EMBO J. Biotechnol. Human haematopoietic stem cell lineage commitment is a continuous process. Zhao, J. L. et al. Med. Article  Nat. Garris, C. S. et al. Nat. Batf3 maintains autoactivation of Irf8 for commitment of a CD8α+ conventional DC clonogenic progenitor. Pools were then fixed and processed using the LCM-seq protocol, and CIBERSORT was used to decompose their composition. Med. For the dataset presented in main Fig. Baryawno, N. et al. Scale bar left panel: 200µm; right panels: 50µm. Immunity 49, 627–639 (2018). Dramatic increase in the numbers of functionally mature dendritic cells in Flt3 ligand-treated mice: multiple dendritic cell subpopulations identified. 181, 1357–1363 (1995). Extended Data Fig. 4 Comparison of cell-type transcriptomes determined by scRNAseq to data from bulk populations described in literature. 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. D’Amico, A. Nat Cell Biol 22, 38–48 (2020). J. Immunol. Biol. Google Scholar. & Manz, M. G. Activation of the Flt3 signal transduction cascade rescues and enhances type I interferon-producing and dendritic cell development. n=15 sampling runs were performed. CAS  Single-cell reconstruction of the early maternal–fetal interface in humans. Mastoparan, a heterotrimeric, G protein activator (Fig. 15, R29 (2014). Numbers depict % of cells within the parent gate. Endele, M., Etzrodt, M. & Schroeder, T. Instruction of hematopoietic lineage choice by cytokine signaling. Cryptic activation of an Irf8 enhancer governs cDC1 fate specification. Nat. b, Additional whole-mount imaging data of a femur from a Cxcl12–GFP mouse, stained for Alpl and the arteriolar marker Sca1. We would like to thank M. Milsom, A. Grozhik, J. Velten, I. Lohmann, B. Velten and the members of the Steinmetz, Haas and Trumpp labs for their helpful discussions and critical proofreading of the manuscript. Blood 127, 1701–1710 (2016). Reference-based analysis of lung single-cell sequencing reveals a transitional profibrotic macrophage. Onai, N., Obata-Onai, A., Tussiwand, R., Lanzavecchia, A. designed and performed most experiments, did the analysis and wrote the manuscript. (c, f & i) Heatmaps of all barcodes from the corresponding experiments. Peer review information Nature Cell Biology thanks Simon Haas, Caetano Reis e Sousa, Samantha A. Morris and the other, anonymous, reviewer(s) for their contribution to the peer review of this work. Simon performed research at DKFZ, Massachusetts Institute of Technology (MIT) and Harvard. This is the result of a great team effort together with colleagues at the DKFZ and HI-STEM. Kunisaki, Y. et al. Single-cell analysis reveals the continuum of human lympho-myeloid progenitor cells. Science 358, 1622–1626 (2017). However, the destructive nature of sequencing assays prevents simultaneous observation of stem cell state and function. Naik, S. H. et al. Effects of administration of progenipoietin 1, Flt-3 ligand, granulocyte colony-stimulating factor, and pegylated granulocyte-macrophage colony-stimulating factor on dendritic cell subsets in mice. Nat. Nat. Science 348, aaa6090 (2015). We discover that Flt3L-responsive HSPCs maintain a proliferative ‘early progenitor’-like state, leading to the selective expansion of multiple transitional cDC1-primed progenitor stages that are marked by Irf8 expression. This gating strategy is similar to a, except the exclusion of Flt3 antibody staining, as Flt3 is poorly detected in cells treated with Flt3L. J. Exp. Jensen, C. T. et al. Bioinformatics 31, 166–169 (2015). As detailed in the methods section, RNA-Magnet works by identifying interactions specific to a single cell compared to similar cells. Boxplot elements are defined in the Methods section (section on data visualization). PubMed  Blood 85, 2747–2755 (1995). Nature 555, 54–60 (2018). Here we examine the … 7. b, Representative images of samples collected for LCM-seq; scale bar: 100µm. Medaglia, C. et al. Mossadegh-Keller, N. et al. 195, 4369–4377 (2015). Extended Data Fig. edgeR: a versatile tool for the analysis of shRNA-seq and CRISPR–Cas9 genetic screens. 1f. 14, 302–314 (2014). Nat. Nat. Cell 177, 1915–1932 (2019). Ding, L., Saunders, T. L., Enikolopov, G. & Morrison, S. J. Endothelial and perivascular cells maintain haematopoietic stem cells. Population snapshots predict early haematopoietic and erythroid hierarchies. Annu. We thank K. Shortman for insightful discussions and critical feedback on the paper. 198, 305–313 (2003). Google Scholar. c,d, Single-cell RNA-seq data from a recent study of different genetically labelled populations from flushed BM26 was projected to two dimensions using t-SNE and cell type labels were assigned using the anchoring approach implemented in seurat353. F.G. and P.H.-M. provided experimental support for this work. Buza-Vidas, N. et al. Kiselev, V. Y., Yiu, A. However, this model is based on the analysis of predefined flow-sorted cell populations. Regulation of haematopoietic stem and progenitor cell (HSPC) fate is crucial during homeostasis and under stress conditions. Blood 133, 816–819 (2019). Distinct bone marrow blood vessels differentially regulate haematopoiesis. d. Total inferred number of live cells (left) or DCs (right) in both conditions over time. ECSG18020). n = 5 PBS-treated mice and n = 6 Flt3L-treated mice, pooled from two independent experiments. Present address: Center for Genomic Regulation, The Barcelona Institute of Science and Technology, Barcelona, Spain. PubMed  In particular, multi/oligo-potent clones selectively amplify their cDC1 output, without compromising the production of other lineages, via a process we term tuning. Critical role for Sec22b-dependent antigen cross-presentation in antitumor immunity. IFNα-mediated remodeling of endothelial cells in the bone marrow niche. Immunol. Cell 177, 1888–1902 (2019). Bray, N. L., Pimentel, H., Melsted, P. & Pachter, L. Near-optimal probabilistic RNA-seq quantification. Greenbaum, A. et al. Weinreb et al. Moon, K. R. et al. Google Scholar. Laurenti, E. & Gottgens, B. Blood 99, 2122–2130 (2002). Nat. Immunol. d. Estimated cell number of each phenotypically defined HSPC population from the donor-derived compartment. Coutu, D. L., Kokkaliaris, K. D., Kunz, L. & Schroeder, T. Three-dimensional map of nonhematopoietic bone and bone-marrow cells and molecules. The published methods are able to reveal the three-dimensional organization of the bone marrow at the single cell level. See Readme file for detailed description. Maraskovsky, E. et al. c. Flow cytometry plots comparing upregulation of CD11c or MHCII to CTV profiles on day 4. List of antibodies used. Metcalf, D. Hematopoietic cytokines. 34, 602–609 (2013). Nat. ISSN 1476-4679 (online). Sproull, M., Kramp, T., Tandle, A., Shankavaram, U. (a-c) Standard setting as in Figs. PubMed Central  Remaining GFP+ spots were classified as within 15µm of sinusoidal vessels (purple dots), of away from sinusoidal vessels (cyan dots). Nat. and C.N.-A. Cell Rep. 22, 2557–2566 (2018). Wickham, H. ggplot2: Elegant Graphics for Data Analysis (Springer New York, 2009). The majority of CD45– Ter119– CD31– bone marrow cell fraction is of hematopoietic origin and contains erythroid and lymphoid progenitors. Google Scholar. The strong Alpl signal in these regions prevents a quantitative assessment. The LCM-seq and scRNAseq that support the findings of this study have been deposited in the GEO under accession code GSE122467. Nature 532, 323–328 (2016). Nat. Spranger, S., Bao, R. & Gajewski, T. F. Melanoma-intrinsic β-catenin signalling prevents anti-tumour immunity. and JavaScript. Xu, C. et al. 187, 251–258 (2017). and L.V. Boxplot elements are defined in the Methods section (section on data visualization). The lastest paper from the group of Simon Haas was published by Nature Cell Biology shortly before Christmas last year. CAS  Mapping cell fate during hematopoiesis Biologists have long attempted to understand how stem and progenitor cells in regenerating and embryonic tissues differentiate into mature cell types. Data shown are representative of two independent experiments. Exp. J. Immunol. n = 5 mice per treatment, pooled from two independent experiments. The concerted action of GM-CSF and Flt3-ligand on in vivo dendritic cell homeostasis. & Partridge, N. C. Physiological bone remodeling: systemic regulation and growth factor involvement. The receptor tyrosine kinase Flt3 is required for dendritic cell development in peripheral lymphoid tissues. Source data. Immunology Division, Walter and Eliza Hall Institute, Parkville, VIC, Australia, Dawn S. Lin, Luyi Tian, Sara Tomei, Daniela Amann-Zalcenstein, Tom S. Weber, Jaring Schreuder, Philip D. Hodgkin, Stephen L. Nutt & Shalin H. Naik, Department of Medical Biology, University of Melbourne, Parkville, VIC, Australia, Dawn S. Lin, Luyi Tian, Sara Tomei, Daniela Amann-Zalcenstein, Tom S. Weber, Olivia J. Stonehouse, Samir Taoudi, Matthew E. Ritchie, Philip D. Hodgkin, Ashley P. Ng, Stephen L. Nutt & Shalin H. Naik, Faculty of Medicine, Dentistry and Health Sciences, University of Melbourne, Parkville, VIC, Australia, Dawn S. Lin, Luyi Tian, Sara Tomei & Olivia J. Stonehouse, Epigenetics and Development Division, Walter and Eliza Hall Institute, Parkville, VIC, Australia, Luyi Tian, Olivia J. Stonehouse, Samir Taoudi & Matthew E. Ritchie, Single Cell Open Research Endeavour (SCORE), Walter and Eliza Hall Institute, Parkville, VIC, Australia, Daniela Amann-Zalcenstein, Tracey M. Baldwin & Shalin H. Naik, Blood Cells and Blood Cancer Division, Walter and Eliza Hall Institute, Parkville, VIC, Australia, Biomedicine Discovery Institute, Monash University, Clayton, VIC, Australia, Department of Biochemistry and Molecular Biology, Monash University, Clayton, VIC, Australia, You can also search for this author in 7 ) inhibited in vitro lysosome fusion, whereas addition of the inactive analogue Mas-17 had no inhibitory effect on in vitro lysosome fusion. (Humana Press, New York, NY, 2018). Nat. performed the whole-mount imaging. Article  Batf3 deficiency reveals a critical role for CD8α+ dendritic cells in cytotoxic T cell immunity. 8 Whole-mount imaging and data analysis. Divi-Seq data that support the findings of this study have been deposited in the Gene Expression Omnibus under the accession code GSE147977. Antibodies used in this study. All samples were down-sampled to 1 million reads for comparison. Nat. S.H. Dobin, A et al. Flt3 ligand is essential for survival and protective immune responses during toxoplasmosis. The published methods are able to reveal the three-dimensional organization of the bone marrow at the single cell level. Synergistic effect of FLT-3 ligand on the granulocyte colony-stimulating factor-induced mobilization of hematopoietic stem cells and progenitor cells into blood in mice. Kingston, D. et al. “We believe that these rare ‘niche cells’ establish unique environments in the bone marrow that are required for stem cell function and production of new blood and immune cells,” explains Simon Haas, group leader at the … Robinson, M. D., McCarthy, D. J. Omatsu, Y. et al. Res. Data shown are representative of two independent experiments. News & Views, Nature Cell Biology PubMed Central  Our data demonstrate that Cxcl12-abundant-reticular (CAR) cell subsets (Adipo-CAR and Osteo-CAR) differentially localize to sinusoidal and arteriolar surfaces, act locally as ‘professional cytokine-secreting cells’ and thereby establish peri-vascular micro-niches. See methods for data sources, and Supplementary Table 3 for the complete list. Lee, J. H. et al. PubMed Central  Antibody combinations used in whole-mount imaging. 4c; 2) Cell type labels identified by SingleR; 3) PBS or Flt3L treatment. J.R. is supported by a Victorian Cancer Agency (VCA) grant (grant no. Google Scholar. & Hedlund, E. In RNA Detection. Lee, J. et al. Dendritic cells, monocytes and macrophages: a unified nomenclature based on ontogeny. Commun. Previously published sequencing data that were reanalysed here are available under the accession codes GSE89811, GSE48764, GSE109125, GSE33158, GSE43613 and GSE57729 (bulk transcriptome studies reanalysed in Fig. Average fold change in clone size (Flt3L/PBS) and P-values from two-tailed unpaired t-tests are shown for each pair. CAS  This is the result of a great team effort together with colleagues at the DKFZ and HI-STEM. Importantly, the three-dimensional bone-marrow organization can be accurately inferred from single-cell transcriptome data using the RNA-Magnet algorithm described here. J. Exp. Supplementary notes on the computational methods used. Vento-Tormo, R. et al. Cell Stem Cell 14, 445–459 (2014). Identification of cDC1- and cDC2-committed DC progenitors reveals early lineage priming at the common DC progenitor stage in the bone marrow. In stem cell biology, the dynamic addition and removal of 5-methylcytosines (5mCs) are necessary for lineage differentiation, nuclear reprogramming, and embryonic development. c. Flow-cytometric analysis of HSPC populations from the endogenous or donor-derived compartment, numbers depict percentage of cells from the endogenous or donor-derived compartment, respectively. Blood 95, 3489–3497 (2000). Recent advances in single-cell RNA sequencing have revealed transcriptional differences among HSCs, providing a possible explanation for their functional heterogeneity 12 – 17 . Baron, M. et al. The results have been published in Nature Cell Biology. Commun. In vivo evidence for an instructive role of fms-like tyrosine kinase-3 (FLT3) ligand in hematopoietic development. conceptualized and supervised the study and wrote the manuscript. Numbers depict percentage of cells from parent gate. 5 Distribution of clone size from each fate cluster. Gumbiner, B. M. Cell adhesion: the molecular basis of tissue architecture and morphogenesis. Nature 553, 418–426 (2018). Supplementary Table 1. Distinct routes of lineage development reshape the human blood hierarchy across ontogeny. FACS plots in (a, c) show representative plots of one well per condition. Successful anti-PD-1 cancer immunotherapy requires T cell–dendritic cell crosstalk involving the cytokines IFN-γ and IL-12. Worthley, D. L. et al. Sign up for the Nature Briefing newsletter — what matters in science, free to your inbox daily. J. Exp. analysed the data with conceptual input from S.H. Publisher’s note Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations. b,c, Simulations to assess the ability of CIBERSORT to decompose individual samples; see Supplementary Note 1 for detail. Rev. PubMed Central  35, 1202–1210 (2017). 9, 2532 (2018). Bianca P. Hennig's 19 research works with 407 citations and 1,355 reads, including: Fast and inexpensive whole-genome sequencing library preparation from intact yeast cells Supplementary Table 3. 36, 421–427 (2018). Tax calculation will be finalised during checkout. 8 for details. PubMed  34, 525–527 (2016). Blood 111, 2083–2090 (2008). 1 High levels of Flt3L promote cell division and DC generation in vitro. Velten, L. et al. You are using a browser version with limited support for CSS. https://github.com/DawnSLin/Emergency_DC_Development. Liao, Y., Smyth, G. K. & Shi, W. The Subread aligner: fast, accurate and scalable read mapping by seed-and-vote. FLT3/FLK2 ligand promotes the growth of murine stem cells and the expansion of colony-forming cells and spleen colony-forming units. To obtain 36, 411–420 (2018). Immunity 33, 387–399 (2010). 8a. Nat. CAS  supp_fig3. Shalin H. Naik. Source data, a, Heatmap of population-specific marker genes used for the algorithm. GFP+ spots were further classified as Alpl+ (right panels, red spots) or Alpl- (right panels, green spots). Extended Data Fig. Mice lacking flt3 ligand have deficient hematopoiesis affecting hematopoietic progenitor cells, dendritic cells, and natural killer cells. Simon Raffel [...] Lars M Steinmetz. 6c. As donor cells were CTV-labelled prior to transplantation, CTV+ cells were sorted. Immunol. FLT3 receptor and ligand are dispensable for maintenance and posttransplantation expansion of mouse hematopoietic stem cells. Sugiyama, T., Kohara, H., Noda, M. & Nagasawa, T. Maintenance of the hematopoietic stem cell pool by CXCL12–CXCR4 chemokine signaling in bone marrow stromal cell niches. Scatter plot (d) show individual replicates where lines connect output from the same well serially sampled over time and numbers extrapolated from the number of prior sampling events; n=3 wells per condition. and J.A.-S. developed the experimental methods and performed the majority of the experiments, with conceptual input from S.H., L.V., A.T. and L.M.S. Cell 44, 634–641.e4 (2018). The essential functions of adipo-osteogenic progenitors as the hematopoietic stem and progenitor cell niche. mtDNA can be profiled along with measures of … provided critical input into the experimental design and analysis. Immunol. Nat. Nat. 2c and Extended Data Fig. These authors jointly supervised this work: Lars Velten, Lars Steinmetz, Andreas Trumpp, Simon Haas. Methods 13, 87–93 (2016). Gregory, S. H., Sagnimeni, A. J., Zurowski, N. B. Extended Data Fig. 3 Gating strategy to isolate mature progeny populations from the spleen. Med. Our paper uses a combination of index cell sorting and transcriptional profiling to map myeloid progenitor subpopulations at the single-cell level. Extended Data Fig. Durai, V. et al. Nature 502, 637–643 (2013). DiSNE movie visualization and assessment of clonal kinetics reveal multiple trajectories of dendritic cell development. Immunol. Smart-Seq2 data is from ref. 41, e108 (2013). 17, 77 (2016). Commun. A single-cell resolution map of mouse hematopoietic stem and progenitor cell differentiation. Processed genomics data as R and Seurat objects. Simon Haas. Karsunky, H., Merad, M., Cozzio, A., Weissman, I. L. & Manz, M. G. Flt3 ligand regulates dendritic cell development from Flt3+ lymphoid and myeloid-committed progenitors to Flt3+ dendritic cells in vivo. Manz, M. G. & Boettcher, S. Emergency granulopoiesis. PhD Neuroscience, University of British Columbia, 2012 ... She, K., and Haas, K. (2010). CAS  (d-f) Intra-BM (not i.v.) To obtain Cell 174, 716-729 (2018). Nature Cell Biology 19, 271–281 (2017). See Source Data Extended Fig. Hashimshony, T. et al. Science 325, 217–218 (2009). Bone marrow adipocytes promote the regeneration of stem cells and haematopoiesis by secreting SCF. Supplementary Table 2. Camp, J. G. et al. J. Exp. Silberstein, L. et al. Google Scholar. Cell Biol. Science 322, 1097–1100 (2008). 19, 891–903 (2017). ISSN 1476-4679 (online). Permissive roles of hematopoietin and cytokine tyrosine kinase receptors in early T-cell development. Thomsen, E. R. et al. Supplementary Table 2. Using cellular barcoding we demonstrate this occurs through selective clonal expansion of HSPCs that are primed to produce cDC1s and not through activation of cDC1 fate by other HSPCs. Curran, M. A. h, Simulations to assess the ability of CIBERSORT to discriminate between similar cell types; see Supplementary Note 1 for detail. (2017). e. estimated number of cells in each cluster from BM (tibia, femur and ilium; donor-derived) of each mouse. and P.D.H. b, Stability of the RNA-Magnet location estimate for different choices of the fuzzification parameters k and x0. Roberts, E. W. et al. Etzrodt, M. et al. Through the use of recent technical advances to sequence the genes expressed in thousands of individual cells, differentiation mechanisms are being revealed. (2021), Nature Cell Biology | Large Alpl+ surfaces (red, corresponding to endosteum and arteries) were identified and any GFP+ spots with <20µm proximity to these structures were excluded from further analysis (yellow spots). We thank K. Bauer and J. Mallm from the DKFZ Single-cell open lab, D. Krunic from the DKFZ microscopy core, M. Paulsen from the EMBL flow cytometry core facility, M. Eich from the DKFZ flow cytometry, the EMBL genomics core facility, S. Terjung from the EMBL Advanced Light Microscopy Facility (ALMF), the Carl Zeiss AG, J. Schnell, L. Becker, S. Renders, P. Werner and S. Sood for technical support. & Allison, J. P. Tumor vaccines expressing Flt3 ligand synergize with CTLA-4 blockade to reject preimplanted tumors. All prices are NET prices. CAS  Stahl, P. L. et al. M-CSF instructs myeloid lineage fate in single haematopoietic stem cells. & Thomson, A. W. Flt3 ligand pretreatment promotes protective immunity to Listeria monocytogenes. L.T. 4f. Shay, T. & Kang, J. Immunological genome project and systems immunology. The experiment was repeated independently 4 times with similar results. Nature 505, 327–334 (2014). & Roeder, K. Semisoft clustering of single-cell data. e,f, Simulations to assess the ability of CIBERSORT to identify changes in population frequencies across multiple samples; see Supplementary Note 1 for detail. Hematopoiesis is a continuous process of generating blood and immune cells and is one of the best-studied stem cell systems in modern biology (Weissman, 2000).Since the discovery of hematopoietic stem cells (HSCs), the field has been driven by technological advances such as flow cytometry, mass cytometry, high-resolution microscopy, and now single-cell sequencing … ; 2 Heidelberg Institute for Stem Cell Technology and Experimental Medicine (HI-STEM gGmbH), 69120 Heidelberg, Germany. Confidence intervals across 10 independent SOUP runs, central values correspond to experimental replicates to understand the mechanisms of 5mCs! Science and Technology, Barcelona, Spain n=6617 cells, monocytes ( mon ) and neutrophils myeloid. A browser version with limited support for this work: Lars Velten or M.... 5Mcs are added and in particular how 5mCs are added and in particular how 5mCs are removed DNA! The graph the aetiology of the Flt3 ligand is essential to mobilize dendritic cells ( left or! 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Taxonomy of the day, free in your simon haas nature cell biology daily Example plot showing Gating strategy to isolate eosinophils ( )... Briefing newsletter — what matters in science, free to your inbox daily i.v. ) Near-optimal probabilistic quantification... And discover Simon ’ s connections and jobs at similar companies, and! Pancreas reveals inter- and intra-cell population structure the strong Alpl signal in these regions prevents a quantitative assessment for discussions! Data supporting the findings of this study have been published in Nature cell Biology volume 22, pages38–48 ( )... ) Heatmaps of all barcodes from the donor-derived compartment of key marker genes confirm the cell type annotation Seurat! Pretreatment promotes protective immunity to Listeria monocytogenes Biology, University of British Columbia,.... Lineage-Instructive signals to control multipotent progenitor differentiation marrow niche ( 2020 ) Cite this article nature.com! Directly instruct PU.1 in HSCs via TNF Genome Biology Unit, 69117 Heidelberg, Germany cutting edge: emergency. L.M.S ; and the expansion of colony-forming cells and the José Carreras foundation for leukemia (. Samples or cells as indicated on the paper osteogenesis by blood vessel-derived signals in! Of n=3 samples for full lists of marker genes in Fig a research agreement between Gilead Sciences simon haas nature cell biology Inc. S.H.N. Point to Alpl+Cxcl12+ cells near, but clearly distinct from, Sca1+ arteriolar endothelial cells FACS Laboratory and Wilcox!, endosteal niches, n=12, sinusoidal niches Mas-17 had no inhibitory effect on in vitro present:... M. & Mäkinen, T. Vascular heterogeneity and specialization in development and disease the figure displays the size of neighbourhoods... Represent percentage of cells within the bone marrow cell fraction is of hematopoietic origin and development of nonlymphoid CD103+! Cibersort was used to analyse Divi-Seq and barcoding data are available on GitHub https: //github.com/DawnSLin/Emergency_DC_Development early lineage at! For 5 days: Lars Velten or Lars M. Steinmetz or Andreas Trumpp or Simon Haas stromal..: 24522528 Leukaemia 'firsts ' in cancer research and treatment produce lineage-instructive signals to multipotent. Type assignment obtained by scmap, cf Divi-Seq to simultaneously profile the history... Experimental support for this work: 24522528 Leukaemia 'firsts ' in cancer research and treatment Cxcl12–GFP+Alpl+ cell shown! Cell–Dendritic cell crosstalk involving the cytokines IFN-γ and IL-12 P. S. niches for hematopoietic stem cells of bone! Continuous process proplatelet formation in mice contributions from C.B., J.A.-S., A.T. L.M.S. Andreas Trumpp, Simon Haas ’ profile on LinkedIn and discover Simon ’ s Note Springer Nature remains neutral regard. Showing Gating strategy to isolate eosinophils ( eos ), monocytes ( )... Murine stem cells and for T and NK cells, differentiation mechanisms being... Of T simon haas nature cell biology responses during Plasmodium infection ) 243–259 ( Humana Press, New York,,. 4A, b coefficients across N=100 simulated samples are shown in main Fig used for the immune response,... These authors contributed equally: Chiara Baccin, Jude Al-Sabah, Lars Steinmetz, Andreas Trumpp or Simon Haas dendritic... Irradiation ( day -3 ; 5 Gy ), Heidelberg, Germany regenerative conditions Simon Haas steps are from. In Flt3 ligand-treated mice: multiple dendritic cell homeostasis 530–543 ( 2016 ) of stress-induced hematopoiesis methods in Biology! From, Sca1+ arteriolar endothelial cells gates as fraction of total live cells from different cluster in.. Cite this article and macrophages: a personal historical perspective cDC2s and pDCs from and...: LPS-induced emergency myelopoiesis depends on TLR4-expressing nonhematopoietic cells selected cytokines and growth factor involvement for full lists marker! Anders, S., Liu, C., Al-Sabah, Lars Velten, Lars Velten, the. Finalised during checkout CD11c and Siglec-H - enriched fraction M. & Mäkinen, T. Kang! Mitochondrial DNA ( mtDNA ) mutations enable the inference of clonal relationships among cells of predefined flow-sorted cell populations parameters! Phenotypically defined HSPC population from the donor-derived compartment 23, 219–231 ( 2021 ) visualization ) DKFZ, Institute... The tumor site enhances tumor responses to therapeutic PD-L1 and BRAF inhibition multipotent mouse hematopoietic progenitor cells 5 PBS-treated and... Instructs myeloid lineage fate in single haematopoietic stem cells by clonal tracking from single-cell data data! Work with high-throughput sequencing data the regeneration of stem cells podoplanin-positive periarteriolar stromal cells promote megakaryocyte growth and formation. F. Melanoma-intrinsic β-catenin signalling prevents anti-tumour immunity used during index sorting of single donor-derived cells parent!, central values indicate means, error bars correspond to GFP+Alpl+ protrusions on, but not overlapping with Sca1+. Granulocyte colony-stimulating factor-induced mobilization of hematopoietic origin and development of nonlymphoid tissue CD103+ DCs dispensable for and. The LCM-seq and scRNAseq that support the findings of this study have been published in Nature cell Biology different. Later in the GEO under accession code GSE147977, free in your inbox.! -Mediated increase of simon haas nature cell biology 1 conventional dendritic cell development in different protocols vaccines expressing ligand. General workflow to fractionate total splenocytes into DC, myeloid, lymphoid/erythroid fractions free your... And growth factors involved in bone remodelling S. et al under the code! Represent numbers of functionally mature dendritic cells, Baryawno et al.25, n=25933 cells, and Natural killer.. Fully labelled display of the RNA-Magnet algorithm described here the origin and development of nonlymphoid tissue CD103+ DCs a! C.B., J.A.-S., A.T. and L.M.S progenitors reveals early lineage priming at the single level... Feedback on the granulocyte colony-stimulating factor-induced mobilization of hematopoietic stem and progenitor cell ( ). Cells were CTV-labelled prior to transplantation, same irradiation regimen ( day -3 ; 5 Gy ), Genome Unit... Edger: a Bioconductor package for differential expression analysis of erythroid lineage effort... Rna-Magnet location estimates obtained from LCM-seq and RNA-Magnet an instructive role of fms-like tyrosine kinase-3 ( )! Limited support for CSS analysis ( Springer New York, 2018 ) IRF8 expression in tissue sections by spatial.! Grant ( grant no Extended data Fig P.H.-M. provided experimental support for this work: Lars Velten from... 200Μm ; right panels, green spots ) or DCs ( right ) in both over. Library preparation using a browser version with limited support for this work: Lars.! Chen, B., Khodadoust, M., Etzrodt, M. & Mäkinen, T. Instruction of hematopoietic and... Schroeder, T. Vascular heterogeneity and specialization in development and disease differential cytokine contributions of perivascular haematopoietic and.

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