Memory-like HCV-specific CD8

Antigens, Viral / immunology Antiviral Agents / therapeutic use CD8-Positive T-Lymphocytes / immunology Gene Expression Profiling Gene Regulatory Networks Hepacivirus / drug effects Hepatitis C, Chronic / drug therapy Host-Pathogen Interactions Humans Immunologic Memory / genetics Phenotype Remission Induction Single-Cell Analysis Transcriptome Treatment Outcome

Journal

Nature immunology
ISSN: 1529-2916
Titre abrégé: Nat Immunol
Pays: United States
ID NLM: 100941354

Informations de publication

Date de publication:
02 2021
Historique:
received: 05 05 2020
accepted: 06 10 2020
pubmed: 6 1 2021
medline: 7 4 2021
entrez: 5 1 2021
Statut: ppublish

Résumé

In chronic hepatitis C virus (HCV) infection, exhausted HCV-specific CD8

Identifiants

DOI: 10.1038/s41590-020-00817-w PMID: 33398179
pubmed: 33398179
doi: 10.1038/s41590-020-00817-w
pii: 10.1038/s41590-020-00817-w
doi:

Substances chimiques

Antigens, Viral 0
Antiviral Agents 0

Types de publication

Journal Article Research Support, Non-U.S. Gov't

Langues

eng

Sous-ensembles de citation

IM

Pagination

229-239

Subventions

Organisme : Wellcome Trust
ID : 100326/Z/12/Z
Pays : United Kingdom

Références

Blank, C. U. et al. Defining ‘T cell exhaustion’. Nat. Rev. Immunol. 19, 665–674 (2019).
pubmed: 31570879 pmcid: 7286441 doi: 10.1038/s41577-019-0221-9
Gallimore, A. et al. Induction and exhaustion of lymphocytic choriomeningitis virus–specific cytotoxic T lymphocytes visualized using soluble tetrameric major histocompatibility complex class I–peptide complexes. J. Exp. Med. 187, 1383–1393 (1998).
pubmed: 9565631 pmcid: 2212278 doi: 10.1084/jem.187.9.1383
Moskophidis, D., Lechner, F., Pircher, H. & Zinkernagel, R. M. Virus persistence in acutely infected immunocompetent mice by exhaustion of antiviral cytotoxic effector T cells. Nature 362, 758–761 (1993).
pubmed: 8469287 doi: 10.1038/362758a0
Zajac, A. J. et al. Viral immune evasion due to persistence of activated T cells without effector function. J. Exp. Med. 188, 2205–2213 (1998).
pubmed: 9858507 pmcid: 2212420 doi: 10.1084/jem.188.12.2205
Doering, T. A. et al. Network analysis reveals centrally connected genes and pathways involved in CD8
pubmed: 23159438 pmcid: 3749234 doi: 10.1016/j.immuni.2012.08.021
McLane, L. M., Abdel-Hakeem, M. S. & Wherry, E. J. CD8 T cell exhaustion during chronic viral infection and cancer. Annu. Rev. Immunol. 37, 457–495 (2019).
doi: 10.1146/annurev-immunol-041015-055318 pubmed: 30676822
Wherry, E. J. & Kurachi, M. Molecular and cellular insights into T cell exhaustion. Nat. Rev. Immunol. 15, 486–499 (2015).
pubmed: 26205583 pmcid: 4889009 doi: 10.1038/nri3862
Bengsch, B. et al. Deep immune profiling by mass cytometry links human T and NK cell differentiation and cytotoxic molecule expression patterns. J. Immunol. Methods 453, 3–10 (2018).
pubmed: 28322863 doi: 10.1016/j.jim.2017.03.009
Barili, V. et al. Targeting p53 and histone methyltransferases restores exhausted CD8
pubmed: 32001678 pmcid: 6992697 doi: 10.1038/s41467-019-14137-7
Fisicaro, P. et al. Targeting mitochondrial dysfunction can restore antiviral activity of exhausted HBV-specific CD8
pubmed: 28165481 doi: 10.1038/nm.4275
Kurktschiev, P. D. et al. Dysfunctional CD8
pubmed: 25225458 pmcid: 4172217 doi: 10.1084/jem.20131333
Alfei, F. et al. TOX reinforces the phenotype and longevity of exhausted T cells in chronic viral infection. Nature 571, 265–269 (2019).
doi: 10.1038/s41586-019-1326-9 pubmed: 31207605
Khan, O. et al. TOX transcriptionally and epigenetically programs CD8
pubmed: 31207603 pmcid: 6713202 doi: 10.1038/s41586-019-1325-x
Scott, A. C. et al. TOX is a critical regulator of tumour-specific T cell differentiation. Nature 571, 270–274 (2019).
pubmed: 31207604 pmcid: 7698992 doi: 10.1038/s41586-019-1324-y
Yao, C. et al. Single-cell RNA-seq reveals TOX as a key regulator of CD8
pubmed: 31209400 pmcid: 6588409 doi: 10.1038/s41590-019-0403-4
He, R. et al. Follicular CXCR5-expressing CD8
pubmed: 27501245 doi: 10.1038/nature19317
Im, S. J. et al. Defining CD8
pubmed: 27501248 pmcid: 5297183 doi: 10.1038/nature19330
Paley, M. A. et al. Progenitor and terminal subsets of CD8
pubmed: 23197535 pmcid: 3653769 doi: 10.1126/science.1229620
Utzschneider, D. T. et al. T cell factor 1-expressing memory-like CD8
doi: 10.1016/j.immuni.2016.07.021 pubmed: 27533016
Utzschneider, D. T. et al. T cells maintain an exhausted phenotype after antigen withdrawal and population reexpansion. Nat. Immunol. 14, 603–610 (2013).
pubmed: 23644506 doi: 10.1038/ni.2606
Wieland, D. et al. TCF1
pubmed: 28466857 pmcid: 5418623 doi: 10.1038/ncomms15050
Aregay, A. et al. Elimination of hepatitis C virus has limited impact on the functional and mitochondrial impairment of HCV-specific CD8
pubmed: 31295532 doi: 10.1016/j.jhep.2019.06.025
Bengsch, B. et al. Coexpression of PD-1, 2B4, CD160 and KLRG1 on exhausted HCV-specific CD8
pubmed: 20548953 pmcid: 2883597 doi: 10.1371/journal.ppat.1000947
Burchill, M. A., Golden-Mason, L., Wind-Rotolo, M. & Rosen, H. R. Memory re-differentiation and reduced lymphocyte activation in chronic HCV-infected patients receiving direct-acting antivirals. J. Viral Hepat. 22, 983–991 (2015).
pubmed: 26482547 doi: 10.1111/jvh.12465
Cox, A. L. et al. Comprehensive analyses of CD8
pubmed: 15962289 doi: 10.1002/hep.20749
Golden-Mason, L. et al. Upregulation of PD-1 expression on circulating and intrahepatic hepatitis C virus-specific CD8
pubmed: 17567698 pmcid: 1951397 doi: 10.1128/JVI.00409-07
Martin, B. et al. Restoration of HCV-specific CD8
doi: 10.1016/j.jhep.2014.05.043 pubmed: 24905492
Urbani, S. et al. PD-1 expression in acute hepatitis C virus (HCV) infection is associated with HCV-specific CD8 exhaustion. J. Virol. 80, 11398–11403 (2006).
pubmed: 16956940 pmcid: 1642188 doi: 10.1128/JVI.01177-06
Kim, H. D. et al. Association between expression level of PD-1 by tumor-infiltrating CD8
pubmed: 30145359 doi: 10.1053/j.gastro.2018.08.030
Miller, B. C. et al. Subsets of exhausted CD8
pubmed: 30778252 pmcid: 6673650 doi: 10.1038/s41590-019-0312-6
Herman, J. S., Sagar & Grun, D. FateID infers cell fate bias in multipotent progenitors from single-cell RNA-seq data. Nat. Methods 15, 379–386 (2018).
pubmed: 29630061 doi: 10.1038/nmeth.4662
Haghverdi, L., Buttner, M., Wolf, F. A., Buettner, F. & Theis, F. J. Diffusion pseudotime robustly reconstructs lineage branching. Nat. Methods 13, 845–848 (2016).
pubmed: 27571553 doi: 10.1038/nmeth.3971
Man, K. et al. Transcription factor IRF4 promotes CD8
pubmed: 29246443 doi: 10.1016/j.immuni.2017.11.021
Philip, M. et al. Chromatin states define tumour-specific T cell dysfunction and reprogramming. Nature 545, 452–456 (2017).
pubmed: 28514453 pmcid: 5693219 doi: 10.1038/nature22367
Siddiqui, I. et al. Intratumoral Tcf1
pubmed: 30635237 doi: 10.1016/j.immuni.2018.12.021
Cox, A. L. et al. Cellular immune selection with hepatitis C virus persistence in humans. J. Exp. Med. 201, 1741–1752 (2005).
pubmed: 15939790 pmcid: 2213263 doi: 10.1084/jem.20050121
Wolski, D. et al. Early transcriptional divergence marks virus-specific primary human CD8
pubmed: 29045899 pmcid: 5708133 doi: 10.1016/j.immuni.2017.09.006
Abdel-Hakeem, M. S. et al. Comparison of immune restoration in early versus late alpha interferon therapy against hepatitis C virus. J. Virol. 84, 10429–10435 (2010).
pubmed: 20668076 pmcid: 2937796 doi: 10.1128/JVI.01094-10
Angelosanto, J. M., Blackburn, S. D., Crawford, A. & Wherry, E. J. Progressive loss of memory T cell potential and commitment to exhaustion during chronic viral infection. J. Virol. 86, 8161–8170 (2012).
pubmed: 22623779 pmcid: 3421680 doi: 10.1128/JVI.00889-12
Nowicka, M. et al. CyTOF workflow: differential discovery in high-throughput high-dimensional cytometry datasets. F1000Res 6, 748 (2017).
pubmed: 28663787 doi: 10.12688/f1000research.11622.1
Dobin, A. et al. STAR: ultrafast universal RNA-seq aligner. Bioinformatics 29, 15–21 (2013).
pubmed: 23104886 doi: 10.1093/bioinformatics/bts635
Li, H. et al. The Sequence Alignment/Map format and SAMtools. Bioinformatics 25, 2078–2079 (2009).
pubmed: 19505943 pmcid: 2723002 doi: 10.1093/bioinformatics/btp352
Tarasov, A., Vilella, A. J., Cuppen, E., Nijman, I. J. & Prins, P. Sambamba: fast processing of NGS alignment formats. Bioinformatics 31, 2032–2034 (2015).
pubmed: 25697820 pmcid: 4765878 doi: 10.1093/bioinformatics/btv098
DeLuca, D. S. et al. RNA-SeQC: RNA-seq metrics for quality control and process optimization. Bioinformatics 28, 1530–1532 (2012).
pubmed: 22539670 pmcid: 3356847 doi: 10.1093/bioinformatics/bts196
Love, M. I., Huber, W. & Anders, S. Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2. Genome Biol. 15, 550 (2014).
pubmed: 25516281 pmcid: 4302049 doi: 10.1186/s13059-014-0550-8
Yu, G., Wang, L. G., Han, Y. & He, Q. Y. clusterProfiler: an R package for comparing biological themes among gene clusters. OMICS 16, 284–287 (2012).
pubmed: 22455463 pmcid: 3339379 doi: 10.1089/omi.2011.0118
Langfelder, P. & Horvath, S. Fast R functions for robust correlations and hierarchical clustering. J. Stat. Softw. 46, i11 (2012).
Bolotin, D. A. et al. MiXCR: software for comprehensive adaptive immunity profiling. Nat. Methods 12, 380–381 (2015).
pubmed: 25924071 doi: 10.1038/nmeth.3364
Hashimshony, T. et al. CEL-Seq2: sensitive highly-multiplexed single-cell RNA-seq. Genome Biol. 17, 77 (2016).
pubmed: 27121950 pmcid: 4848782 doi: 10.1186/s13059-016-0938-8
Li, H. & Durbin, R. Fast and accurate long-read alignment with Burrows–Wheeler transform. Bioinformatics 26, 589–595 (2010).
pubmed: 20080505 pmcid: 2828108 doi: 10.1093/bioinformatics/btp698
Baker, S. C. et al. The external RNA controls consortium: a progress report. Nat. Methods 2, 731–734 (2005).
pubmed: 16179916 doi: 10.1038/nmeth1005-731
Grun, D., Kester, L. & van Oudenaarden, A. Validation of noise models for single-cell transcriptomics. Nat. Methods 11, 637–640 (2014).
pubmed: 24747814 doi: 10.1038/nmeth.2930
Grun, D. et al. De novo prediction of stem cell identity using single-cell transcriptome data. Cell Stem Cell 19, 266–277 (2016).
pubmed: 27345837 pmcid: 4985539 doi: 10.1016/j.stem.2016.05.010
Haghverdi, L., Lun, A. T. L., Morgan, M. D. & Marioni, J. C. Batch effects in single-cell RNA-sequencing data are corrected by matching mutual nearest neighbors. Nat. Biotechnol. 36, 421–427 (2018).
pubmed: 29608177 pmcid: 6152897 doi: 10.1038/nbt.4091
Anders, S. & Huber, W. Differential expression analysis for sequence count data. Genome Biol. 11, R106 (2010).
pubmed: 20979621 pmcid: 3218662 doi: 10.1186/gb-2010-11-10-r106

Auteurs

Nina Hensel (N)

Department of Medicine II, University Hospital Freiburg, Freiburg, Germany.
Faculty of Medicine, University of Freiburg, Freiburg, Germany.
Faculty of Biology, University of Freiburg, Freiburg, Germany.

Zuguang Gu (Z)

Heidelberg Center for Personalised Oncology (DKFZ-HIPO), German Cancer Research Center (DKFZ), Heidelberg, Germany.
Department of Medicine II, University Hospital Freiburg, Freiburg, Germany.
Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany.

Dominik Wieland (D)

Department of Medicine II, University Hospital Freiburg, Freiburg, Germany.
Faculty of Medicine, University of Freiburg, Freiburg, Germany.

Katharina Jechow (K)

Charité - Universitätsmedizin Berlin and Berlin Institute of Health, Digital Health Center, Berlin, Germany.

Janine Kemming (J)

Department of Medicine II, University Hospital Freiburg, Freiburg, Germany.
Faculty of Medicine, University of Freiburg, Freiburg, Germany.
Faculty of Biology, University of Freiburg, Freiburg, Germany.

Sian Llewellyn-Lacey (S)

Division of Infection and Immunity, Cardiff University School of Medicine, Cardiff, UK.

Emma Gostick (E)

Division of Infection and Immunity, Cardiff University School of Medicine, Cardiff, UK.

Oezlem Sogukpinar (O)

Department of Medicine II, University Hospital Freiburg, Freiburg, Germany.
Faculty of Medicine, University of Freiburg, Freiburg, Germany.

Florian Emmerich (F)

Faculty of Medicine, University of Freiburg, Freiburg, Germany.
Institute for Transfusion Medicine and Gene Therapy, University Medical Center, University of Freiburg, Freiburg, Germany.

David A Price (DA)

Division of Infection and Immunity, Cardiff University School of Medicine, Cardiff, UK.
Systems Immunity Research Institute, Cardiff University School of Medicine, Cardiff, UK.
ORCID: 0000-0001-9416-2737

Bertram Bengsch (B)

Department of Medicine II, University Hospital Freiburg, Freiburg, Germany.
Faculty of Medicine, University of Freiburg, Freiburg, Germany.
Signalling Research Centres BIOSS and CIBSS, University of Freiburg, Freiburg, Germany.

Tobias Boettler (T)

Department of Medicine II, University Hospital Freiburg, Freiburg, Germany.
Faculty of Medicine, University of Freiburg, Freiburg, Germany.
ORCID: 0000-0002-1195-055X

Christoph Neumann-Haefelin (C)

Department of Medicine II, University Hospital Freiburg, Freiburg, Germany.
Faculty of Medicine, University of Freiburg, Freiburg, Germany.
ORCID: 0000-0001-7351-1387

Roland Eils (R)

Charité - Universitätsmedizin Berlin and Berlin Institute of Health, Digital Health Center, Berlin, Germany.
Health Data Science Unit, Faculty of Medicine, University of Heidelberg, Heidelberg, Germany.
ORCID: 0000-0002-0034-4036

Christian Conrad (C)

Charité - Universitätsmedizin Berlin and Berlin Institute of Health, Digital Health Center, Berlin, Germany.
ORCID: 0000-0001-7036-342X

Ralf Bartenschlager (R)

Department of Infectious Diseases, Molecular Virology, Heidelberg University, Heidelberg, Germany.
Division Virus-Associated Carcinogenesis, German Cancer Research Center, Heidelberg, Germany.
German Center for Infection Research (DZIF), partner site Heidelberg, Heidelberg, Germany.
ORCID: 0000-0001-5601-9307

Dominic Grün (D)

Max Planck Institute of Immunobiology and Epigenetics, Freiburg, Germany.
Signalling Research Centres BIOSS and CIBSS, University of Freiburg, Freiburg, Germany.
ORCID: 0000-0002-3364-5898

Naveed Ishaque (N)

Charité - Universitätsmedizin Berlin and Berlin Institute of Health, Digital Health Center, Berlin, Germany.

Robert Thimme (R)

Department of Medicine II, University Hospital Freiburg, Freiburg, Germany. robert.thimme@uniklinik-freiburg.de.
Faculty of Medicine, University of Freiburg, Freiburg, Germany. robert.thimme@uniklinik-freiburg.de.
ORCID: 0000-0003-1417-4135

Maike Hofmann (M)

Department of Medicine II, University Hospital Freiburg, Freiburg, Germany. maike.hofmann@uniklinik-freiburg.de.
Faculty of Medicine, University of Freiburg, Freiburg, Germany. maike.hofmann@uniklinik-freiburg.de.
ORCID: 0000-0001-8410-8833

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Classifications MeSH

questionsmedicales.fr › Facteurs biologiques › Antigènes › Antigènes viraux › Memory-like HCV-specific CD8
questionsmedicales.fr › Actions chimiques et utilisations › Actions pharmacologiques › Utilisations thérapeutiques › Anti-infectieux › Antiviraux › Memory-like HCV-specific CD8
questionsmedicales.fr › Systèmes sanguin et immunitaire › Système immunitaire › Leucocytes › Agranulocytes › Lymphocytes › Lymphocytes T › Lymphocytes T CD8+ › Memory-like HCV-specific CD8
questionsmedicales.fr › Techniques d'investigation › Techniques génétiques › Analyse de profil d'expression de gènes › Memory-like HCV-specific CD8
questionsmedicales.fr › Phénomènes génétiques › Structures génétiques › Séquences d'acides nucléiques régulatrices › Réseaux de régulation génique › Memory-like HCV-specific CD8
questionsmedicales.fr › Virus › Virus à ARN › Virus à ARN à brin positif › Flaviviridae › Hepacivirus › Memory-like HCV-specific CD8
questionsmedicales.fr › États, signes et symptômes pathologiques › Processus pathologiques › Caractéristiques de la maladie › Maladie chronique › Hépatite chronique › Hépatite C chronique › Memory-like HCV-specific CD8
questionsmedicales.fr › Phénomènes biologiques › Interactions hôte-microbes › Interactions hôte-pathogène › Memory-like HCV-specific CD8
questionsmedicales.fr › Eucaryotes › Animaux › Chordés › Vertébrés › Mammifères › Eutheria › Primates › Haplorhini › Catarrhini › Hominidae › Humains › Memory-like HCV-specific CD8
questionsmedicales.fr › Phénomènes du système immunitaire › Immunité › Immunité acquise › Mémoire immunologique › Memory-like HCV-specific CD8
questionsmedicales.fr › Phénomènes génétiques › Phénotype › Memory-like HCV-specific CD8
questionsmedicales.fr › Thérapeutique › Induction de rémission › Memory-like HCV-specific CD8
questionsmedicales.fr › Techniques d'investigation › Techniques cytologiques › Analyse sur cellule unique › Memory-like HCV-specific CD8
questionsmedicales.fr › Phénomènes génétiques › Structures génétiques › Transcriptome › Memory-like HCV-specific CD8
questionsmedicales.fr › Qualité, accès, évaluation des soins de santé › Qualité des soins de santé › Mécanismes d'évaluation des soins de santé › Évaluation des résultats et des processus en soins de santé › Évaluation de résultat (soins) › Résultat thérapeutique › Memory-like HCV-specific CD8