Insulin-like growth factors (IGFs) play crucial roles in the regulation of animal growth and reproduction. However, the functional and regulatory mechanisms underlying ovarian growth and oocyte maturation in teleosts remain unclear. In this study, the expression profiles of lncRNAs and mRNAs were analyzed in the ovaries of golden pompano (Trachinotus ovatus) treated with IGF1 and IGF2 proteins to gain insights into the role of these two IGF ligands in the regulation of ovarian development and maturation. A total of 1494 lncRNAs and 8728 mRNAs were differentially expressed following IGF1 treatment compared with the control group. A total of 101 lncRNAs and 377 mRNAs were differentially expressed after IGF2 treatment compared to those in the control group. The results revealed that KEGG pathways enriched by target genes of the DE lncRNAs overlapped significantly with those enriched by the DE mRNAs in both the IGF1 and IGF2 groups. The key overlapping enriched pathways included ECM receptor interaction, gap junction, Hedgehog signaling pathway, Ras signaling pathway, Rap1 signaling pathway, TGF beta signaling pathway, Wnt signaling pathway, GnRH signaling pathway, progesterone-mediated oocyte maturation, oocyte meiosis, cell cycle, and MAPK signaling pathway. The differentially expressed genes (DEGs) involved in ovarian development and oocyte maturation were cyp17a1, cyp19a1, star, hsd17b3, hsd17b7, adam23, slc26a6, htr2b, h2ax, nanos3, krt18, pgr, and inhbb, following IGF1 and IGF2 treatment. Furthermore, four lncRNAs (MSTRG.66521.1, MSTRG.49969.1, MSTRG.59923.1, and MSTRG.13767.1) for IGF1 and two (MSTRG.20896.2 and MSTRG.58123.2) for IGF2 within the lncRNA–mRNA network were found to target DEGs related to ovarian development and maturation. This suggests that IGFs may affect reproductive processes by regulating the expression of lncRNAs and mRNAs. RT-qPCR analysis revealed that these six lncRNAs showed high expression levels in the brain, pituitary, liver, and gonad tissues, indicating their potential involvement in regulating ovarian growth and development. This study elucidates the lncRNA–mRNA regulatory mechanism in response to IGF1 and IGF2 treatment during stage III of ovarian development in golden pompano, thereby deepening our understanding of its functional role.

Recently, China has become a hotspot for farming golden pompano (Trachinotus ovatus), a commercially valuable marine fish. The genetic mechanisms underlying ovarian development, particularly those regulated by insulin-like growth factors (IGFs), remain poorly understood. Existing research on T. ovatus has focused primarily on growth metrics, developmental stages, and immune responses, leaving a critical gap in knowledge regarding the hepatic regulatory pathways activated by IGFs. In this study, differentially expressed genes (DEGs) were detected through RNA sequencing (RNA-Seq) and associated pathways in response to IGF treatment. Comparisons between the IGF1, IGF2, and IGF3 treated groups and the control revealed 113 (46 upregulated, 67 downregulated), 637 (567 upregulated, 70 downregulated), and 587 DEGs (273 upregulated, 314 downregulated), respectively. KEGG enrichment analysis highlighted key pathways that may be linked to ovarian growth and development, including biotin metabolism, biosynthesis of amino acids, drug-cytochrome p450 pathways, MAPK signaling, estrogen signaling pathways, ECM receptor interaction, steroid biosynthesis, and ovarian steroidogenesis. These findings advance our understanding of hepatic metabolic regulation in golden pompano via the IGF system and provide actionable insights for optimizing aquaculture practices and selective breeding programs for this species.