Transcriptional profiling of macrophages derived from monocytes and iPS cells identifies a conserved response to LPS and novel alternative transcription

Macrophages differentiated from human induced pluripotent stem cells (IPSDMs) are a potentially valuable new tool for linking genotype to phenotype in functional studies. However, at a genome-wide level these cells have remained largely uncharacterised. Here, we compared the transcriptomes of na ve...

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Bibliographic Details
Published inbioRxiv
Main Authors Kaur Alasoo, Fernando Martinez Estrada, Hale, Christine, Gordon, Siamon, Powrie, Fiona, Dougan, Gordon, Mukhopadhyay, Subhankar, Gaffney, Daniel
Format Paper
LanguageEnglish
Published Cold Spring Harbor Cold Spring Harbor Laboratory Press 25.06.2015
Subjects
Antigen presentation
Genomes
Genotypes
Lipopolysaccharides
Macrophages
Monocytes
Phenotypes
Pluripotency
Ribonucleic acid
RNA
Stem cells
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Summary:Macrophages differentiated from human induced pluripotent stem cells (IPSDMs) are a potentially valuable new tool for linking genotype to phenotype in functional studies. However, at a genome-wide level these cells have remained largely uncharacterised. Here, we compared the transcriptomes of na ve and lipopolysaccharide (LPS) stimulated monocyte-derived macrophages (MDMs) and IPSDMs using RNA-Seq. The IPSDM and MDM transcriptomes were broadly similar and exhibited a highly conserved response to LPS. However, there were also significant differences in the expression of genes associated with antigen presentation and tissue remodelling. Furthermore, genes coding for multiple chemokine involved in neutrophil recruitment were more highly expressed in IPSDMs upon LPS stimulation. Additionally, analysing individual transcript expression identified hundreds of genes undergoing alternative promoter and 3 untranslated region usage following LPS treatment representing a previously under-appreciated level of regulation in the LPS response.
DOI:10.1101/014209