Whole-transcriptome RNA-seq analysis of zebrafish epidemal MLCs

In order to have a comprehensive comparison of locally restricted mpeg1+ cells (MLCs) and cLCs, we isolated locally restricted mpeg1+ cells and cLCs from heat-shock labeled zebrafish epidermis and performed whole-transcriptome RNA-sequencing. As the controls, keratinocytes, T cells and neutrophils isolated from the epidermis were also included in this experiment. Both T-SNE analysis and feature gene comparison indicate that locally restricted mpeg1+ cells indeed share the highest similarity with cLCs in transcriptome profile. Overall design: Different cell types form zebrafish epidemis, including locally restricted mpeg1+ cells, cLCs, keratinocytes, T cells and neutrophils were isolated by manually picking. Each cell types contain 3-4 replicated from 3-4 indipendent experiments. cDNA libraries were generated using Smart-seq2 protocol, library construction and whole-transcriptome RNA-sequencing were proformed by Novogene.