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A robust platform for integrative spatial multi-omics analysis to map immune responses to SARS-CoV-2 infection in lung tissues.
Tan, Xiao; Grice, Laura F; Tran, Minh; Mulay, Onkar; Monkman, James; Blick, Tony; Vo, Tuan; Almeida, Ana Clara; da Silva Motta, Jarbas; de Moura, Karen Fernandes; Machado-Souza, Cleber; Souza-Fonseca-Guimaraes, Paulo; Baena, Cristina Pellegrino; de Noronha, Lucia; Guimaraes, Fernanda Simoes Fortes; Luu, Hung N; Drennon, Tingsheng; Williams, Stephen; Stern, Jacob; Uytingco, Cedric; Pan, Liuliu; Nam, Andy; Cooper, Caroline; Short, Kirsty; Belz, Gabrielle T; Souza-Fonseca-Guimaraes, Fernando; Kulasinghe, Arutha; Nguyen, Quan.
Afiliación
  • Tan X; Institute for Molecular Bioscience, The University of Queensland, Brisbane, Queensland, Australia.
  • Grice LF; Institute for Molecular Bioscience, The University of Queensland, Brisbane, Queensland, Australia.
  • Tran M; School of Biomedical Sciences, The University of Queensland, Brisbane, Queensland, Australia.
  • Mulay O; Institute for Molecular Bioscience, The University of Queensland, Brisbane, Queensland, Australia.
  • Monkman J; Institute for Molecular Bioscience, The University of Queensland, Brisbane, Queensland, Australia.
  • Blick T; Frazer Institute, Faculty of Medicine, The University of Queensland, Woolloongabba, Queensland, Australia.
  • Vo T; Frazer Institute, Faculty of Medicine, The University of Queensland, Woolloongabba, Queensland, Australia.
  • Almeida AC; Institute for Molecular Bioscience, The University of Queensland, Brisbane, Queensland, Australia.
  • da Silva Motta J; Pontifícia Universidade Católica do Paraná, PUCPR, Curitiba, Paraná, Brazil.
  • de Moura KF; Laboratório de Patologia Experimental, PPGCS da PUCPR, Curitiba, Brazil.
  • Machado-Souza C; Pontifícia Universidade Católica do Paraná, PUCPR, Curitiba, Paraná, Brazil.
  • Souza-Fonseca-Guimaraes P; Frazer Institute, Faculty of Medicine, The University of Queensland, Woolloongabba, Queensland, Australia.
  • Baena CP; Faculdades Pequeno Príncipe-Instituto de Pesquisa Pelé Pequeno príncipe, Curitiba, Paraná, Brazil.
  • de Noronha L; Pontifícia Universidade Católica do Paraná, PUCPR, Curitiba, Paraná, Brazil.
  • Guimaraes FSF; Pontifícia Universidade Católica do Paraná, PUCPR, Curitiba, Paraná, Brazil.
  • Luu HN; Pontifícia Universidade Católica do Paraná, PUCPR, Curitiba, Paraná, Brazil.
  • Drennon T; Laboratório de Patologia Experimental, PPGCS da PUCPR, Curitiba, Brazil.
  • Williams S; Positive University-School of Medicine, Curitiba, Brazil.
  • Stern J; UMPC Hillman Cancer Center & School of Public Health, University of Pittsburgh, Pittsburgh, Pennsylvania, USA.
  • Uytingco C; 10x Genomics, Pleasanton, California, USA.
  • Pan L; 10x Genomics, Pleasanton, California, USA.
  • Nam A; 10x Genomics, Pleasanton, California, USA.
  • Cooper C; 10x Genomics, Pleasanton, California, USA.
  • Short K; NanoString Technologies Inc, Seattle, Washington, USA.
  • Belz GT; NanoString Technologies Inc, Seattle, Washington, USA.
  • Souza-Fonseca-Guimaraes F; Frazer Institute, Faculty of Medicine, The University of Queensland, Woolloongabba, Queensland, Australia.
  • Kulasinghe A; School of Chemistry and Molecular Biosciences, The University of Queensland, Brisbane, Queensland, Australia.
  • Nguyen Q; Frazer Institute, Faculty of Medicine, The University of Queensland, Woolloongabba, Queensland, Australia.
Immunology ; 170(3): 401-418, 2023 Nov.
Article en En | MEDLINE | ID: mdl-37605469
The SARS-CoV-2 (COVID-19) virus has caused a devastating global pandemic of respiratory illness. To understand viral pathogenesis, methods are available for studying dissociated cells in blood, nasal samples, bronchoalveolar lavage fluid and similar, but a robust platform for deep tissue characterization of molecular and cellular responses to virus infection in the lungs is still lacking. We developed an innovative spatial multi-omics platform to investigate COVID-19-infected lung tissues. Five tissue-profiling technologies were combined by a novel computational mapping methodology to comprehensively characterize and compare the transcriptome and targeted proteome of virus infected and uninfected tissues. By integrating spatial transcriptomics data (Visium, GeoMx and RNAScope) and proteomics data (CODEX and PhenoImager HT) at different cellular resolutions across lung tissues, we found strong evidence for macrophage infiltration and defined the broader microenvironment surrounding these cells. By comparing infected and uninfected samples, we found an increase in cytokine signalling and interferon responses at different sites in the lung and showed spatial heterogeneity in the expression level of these pathways. These data demonstrate that integrative spatial multi-omics platforms can be broadly applied to gain a deeper understanding of viral effects on cellular environments at the site of infection and to increase our understanding of the impact of SARS-CoV-2 on the lungs.
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Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Idioma: En Revista: Immunology Año: 2023 Tipo del documento: Article País de afiliación: Australia Pais de publicación: Reino Unido
Texto completo
Añadir a Mi BVS
Imprimir
XML
PubMed Links
Buscar en Google

Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Idioma: En Revista: Immunology Año: 2023 Tipo del documento: Article País de afiliación: Australia Pais de publicación: Reino Unido