Transcriptomics

Dataset Information

3

Single-cell profiling of human megakaryocyte-erythroid progenitors identifies distinct megakaryocyte and erythroid differentiation pathways


ABSTRACT: Background: Recent advances in single-cell techniques have provided the opportunity to finely dissect cellular heterogeneity within populations previously defined by “bulk” assays and to uncover rare cell types. In human hematopoiesis, megakaryocytes and erythroid cells differentiate from a shared precursor, the megakaryocyte-erythroid progenitor (MEP), which remains poorly defined.Results: To clarify the cellular pathway in erythro-megakaryocyte differentiation, we correlated the surface immunophenotype, transcriptional profile and differentiation potential of individual MEP cells. Highly purified, single MEP cells (n=681) were analyzed using index fluorescence-activated cell sorting with parallel targeted transcriptional profiling of the same cells performed using a specifically designed panel of 87 genes. Differentiation potential was tested in novel, single-cell differentiation assays. Our results demonstrated that immunophenotypic MEP in fact comprise three distinct subpopulations: (1) “Pre-MEP”, enriched for erythroid/megakaryocyte progenitors but with residual myeloid differentiation capacity (2) “E-MEP”, strongly biased towards erythroid differentiation, and (3) “MK-MEP”, a previously undescribed, rare population of cells that are bipotent but primarily generate megakaryocytic progeny. Therefore, conventionally-defined MEP are in fact a mixed population: a minority give rise to mixed-lineage colonies while the majority of cells are transcriptionally-primed to generate exclusively single-lineage output. Conclusions: Our study clarifies the cellular hierarchy in human megakaryocyte/erythroid lineage commitment and highlights the importance of using a combination of single-cell approaches to dissect cellular heterogeneity and identify rare cell types within a population. We present a novel immunophenotyping strategy that enables the prospective identification of specific intermediate progenitor populations in erythro-megakaryopoiesis, allowing for in-depth study of disorders including inherited cytopenias, myeloproliferative disorders and erythromegakaryocytic leukemias. Multiplex RT-PCR gene expression profiling of 807 human megakaryocyte-erythroid progenitor cells (MEP) isolated from three healthy donors by apheresis following G-CSF treatment. Cells were excluded if more than 70 assays did not result in amplification or displayed Ct higer than 13 for B2M or higher than 15 for GAPDH. Furthermore cells with a mean non-dropout Ct value greater than 20 were removed. This resulted in a dataset of 681 cells, which were subsequently normalised to the mean of B2M and GAPDH expression.

ORGANISM(S): Homo sapiens  

SUBMITTER: Irene Roberts   Nikolaos Barkas  Neil Ashley  Anindita Roy  Jens Lichtenberg  Adam J Mead  Valentina S Caputo  Bethan Psaila  Sandra Loaiza  Adam Mead  Deena Iskander  Anastasios Karadimitris  Stacie Anderson  David Bodine 

PROVIDER: E-GEOD-79331 | ArrayExpress | 2016-04-02

SECONDARY ACCESSION(S): GSE79331PRJNA315522

REPOSITORIES: GEO, ArrayExpress

Similar Datasets

2016-01-01 | S-EPMC4855892 | BioStudies
1000-01-01 | S-EPMC2169404 | BioStudies
2018-01-01 | S-EPMC5919413 | BioStudies
2015-01-01 | S-EPMC4534255 | BioStudies
2014-01-01 | S-EPMC4093681 | BioStudies
2016-01-01 | S-EPMC4835090 | BioStudies
2016-01-01 | S-EPMC4990855 | BioStudies
2008-01-01 | S-EPMC2688789 | BioStudies
2018-01-01 | S-EPMC6336197 | BioStudies
1000-01-01 | S-EPMC5318885 | BioStudies