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KLF1-activated macrophages proteomic analysis

ABSTRACT: In this project we did a proteomic analysis from iPSCs-derived macrophages with the activation of thranscription factor KLF1, upon tamoxifen induction. These macrophages are a model for the study of the erythroid island (EI) niche in adult hematopoietic tissues, such as bone marrow and spleen. We wanted to assess the upregulated proteins in macrophages upon KLF1 activation to further study the interactions between macrophages and erythroid cells whithin the EI niche.

INSTRUMENT(S): Orbitrap Fusion

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Cell Culture, Macrophage

SUBMITTER: Telma Ventura

LAB HEAD: Lesley Forrester

PROVIDER: PXD050357 | Pride | 2024-06-23

REPOSITORIES: pride

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			Action	DRS
	220421_Exp1rpt_Fraction_1.raw	Raw
	220421_Exp1rpt_Fraction_10.raw	Raw
	220421_Exp1rpt_Fraction_11.raw	Raw
	220421_Exp1rpt_Fraction_12.raw	Raw
	220421_Exp1rpt_Fraction_13.raw	Raw

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Publications

Proteomic analysis reveals a potential role for extracellular vesicles within the erythroblastic island niche.

Ventura Telma T Fidanza Antonella A Wilson Marieangela C MC Ferguson Daniel C J DCJ Lewis Phillip A PA May Alisha A Taylor Helen H Rimmer Michael P MP Gregory Christopher D CD Frayne Jan J Forrester Lesley M LM

Frontiers in molecular biosciences 20240416

<b>Introduction:</b> Erythroblastic island (EBI) macrophages play an essential role in the production and maturation of the vast numbers of red blood cells (RBCs) that are produced throughout life. Their location within the bone marrow makes it difficult to study the cellular and molecular interactions associated with their action so we have used an <i>in vitro</i> model of the EBI niche using macrophages derived from human induced pluripotent stem cells (hiPSCs). We previously demonstrated that ...[more]

PMID: 38690294

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Protemic characterisation of the β-thalassemia erythroid cells from immortalised cell lines

Project description:β-thalassemia cell lines were generated via CRISPR-Cas9 genome editing of Bristol Erythroid Line Adult (BEL-A) and differentiated to the basophilic and polychromatic erythroid cell stage. TMT comparative proteomics was then performed on stage matched WT and β-thalassemia cells isolated by FACS.

2023-10-24 | PXD044730 | Pride

Transcriptome analysis of erythroblastic island macrophages

Project description:The erythroblastic island (EBI), composed of a central macrophage and surrounding erythroid cells, was the first hematopoietic niche discovered. The identity of EBI macrophages has thus far remained elusive. Gene expression profiles of BM F4/80+Epor-eGFP+ macrophages suggest a specialized function in supporting erythropoiesis.

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Cell-of-origin specific 3D genome structure acquired during somatic cell reprogramming [Expression]

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2016-03-01 | E-GEOD-76480 | biostudies-arrayexpress

microRNA transcriptome data from wild type and Gata6-deficient tissue resident peritoneal macrophages

Project description:microRNA transcriptome data from wild type and Gata6-deficient tissue resident peritoneal macrophages. Tissue resident macrophages are notoriously heterogeneous, exhibiting discrete phenotypes as a consequence of tissue- and micro-anatomical niche-specific functions, but the molecular basis for this is not understood. Gata6 itself has been shown to be a target of multiple miR. However, microRNA transcriptome and its dependence on tissue-specific macrophage programming, such as effected by GATA6, has not been explored. We used microRNA sequencing to determine the patterns of microRNA expression in peritoneal resident macrophages at homeostasis in the absence of GATA-6 against wild type.

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Cell-specific proteome analyses of human bone marrow upon aging.

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2018-07-20 | PXD007048 | Pride

RNA-sequencing comparing activation of wild-type transcription factor KLF1 with mutant KLF1 (KLF1-325K) in iPSC-derived macrophages.

Project description:Congenital dyserythropoietic anaemia (CDA) type IV has been associated with an amino acid substitution, Glu325Lys (E325K), in the transcription factor KLF1. Patients with CDA type IV present with a range of symptoms, including the persistence of nucleated red blood cells (RBCs) in the peripheral blood which reflects the known role for KLF1 within the erythroid cell lineage. The final stages of RBCs maturation and enucleation take place within the erythroblastic island (EBI) niche in close association with EBI macrophages. It is not known whether the detrimental effects of the E325K mutation in KLF1 are restricted to the erythroid lineage or whether deficiencies in macrophages associated with their niche also contribute to the disease pathology. To address this question, we generated iPSC lines genetically modified to express a KLF1-E325K-ERT2 protein that could be activated with 4OH-tamoxifen. We performed bulk RNA-sequencing on macrophages generated from these iPSCs, macrophages generated from one KLF1-E325K-ERT2 iPSC line (iCDA4.1) was compared to macrophages generated from one inducible KLF1-WT-ERT2 (K2) iPSC line which was derived from the same parental iPSCs (SFCi55) as the KLF1-E325K-ERT2 line.

2023-03-31 | GSE228537 | GEO

Proteomic characterization of calcium macrophages

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2022-02-17 | PXD026888 | Pride

Dynamic transcriptomes of human myeloid leukemia cells

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Quantitative proteomic analysis of four subtypes of M2 macrophages

Project description:In this study, we used mass spectrometry and label-free quantification (LFQ) to characterize the global proteomics of polarized (M1, M2a, M2b, M2c, and M2d) and unpolarized (M0) phenotypes of macrophages from human THP-1 monocytes. The results described the biological functions of the four M2 macrophages subtypes and provided available references for identifying M2 macrophages or subtypes of M2 macrophages.

2022-08-12 | PXD022320 | Pride

RNAseq of subcutaneous adipose tissue macrophage populations, AT-macrophages derived from 3D cultures and BM-cultured macrophages

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