miRNA、lncRNA 和 circRNA 的综合检测在调控小鼠黑素细胞和皮肤发育中的作用。
The comprehensive detection of miRNA, lncRNA, and circRNA in regulation of mouse melanocyte and skin development.
机构信息
College of Life Science, Shanxi Agricultural University, Taigu, 030801, China.
Department of Veterinary Pharmacology and Toxicology, College of Veterinary Medicine, China Agriculture University, Beijing, 100094, China.
出版信息
Biol Res. 2020 Feb 3;53(1):4. doi: 10.1186/s40659-020-0272-1.
BACKGROUND
Pigmentation development, is a complex process regulated by many transcription factors during development. With the development of the RNA sequencing (RNA-seq), non-coding RNAs, such as miRNAs, lncRNAs, and circRNAs, are found to play an important role in the function detection of related regulation factors. In this study, we provided the expression profiles and development of ncRNAs related to melanocyte and skin development in mice with black coat color skin and mice with white coat color skin during embryonic day 15 (E15) and postnatal day 7 (P7). The expression profiles of different ncRNAs were detected via RNA-seq and also confirmed by the quantitative real-time PCR (qRT-PCR) method. GO and KEGG used to analyze the function the related target genes.
RESULTS
We identified an extensive catalogue of 206 and 183 differently expressed miRNAs, 600 and 800 differently expressed lncRNAs, and 50 and 54 differently expressed circRNAs, respectively. GO terms and pathway analysis showed the target genes of differentially expressed miRNA and lncRNA. The host genes of circRNA were mainly enriched in cellular process, single organism process. The target genes of miRNAs were mainly enriched in chromatin binding and calcium ion binding in the nucleus. The function of genes related to lncRNAs are post translation modification. The competing endogenous RNA (ceRNA) network of lncRNAs and circRNAs displays a complex interaction between ncRNA and mRNA related to skin development, such as Tcf4, Gnas, and Gpnms related to melanocyte development.
CONCLUSIONS
The ceRNA network of lncRNA and circRNA displays a complex interaction between ncRNA and mRNA related to skin development and melanocyte development. The embryonic and postnatal development of skin provide a reference for further studies on the development mechanisms of ncRNA during pigmentation.
背景
色素沉着的发展是一个复杂的过程，在发育过程中受许多转录因子的调控。随着 RNA 测序（RNA-seq）的发展，非编码 RNA（如 miRNA、lncRNA 和 circRNA）被发现在相关调节因子的功能检测中发挥重要作用。在这项研究中，我们提供了黑色和白色被毛皮肤的小鼠胚胎 15 天（E15）和出生后 7 天（P7）期间与黑素细胞和皮肤发育相关的 ncRNA 的表达谱和发育情况。通过 RNA-seq 检测不同 ncRNA 的表达谱，并通过定量实时 PCR（qRT-PCR）方法进行验证。GO 和 KEGG 用于分析相关靶基因的功能。
结果
我们分别鉴定了 206 个和 183 个差异表达的 miRNA、600 个和 800 个差异表达的 lncRNA、50 个和 54 个差异表达的 circRNA。GO 术语和通路分析显示了差异表达 miRNA 和 lncRNA 的靶基因。circRNA 的宿主基因主要富集在细胞过程、单个生物体过程中。miRNA 的靶基因主要富集在核内染色质结合和钙离子结合。lncRNA 相关基因的功能是翻译后修饰。lncRNA 和 circRNA 的竞争性内源 RNA（ceRNA）网络显示了与皮肤发育和黑素细胞发育相关的 ncRNA 与 mRNA 之间复杂的相互作用，如与黑素细胞发育相关的 Tcf4、Gnas 和 Gpnms。
结论
lncRNA 和 circRNA 的 ceRNA 网络显示了与皮肤发育和黑素细胞发育相关的 ncRNA 与 mRNA 之间复杂的相互作用。皮肤的胚胎和出生后发育为研究 ncRNA 在色素沉着过程中的发育机制提供了参考。
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