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      PDGFRβ + cells play a dual role as hematopoietic precursors and niche cells during mouse ontogeny

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          Summary

          Hematopoietic stem cell (HSC) generation in the aorta-gonad-mesonephros region requires HSC specification signals from the surrounding microenvironment. In zebrafish, PDGF-B/PDGFRβ signaling controls hematopoietic stem/progenitor cell (HSPC) generation and is required in the HSC specification niche. Little is known about murine HSPC specification in vivo and whether PDGF-B/PDGFRβ is involved. Here, we show that PDGFRβ is expressed in distinct perivascular stromal cell layers surrounding the mid-gestation dorsal aorta, and its deletion impairs hematopoiesis. We demonstrate that PDGFRβ + cells play a dual role in murine hematopoiesis. They act in the aortic niche to support HSPCs, and in addition, PDGFRβ + embryonic precursors give rise to a subset of HSPCs that persist into adulthood. These findings provide crucial information for the controlled production of HSPCs in vitro.

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          Highlights

          • PDGFRβ deletion affects hematopoietic development in the AGM in vivo

          • The transcriptome and hematopoietic support of the PDGFRβ-KO niche are altered

          • The osteogenic gene profile and differentiation of KO AGM MSCs are affected

          • PDGFRβ + early embryonic precursors contribute to EC and HSPC lineages in vivo

          Abstract

          Sá da Bandeira et al. find that PDGFRβ, expressed in the AGM hematopoietic microenvironment, controls HSPCs. By RNA sequencing, hematopoietic assays, and lineage tracing, they show that PDGFRβ has a dual role: it is required in the AGM hematopoietic niche and marks early precursors of a subset of ECs and HSPCs.

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          Most cited references112

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          TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions

          TopHat is a popular spliced aligner for RNA-sequence (RNA-seq) experiments. In this paper, we describe TopHat2, which incorporates many significant enhancements to TopHat. TopHat2 can align reads of various lengths produced by the latest sequencing technologies, while allowing for variable-length indels with respect to the reference genome. In addition to de novo spliced alignment, TopHat2 can align reads across fusion breaks, which can occur after genomic translocations. TopHat2 combines the ability to identify novel splice sites with direct mapping to known transcripts, producing sensitive and accurate alignments, even for highly repetitive genomes or in the presence of pseudogenes. TopHat2 is available at http://ccb.jhu.edu/software/tophat.
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            Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks.

            Recent advances in high-throughput cDNA sequencing (RNA-seq) can reveal new genes and splice variants and quantify expression genome-wide in a single assay. The volume and complexity of data from RNA-seq experiments necessitate scalable, fast and mathematically principled analysis software. TopHat and Cufflinks are free, open-source software tools for gene discovery and comprehensive expression analysis of high-throughput mRNA sequencing (RNA-seq) data. Together, they allow biologists to identify new genes and new splice variants of known ones, as well as compare gene and transcript expression under two or more conditions. This protocol describes in detail how to use TopHat and Cufflinks to perform such analyses. It also covers several accessory tools and utilities that aid in managing data, including CummeRbund, a tool for visualizing RNA-seq analysis results. Although the procedure assumes basic informatics skills, these tools assume little to no background with RNA-seq analysis and are meant for novices and experts alike. The protocol begins with raw sequencing reads and produces a transcriptome assembly, lists of differentially expressed and regulated genes and transcripts, and publication-quality visualizations of analysis results. The protocol's execution time depends on the volume of transcriptome sequencing data and available computing resources but takes less than 1 d of computer time for typical experiments and ∼1 h of hands-on time.
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              A robust and high-throughput Cre reporting and characterization system for the whole mouse brain

              The Cre/lox system is widely used in mice to achieve cell-type-specific gene expression. However, a strong and universal responding system to express genes under Cre control is still lacking. We have generated a set of Cre reporter mice with strong, ubiquitous expression of fluorescent proteins of different spectra. The robust native fluorescence of these reporters enables direct visualization of fine dendritic structures and axonal projections of the labeled neurons, which is useful in mapping neuronal circuitry, imaging and tracking specific cell populations in vivo. Using these reporters and a high-throughput in situ hybridization platform, we are systematically profiling Cre-directed gene expression throughout the mouse brain in a number of Cre-driver lines, including novel Cre lines targeting different cell types in the cortex. Our expression data are displayed in a public online database to help researchers assess the utility of various Cre-driver lines for cell-type-specific genetic manipulation.
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                Author and article information

                Contributors
                Journal
                Cell Rep
                Cell Rep
                Cell Reports
                Cell Press
                2211-1247
                19 July 2022
                19 July 2022
                19 July 2022
                : 40
                : 3
                : 111114
                Affiliations
                [1 ]Centre for Cardiovascular Science, The Queen’s Medical Research Institute, University of Edinburgh, EH16 4TJ Edinburgh, UK
                [2 ]Centre for Regenerative Medicine, Institute for Regeneration and Repair, University of Edinburgh, 5 Little France Drive, EH16 4UU Edinburgh, UK
                [3 ]Centre for Inflammation Research, Institute for Regeneration and Repair, The Queen’s Medical Research Institute, University of Edinburgh, EH16 4TJ Edinburgh, UK
                [4 ]MRC Human Genetics Unit, Institute of Genetics and Molecular Medicine, University of Edinburgh, EH4 2XU Edinburgh, UK
                [5 ]Department of Immunology, Genetics, and Pathology, Uppsala University, 751 85 Uppsala, Sweden
                [6 ]Harvard Medical School, Department of Surgery, Boston Children’s Hospital, Boston, MA 02115, USA
                [7 ]Hubrecht Institute, Department van Oudenaarden Quantitative Biology, 3584 Utrecht, the Netherlands
                [8 ]Erasmus MC Cancer Institute, University Medical Center, Cancer Computational Biology Center, and Departments of Urology and Immunology, 3000 Rotterdam, the Netherlands
                [9 ]Center for Biomics, Department of Cell Biology, Erasmus MC University Medical Centre, 3015 Rotterdam, the Netherlands
                [10 ]Department of Medicine Huddinge, Karolinska Institutet, 141 57 Huddinge, Sweden
                [11 ]Department of Physiology and Biophysics, College of Medicine, University of Illinois at Chicago, Chicago, IL 60612, USA
                Author notes
                []Corresponding author mihaela.crisan@ 123456ed.ac.uk
                [12]

                Lead contact

                Article
                S2211-1247(22)00920-2 111114
                10.1016/j.celrep.2022.111114
                9638014
                35858557
                5234ea4c-0b1a-403f-89b5-dac8ba02d006
                © 2022 The Author(s)

                This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/).

                History
                : 10 December 2020
                : 18 March 2022
                : 28 June 2022
                Categories
                Article

                Cell biology
                pdgfrβ,pericytes,vsmcs,hematopoietic niche,mscs,osteogenesis,hspc precursor,bmp4,agm single-cell rna-sequencing

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