10.3389/fgene.2019.00197.s005
Yuanfang Li
Yuanfang
Li
Yi Chen
Yi
Chen
Wenjiao Jin
Wenjiao
Jin
Shouyi Fu
Shouyi
Fu
Donghua Li
Donghua
Li
Yanhua Zhang
Yanhua
Zhang
Guirong Sun
Guirong
Sun
Ruirui Jiang
Ruirui
Jiang
Ruili Han
Ruili
Han
Zhuanjian Li
Zhuanjian
Li
Xiangtao Kang
Xiangtao
Kang
Guoxi Li
Guoxi
Li
Table_5_Analyses of MicroRNA and mRNA Expression Profiles Reveal the Crucial Interaction Networks and Pathways for Regulation of Chicken Breast Muscle Development.docx
Frontiers
2019
chicken
microRNA
mRNA
RNA-seq
breast muscle
2019-03-18 04:17:46
Dataset
https://frontiersin.figshare.com/articles/dataset/Table_5_Analyses_of_MicroRNA_and_mRNA_Expression_Profiles_Reveal_the_Crucial_Interaction_Networks_and_Pathways_for_Regulation_of_Chicken_Breast_Muscle_Development_docx/7856360
<p>There is a lack of understanding surrounding the molecular mechanisms involved in the development of chicken skeletal muscle in the late postnatal stage, especially in the regulation of breast muscle development related genes, pathways, miRNAs and other factors. In this study, 12 cDNA libraries and 4 small RNA libraries were constructed from Gushi chicken breast muscle samples from 6, 14, 22, and 30 weeks. A total of 15,508 known transcripts, 25,718 novel transcripts, 388 known miRNAs and 31 novel miRNAs were identified by RNA-seq in breast muscle at the four developmental stages. Through correlation analysis of miRNA and mRNA expression profiles, it was found that 417, 370, 240, 1,418, 496, and 363 negatively correlated miRNA–mRNA pairs of W14 vs. W6, W22 vs. W6, W22 vs. W14, W30 vs. W6, W30 vs. W14, and W30 vs. W22 comparisons, respectively. Based on the annotation analysis of these miRNA–mRNA pairs, we constructed the miRNA–mRNA interaction network related to biological processes, such as muscle cell differentiation, striated muscle tissue development and skeletal muscle cell differentiation. The interaction networks for signaling pathways related to five KEGG pathways (the focal adhesion, ECM-receptor interaction, FoxO signaling, cell cycle, and p53 signaling pathways) and PPI networks were also constructed. We found that ANKRD1, EYA2, JSC, AGT, MYBPC3, MYH11, ACTC1, FHL2, RCAN1, FOS, EGR1, and FOXO3, PTEN, AKT1, GADD45, PLK1, CCNB2, CCNB3 and other genes were the key core nodes of these networks, most of which are targets of miRNAs. The FoxO signaling pathway was in the center of the five pathway-related networks. In the PPI network, there was a clear interaction among PLK1 and CDK1, CCNB2, CDK1, and GADD45B, and CDC45, ORC1 and MCM3 genes. These results increase the understanding for the molecular mechanisms of chicken breast muscle development, and also provide a basis for studying the interactions between genes and miRNAs, as well as the functions of the pathways involved in postnatal developmental regulation of chicken breast muscle.</p>