Single-cell transcriptomics of regulatory T cells reveals trajectories of tissue adaptation
| Autor(a) principal: | |
|---|---|
| Data de Publicação: | 2019 |
| Outros Autores: | , , , , , , , , , , , , , , |
| Tipo de documento: | Artigo |
| Idioma: | eng |
| Título da fonte: | Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
| Texto Completo: | http://hdl.handle.net/1822/59268 |
Resumo: | scRNA-seq data for this project has been deposited in ArrayExpress under the accession numbers E-MTAB-6072 and E-MTAB-7311. Processed data can be found in https://figshare.com/projects/Treg_scRNA-seq/38864, and analysis notebooks can be found in https://github.com/tomasgomes/Treg_analysis. |
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Single-cell transcriptomics of regulatory T cells reveals trajectories of tissue adaptationScience & TechnologyscRNA-seq data for this project has been deposited in ArrayExpress under the accession numbers E-MTAB-6072 and E-MTAB-7311. Processed data can be found in https://figshare.com/projects/Treg_scRNA-seq/38864, and analysis notebooks can be found in https://github.com/tomasgomes/Treg_analysis.Non-lymphoid tissues (NLTs) harbor a pool of adaptive immune cells with largely unexplored phenotype and development. We used single-cell RNA-seq to characterize 35,000 CD4+ regulatory (Treg) and memory (Tmem) T cells in mouse skin and colon, their respective draining lymph nodes (LNs) and spleen. In these tissues, we identified Treg cell subpopulations with distinct degrees of NLT phenotype. Subpopulation pseudotime ordering and gene kinetics were consistent in recruitment to skin and colon, yet the initial NLT-priming in LNs and the final stages of NLT functional adaptation reflected tissue-specific differences. Predicted kinetics were recapitulated using an in vivo melanoma-induction model, validating key regulators and receptors. Finally, we profiled human blood and NLT Treg and Tmem cells, and identified cross-mammalian conserved tissue signatures. In summary, we describe the relationship between Treg cell heterogeneity and recruitment to NLTs through the combined use of computational prediction and in vivo validation.Wethank V. Proserpio, M. Stubbington, T. Hagai, F.V. Braga, V. Svensson, and J. Henriksson for helpful discussions and advice; T. Hagai, R. Vento-Tormo, K. Meyer, and J. Park for critical reading of the manuscript; and B. Koppelman for editorial support. We thank WSI Single-cell Genomic Core Facility, WSI Sequencing Facility, WSI Flow Cytometry facilities, K. Polanski, and the Kennedy Institute Flow Cytometry Facility for expert technical advice and assistance. R.J.M. was supported by a PhD Fellowship from the Fundação para a Ciência e Tecnologia, Portugal (SFRH/BD/51950/2012) and T.G. by the European Union’s H2020 research and innovation program ‘‘ENLIGHT-TEN’’ under the Marie Sklodowska-Curie grant agreement 675395. This project was supported by ERC grants ThDEFINE and ThSWITCH. A.N.H. was supported by an EMBO long-term fellowship (ALTF 1161-2012) and a Marie Curie fellowship (PIEF-GA-2012-330621).info:eu-repo/semantics/publishedVersionElsevierUniversidade do MinhoMiragaia, Ricardo J.Gomes, TomásChomka, AgnieszkaJardine, LauraRiedel, AngelaHegazy, Ahmed N.Whibley, NatashaTucci, AndreaChen, XiLindeman, IdaEmerton, GuyKrausgruber, ThomasShields, JacquelineHaniffa, MuzlifahPowrie, FionaTeichmann, Sarah A.2019-02-192019-02-19T00:00:00Zinfo:eu-repo/semantics/publishedVersioninfo:eu-repo/semantics/articleapplication/pdfhttp://hdl.handle.net/1822/59268engMiragaia, Ricardo J.; Gomes, Tomás; Chomka, Agnieszka; Jardine, Laura; Riedel, Angela; Hegazy, Ahmed N.; Whibley, Natasha; Tucci, Andrea; Chen, Xi; Lindeman, Ida; Emerton, Guy; Krausgruber, Thomas; Shields, Jacqueline; Haniffa, Muzlifah; Powrie, Fiona; Teichmann, Sarah A., Single-cell transcriptomics of regulatory T cells reveals trajectories of tissue adaptation. Immunity, 50(2), 493-507, 20191074-76131097-418010.1016/j.immuni.2019.01.00130737144https://www.cell.com/immunityinfo:eu-repo/semantics/openAccessreponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos)instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãoinstacron:RCAAP2024-05-11T04:17:34Zoai:repositorium.sdum.uminho.pt:1822/59268Portal AgregadorONGhttps://www.rcaap.pt/oai/openairemluisa.alvim@gmail.comopendoar:71602024-05-11T04:17:34Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informaçãofalse |
| dc.title.none.fl_str_mv |
Single-cell transcriptomics of regulatory T cells reveals trajectories of tissue adaptation |
| title |
Single-cell transcriptomics of regulatory T cells reveals trajectories of tissue adaptation |
| spellingShingle |
Single-cell transcriptomics of regulatory T cells reveals trajectories of tissue adaptation Miragaia, Ricardo J. Science & Technology |
| title_short |
Single-cell transcriptomics of regulatory T cells reveals trajectories of tissue adaptation |
| title_full |
Single-cell transcriptomics of regulatory T cells reveals trajectories of tissue adaptation |
| title_fullStr |
Single-cell transcriptomics of regulatory T cells reveals trajectories of tissue adaptation |
| title_full_unstemmed |
Single-cell transcriptomics of regulatory T cells reveals trajectories of tissue adaptation |
| title_sort |
Single-cell transcriptomics of regulatory T cells reveals trajectories of tissue adaptation |
| author |
Miragaia, Ricardo J. |
| author_facet |
Miragaia, Ricardo J. Gomes, Tomás Chomka, Agnieszka Jardine, Laura Riedel, Angela Hegazy, Ahmed N. Whibley, Natasha Tucci, Andrea Chen, Xi Lindeman, Ida Emerton, Guy Krausgruber, Thomas Shields, Jacqueline Haniffa, Muzlifah Powrie, Fiona Teichmann, Sarah A. |
| author_role |
author |
| author2 |
Gomes, Tomás Chomka, Agnieszka Jardine, Laura Riedel, Angela Hegazy, Ahmed N. Whibley, Natasha Tucci, Andrea Chen, Xi Lindeman, Ida Emerton, Guy Krausgruber, Thomas Shields, Jacqueline Haniffa, Muzlifah Powrie, Fiona Teichmann, Sarah A. |
| author2_role |
author author author author author author author author author author author author author author author |
| dc.contributor.none.fl_str_mv |
Universidade do Minho |
| dc.contributor.author.fl_str_mv |
Miragaia, Ricardo J. Gomes, Tomás Chomka, Agnieszka Jardine, Laura Riedel, Angela Hegazy, Ahmed N. Whibley, Natasha Tucci, Andrea Chen, Xi Lindeman, Ida Emerton, Guy Krausgruber, Thomas Shields, Jacqueline Haniffa, Muzlifah Powrie, Fiona Teichmann, Sarah A. |
| dc.subject.por.fl_str_mv |
Science & Technology |
| topic |
Science & Technology |
| description |
scRNA-seq data for this project has been deposited in ArrayExpress under the accession numbers E-MTAB-6072 and E-MTAB-7311. Processed data can be found in https://figshare.com/projects/Treg_scRNA-seq/38864, and analysis notebooks can be found in https://github.com/tomasgomes/Treg_analysis. |
| publishDate |
2019 |
| dc.date.none.fl_str_mv |
2019-02-19 2019-02-19T00:00:00Z |
| dc.type.status.fl_str_mv |
info:eu-repo/semantics/publishedVersion |
| dc.type.driver.fl_str_mv |
info:eu-repo/semantics/article |
| format |
article |
| status_str |
publishedVersion |
| dc.identifier.uri.fl_str_mv |
http://hdl.handle.net/1822/59268 |
| url |
http://hdl.handle.net/1822/59268 |
| dc.language.iso.fl_str_mv |
eng |
| language |
eng |
| dc.relation.none.fl_str_mv |
Miragaia, Ricardo J.; Gomes, Tomás; Chomka, Agnieszka; Jardine, Laura; Riedel, Angela; Hegazy, Ahmed N.; Whibley, Natasha; Tucci, Andrea; Chen, Xi; Lindeman, Ida; Emerton, Guy; Krausgruber, Thomas; Shields, Jacqueline; Haniffa, Muzlifah; Powrie, Fiona; Teichmann, Sarah A., Single-cell transcriptomics of regulatory T cells reveals trajectories of tissue adaptation. Immunity, 50(2), 493-507, 2019 1074-7613 1097-4180 10.1016/j.immuni.2019.01.001 30737144 https://www.cell.com/immunity |
| dc.rights.driver.fl_str_mv |
info:eu-repo/semantics/openAccess |
| eu_rights_str_mv |
openAccess |
| dc.format.none.fl_str_mv |
application/pdf |
| dc.publisher.none.fl_str_mv |
Elsevier |
| publisher.none.fl_str_mv |
Elsevier |
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reponame:Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) instname:Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação instacron:RCAAP |
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Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação |
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RCAAP |
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RCAAP |
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Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
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Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) |
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Repositório Científico de Acesso Aberto de Portugal (Repositórios Cientìficos) - Agência para a Sociedade do Conhecimento (UMIC) - FCT - Sociedade da Informação |
| repository.mail.fl_str_mv |
mluisa.alvim@gmail.com |
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1817544268534775808 |