College of Animal Science and Technology, Jilin Agricultural University, Changchun 130118, Jilin, China.
College of Animal Science and Technology, Jilin Agricultural University, Changchun 130118, Jilin, China,
G3 (Bethesda). 2020 Feb 6;10(2):443-454. doi: 10.1534/g3.119.400875.
In order to enrich the genome and identify the gene expression profiles of primary and secondary feather follicles development, transcriptome assembly of skin tissues was established by analyzing three developmental stages at embryonic day 14, 18, and 28 (E14, E18, E28). Sequencing output generated 436,730,608 clean reads from nine libraries and assembled into 56,301 unigenes. There were 2,298, 9,423 and 12,559 unigenes showing differential expression in three stages respectively. Furthermore, differentially expressed genes (DEGs) were functionally classified according to genes ontology (GO), Kyoto Encyclopedia of Genes and Genomes (KEGG), and series-cluster analysis. Relevant specific GO terms such as epithelium development, regulation of keratinocyte proliferation, morphogenesis of an epithelium were identified. In all, 15,144 DEGs were clustered into eight profiles with distinct expression patterns and 2,424 DEGs were assigned to 198 KEGG pathways. Skin development related pathways (mitogen-activated protein kinase signaling pathway, extra-cellular matrix -receptor interaction, Wingless-type signaling pathway) and genes (delta like canonical Notch ligand 1, fibroblast growth factor 2, Snail family transcriptional repressor 2, bone morphogenetic protein 6, polo like kinase 1) were identified, and eight DEGs were selected to verify the reliability of transcriptome results by real-time quantitative PCR. The findings of this study will provide the key insights into the complicated molecular mechanism and breeding techniques underlying the developmental characteristics of skin and feather follicles in .
为了丰富基因组并鉴定初级和次级羽毛滤泡发育的基因表达谱，通过分析胚胎第 14、18 和 28 天（E14、E18、E28）的三个发育阶段，建立了皮肤组织的转录组组装。从 9 个文库中产生了 436,730,608 条清洁读数，并组装成 56,301 条非基因。分别有 2,298、9,423 和 12,559 个非基因在三个阶段表现出差异表达。此外，根据基因本体论（GO）、京都基因与基因组百科全书（KEGG）和系列聚类分析，对差异表达基因（DEG）进行了功能分类。确定了上皮细胞发育、角质形成细胞增殖调节、上皮形态发生等相关特定 GO 术语。总共，15,144 个 DEG 被聚类成八个具有不同表达模式的谱，2,424 个 DEG 被分配到 198 个 KEGG 途径。鉴定了与皮肤发育相关的途径（丝裂原活化蛋白激酶信号通路、细胞外基质-受体相互作用、Wingless 型信号通路）和基因（delta 样经典 Notch 配体 1、成纤维细胞生长因子 2、Snail 家族转录抑制因子 2、骨形态发生蛋白 6、Polo 样激酶 1），并选择了 8 个 DEG 通过实时定量 PCR 验证转录组结果的可靠性。本研究的结果将为了解皮肤和羽毛滤泡发育的复杂分子机制和育种技术提供关键见解。
