1
|
Oedekoven CA, Belmonte M, Bode D, Hamey FK, Shepherd MS, Che JLC, Boyd G, McDonald C, Belluschi S, Diamanti E, Bastos HP, Bridge KS, Göttgens B, Laurenti E, Kent DG. Hematopoietic stem cells retain functional potential and molecular identity in hibernation cultures. Stem Cell Reports 2021; 16:1614-1628. [PMID: 33961793 PMCID: PMC8190576 DOI: 10.1016/j.stemcr.2021.04.002] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/08/2021] [Revised: 04/07/2021] [Accepted: 04/07/2021] [Indexed: 02/02/2023] Open
Abstract
Advances in the isolation and gene expression profiling of single hematopoietic stem cells (HSCs) have permitted in-depth resolution of their molecular program. However, long-term HSCs can only be isolated to near purity from adult mouse bone marrow, thereby precluding studies of their molecular program in different physiological states. Here, we describe a powerful 7-day HSC hibernation culture system that maintains HSCs as single cells in the absence of a physical niche. Single hibernating HSCs retain full functional potential compared with freshly isolated HSCs with respect to colony-forming capacity and transplantation into primary and secondary recipients. Comparison of hibernating HSC molecular profiles to their freshly isolated counterparts showed a striking degree of molecular similarity, further resolving the core molecular machinery of HSC self-renewal while also identifying key factors that are potentially dispensable for HSC function, including members of the AP1 complex (Jun, Fos, and Ncor2), Sult1a1 and Cish. Finally, we provide evidence that hibernating mouse HSCs can be transduced without compromising their self-renewal activity and demonstrate the applicability of hibernation cultures to human HSCs.
Collapse
Affiliation(s)
- Caroline A Oedekoven
- Wellcome MRC Cambridge Stem Cell Institute, University of Cambridge, Hills Road, Cambridge CB2 0XY, UK; Department of Haematology, University of Cambridge, Cambridge CB2 0XY, UK
| | - Miriam Belmonte
- Wellcome MRC Cambridge Stem Cell Institute, University of Cambridge, Hills Road, Cambridge CB2 0XY, UK; Department of Haematology, University of Cambridge, Cambridge CB2 0XY, UK
| | - Daniel Bode
- Wellcome MRC Cambridge Stem Cell Institute, University of Cambridge, Hills Road, Cambridge CB2 0XY, UK; Department of Haematology, University of Cambridge, Cambridge CB2 0XY, UK
| | - Fiona K Hamey
- Wellcome MRC Cambridge Stem Cell Institute, University of Cambridge, Hills Road, Cambridge CB2 0XY, UK; Department of Haematology, University of Cambridge, Cambridge CB2 0XY, UK
| | - Mairi S Shepherd
- Wellcome MRC Cambridge Stem Cell Institute, University of Cambridge, Hills Road, Cambridge CB2 0XY, UK; Department of Haematology, University of Cambridge, Cambridge CB2 0XY, UK
| | - James Lok Chi Che
- Wellcome MRC Cambridge Stem Cell Institute, University of Cambridge, Hills Road, Cambridge CB2 0XY, UK; Department of Haematology, University of Cambridge, Cambridge CB2 0XY, UK
| | - Grace Boyd
- York Biomedical Research Institute, Department of Biology, University of York, York YO10 5DD, UK
| | - Craig McDonald
- Wellcome MRC Cambridge Stem Cell Institute, University of Cambridge, Hills Road, Cambridge CB2 0XY, UK; Department of Haematology, University of Cambridge, Cambridge CB2 0XY, UK
| | - Serena Belluschi
- Wellcome MRC Cambridge Stem Cell Institute, University of Cambridge, Hills Road, Cambridge CB2 0XY, UK; Department of Haematology, University of Cambridge, Cambridge CB2 0XY, UK
| | - Evangelia Diamanti
- Wellcome MRC Cambridge Stem Cell Institute, University of Cambridge, Hills Road, Cambridge CB2 0XY, UK; Department of Haematology, University of Cambridge, Cambridge CB2 0XY, UK
| | - Hugo P Bastos
- Wellcome MRC Cambridge Stem Cell Institute, University of Cambridge, Hills Road, Cambridge CB2 0XY, UK; Department of Haematology, University of Cambridge, Cambridge CB2 0XY, UK
| | - Katherine S Bridge
- York Biomedical Research Institute, Department of Biology, University of York, York YO10 5DD, UK
| | - Berthold Göttgens
- Wellcome MRC Cambridge Stem Cell Institute, University of Cambridge, Hills Road, Cambridge CB2 0XY, UK; Department of Haematology, University of Cambridge, Cambridge CB2 0XY, UK
| | - Elisa Laurenti
- Wellcome MRC Cambridge Stem Cell Institute, University of Cambridge, Hills Road, Cambridge CB2 0XY, UK; Department of Haematology, University of Cambridge, Cambridge CB2 0XY, UK
| | - David G Kent
- Wellcome MRC Cambridge Stem Cell Institute, University of Cambridge, Hills Road, Cambridge CB2 0XY, UK; Department of Haematology, University of Cambridge, Cambridge CB2 0XY, UK; York Biomedical Research Institute, Department of Biology, University of York, York YO10 5DD, UK.
| |
Collapse
|
2
|
Mian SA, Abarrategi A, Kong KL, Rouault-Pierre K, Wood H, Oedekoven CA, Smith AE, Batsivari A, Ariza-McNaughton L, Johnson P, Snoeks T, Mufti GJ, Bonnet D. Ectopic humanized mesenchymal niche in mice enables robust engraftment of myelodysplastic stem cells. Blood Cancer Discov 2021; 2:135-145. [PMID: 33778768 PMCID: PMC7610449 DOI: 10.1158/2643-3230.bcd-20-0161] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/09/2020] [Revised: 11/12/2020] [Accepted: 12/18/2020] [Indexed: 12/13/2022] Open
Abstract
Myelodysplastic syndrome (MDS) are clonal stem cell diseases characterized mainly by ineffective hematopoiesis. Here, we present an approach that enables robust long-term engraftment of primary MDS stem cells (MDS-SCs) in mice by implantation of human mesenchymal cell-seeded scaffolds. Critically for modelling MDS, where patient sample material is limiting, mononuclear bone marrow cells containing as few as 104 CD34+ cells can be engrafted and expanded by this approach with the maintenance of the genetic make-up seen in the patients. Non-invasive high-resolution ultrasound imaging shows that these scaffolds are fully perfused. Our data shows that human microenvironment but not mouse is essential to MDS-SCs homing and engraftment. Notably, the alternative niche provided by healthy donor MSCs enhanced engraftment of MDS-SCs. This study characterizes a new tool to model MDS human disease with the level of engraftment previously unattainable in mice, and offers insights into human-specific determinants of MDS-SC microenvironment.
Collapse
Affiliation(s)
- Syed A Mian
- Department of Haematology, School of Cancer and Pharmaceutical Sciences, King's College London, London, United Kingdom
- Haematopoietic Stem Cell Lab, The Francis Crick Institute, London, United Kingdom
| | - Ander Abarrategi
- Haematopoietic Stem Cell Lab, The Francis Crick Institute, London, United Kingdom
| | - Kar Lok Kong
- Department of Haematology, School of Cancer and Pharmaceutical Sciences, King's College London, London, United Kingdom
| | - Kevin Rouault-Pierre
- Haematopoietic Stem Cell Lab, The Francis Crick Institute, London, United Kingdom
| | - Henry Wood
- Department of Haematology, School of Cancer and Pharmaceutical Sciences, King's College London, London, United Kingdom
- King's College Hospital London, London, United Kingdom
| | - Caroline A Oedekoven
- Haematopoietic Stem Cell Lab, The Francis Crick Institute, London, United Kingdom
| | - Alexander E Smith
- Department of Haematology, School of Cancer and Pharmaceutical Sciences, King's College London, London, United Kingdom
- King's College Hospital London, London, United Kingdom
| | - Antoniana Batsivari
- Haematopoietic Stem Cell Lab, The Francis Crick Institute, London, United Kingdom
| | | | - Peter Johnson
- Imaging Research Facility, The Francis Crick Institute, London, United Kingdom
| | - Thomas Snoeks
- Imaging Research Facility, The Francis Crick Institute, London, United Kingdom
| | - Ghulam J Mufti
- Department of Haematology, School of Cancer and Pharmaceutical Sciences, King's College London, London, United Kingdom.
- King's College Hospital London, London, United Kingdom
| | - Dominique Bonnet
- Haematopoietic Stem Cell Lab, The Francis Crick Institute, London, United Kingdom.
| |
Collapse
|
3
|
Panova V, Gogoi M, Rodriguez-Rodriguez N, Sivasubramaniam M, Jolin HE, Heycock MWD, Walker JA, Rana BMJ, Drynan LF, Hodskinson M, Pannell R, King G, Wing M, Easton AJ, Oedekoven CA, Kent DG, Fallon PG, Barlow JL, McKenzie ANJ. Group-2 innate lymphoid cell-dependent regulation of tissue neutrophil migration by alternatively activated macrophage-secreted Ear11. Mucosal Immunol 2021; 14:26-37. [PMID: 32457448 PMCID: PMC7790759 DOI: 10.1038/s41385-020-0298-2] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2020] [Revised: 04/13/2020] [Accepted: 04/22/2020] [Indexed: 02/04/2023]
Abstract
Type-2 immunity is characterised by interleukin (IL)-4, IL-5 and IL-13, eosinophilia, mucus production, IgE, and alternatively activated macrophages (AAM). However, despite the lack of neutrophil chemoattractants such as CXCL1, neutrophils, a feature of type-1 immunity, are observed in type-2 responses. Consequently, alternative mechanisms must exist to ensure that neutrophils can contribute to type-2 immune reactions without escalation of deleterious inflammation. We now demonstrate that type-2 immune-associated neutrophil infiltration is regulated by the mouse RNase A homologue, eosinophil-associated ribonuclease 11 (Ear11), which is secreted by AAM downstream of IL-25-stimulated ILC2. Transgenic overexpression of Ear11 resulted in tissue neutrophilia, whereas Ear11-deficient mice have fewer resting tissue neutrophils, whilst other type-2 immune responses are not impaired. Notably, administration of recombinant mouse Ear11 increases neutrophil motility and recruitment. Thus, Ear11 helps maintain tissue neutrophils at homoeostasis and during type-2 reactions when chemokine-producing classically activated macrophages are infrequently elicited.
Collapse
Affiliation(s)
- Veera Panova
- grid.42475.300000 0004 0605 769XMedical Research Council, Laboratory of Molecular Biology, Cambridge, Cambridgeshire CB2 0QH UK ,grid.451388.30000 0004 1795 1830Present Address: The Francis Crick Institute, London, NW1 1AT UK
| | - Mayuri Gogoi
- grid.42475.300000 0004 0605 769XMedical Research Council, Laboratory of Molecular Biology, Cambridge, Cambridgeshire CB2 0QH UK
| | - Noe Rodriguez-Rodriguez
- grid.42475.300000 0004 0605 769XMedical Research Council, Laboratory of Molecular Biology, Cambridge, Cambridgeshire CB2 0QH UK
| | - Meera Sivasubramaniam
- grid.42475.300000 0004 0605 769XMedical Research Council, Laboratory of Molecular Biology, Cambridge, Cambridgeshire CB2 0QH UK
| | - Helen E. Jolin
- grid.42475.300000 0004 0605 769XMedical Research Council, Laboratory of Molecular Biology, Cambridge, Cambridgeshire CB2 0QH UK
| | - Morgan W. D. Heycock
- grid.42475.300000 0004 0605 769XMedical Research Council, Laboratory of Molecular Biology, Cambridge, Cambridgeshire CB2 0QH UK
| | - Jennifer A. Walker
- grid.42475.300000 0004 0605 769XMedical Research Council, Laboratory of Molecular Biology, Cambridge, Cambridgeshire CB2 0QH UK
| | - Batika M. J. Rana
- grid.42475.300000 0004 0605 769XMedical Research Council, Laboratory of Molecular Biology, Cambridge, Cambridgeshire CB2 0QH UK
| | - Lesley F. Drynan
- grid.42475.300000 0004 0605 769XMedical Research Council, Laboratory of Molecular Biology, Cambridge, Cambridgeshire CB2 0QH UK
| | - Michael Hodskinson
- grid.42475.300000 0004 0605 769XMedical Research Council, Laboratory of Molecular Biology, Cambridge, Cambridgeshire CB2 0QH UK
| | - Richard Pannell
- grid.42475.300000 0004 0605 769XMedical Research Council, Laboratory of Molecular Biology, Cambridge, Cambridgeshire CB2 0QH UK
| | - Gareth King
- grid.42475.300000 0004 0605 769XMedical Research Council, Laboratory of Molecular Biology, Cambridge, Cambridgeshire CB2 0QH UK
| | - Mark Wing
- grid.42475.300000 0004 0605 769XMedical Research Council, Laboratory of Molecular Biology, Cambridge, Cambridgeshire CB2 0QH UK
| | - Andrew J. Easton
- grid.7372.10000 0000 8809 1613School of Life Sciences, University of Warwick, Coventry, CV4 7AL UK
| | | | - David G. Kent
- Stem Cell Institute, Clifford-Allbutt Building, Hills Road, Cambridge, CB2 0AH UK ,grid.5685.e0000 0004 1936 9668Present Address: Department of Biology, University of York, Wentworth Way, York, YO10 5DD UK
| | - Padraic G. Fallon
- grid.8217.c0000 0004 1936 9705Trinity Biomedical Sciences Institute, Trinity College Dublin, Dublin, Ireland
| | - Jillian L. Barlow
- grid.42475.300000 0004 0605 769XMedical Research Council, Laboratory of Molecular Biology, Cambridge, Cambridgeshire CB2 0QH UK ,grid.5685.e0000 0004 1936 9668Present Address: Department of Biology, University of York, Wentworth Way, York, YO10 5DD UK
| | - Andrew N. J. McKenzie
- grid.42475.300000 0004 0605 769XMedical Research Council, Laboratory of Molecular Biology, Cambridge, Cambridgeshire CB2 0QH UK
| |
Collapse
|
4
|
Shepherd MS, Li J, Wilson NK, Oedekoven CA, Li J, Belmonte M, Fink J, Prick JCM, Pask DC, Hamilton TL, Loeffler D, Rao A, Schröder T, Göttgens B, Green AR, Kent DG. Single-cell approaches identify the molecular network driving malignant hematopoietic stem cell self-renewal. Blood 2018; 132:791-803. [PMID: 29991556 PMCID: PMC6107881 DOI: 10.1182/blood-2017-12-821066] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/11/2017] [Accepted: 07/03/2018] [Indexed: 12/24/2022] Open
Abstract
Recent advances in single-cell technologies have permitted the investigation of heterogeneous cell populations at previously unattainable resolution. Here we apply such approaches to resolve the molecular mechanisms driving disease in mouse hematopoietic stem cells (HSCs), using JAK2V617F mutant myeloproliferative neoplasms (MPNs) as a model. Single-cell gene expression and functional assays identified a subset of JAK2V617F mutant HSCs that display defective self-renewal. This defect is rescued at the single HSC level by crossing JAK2V617F mice with mice lacking TET2, the most commonly comutated gene in patients with MPN. Single-cell gene expression profiling of JAK2V617F-mutant HSCs revealed a loss of specific regulator genes, some of which were restored to normal levels in single TET2/JAK2 mutant HSCs. Of these, Bmi1 and, to a lesser extent, Pbx1 and Meis1 overexpression in JAK2-mutant HSCs could drive a disease phenotype and retain durable stem cell self-renewal in functional assays. Together, these single-cell approaches refine the molecules involved in clonal expansion of MPNs and have broad implications for deconstructing the molecular network of normal and malignant stem cells.
Collapse
Affiliation(s)
- Mairi S Shepherd
- Wellcome MRC Cambridge Stem Cell Institute and
- Department of Haematology, University of Cambridge, United Kingdom
| | - Juan Li
- Wellcome MRC Cambridge Stem Cell Institute and
- Department of Haematology, University of Cambridge, United Kingdom
| | - Nicola K Wilson
- Wellcome MRC Cambridge Stem Cell Institute and
- Department of Haematology, University of Cambridge, United Kingdom
| | - Caroline A Oedekoven
- Wellcome MRC Cambridge Stem Cell Institute and
- Department of Haematology, University of Cambridge, United Kingdom
| | - Jiangbing Li
- Wellcome MRC Cambridge Stem Cell Institute and
- Department of Haematology, University of Cambridge, United Kingdom
| | - Miriam Belmonte
- Wellcome MRC Cambridge Stem Cell Institute and
- Department of Haematology, University of Cambridge, United Kingdom
| | - Juergen Fink
- Wellcome MRC Cambridge Stem Cell Institute and
- Department of Haematology, University of Cambridge, United Kingdom
| | - Janine C M Prick
- Wellcome MRC Cambridge Stem Cell Institute and
- Department of Haematology, University of Cambridge, United Kingdom
| | - Dean C Pask
- Wellcome MRC Cambridge Stem Cell Institute and
- Department of Haematology, University of Cambridge, United Kingdom
| | - Tina L Hamilton
- Wellcome MRC Cambridge Stem Cell Institute and
- Department of Haematology, University of Cambridge, United Kingdom
| | - Dirk Loeffler
- Department of Biosystems Science and Engineering, ETH Zurich, Basel, Switzerland; and
| | - Anjana Rao
- La Jolla Institute and Department of Pharmacology, University of California, San Diego, La Jolla, CA
| | - Timm Schröder
- Department of Biosystems Science and Engineering, ETH Zurich, Basel, Switzerland; and
| | - Berthold Göttgens
- Wellcome MRC Cambridge Stem Cell Institute and
- Department of Haematology, University of Cambridge, United Kingdom
| | - Anthony R Green
- Wellcome MRC Cambridge Stem Cell Institute and
- Department of Haematology, University of Cambridge, United Kingdom
- Department of Haematology, Addenbrooke's Hospital, Hills Road, Cambridge, United Kingdom
| | - David G Kent
- Wellcome MRC Cambridge Stem Cell Institute and
- Department of Haematology, University of Cambridge, United Kingdom
| |
Collapse
|
5
|
Wilson NK, Kent DG, Buettner F, Shehata M, Macaulay IC, Calero-Nieto FJ, Sánchez Castillo M, Oedekoven CA, Diamanti E, Schulte R, Ponting CP, Voet T, Caldas C, Stingl J, Green AR, Theis FJ, Göttgens B. Combined Single-Cell Functional and Gene Expression Analysis Resolves Heterogeneity within Stem Cell Populations. Cell Stem Cell 2015; 16:712-24. [PMID: 26004780 PMCID: PMC4460190 DOI: 10.1016/j.stem.2015.04.004] [Citation(s) in RCA: 315] [Impact Index Per Article: 35.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2014] [Revised: 02/26/2015] [Accepted: 04/10/2015] [Indexed: 01/27/2023]
Abstract
Heterogeneity within the self-renewal durability of adult hematopoietic stem cells (HSCs) challenges our understanding of the molecular framework underlying HSC function. Gene expression studies have been hampered by the presence of multiple HSC subtypes and contaminating non-HSCs in bulk HSC populations. To gain deeper insight into the gene expression program of murine HSCs, we combined single-cell functional assays with flow cytometric index sorting and single-cell gene expression assays. Through bioinformatic integration of these datasets, we designed an unbiased sorting strategy that separates non-HSCs away from HSCs, and single-cell transplantation experiments using the enriched population were combined with RNA-seq data to identify key molecules that associate with long-term durable self-renewal, producing a single-cell molecular dataset that is linked to functional stem cell activity. Finally, we demonstrated the broader applicability of this approach for linking key molecules with defined cellular functions in another stem cell system.
Collapse
Affiliation(s)
- Nicola K Wilson
- Department of Haematology, Wellcome Trust and MRC Cambridge Stem Cell Institute and Cambridge Institute for Medical Research, Cambridge University, Cambridge CB2 0XY, UK
| | - David G Kent
- Department of Haematology, Wellcome Trust and MRC Cambridge Stem Cell Institute and Cambridge Institute for Medical Research, Cambridge University, Cambridge CB2 0XY, UK
| | - Florian Buettner
- Institute of Computational Biology, Helmholtz Zentrum München, Ingolstädter Landstraße 1, 85764 Neuherberg, Germany
| | - Mona Shehata
- Department of Oncology and Cancer Research UK Cambridge Institute, University of Cambridge, Li Ka Shing Centre, Cambridge CB2 0RE, UK
| | - Iain C Macaulay
- Single Cell Genomics Centre, Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK
| | - Fernando J Calero-Nieto
- Department of Haematology, Wellcome Trust and MRC Cambridge Stem Cell Institute and Cambridge Institute for Medical Research, Cambridge University, Cambridge CB2 0XY, UK
| | - Manuel Sánchez Castillo
- Department of Haematology, Wellcome Trust and MRC Cambridge Stem Cell Institute and Cambridge Institute for Medical Research, Cambridge University, Cambridge CB2 0XY, UK
| | - Caroline A Oedekoven
- Department of Haematology, Wellcome Trust and MRC Cambridge Stem Cell Institute and Cambridge Institute for Medical Research, Cambridge University, Cambridge CB2 0XY, UK
| | - Evangelia Diamanti
- Department of Haematology, Wellcome Trust and MRC Cambridge Stem Cell Institute and Cambridge Institute for Medical Research, Cambridge University, Cambridge CB2 0XY, UK
| | - Reiner Schulte
- Head of Flow Cytometry, Cambridge Institute for Medical Research, Cambridge University, Cambridge CB2 0XY, UK
| | - Chris P Ponting
- Single Cell Genomics Centre, Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK; MRC Computational Genomics Analysis and Training Programme, MRC Functional Genomics Unit, Department of Physiology, Anatomy and Genetics, University of Oxford, Oxford OX1 3PT, UK
| | - Thierry Voet
- Single Cell Genomics Centre, Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1SA, UK; Laboratory of Reproductive Genomics, Department of Human Genetics, KU Leuven, 3000 Leuven, Belgium
| | - Carlos Caldas
- Department of Oncology and Cancer Research UK Cambridge Institute, University of Cambridge, Li Ka Shing Centre, Cambridge CB2 0RE, UK
| | - John Stingl
- Department of Oncology and Cancer Research UK Cambridge Institute, University of Cambridge, Li Ka Shing Centre, Cambridge CB2 0RE, UK
| | - Anthony R Green
- Department of Haematology, Wellcome Trust and MRC Cambridge Stem Cell Institute and Cambridge Institute for Medical Research, Cambridge University, Cambridge CB2 0XY, UK
| | - Fabian J Theis
- Institute of Computational Biology, Helmholtz Zentrum München, Ingolstädter Landstraße 1, 85764 Neuherberg, Germany; Department of Mathematics, Technische Universität München, Boltzmannstraße 3, 85748 Garching, Germany
| | - Berthold Göttgens
- Department of Haematology, Wellcome Trust and MRC Cambridge Stem Cell Institute and Cambridge Institute for Medical Research, Cambridge University, Cambridge CB2 0XY, UK.
| |
Collapse
|