title: Comparative genomics analysis of mononuclear phagocyte subsets confirms homology between lymphoid tissue-resident and dermal XCR1(+) DCs in mouse and human and distinguishes them from Langerhans cells.
abstract: Dendritic cells (DC) are mononuclear phagocytes which exhibit a branching (dendritic) morphology and excel at naïve T cell activation. DC encompass several subsets initially identified by their expression of cell surface molecules and later shown to possess distinct functions. DC subset differentiation is orchestrated by transcription factors, growth factors and cytokines. Identifying DC subsets is challenging as very few cell surface molecules are uniquely expressed on any one of these cell populations. There is no standard consensus to identify mononuclear phagocyte subsets; varying antigens are employed depending on the tissue and animal species studied and between laboratories. This has led to confusion in how to accurately define and classify DCs across tissues and between species. Here we report a comparative genomics strategy that enables universal definition of DC and other mononuclear phagocyte subsets across species. We performed a meta-analysis of several public datasets of human and mouse mononuclear phagocyte subsets isolated from blood, spleen, skin or cutaneous lymph nodes, including by using a novel and user friendly software, BubbleGUM, which generates and integrates gene signatures for high throughput gene set enrichment analysis. This analysis demonstrates the equivalence between human and mouse skin XCR1(+) DCs, and between mouse and human Langerhans cells.
authors.affiliation: Mi-mAbs (C/O Centre d'Immunologie de Marseille-Luminy), F-13009 Marseille, France.
authors.forename: Sabrina
authors.initials: S
authors.lastname: Carpentier
authors.affiliation: Centre d'Immunologie de Marseille-Luminy, Aix Marseille Université UM2, Inserm, U1104, CNRS UMR7280, F-13288 Marseille Cedex 09, France.
authors.forename: Thien-Phong
authors.initials: TP
authors.lastname: Vu Manh
authors.affiliation: Centre d'Immunologie de Marseille-Luminy, Aix Marseille Université UM2, Inserm, U1104, CNRS UMR7280, F-13288 Marseille Cedex 09, France.
authors.forename: Rabie
authors.initials: R
authors.lastname: Chelbi
authors.affiliation: Centre d'Immunologie de Marseille-Luminy, Aix Marseille Université UM2, Inserm, U1104, CNRS UMR7280, F-13288 Marseille Cedex 09, France.
authors.forename: Sandrine
authors.initials: S
authors.lastname: Henri
authors.affiliation: Centre d'Immunologie de Marseille-Luminy, Aix Marseille Université UM2, Inserm, U1104, CNRS UMR7280, F-13288 Marseille Cedex 09, France.
authors.forename: Bernard
authors.initials: B
authors.lastname: Malissen
authors.affiliation: Human Dendritic Cell Laboratory, Institute of Cellular Medicine, Newcastle University, Newcastle upon Tyne, UK. Electronic address: m.a.haniffa@newcastle.ac.uk.
authors.forename: Muzlifah
authors.initials: M
authors.lastname: Haniffa
authors.affiliation: Singapore Immunology Network (SIgN), Agency for Science, Technology and Research (A*STAR), Singapore. Electronic address: Florent_Ginhoux@immunol.a-star.edu.sg.
authors.forename: Florent
authors.initials: F
authors.lastname: Ginhoux
authors.affiliation: Centre d'Immunologie de Marseille-Luminy, Aix Marseille Université UM2, Inserm, U1104, CNRS UMR7280, F-13288 Marseille Cedex 09, France. Electronic address: dalod@ciml.univ-mrs.fr.
authors.forename: Marc
authors.initials: M
authors.lastname: Dalod
mesh_terms: D000818:Animals; D002454:Cell Differentiation / Q000235:genetics*; D019295:Computational Biology; D030541:Databases, Genetic; D003713:Dendritic Cells / Q000276:immunology / Q000378:metabolism; D020869:Gene Expression Profiling; D005786:Gene Expression Regulation; D005819:Genetic Markers; D023281:Genomics / Q000379:methods; D059014:High-Throughput Nucleotide Sequencing; D006801:Humans; D007801:Langerhans Cells / Q000276:immunology* / Q000378:metabolism; D008221:Lymphoid Tissue / Q000166:cytology / Q000276:immunology* / Q000378:metabolism; D051379:Mice; D010641:Phenotype; D019707:Receptors, Chemokine / Q000235:genetics* / Q000276:immunology / Q000378:metabolism; D043562:Receptors, G-Protein-Coupled / Q000235:genetics* / Q000276:immunology / Q000378:metabolism; D012867:Skin / Q000166:cytology / Q000276:immunology / Q000378:metabolism; D013045:Species Specificity; D014158:Transcription, Genetic
chemical_list: D005819:Genetic Markers; D019707:Receptors, Chemokine; D043562:Receptors, G-Protein-Coupled; C551408:XC chemokine receptor 1, mouse; C091671:XCR1 protein, human
keywords: Bioinformatics; Comparative genomics; Dendritic cells; Langerhans cells; Skin; XCR1