15 / 2026-02-27 11:13:53

斑马鱼runx2b基因的缺失对lncRNA-miRNA-mRNA调控网络的影响

肌间刺；runx2b；cerna

Comprehensive analysis expression pattern and ceRNA network of lncRNA, miRNA, and mRNA associated with the intermuscular bones in fish

Zhengyu Xiao¹, Chunhong Nie^1*, Zexia Gao^1*

College of Fisheries, Huazhong Agricultural University, Wuhan 430070

*Correspondence: gaozx@mail.hzau.edu.cn

Intermuscular bone (IB) occurs in the myosepta of teleosts, and limits the economic and edible value of fish. More and more studies have paid attention to the biological function of non-coding RNAs (ncRNAs) and revealed their important roles in bone development. The purpose of this study was to investigate the role of the lncRNA-miRNA-mRNA regulatory network of IBs development in fishes with and without IBs. In this study, based on the zebrafish strains with IBs (wild type fish) and without IBs (runx2b gene editing fish) established in our lab, we used the whole transcriptome sequencing technology to construct lncRNA-miRNA-mRNA expression profiles in fish groups with IBs and without IBs. A total of 456 lncRNAs, 18 miRNAs, and 1051 mRNAs were found to be differentially expressed between these two groups. Kyoto Encyclopedia of Genes and Genomes (KEGG) analysis found many pathways related to IBs development, especially MAPK signaling pathway and TGF-β signaling pathway, and a series of genes enriched in these two pathways related to the formation of IBs. The endogenous RNA (ceRNA) networks revealed 52 ceRNA pairs related to the development of IBs, consisting of 46 mRNAs, 21 lncRNAs, and 6 miRNAs. Of these, we found that dre-miR-2189 was the core element of the ceRNA pairs, interacting with three lncRNAs and two mRNAs, and MSTRG.13175.1 could regulate sp7 expression by interacting with dre-miR-2189 to function in osteogenic differentiation, the interaction mechanism of which was also revealed by subsequent experiments at the cellular level. In conclusion, lncRNAs and miRNAs play an important role in fish IBs development, which provide new insights in further exploring the small RNA function during fish IBs formation and contribute to the genetic improvement of fish in aquaculture.

Keywords: Intermuscular bone; Fish; CeRNA;