested PCR amplification of KIR3DL1/S1 Exon 4, and if required Exon 3, using universal sequence-specific primers, followed by bidirectional sequencing. The free basecalling software RECall is recommended for rapid, semi-automated chromatogram analysis. KIR3DL1/S1 type assignment is based on two key nucleotide polymorphisms in Exon 4 and, if required, up to two additional polymorphisms in exon 3. Assignment can be performed manually or using our web-based algorithm, KIR3D. Extractions from plasma yielded median [IQR] nucleic acid concentrations of 0.9 [below the limit of detection-2.45] ng/μl. PCR was successful for 100% of exon 4 (69/69) and exon 3 (29/29) plasma amplifications. Chromatogram quality was high and concordance between PBMC and plasma-derived types was 100%. The estimated lower limit of input DNA required for reliable typing is 0.01 ng/μl. This method provides reliable and accurate KIR3DL1/S1 typing when conventional sources of high-quality genomic DNA are unavailable or limiting.
Collapse
Affiliation(s)
- Aniqa Shahid
- Faculty of Health Sciences, Simon Fraser University, Burnaby, British Columbia, Canada
| | | | | | | | | | | |
Collapse
|
32
|
Shi L, Zhang H, Shen Y, Dong Y, Li Y, Dong Z, Guo C, Shi L, Yao Y, Yu J. Distribution of KIR genes in Han population in Yunnan Province: comparison with other Han populations in China. Int J Immunogenet 2013; 40:361-8. [PMID: 23594113 DOI: 10.1111/iji.12046] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2012] [Revised: 12/16/2012] [Accepted: 01/24/2013] [Indexed: 12/20/2022]
Affiliation(s)
- L. Shi
- Institute of Medical Biology; Chinese Academy of Medical Sciences & Peking Union Medical College; Yunnan Key Laboratory of Vaccine Research & Development on Severe Infectious Diseases; Kunming; China
| | - H. Zhang
- Institute of Medical Biology; Chinese Academy of Medical Sciences & Peking Union Medical College; Yunnan Key Laboratory of Vaccine Research & Development on Severe Infectious Diseases; Kunming; China
| | - Y. Shen
- The first people's hospital in Yunnan Province & The Affiliated Hospital of Kunming Science and Technology University; Kunming; China
| | - Y. Dong
- The first people's hospital in Yunnan Province & The Affiliated Hospital of Kunming Science and Technology University; Kunming; China
| | - Y. Li
- The first people's hospital in Yunnan Province & The Affiliated Hospital of Kunming Science and Technology University; Kunming; China
| | - Z. Dong
- Institute of Medical Biology; Chinese Academy of Medical Sciences & Peking Union Medical College; Yunnan Key Laboratory of Vaccine Research & Development on Severe Infectious Diseases; Kunming; China
| | - C. Guo
- Institute of Medical Biology; Chinese Academy of Medical Sciences & Peking Union Medical College; Yunnan Key Laboratory of Vaccine Research & Development on Severe Infectious Diseases; Kunming; China
| | - L. Shi
- Institute of Medical Biology; Chinese Academy of Medical Sciences & Peking Union Medical College; Yunnan Key Laboratory of Vaccine Research & Development on Severe Infectious Diseases; Kunming; China
| | - Y. Yao
- Institute of Medical Biology; Chinese Academy of Medical Sciences & Peking Union Medical College; Yunnan Key Laboratory of Vaccine Research & Development on Severe Infectious Diseases; Kunming; China
| | - J. Yu
- Institute of Medical Biology; Chinese Academy of Medical Sciences & Peking Union Medical College; Yunnan Key Laboratory of Vaccine Research & Development on Severe Infectious Diseases; Kunming; China
| |
Collapse
|
33
|
Augusto DG, Piovezan BZ, Tsuneto LT, Callegari-Jacques SM, Petzl-Erler ML. KIR gene content in amerindians indicates influence of demographic factors. PLoS One 2013; 8:e56755. [PMID: 23451080 PMCID: PMC3581531 DOI: 10.1371/journal.pone.0056755] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/26/2012] [Accepted: 01/14/2013] [Indexed: 11/18/2022] Open
Abstract
Although the KIR gene content polymorphism has been studied worldwide, only a few isolated or Amerindian populations have been analyzed. This extremely diverse gene family codifies receptors that are expressed mainly in NK cells and bind HLA class I molecules. KIR-HLA combinations have been associated to several diseases and population studies are important to comprehend their evolution and their role in immunity. Here we analyzed, by PCR-SSP (specific sequencing priming), 327 individuals from four isolated groups of two of the most important Brazilian Amerindian populations: Kaingang and Guarani. The pattern of KIR diversity among these and other ten Amerindian populations disclosed a wide range of variation for both KIR haplotypes and gene frequencies, indicating that demographic factors, such as bottleneck and founder effects, were the most important evolutionary factors in shaping the KIR polymorphism in these populations.
Collapse
Affiliation(s)
| | - Bruno Zagonel Piovezan
- Laboratório de Genética Molecular Humana, Universidade Federal do Paraná, Curitiba, Brazil
| | - Luiza Tamie Tsuneto
- Laboratório de Imunogenética, Universidade Estadual de Maringá, Maringá, Brazil
| | | | - Maria Luiza Petzl-Erler
- Laboratório de Genética Molecular Humana, Universidade Federal do Paraná, Curitiba, Brazil
- * E-mail:
| |
Collapse
|
34
|
Rajalingam R, Ashouri E. Gene-specific PCR typing of killer cell immunoglobulin-like receptors. Methods Mol Biol 2013; 1034:239-55. [PMID: 23775740 DOI: 10.1007/978-1-62703-493-7_12] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
By interacting with specific HLA class I molecules, the killer cell immunoglobulin-like receptors (KIR) regulate the effector function of natural killer (NK) cells and subsets of CD8 T cells. The KIR receptors and HLA class I ligands are encoded by unlinked polymorphic gene families located on different human chromosomes, 19 and 6, respectively. The number and type of KIR genes are substantially variable between individuals, which may contribute to human diversity in responding to infection, malignancy and allogeneic transplants. PCR typing using sequence-specific primers (PCR-SSP) is the most commonly used method to determine KIR gene content. This chapter describes a step-by-step protocol for PCR-SSP typing to identify the presence and absence of all 16 known KIR genes. Moreover, the chapter provides the basic rules to verify the accuracy of KIR genotyping results and explains specific methods for the data analysis.
Collapse
Affiliation(s)
- Raja Rajalingam
- Department of Pathology and Laboratory Medicine, UCLA Immunogenetics Center, David Geffen School of Medicine at UCLA, University of California at Los Angeles, Los Angeles, CA, USA
| | | |
Collapse
|
35
|
Hollenbach JA, Augusto DG, Alaez C, Bubnova L, Fae I, Fischer G, Gonzalez-Galarza FF, Gorodezky C, Karabon L, Kusnierczyk P, Noble J, Rickards O, Roberts C, Schaffer M, Shi L, Tavoularis S, Trachtenberg E, Yao Y, Middleton D. 16(th) IHIW: population global distribution of killer immunoglobulin-like receptor (KIR) and ligands. Int J Immunogenet 2012; 40:39-45. [PMID: 23280119 DOI: 10.1111/iji.12028] [Citation(s) in RCA: 22] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2012] [Revised: 11/06/2012] [Accepted: 11/12/2012] [Indexed: 11/29/2022]
Abstract
In the last fifteen years, published reports have described KIR gene-content frequency distributions in more than 120 populations worldwide. However, there have been limited studies examining these data in aggregate to detect overall patterns of variation at regional and global levels. Here, we present a summary of the collection of KIR gene-content data for 105 worldwide populations collected as part of the 15th and 16th International Histocompatibility and Immunogenetics Workshops, and preliminary results for data analysis.
Collapse
Affiliation(s)
- J A Hollenbach
- Children's Hospital Oakland Research Institute, Oakland, CA, USA.
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | |
Collapse
|
36
|
O'Connor GM, Seich Al Basatena NK, Olavarria V, MacNamara A, Vine A, Ying Q, Hisada M, Galvão-Castro B, Asquith B, McVicar DW. In contrast to HIV, KIR3DS1 does not influence outcome in HTLV-1 retroviral infection. Hum Immunol 2012; 73:783-7. [PMID: 22609443 PMCID: PMC3402611 DOI: 10.1016/j.humimm.2012.05.006] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2011] [Revised: 04/30/2012] [Accepted: 05/08/2012] [Indexed: 12/14/2022]
Abstract
While most carriers of human T-cell leukemia virus type 1 (HTLV-1) remain asymptomatic throughout their lifetime, infection is associated with the development of adult T-cell leukemia (ATL) and HTLV-1-associated myelopathy/tropical spastic paraparesis (HAM/TSP). The exact parameters that determine these outcomes are unknown but are believed to include host genetic factors that control the immune response to infection. Host response to fellow retroviridae member HIV is influenced by the expression of members of the Killer Immunoglobulin Receptor (KIR) family including KIR3DS1. In this study we examined the association of KIR3DS1 with the outcome of HTLV-1 infection in three geographically distinct cohorts (Jamaican, Japanese and Brazilian). Despite increased prevalence of KIR3DS1 in the HAM/TSP patients of the Jamaican cohort, we found no evidence for a role of KIR3DS1 in influencing control of proviral load or disease outcome. This suggests that unlike HIV, KIR3DS1-mediated regulation of HTLV-1 infection does not occur, or is ineffective.
Collapse
MESH Headings
- Adolescent
- Adult
- Aged
- Aged, 80 and over
- Asymptomatic Diseases
- Brazil/epidemiology
- Child
- Cohort Studies
- Ethnicity
- Female
- Human T-lymphotropic virus 1/immunology
- Humans
- Jamaica/epidemiology
- Japan/epidemiology
- Leukemia-Lymphoma, Adult T-Cell/complications
- Leukemia-Lymphoma, Adult T-Cell/ethnology
- Leukemia-Lymphoma, Adult T-Cell/immunology
- Leukemia-Lymphoma, Adult T-Cell/virology
- Male
- Middle Aged
- Paraparesis, Tropical Spastic/complications
- Paraparesis, Tropical Spastic/ethnology
- Paraparesis, Tropical Spastic/immunology
- Paraparesis, Tropical Spastic/virology
- Prevalence
- Prognosis
- Receptors, KIR3DS1/genetics
- Receptors, KIR3DS1/immunology
- Spinal Cord Diseases/complications
- Spinal Cord Diseases/ethnology
- Spinal Cord Diseases/immunology
- Spinal Cord Diseases/virology
- Viral Load
Collapse
Affiliation(s)
- Geraldine M O'Connor
- Cancer and Inflammation Program, Laboratory of Experimental Immunology, NCI-Frederick, Frederick, MD 21702, USA.
| | | | | | | | | | | | | | | | | | | |
Collapse
|
37
|
Augusto DG, Lobo-Alves SC, Melo MF, Pereira NF, Petzl-Erler ML. Activating KIR and HLA Bw4 ligands are associated to decreased susceptibility to pemphigus foliaceus, an autoimmune blistering skin disease. PLoS One 2012; 7:e39991. [PMID: 22768326 PMCID: PMC3388041 DOI: 10.1371/journal.pone.0039991] [Citation(s) in RCA: 57] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/03/2012] [Accepted: 05/30/2012] [Indexed: 01/30/2023] Open
Abstract
The KIR genes and their HLA class I ligands have thus far not been investigated in pemphigus foliaceus (PF) and related autoimmune diseases, such as pemphigus vulgaris. We genotyped 233 patients and 204 controls for KIR by PCR-SSP. HLA typing was performed by LABType SSO reagent kits. We estimated the odds ratio, 95% confidence interval and performed logistic regression analyses to test the hypothesis that KIR genes and their known ligands influence susceptibility to PF. We found significant negative association between activating genes and PF. The activating KIR genes may have an overlapping effect in the PF susceptibility and the presence of more than three activating genes was protective (OR = 0.49, p = 0.003). A strong protective association was found for higher ratios activating/inhibitory KIR (OR = 0.44, p = 0.001). KIR3DS1 and HLA-Bw4 were negatively associated to PF either isolated or combined, but higher significance was found for the presence of both together (OR = 0.34, p<10−3) suggesting that the activating function is the major factor to interfere in the PF pathogenesis. HLA-Bw4 (80I and 80T) was decreased in patients. There is evidence that HLA-Bw4(80T) may also be important as KIR3DS1 ligand, being the association of this pair (OR = 0.07, p = 0.001) stronger than KIR3DS1-Bw4(80I) (OR = 0.31, p = 0.002). Higher levels of activating KIR signals appeared protective to PF. The activating KIR genes have been commonly reported to increase the risk for autoimmunity, but particularities of endemic PF, like the well documented influence the environmental exposure in the pathogenesis of this disease, may be the reason why activated NK cells probably protect against pemphigus foliaceus.
Collapse
Affiliation(s)
- Danillo G. Augusto
- Laboratório de Genética Molecular Humana, Departamento de Genética, Universidade Federal do Paraná, Curitiba, Brazil
| | - Sara C. Lobo-Alves
- Laboratório de Genética Molecular Humana, Departamento de Genética, Universidade Federal do Paraná, Curitiba, Brazil
| | - Marcia F. Melo
- Laboratório de Imunogenética, Hospital de Clínicas, Universidade Federal do Paraná, Curitiba, Brazil
| | - Noemi F. Pereira
- Laboratório de Imunogenética, Hospital de Clínicas, Universidade Federal do Paraná, Curitiba, Brazil
| | - Maria Luiza Petzl-Erler
- Laboratório de Genética Molecular Humana, Departamento de Genética, Universidade Federal do Paraná, Curitiba, Brazil
- * E-mail:
| |
Collapse
|
38
|
Chen H, Hayashi G, Lai OY, Dilthey A, Kuebler PJ, Wong TV, Martin MP, Fernandez Vina MA, McVean G, Wabl M, Leslie KS, Maurer T, Martin JN, Deeks SG, Carrington M, Bowcock AM, Nixon DF, Liao W. Psoriasis patients are enriched for genetic variants that protect against HIV-1 disease. PLoS Genet 2012; 8:e1002514. [PMID: 22577363 PMCID: PMC3343879 DOI: 10.1371/journal.pgen.1002514] [Citation(s) in RCA: 56] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2011] [Accepted: 12/11/2011] [Indexed: 02/08/2023] Open
Abstract
An important paradigm in evolutionary genetics is that of a delicate balance between genetic variants that favorably boost host control of infection but which may unfavorably increase susceptibility to autoimmune disease. Here, we investigated whether patients with psoriasis, a common immune-mediated disease of the skin, are enriched for genetic variants that limit the ability of HIV-1 virus to replicate after infection. We analyzed the HLA class I and class II alleles of 1,727 Caucasian psoriasis cases and 3,581 controls and found that psoriasis patients are significantly more likely than controls to have gene variants that are protective against HIV-1 disease. This includes several HLA class I alleles associated with HIV-1 control; amino acid residues at HLA-B positions 67, 70, and 97 that mediate HIV-1 peptide binding; and the deletion polymorphism rs67384697 associated with high surface expression of HLA-C. We also found that the compound genotype KIR3DS1 plus HLA-B Bw4-80I, which respectively encode a natural killer cell activating receptor and its putative ligand, significantly increased psoriasis susceptibility. This compound genotype has also been associated with delay of progression to AIDS. Together, our results suggest that genetic variants that contribute to anti-viral immunity may predispose to the development of psoriasis.
Collapse
Affiliation(s)
- Haoyan Chen
- Department of Dermatology, University of California San Francisco, San Francisco, California, United States of America
| | - Genki Hayashi
- Department of Dermatology, University of California San Francisco, San Francisco, California, United States of America
| | - Olivia Y. Lai
- Department of Dermatology, University of California San Francisco, San Francisco, California, United States of America
| | - Alexander Dilthey
- Department of Statistics, University of Oxford, Oxford, United Kingdom
| | - Peter J. Kuebler
- Division of Experimental Medicine, University of California San Francisco, San Francisco, California, United States of America
| | - Tami V. Wong
- Department of Dermatology, University of California San Francisco, San Francisco, California, United States of America
| | - Maureen P. Martin
- Cancer and Inflammation Program, Laboratory of Experimental Immunology, National Cancer Institute, Frederick, Maryland, United States of America
| | | | - Gil McVean
- Department of Statistics, University of Oxford, Oxford, United Kingdom
| | - Matthias Wabl
- Department of Microbiology and Immunology, University of California San Francisco, San Francisco, California, United States of America
| | - Kieron S. Leslie
- Department of Dermatology, University of California San Francisco, San Francisco, California, United States of America
| | - Toby Maurer
- Department of Dermatology, University of California San Francisco, San Francisco, California, United States of America
| | - Jeffrey N. Martin
- Department of Epidemiology and Biostatistics, University of California San Francisco, San Francisco, California, United States of America
| | - Steven G. Deeks
- HIV/AIDS Program, Department of Medicine, University of California San Francisco, San Francisco, California, United States of America
| | - Mary Carrington
- Cancer and Inflammation Program, Laboratory of Experimental Immunology, National Cancer Institute, Frederick, Maryland, United States of America
| | - Anne M. Bowcock
- Division of Human Genetics, Department of Genetics, Washington University School of Medicine, Saint Louis, Missouri, United States of America
| | - Douglas F. Nixon
- Division of Experimental Medicine, University of California San Francisco, San Francisco, California, United States of America
| | - Wilson Liao
- Department of Dermatology, University of California San Francisco, San Francisco, California, United States of America
| |
Collapse
|
39
|
Augusto DG, Zehnder-Alves L, Pincerati MR, Martin MP, Carrington M, Petzl-Erler ML. Diversity of the KIR gene cluster in an urban Brazilian population. Immunogenetics 2012; 64:143-52. [PMID: 21850526 PMCID: PMC3770263 DOI: 10.1007/s00251-011-0565-1] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/26/2009] [Accepted: 07/30/2011] [Indexed: 10/17/2022]
Abstract
The activity of natural killer cells depends on the balance between activating and inhibitory signals coming from their receptors. Among these are the killer cell immunoglobulin-like receptors (KIR) that recognize specific HLA class I allotypes. Here we characterized KIR genetic diversity and their HLA ligands in the population of Curitiba, Paraná State (n = 164), and compared it with other worldwide populations. The distribution of 2DL4 alleles was also analyzed. The Curitiba population did not differ significantly from European and Euro-descendant populations, but as an admixed population showed higher genetic diversity. We found 27 KIR profiles, many of them uncommon in European populations, in agreement with the elevated historically recent gene flow in the study population. The frequencies of KIR genes and their respective HLA ligands were distributed independently and none of the analyzed individuals lacked functional KIR-HLA ligand combinations. KIR gene frequencies of 33 worldwide populations were consistent with geographic and ethnic distribution, in agreement with demography being the major factor shaping the observed gene content diversity of the KIR locus.
Collapse
Affiliation(s)
- D G Augusto
- Laboratório de Genética Molecular Humana, Departamento de Genética, Universidade Federal do Paraná, Caixa Postal 19071, Curitiba 81531-980, Brazil
| | | | | | | | | | | |
Collapse
|
40
|
Kamya P, Tallon B, Melendez-Pena C, Parsons MS, Migueles SA, Connors M, Miconiatis S, Song R, Boulet S, Bruneau J, Tremblay CL, Bernard NF. Inhibitory Killer Immunoglobulin-like Receptors to self HLA-B and HLA-C ligands contribute differentially to Natural Killer cell functional potential in HIV infected slow progressors. Clin Immunol 2012; 143:246-55. [PMID: 22445844 DOI: 10.1016/j.clim.2012.01.001] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2011] [Revised: 12/02/2011] [Accepted: 01/05/2012] [Indexed: 10/14/2022]
Abstract
Inhibitory Killer Immunoglobulin-like Receptors (iKIR) interact with their ligands, HLA molecules, to license Natural Killer (NK) cells for functional competence. Previous studies stimulating peripheral blood mononuclear cells (PBMCs) with the HLA-devoid K562 cell line revealed that NK cells from individuals with an iKIR encoded by the KIR3DL1 locus with self HLA-Bw4 as their ligands, had higher frequencies of tri-functional NK cells that expressed the degranulation marker CD107a and secreted Interferon-γ and Tumor Necrosis Factor-α than those from individuals who were homozygous for HLA-Bw6 alleles, which are not ligands for these iKIR. To assess the effect of other iKIR to self-HLA (S-iKIR) on the NK cell response, we compared HIV-infected slow progressors (SP) carrying S-iKIR to HLA-C alleles with or without S-iKIR to HLA-Bw4. We show that S-iKIR to HLA-B and C alleles differ in their contribution to NK cell functional potential in HIV-infected SP upon stimulation with K562 targets.
Collapse
Affiliation(s)
- Philomena Kamya
- Research Institute of the McGill University Health Centre, Montréal, Québec, Canada
| | | | | | | | | | | | | | | | | | | | | | | | | |
Collapse
|
41
|
Suppiah V, Gaudieri S, Armstrong NJ, O'Connor KS, Berg T, Weltman M, Abate ML, Spengler U, Bassendine M, Dore GJ, Irving WL, Powell E, Hellard M, Riordan S, Matthews G, Sheridan D, Nattermann J, Smedile A, Müller T, Hammond E, Dunn D, Negro F, Bochud PY, Mallal S, Ahlenstiel G, Stewart GJ, George J, Booth DR. IL28B, HLA-C, and KIR variants additively predict response to therapy in chronic hepatitis C virus infection in a European Cohort: a cross-sectional study. PLoS Med 2011; 8:e1001092. [PMID: 21931540 PMCID: PMC3172251 DOI: 10.1371/journal.pmed.1001092] [Citation(s) in RCA: 100] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 03/03/2011] [Accepted: 08/04/2011] [Indexed: 12/11/2022] Open
Abstract
BACKGROUND To date, drug response genes have not proved as useful in clinical practice as was anticipated at the start of the genomic era. An exception is in the treatment of chronic hepatitis C virus (HCV) genotype 1 infection with pegylated interferon-alpha and ribavirin (PegIFN/R). Viral clearance is achieved in 40%-50% of patients. Interleukin 28B (IL28B) genotype predicts treatment-induced and spontaneous clearance. To improve the predictive value of this genotype, we studied the combined effect of variants of IL28B with human leukocyte antigen C (HLA-C), and its ligands the killer immunoglobulin-like receptors (KIR), which have previously been implicated in HCV viral control. METHODS AND FINDINGS We genotyped chronic hepatitis C (CHC) genotype 1 patients with PegIFN/R treatment-induced clearance (n = 417) and treatment failure (n = 493), and 234 individuals with spontaneous clearance, for HLA-C C1 versus C2, presence of inhibitory and activating KIR genes, and two IL28B SNPs, rs8099917 and rs12979860. All individuals were Europeans or of European descent. IL28B SNP rs8099917 "G" was associated with absence of treatment-induced clearance (odds ratio [OR] 2.19, p = 1.27×10(-8), 1.67-2.88) and absence of spontaneous clearance (OR 3.83, p = 1.71×10(-14), 2.67-5.48) of HCV, as was rs12979860, with slightly lower ORs. The HLA-C C2C2 genotype was also over-represented in patients who failed treatment (OR 1.52, p = 0.024, 1.05-2.20), but was not associated with spontaneous clearance. Prediction of treatment failure improved from 66% with IL28B to 80% using both genes in this cohort (OR 3.78, p = 8.83×10(-6), 2.03-7.04). There was evidence that KIR2DL3 and KIR2DS2 carriage also altered HCV treatment response in combination with HLA-C and IL28B. CONCLUSIONS Genotyping for IL28B, HLA-C, and KIR genes improves prediction of HCV treatment response. These findings support a role for natural killer (NK) cell activation in PegIFN/R treatment-induced clearance, partially mediated by IL28B.
Collapse
MESH Headings
- Adult
- Alleles
- Antiviral Agents/therapeutic use
- Case-Control Studies
- Cohort Studies
- Cross-Sectional Studies
- Drug Therapy, Combination
- Female
- Genotype
- HLA-C Antigens/genetics
- Hepacivirus/immunology
- Hepacivirus/pathogenicity
- Hepatitis C, Chronic/genetics
- Hepatitis C, Chronic/immunology
- Hepatitis C, Chronic/therapy
- Hepatitis C, Chronic/virology
- Humans
- Interferon-alpha/therapeutic use
- Interferons
- Interleukins/genetics
- Killer Cells, Natural/immunology
- Male
- Middle Aged
- Odds Ratio
- Pharmacogenetics/methods
- Polymorphism, Single Nucleotide
- Predictive Value of Tests
- RNA, Viral/analysis
- Receptors, KIR/genetics
- Receptors, KIR2DL3/genetics
- Ribavirin/therapeutic use
- Treatment Outcome
- Viral Load
- White People
Collapse
Affiliation(s)
- Vijayaprakash Suppiah
- Storr Liver Unit, Westmead Millennium Institute, University of Sydney, Sydney, Australia
- Institute for Immunology and Allergy Research, Westmead Millennium Institute, University of Sydney, Sydney, Australia
| | - Silvana Gaudieri
- Institute for Infectious Diseases, Murdoch University, Perth, Australia
| | - Nicola J. Armstrong
- Cancer Research Program, Garvan Institute for Medical Research, University of New South Wales, Sydney, Australia
- School of Mathematics and Statistics, University of New South Wales, Sydney, Australia
| | - Kate S. O'Connor
- Institute for Immunology and Allergy Research, Westmead Millennium Institute, University of Sydney, Sydney, Australia
| | - Thomas Berg
- Medizinische Klinik m.S. Hepatologie und Gastroenterologie, Charité, Campus Virchow-Klinikum, Universitätsmedizin Berlin, Germany
- Department of Hepatology, Clinic for Gastroenterology and Rheumatology, University Clinic Leipzig, Leipzig, Germany
| | - Martin Weltman
- Department of Gastroenterology and Hepatology, Nepean Hospital, Sydney, Australia
| | - Maria Lorena Abate
- Liver Physiopathology Lab, Department of Internal Medicine, University of Turin, Turin, Italy
| | - Ulrich Spengler
- Department of Internal Medicine I, University of Bonn, Bonn, Germany
| | - Margaret Bassendine
- Liver Research Group, Institute of Cellular Medicine, Medical School, Newcastle University, Newcastle upon Tyne, United Kingdom
| | - Gregory J. Dore
- National Centre in HIV Epidemiology and Clinical Research, University of New South Wales, Sydney, Australia
- St Vincent's Hospital, Sydney, Australia
| | - William L. Irving
- NIHR Biomedical Research Unit in Gastroenterology and the Liver, University of Nottingham, Nottingham, United Kingdom
| | - Elizabeth Powell
- Princess Alexandra Hospital, Department of Gastroenterology and Hepatology, Woolloongabba
- The University of Queensland, School of Medicine, Princess Alexandra Hospital, Woolloongabba, Queensland, Australia
| | - Margaret Hellard
- Burnet Institute, Commercial Road, Melbourne, Victoria, Australia
| | - Stephen Riordan
- Gastrointestinal and Liver Unit, Prince of Wales Hospital and University of New South Wales, Sydney, Australia
| | - Gail Matthews
- National Centre in HIV Epidemiology and Clinical Research, University of New South Wales, Sydney, Australia
- St Vincent's Hospital, Sydney, Australia
| | - David Sheridan
- Liver Research Group, Institute of Cellular Medicine, Medical School, Newcastle University, Newcastle upon Tyne, United Kingdom
| | - Jacob Nattermann
- Department of Internal Medicine I, University of Bonn, Bonn, Germany
| | - Antonina Smedile
- Liver Physiopathology Lab, Department of Internal Medicine, University of Turin, Turin, Italy
| | - Tobias Müller
- Medizinische Klinik m.S. Hepatologie und Gastroenterologie, Charité, Campus Virchow-Klinikum, Universitätsmedizin Berlin, Germany
- Department of Hepatology, Clinic for Gastroenterology and Rheumatology, University Clinic Leipzig, Leipzig, Germany
| | - Emma Hammond
- Institute for Infectious Diseases, Murdoch University, Perth, Australia
| | - David Dunn
- Institute for Infectious Diseases, Murdoch University, Perth, Australia
| | - Francesco Negro
- Divisions of Gastroenterology, Hepatology, and Clinical Pathology, University Hospitals Geneva, Switzerland
| | - Pierre-Yves Bochud
- Divisions of Gastroenterology, Hepatology, and Clinical Pathology, University Hospitals Geneva, Switzerland
| | - Simon Mallal
- Institute for Infectious Diseases, Murdoch University, Perth, Australia
| | - Golo Ahlenstiel
- Storr Liver Unit, Westmead Millennium Institute, University of Sydney, Sydney, Australia
| | - Graeme J. Stewart
- Institute for Immunology and Allergy Research, Westmead Millennium Institute, University of Sydney, Sydney, Australia
| | - Jacob George
- Storr Liver Unit, Westmead Millennium Institute, University of Sydney, Sydney, Australia
| | - David R. Booth
- Institute for Immunology and Allergy Research, Westmead Millennium Institute, University of Sydney, Sydney, Australia
| | | |
Collapse
|
42
|
Yao Y, Shi L, Tao Y, Lin K, Liu S, Yu L, Yang Z, Yi W, Huang X, Sun H, Chu J, Shi L. Diversity of killer cell immunoglobulin-like receptor genes in four ethnic groups in China. Immunogenetics 2011; 63:475-83. [DOI: 10.1007/s00251-011-0530-z] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2011] [Accepted: 04/20/2011] [Indexed: 01/05/2023]
|
43
|
Abalos AT, Eggers R, Hogan M, Nielson CM, Giuliano AR, Harris RB, Thompson PA. Design and validation of a multiplex specific primer-directed polymerase chain reaction assay for killer-cell immunoglobulin-like receptor genetic profiling. ACTA ACUST UNITED AC 2011; 77:143-8. [PMID: 21214526 DOI: 10.1111/j.1399-0039.2010.01588.x] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
Abstract
Current methodologies for the analysis of the killer-cell immunoglobulin-like receptor (KIR) locus utilize specific primer-directed polymerase chain reaction (SSP-PCR), which require a wide range of DNA input, multiple reaction conditions, and up to 16 individual reactions. We have developed and validated a multiplex SSP-PCR method for the genetic analysis of the KIR locus. Design and optimization of four multiplex groups targeting 14 genes and their alleles on the KIR locus has been completed. Each multiplex group contains PCR products that differ in size by a minimum of 15 bp to allow sufficient fragment length resolution for size discrimination by gel electrophoresis. This assay allows for efficient genotyping of the KIR locus while requiring a minimum amount of DNA input, utilizing the simplicity of SSP-PCR.
Collapse
Affiliation(s)
- A T Abalos
- Mel and Enid Zuckerman College of Public Health, University of Arizona, Tucson, AZ, USA.
| | | | | | | | | | | | | |
Collapse
|