Peripheral Blood Gene Expression Profile of Infants with Atopic Dermatitis

Janna Nousbeck; Maeve A McAleer; Alan D Irvine

doi:10.1016/j.xjidi.2022.100165

Peripheral Blood Gene Expression Profile of Infants with Atopic Dermatitis

JID Innov. 2022 Oct 7;3(2):100165. doi: 10.1016/j.xjidi.2022.100165. eCollection 2023 Mar.

Authors

Janna Nousbeck^{1

2}, Maeve A McAleer^{1

3}, Alan D Irvine^{1

2

3}

Affiliations

¹ National Children's Research Centre, Dublin, Ireland.
² Clinical Medicine, School of Medicine, Trinity College Dublin, The University of Dublin, Dublin, Ireland.
³ Department of Paediatric Dermatology, Children's Health Ireland at Crumlin, Dublin, Ireland.

Abstract

To enhance the understanding of molecular mechanisms and mine previously unidentified biomarkers of pediatric atopic dermatitis, PBMC gene expression profiles were generated by RNA sequencing in infants with atopic dermatitis and age-matched controls. A total of 178 significantly differentially expressed genes (DEGs) (115 upregulations and 63 downregulations) were seen, compared with those in healthy controls. The DEGs identified included IL1β, TNF, TREM1, IL18R1, and IL18RAP. DEGs were validated by real-time RT- qPCR in a larger number of samples from PBMCs of infants with atopic dermatitis aged <12 months. Using the DAVID (Database for Annotation, Visualization and Integrated Discovery) database, functional and pathway enrichment analyses of DEGs were performed. Gene ontology enrichment analysis showed that DEGs were associated with immune responses, inflammatory responses, regulation of immune responses, and platelet activation. Pathway analysis indicated that DEGs were enriched in cytokine‒cytokine receptor interaction, immunoregulatory interactions between lymphoid and nonlymphoid cells, hematopoietic cell lineage, phosphoinositide 3-kinase‒protein kinase B signaling pathway, NK cell‒mediated cytotoxicity, and platelet activation. Furthermore, the protein‒protein interaction network was predicted using the STRING (Search Tool for the Retrieval of Interacting Genes/Proteins) database and visualized with Cytoscape software. Finally, on the basis of the protein‒protein interaction network, 18 hub genes were selected, and two significant modules were obtained. In conclusion, this study sheds light on the molecular mechanisms of pediatric atopic dermatitis and may provide diagnostic biomarkers and therapeutic targets.

Keywords: AD, atopic dermatitis; BP, biological process; CC, cellular component; DEG, differentially expressed gene; GO, gene ontology; MF, molecular function; PIP, protein‒protein interaction; RNA-seq, RNA sequencing.