The Prediction And Functional Analysis Of LncRNA In Embryonic Development Process

Embryo’s development begins with fertilized eggs, after 2-cell, 4-cell, 8-cell, morulae, blastocyst, becomes ectoderm, mesoderm, endoderm. During the process of development, through proliferation and differentiation these cells develop into different types of cells and form compete individual. More and more studies have proved that the lnc RNA plays an important regulation role in process of embryo’s development. We obtain 124 single-cell transcriptome sequencing data at early stage of embryos, and we designed a new process to detect new lncRNA. Then, we merged the new lncRNA, known coding gene and known non-coding RNA to build an expression profile matrix, and then we provide hierarchical clustering analysis, correlation analysis and principal component analysis（PCA）. At last, we adopt a co-expression network analysis with WGCNA（weighted gene total expression network analysis） to understand the function of the new lncRNA at early stage of embryo.At the end of our analysis, we get 14 modules, and we find 6 especial modules which are strongly correlate with embryonic development. Only stage of 8-cell samples are related to the brown Module, the stage of Oocyte, Zygote, 2-cell and 4-cell samples are related to the turquoise Module, 8-cell and Morulae stage strongly related to black Module, blue Module associated with the ES stage samples type, the Late blastocyst stage samples related to red Module and the yellow Module is associated with the stage of Late blastocyst and ES samples. Turquoise Module contains the largest amount of new lncRNA compare with other Modules. The result of the network analysis of the top 50 genes which we chosen from each Module, indicating that the turquoise co-expression network Module has two new lncRNAs, the red Module contains a new lnc RNA, TCONS₀0090184, TCONS₀0073062 and TCONS₀0240623 respectively. And the known non-coding genes with a considerable number in the co-expression network of each Modules. Late, we adopted a functional enrichment analysis with the 6 Module’s genes. Enrichment results also meet the embryo function needs of stage development. There are some special biology process（GO_BP）, such as germ cell development, in utero embryonic development, oocyte differentiation, nc RNA metabolic process, blastocyst development process, and embryonic development ending in birth or egg hatching etc. The main signal pathway（KEGG） enrichment results as progesterone-mediated oocyte maturation, Wnt signaling pathway, ErbB signaling pathway, MAPK signaling pathway and Neurotrophin signaling pathway etc. And its contain some disease-related pathways, such as Huntington’s disease signaling pathways, signaling pathway of thyroid cancer, Parkinson’s disease and Alzheimer’s disease pathways etc.All the results proved that the lnc RNA is an important factor related to regulation function in the early stage of embryos development. Our analysis get series of new lncRNA through our new lnc RNA detect process. By using some bioinformatic methods, we analyzed the relationship between co-expression network of new lncRNA and known genes. We have predicted the function of new lncRNA in embryo development process. This topic can be used as guidance resources to provide new ideas and methods for the researchers to study lncRNA, and help new researchers to learn the function of lncRNA in the ealy stage of embro development.