Extricating human tumour immune alterations from tissue inflammation.


Journal

Nature
ISSN: 1476-4687
Titre abrégé: Nature
Pays: England
ID NLM: 0410462

Informations de publication

Date de publication:
05 2022
Historique:
received: 23 03 2021
accepted: 01 04 2022
pubmed: 12 5 2022
medline: 28 5 2022
entrez: 11 5 2022
Statut: ppublish

Résumé

Immunotherapies have achieved remarkable successes in the treatment of cancer, but major challenges remain

Identifiants

pubmed: 35545675
doi: 10.1038/s41586-022-04718-w
pii: 10.1038/s41586-022-04718-w
pmc: PMC9132772
doi:

Types de publication

Journal Article Research Support, N.I.H., Extramural Research Support, Non-U.S. Gov't

Langues

eng

Sous-ensembles de citation

IM

Pagination

728-735

Subventions

Organisme : NCI NIH HHS
ID : F99 CA245735
Pays : United States
Organisme : NIAID NIH HHS
ID : R01 AI123323
Pays : United States
Organisme : NIDCR NIH HHS
ID : R21 DE026565
Pays : United States
Organisme : NIH HHS
ID : S10 OD028685
Pays : United States

Commentaires et corrections

Type : CommentIn

Informations de copyright

© 2022. The Author(s).

Références

Chen, D. S. & Mellman, I. Oncology meets immunology: the cancer-immunity cycle. Immunity 39, 1–10(2013).
pubmed: 23890059 doi: 10.1016/j.immuni.2013.07.012
Martins, F. et al. Adverse effects of immune-checkpoint inhibitors: epidemiology, management and surveillance. Nat. Rev. Clin. Oncol. 16, 563–580 (2019).
pubmed: 31092901 doi: 10.1038/s41571-019-0218-0
Greten, F. R. & Grivennikov, S. I. Inflammation and cancer: triggers, mechanisms, and consequences. Immunity 51, 27–41 (2019).
pubmed: 31315034 pmcid: 6831096 doi: 10.1016/j.immuni.2019.06.025
Mujal, A. M. & Krummel, M. F. Immunity as a continuum of archetypes. Science 364, 28–29 (2019).
pubmed: 30948539 doi: 10.1126/science.aau8694
Fan, X. & Rudensky, A. Y. Hallmarks of tissue-resident lymphocytes. Cell 164, 1198–1211 (2016).
pubmed: 26967286 pmcid: 4973889 doi: 10.1016/j.cell.2016.02.048
Kumar, B. V. et al. Human tissue-resident memory T cells are defined by core transcriptional and functional signatures in lymphoid and mucosal sites. Cell Rep. 20, 2921–2934 (2017).
pubmed: 28930685 pmcid: 5646692 doi: 10.1016/j.celrep.2017.08.078
Szabo, P. A. et al. Single-cell transcriptomics of human T cells reveals tissue and activation signatures in health and disease. Nat. Commun. 10, 4706–4716 (2019).
pubmed: 31624246 pmcid: 6797728 doi: 10.1038/s41467-019-12464-3
Amsen, D., van Gisbergen, K. P. J. M., Hombrink, P. & van Lier, R. A. W. Tissue-resident memory T cells at the center of immunity to solid tumors. Nat. Immunol. 19, 538–546 (2018).
pubmed: 29777219 doi: 10.1038/s41590-018-0114-2
Ji, A. L. et al. Multimodal analysis of composition and spatial architecture in human squamous cell carcinoma. Cell 182, 497–514.e422 (2020).
pubmed: 32579974 pmcid: 7391009 doi: 10.1016/j.cell.2020.05.039
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
Chao, J. L. & Savage, P. A. Unlocking the complexities of tumor-associated regulatory T cells. J. Immunol. 200, 415–421 (2018).
pubmed: 29311383 doi: 10.4049/jimmunol.1701188
Sharma, P. & Allison, J. P. Dissecting the mechanisms of immune checkpoint therapy. Nat. Rev. Immunol. 20, 75–76 (2020).
pubmed: 31925406 doi: 10.1038/s41577-020-0275-8
Woodward Davis, A. S. et al. The human tissue-resident CCR5
pubmed: 31801887 doi: 10.1126/scitranslmed.aaw8718
Guilliams, M. et al. Dendritic cells, monocytes and macrophages: a unified nomenclature based on ontogeny. Nat. Rev. Immunol. 14, 571–578 (2014).
pubmed: 25033907 pmcid: 4638219 doi: 10.1038/nri3712
Cabeza-Cabrerizo, M., Cardoso, A., Minutti, C. M., Pereira da Costa, M. & Reis, E. S. C. dendritic cells revisited. Annu. Rev. Immunol. 39, 131–166 (2021).
pubmed: 33481643 doi: 10.1146/annurev-immunol-061020-053707
Binnewies, M. et al. Unleashing type-2 dendritic cells to drive protective antitumor CD4
pubmed: 30955881 pmcid: 6954108 doi: 10.1016/j.cell.2019.02.005
Wculek, S. K. et al. Dendritic cells in cancer immunology and immunotherapy. Nat. Rev. Immunol. 144, 646–618 (2019).
Chow, L. Q. M. Head and neck cancer. New Engl. J. Med. 382, 60–72 (2020).
pubmed: 31893516 doi: 10.1056/NEJMra1715715
Mair, F. & Prlic, M. OMIP-044: 28-color immunophenotyping of the human dendritic cell compartment. Cytometry A 106, 255 (2018).
Suzuki, S. et al. Immune-checkpoint molecules on regulatory T-cells as a potential therapeutic target in head and neck squamous cell cancers. Cancer Sci. 111, 1943–1957 (2020).
pubmed: 32304268 pmcid: 7293074 doi: 10.1111/cas.14422
Duhen, T. et al. Co-expression of CD39 and CD103 identifies tumor-reactive CD8 T cells in human solid tumors. Nat. Commun. 9, 2724 (2018).
pubmed: 30006565 pmcid: 6045647 doi: 10.1038/s41467-018-05072-0
Savas, P. et al. Single-cell profiling of breast cancer T cells reveals a tissue-resident memory subset associated with improved prognosis. Nat. Med. 24, 986–993 (2018).
pubmed: 29942092 doi: 10.1038/s41591-018-0078-7
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
Bourdely, P. et al. Transcriptional and functional analysis of CD1c
pubmed: 32610077 pmcid: 7445430 doi: 10.1016/j.immuni.2020.06.002
Segura, E. & Amigorena, S. Inflammatory dendritic cells in mice and humans. Trends Immunol. 34, 440–445 (2013).
pubmed: 23831267 doi: 10.1016/j.it.2013.06.001
Dutertre, C.-A. et al. Single-cell analysis of human mononuclear phagocytes reveals subset-defining markers and identifies circulating inflammatory dendritic cells. Immunity 51, 573–589.e578 (2019).
pubmed: 31474513 doi: 10.1016/j.immuni.2019.08.008
Salmon, H. et al. Expansion and activation of CD103
pubmed: 27096321 pmcid: 4980762 doi: 10.1016/j.immuni.2016.03.012
Lavin, Y. et al. Innate immune landscape in early lung adenocarcinoma by paired single-cell analyses. Cell 169, 750–765.e717 (2017).
pubmed: 28475900 pmcid: 5737939 doi: 10.1016/j.cell.2017.04.014
Greene, E. et al. New interpretable machine-learning method for single-cell data reveals correlates of clinical response to cancer immunotherapy. Patterns 2, 100372 (2021).
pubmed: 34950900 pmcid: 8672150 doi: 10.1016/j.patter.2021.100372
Korsunsky, I. et al. Fast, sensitive and accurate integration of single-cell data with Harmony. Nat. Methods 16, 1289–1296 (2019).
pubmed: 31740819 pmcid: 6884693 doi: 10.1038/s41592-019-0619-0
McInnes, L., Healy, J. & Melville, J. UMAP: uniform manifold approximation and projection for dimension reduction. Preprint at arXiv  https://doi.org/10.48550/arXiv.1802.03426  (2018).
doi: 10.48550/arXiv.1802.03426
Aran, D. et al. Reference-based analysis of lung single-cell sequencing reveals a transitional profibrotic macrophage. Nat. Immunol. 20, 163–172 (2019).
pubmed: 30643263 pmcid: 6340744 doi: 10.1038/s41590-018-0276-y
Maier, B. et al. A conserved dendritic-cell regulatory program limits antitumour immunity. Nature 580, 257–262 (2020).
pubmed: 32269339 pmcid: 7787191 doi: 10.1038/s41586-020-2134-y
Finak, G. et al. MAST: a flexible statistical framework for assessing transcriptional changes and characterizing heterogeneity in single-cell RNA sequencing data. Genome Biol. 16, 278 (2015).
pubmed: 26653891 pmcid: 4676162 doi: 10.1186/s13059-015-0844-5
Browaeys, R., Saelens, W. & Saeys, Y. NicheNet: modeling intercellular communication by linking ligands to target genes. Nat. Methods 17, 159–162 (2020).
pubmed: 31819264 doi: 10.1038/s41592-019-0667-5
Mair, F. et al. A targeted multi-omic analysis approach measures protein expression and low-abundance transcripts on the single-cell level. Cell Rep. 31, 107499 (2020).
pubmed: 32268080 pmcid: 7224638 doi: 10.1016/j.celrep.2020.03.063
Freeman, Z. T. et al. A conserved intratumoral regulatory T cell signature identifies 4-1BB as a pan-cancer target. J. Clin. Invest. 130, 1405–1416 (2020).
pubmed: 32015231 pmcid: 7269585 doi: 10.1172/JCI128672
Cillo, A. R. et al. Immune landscape of viral- and carcinogen-driven head and neck cancer. Immunity 52, 183–199.e189 (2020).
pubmed: 31924475 pmcid: 7201194 doi: 10.1016/j.immuni.2019.11.014
Zheng, L. et al. Pan-cancer single-cell landscape of tumor-infiltrating T cells. Science 374, abe6474 (2021).
pubmed: 34914499 doi: 10.1126/science.abe6474
Luoma, A. M. et al. Molecular pathways of colon inflammation induced by cancer immunotherapy. Cell 182, 655–671.e622 (2020).
pubmed: 32603654 pmcid: 7415717 doi: 10.1016/j.cell.2020.06.001
Kinter, A. L. et al. The common γ-chain cytokines IL-2, IL-7, IL-15, and IL-21 induce the expression of programmed death-1 and its ligands. J. Immunol. 181, 6738–6746 (2008).
pubmed: 18981091 doi: 10.4049/jimmunol.181.10.6738
Maurice, N. J., Berner, J., Taber, A. K., Zehn, D. & Prlic, M. Inflammatory signals are sufficient to elicit TOX expression in mouse and human CD8
pmcid: 8410038 doi: 10.1172/jci.insight.150744
Arpaia, N. et al. A distinct function of regulatory T cells in tissue protection. Cell 162, 1078–1089 (2015).
pubmed: 26317471 pmcid: 4603556 doi: 10.1016/j.cell.2015.08.021
Alvarez, F. et al. The alarmins IL-1 and IL-33 differentially regulate the functional specialisation of Foxp3
pubmed: 30872761 doi: 10.1038/s41385-019-0153-5
Mercer, F., Kozhaya, L. & Unutmaz, D. Expression and function of TNF and IL-1 receptors on human regulatory T cells. PLoS ONE 5, e8639 (2010).
pubmed: 20066156 pmcid: 2799662 doi: 10.1371/journal.pone.0008639
Nikolouli, E. et al. Recirculating IL-1R2
Tran, D. Q. et al. Selective expression of latency-associated peptide (LAP) and IL-1 receptor type I/II (CD121a/CD121b) on activated human FOXP3
pubmed: 19299332 pmcid: 2686183 doi: 10.1182/blood-2009-01-199950
De Martin, A. et al. Distinct microbial communities colonize tonsillar squamous cell carcinoma. Oncoimmunology 10, 1945202 (2021).
pubmed: 34367729 pmcid: 8312615 doi: 10.1080/2162402X.2021.1945202
Di Pilato, M. et al. CXCR6 positions cytotoxic T cells to receive critical survival signals in the tumor microenvironment. Cell 184, 4512–4530.e4522 (2021).
pubmed: 34343496 doi: 10.1016/j.cell.2021.07.015
Togashi, Y., Shitara, K. & Nishikawa, H. Regulatory T cells in cancer immunosuppression—implications for anticancer therapy. Nat. Rev. Clin. Oncol. 16, 356–371 (2019).
pubmed: 30705439 doi: 10.1038/s41571-019-0175-7
Plitas, G. & Rudensky, A. Regulatory T cells in cancer. Annu. Rev. Cancer Biol. 4, 459–477 (2020).
doi: 10.1146/annurev-cancerbio-030419-033428
Simpson, T. R. et al. Fc-dependent depletion of tumor-infiltrating regulatory T cells co-defines the efficacy of anti–CTLA-4 therapy against melanoma. J. Exp. Med. 210, 1695–1710 (2013).
pubmed: 23897981 pmcid: 3754863 doi: 10.1084/jem.20130579
Leelatian, N. et al. Single cell analysis of human tissues and solid tumors with mass cytometry. Cytometry B 92, 68–78 (2017).
doi: 10.1002/cyto.b.21481
Cossarizza, A. et al. Guidelines for the use of flow cytometry and cell sorting in immunological studies (third edition). Eur. J. Immunol. 51, 2708–3145 (2021).
pubmed: 34910301 doi: 10.1002/eji.202170126
Liechti, T. et al. An updated guide for the perplexed: cytometry in the high-dimensional era. Nat. Immunol. 22, 1190–1197 (2021).
pubmed: 34489590 doi: 10.1038/s41590-021-01006-z
Mair, F. & Tyznik, A. J. High-dimensional immunophenotyping with fluorescence-based cytometry: a practical guidebook. Methods Mol. Biol. 2032, 1–29 (2019).
pubmed: 31522410 doi: 10.1007/978-1-4939-9650-6_1
Perfetto, S. P., Ambrozak, D., Nguyen, R., Chattopadhyay, P. K. & Roederer, M. Quality assurance for polychromatic flow cytometry using a suite of calibration beads. Nat. Protoc. 7, 2067–2079 (2012).
pubmed: 23138348 doi: 10.1038/nprot.2012.126
Erickson, J. R. et al. AbSeq protocol using the nano-well cartridge-based rhapsody platform to generate protein and transcript expression data on the single-cell level. STAR Protoc. 1, 100092 (2020).
pubmed: 33000001 pmcid: 7523635 doi: 10.1016/j.xpro.2020.100092
Rongvaux, A. et al. Development and function of human innate immune cells in a humanized mouse model. Nat. Biotechnol. 32, 364–372 (2014).
pubmed: 24633240 pmcid: 4017589 doi: 10.1038/nbt.2858
Stuart, T. et al. Comprehensive integration of single-cell data. Cell 177, 1888–1902.e1821 (2019).
pubmed: 31178118 pmcid: 6687398 doi: 10.1016/j.cell.2019.05.031
Butler, A., Hoffman, P., Smibert, P., Papalexi, E. & Satija, R. Integrating single-cell transcriptomic data across different conditions, technologies, and species. Nat. Biotechnol. 36, 411–420 (2018).
pubmed: 29608179 pmcid: 6700744 doi: 10.1038/nbt.4096
Amezquita, R. A. et al. Orchestrating single-cell analysis with Bioconductor. Nat. Methods 17, 137–145 (2020).
pubmed: 31792435 doi: 10.1038/s41592-019-0654-x

Auteurs

Florian Mair (F)

Fred Hutchinson Cancer Research Center, Vaccine and Infectious Disease Division, Seattle, WA, USA.

Jami R Erickson (JR)

Fred Hutchinson Cancer Research Center, Vaccine and Infectious Disease Division, Seattle, WA, USA.
Department of Immunology, University of Washington, Seattle, WA, USA.

Marie Frutoso (M)

Fred Hutchinson Cancer Research Center, Vaccine and Infectious Disease Division, Seattle, WA, USA.

Andrew J Konecny (AJ)

Fred Hutchinson Cancer Research Center, Vaccine and Infectious Disease Division, Seattle, WA, USA.
Department of Immunology, University of Washington, Seattle, WA, USA.

Evan Greene (E)

Fred Hutchinson Cancer Research Center, Vaccine and Infectious Disease Division, Seattle, WA, USA.

Valentin Voillet (V)

Fred Hutchinson Cancer Research Center, Vaccine and Infectious Disease Division, Seattle, WA, USA.
Cape Town HVTN Immunology Laboratory, Hutchinson Centre Research Institute of South Africa, NPC (HCRISA), Cape Town, South Africa.

Nicholas J Maurice (NJ)

Fred Hutchinson Cancer Research Center, Vaccine and Infectious Disease Division, Seattle, WA, USA.
Molecular and Cellular Biology Graduate Program, University of Washington, Seattle, WA, USA.

Anthony Rongvaux (A)

Department of Immunology, University of Washington, Seattle, WA, USA.
Fred Hutchinson Cancer Research Center, Clinical Research Division, Seattle, WA, USA.

Douglas Dixon (D)

Department of Periodontics, School of Dentistry, University of Washington, Seattle, WA, USA.
Department of Periodontics, University of Tennessee Health Science Center, College of Dentistry, Memphis, TN, USA.

Brittany Barber (B)

Department of Otolaryngology-Head and Neck Surgery, University of Washington, Seattle, WA, USA.

Raphael Gottardo (R)

Fred Hutchinson Cancer Research Center, Vaccine and Infectious Disease Division, Seattle, WA, USA.
Department of Statistics, University of Washington, Seattle, WA, USA.
University of Lausanne and Lausanne University Hospital, Switzerland, Lausanne, Switzerland.

Martin Prlic (M)

Fred Hutchinson Cancer Research Center, Vaccine and Infectious Disease Division, Seattle, WA, USA. mprlic@fredhutch.org.
Department of Global Health, University of Washington, Seattle, WA, USA. mprlic@fredhutch.org.

Articles similaires

[Redispensing of expensive oral anticancer medicines: a practical application].

Lisanne N van Merendonk, Kübra Akgöl, Bastiaan Nuijen
1.00
Humans Antineoplastic Agents Administration, Oral Drug Costs Counterfeit Drugs

Smoking Cessation and Incident Cardiovascular Disease.

Jun Hwan Cho, Seung Yong Shin, Hoseob Kim et al.
1.00
Humans Male Smoking Cessation Cardiovascular Diseases Female
Humans United States Aged Cross-Sectional Studies Medicare Part C
1.00
Humans Yoga Low Back Pain Female Male

Classifications MeSH