Extended Data Fig. 1: Declines in SMC1, SMC3a and RAD21 expression in differentiating neutrophils.
From: Nuclear morphology is shaped by loop-extrusion programs
a, Left images represent Wright–Giemsa staining of ECOMG progenitors cultured in the presence (top images) or absence (bottom images) of β-oestradiol (n = 500 cells). Scale bars, 20 µm (left image) and 10 µm (right image). Right images represent Wright–Giemsa staining of CD11b−/+Ly6G− neutrophil progenitors (upper image) and CD11b+Ly6G+ differentiated neutrophils (lower image) isolated from the bone marrow. Scale bars, 10 µm. b, Volcano plot shows relative transcript abundance in ECOMG progenitors cultured in the absence versus presence of β-oestradiol. Upregulated transcripts are shown in red while downregulated transcripts are indicated in blue. Genes closely associated with a neutrophil-specific gene program are highlighted. c, Volcano plot highlights transcripts encoding for transcription factors that instruct neutrophil cell fate. Volcano plots represent the results of the limma-voom differential expression analysis displayed as the log2 fold change by the −log10 of the adjusted P value of each gene. Upregulated genes defined Padj < 0.05 and log2-transformed fold change > 1 are represented in red. Downregulated genes defined as Padj < 0.05 and log2-transformed fold change < −1 are represented in blue. d, Western blot analysis of SMC1a, SMC3, RAD21 and NIPBL protein levels in ECOMG progenitors and differentiated neutrophils are shown. e, Heat map indicating normalized transcript counts (DESeq2) and the genome browser tracks (IGV) of RNA-seq indicating transcript abundance for factors that instruct loop extrusion in neutrophil progenitors and differentiated neutrophils derived from mouse bone marrow are shown.
