Ribo-seq reveals translational landscapes during yak testicular development process and cattle-yak.
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ABSTRACT:
PROVIDER: PRJNA1124923 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR29438714_1.fastq.gz | Fastqsanger.gz | |||
| SRR29438714_2.fastq.gz | Fastqsanger.gz | |||
| SRR29438715_1.fastq.gz | Fastqsanger.gz | |||
| SRR29438715_2.fastq.gz | Fastqsanger.gz | |||
| SRR29438716_1.fastq.gz | Fastqsanger.gz |
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Project description:This study used yak and cattle-yak testes from different developmental stages as materials to construct a complete translation map of the testes, and integrated transcriptome and translation results to explore gene expression changes during the sexual maturation process of yak testes. This study utilized Ribo seq technology to construct a transcriptome map of yak testicular development, revealing that the expression of genes related to spermatogenesis is specifically translated and regulated at different developmental stages. In addition, many unknown open reading frames (ORFs) in the testes have been newly identified.
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Project description:The testis is an important reproductive organ in male mammals, serving as the site for spermatogenesis, androgen synthesis, and secretion. Non-coding RNAs (ncRNAs) plays an important regulatory role in various biological processes. However, the regulatory role of ncRNAs on yak testicular development and spermatogenesis is still largely unclear. In this study, the expression profiles of circRNA, miRNA, and mRNA in testicular tissues were compared between 6 months (Y6M), 18 months (Y18M), and 4 years old (Y4Y), with a significant difference in testicular development using RNA-seq. A total of 22 differentially expressed circRNAs (DE circRNAs), 69 differentially expressed miRNAs (DE miRNAs), and 64 differentially expressed mRNA (DE mRNAs) were detected in testicular samples of Y6M, Y18M, and Y4Y, respectively. Furthermore, GO and KEGG analysis results showed that the source genes of DE circRNAs, predicted target genes of DE miRNAs, and DE mRNAs concentrated on signaling pathways and GO terms that were related to sperm synthesis, vitality, and testicular development, such as cell cycle, Wnt signaling pathway, MAPK signaling pathway, GnRH signaling pathway, and spermatogenesis process. A circRNA-miRNA-mRNA network analysis revealed that some differentially expressed non-coding RNAs (DE ncRNAs) may be involved in testicular spermatogenesis, including miR-574, miR-449a, CDC42, CYP11A1 and et al. At the same time, there are various circRNA-miRNA interaction pairs. This study provides a deep understanding of the regulatory network of ncRNA regulation in yak testicular development, providing data support for further elucidating the molecular mechanisms of yak testicular development.
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Project description:Studying spermatogenesis is the key to understanding the development mechanism of the yak reproductive system. Although N6-methyladenosine (m6A) RNA modification has been reported to regulate spermatogenesis and reproductive function in mammals, the molecular mechanism of m6A in yak testis development and spermatogenesis remains largely unknown. Therefore, we collected testicular tissue from junile and adult yaks, and found that the m6A level significantly increased after sexual maturity in yak. In MeRIP-seq, 1,702 hypermethylated peaks and 724 hypomethylated peaks were identified. The hypermethylated differentially methylated RNAs (DMRs) (CIB2, AK1, FOXJ2, PKDREJ, SLC9A3, and TOPAZ1) mainly regulated spermatogenesis, while the hypomethylated DMRs (BCL6, USP25, CD96, EPHA2, and TAF12) mainly participated in immune response. Functional enrichment analysis showed that DMRs were significantly enriched in the adherens junction, gap junction, and Wnt, PI3K, and mTOR signaling pathways, regulating cell development, spermatogenesis, and testicular endocrine function. The functional analysis of differentially expressed genes showed that they were involved in the biological processes of mitosis, meiosis, and flagellated sperm motility during sexual maturity of yak testis. We also screened the key regulatory factors of testis development and spermatogenesis by combined analysis, which included BRCA1, CREBBP, STAT3, and SMAD4. This study has important research value and practical guiding significance for yak genetic improvement, particularly in understanding the molecular mechanism and evolutionary dynamics of the progression of testis developmental stages in yaks.
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Project description:N6-methyladenosine (m6A) is the most common internal modification of eukaryotic mRNA, and its potential regulatory role has recently been identified in mammals, plants, and yeast. However, little is known about the role of m6A methylation in mammalian sexual maturation. In this study, the testicular tissue of yaks before and after sexual maturation was taken as the research object, and the m6A map of testicular tissue of yaks before and after sexual maturation was obtained through the preliminary experiment and MERIP-seq. The results showed that only spermatogonial cells and some primary spermatocytes could be seen in the testicular tissue of yak before sexual maturation, while spermatogenic cells at different stages could be seen in the testicular tissue after sexual maturation. It was found that the methylation level was higher after sexual maturation than before by detecting the expression of methylation related enzymes and the overall methylation level of testis. There were 1438 differential methylation peaks before and after sexual maturation, of which 1226 were significantly up-regulated and 212 were significantly down-regulated after sexual maturation. Through annotation, it was found that the differential methylation peaks were mainly concentrated in the exon region, followed by 3'UTR, and finally 5'UTR. KEGG pathway analysis showed that Homologous recombination, Notch signaling pathway, Growth hormone synthesis and other signaling pathways may be related to testicular development and maturation. m6A modification was positively correlated with mRNA abundance, suggesting that m6A plays a regulatory role in mammalian sexual maturation. In this study, we reported for the first time the m6A transcriptional map of yak testis, providing a starting point for revealing the function of m6A that may affect the development of yak testis.
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