Ontology highlight
ABSTRACT:
PROVIDER: PRJNA660426 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR12572835.fastq.gz | Fastqsanger.gz | |||
| SRR12572836.fastq.gz | Fastqsanger.gz | |||
| SRR12572837.fastq.gz | Fastqsanger.gz | |||
| SRR12572838.fastq.gz | Fastqsanger.gz | |||
| SRR12572839.fastq.gz | Fastqsanger.gz |
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Project description:Sperm motility is one of the most important indicator for evaluating roosters’ fecundity. However, the molecular regulation underlying chicken sperm motility is not yet clear. MicroRNA (miRNA) plays epigenetic roles in reproduction. In this study, we compared the testicular miRNAs of Beijing-you roosters with high (HS) and low (LS) sperm motility using Solexa sequencing. Length distribution analysis showed that the dominant size of the small RNAs detected in the testis was 24~28 nt. In total, 518 known and 106 novel miRNAs were identified. A number of 23 miRNAs were found differentially expressed (P < 0.05, |log2fold change| ≥ 1) between the HS and LS, including 18 known and five novel miRNAs. Function enrichment of predicted target genes of the differential miRNAs indicated that the differentially expressed miRNAs were involved in the pathways of GnRH signaling, MAPK signaling, and Wnt signaling. The miRNA-gene interaction network revealed two key candidate miRNA-gene pairs that may affect chicken sperm motility viz gga-miR-155/KCNA1 and gga-miR-7480-5p/AHI1. qRCR was also used to further validate their expression. The results here provide deep insight into the expression of miRNA in the testis of chicken and suggest their roles in sperm motility regulation.
2018-01-13 | GSE109141 | GEO
Project description:The epididymis in male reproductive system plays a crucial role in regulating the development of sperm motility and fertilizing capacity. Small non-coding RNAs (sncRNAs), especially microRNAs (miRNAs), can participate in the regulation of various physiological pathways. However, their abundance and whether they are involved in the regulation of gene expression in the human epididymis are unknown. By adopting the Solexa deep sequencing approach, we systematically investigated the sncRNAs in the adult human epididymis. A total of 4,903 unique reads representing 527 known miRNA were discovered. Eighteen novel miRNA genes encoding 23 mature miRNAs were also identified, suggesting a complicated miRNA regulatory network. The expression of some of the novel miRNA was confirmed by qRT-PCR. The presence of Piwi-interacting RNAs (piRNAs) in the library also adds to the diversity of sncRNA population in the human epididymis. This research lays the foundation for the functional study of sncRNAs in huamn reproductive system.
2015-12-01 | GSE33966 | GEO
Project description:In recent years considerable effort has been devoted to understanding the epigenetic control of sperm development leading to an increased appreciation of the importance of RNA interference pathways, and in particular microRNAs (miRNAs), as key regulators of spermatogenesis and epididymal maturation. It has also been shown that sperm are endowed with an impressive array of miRNA that have been implicated in various aspects of fertilization and embryo development. However, to date there have been no reports on whether the sperm miRNA signature is static or whether it is influenced by their prolonged maturation within the male reproductive tract. To investigate this phenomenon we employed next generation sequencing to systematically profile the miRNA signature of maturing mouse spermatozoa. In so doing we have provided the first evidence for the dynamic post-testicular modification of the sperm miRNA profile under normal physiological conditions. Such modifications include the apparent loss and acquisition of an impressive cohort of some 113 and 115 miRNAs, respectively between the proximal and distal epididymal segments. Interestingly, the majority of these changes occur late in maturation and include the uptake of novel miRNA species in addition to a significant increase in many miRNAs natively expressed in immature sperm. Since sperm are not capable of de novo transcription these findings identify the epididymis as an important site in establishing the sperm epigenome with the potential to condition the peri-conceptual environment of the female reproductive tract, contribute to the inheritance of acquired characteristics, and/or alter the developmental trajectory of the resulting offspring. Examination of the microRNA expression profile in sperm thoughout the mouse epididymis and mouse using next generation sequencing in duplicate.
2015-08-05 | E-GEOD-70198 | biostudies-arrayexpress
Project description:The ncRNAs derived from transfer RNAs (tRNAs), such as tRFs (tRNA-derived fragments) and tiRNAs (tRNA halves), play crucial roles in sperm development, maturation, and function, ultimately affecting the health of offspring. To further elucidate the changes in sperm tRF & tiRNA profiles induced by neonatal sevoflurane exposure, we collected sperm from the caudal epididymis of rats and isolated total RNA for tRF & tiRNA sequencing.
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Project description:We reported the cell composition and segmental expression differences in three epididymis segments using single-cell RNA sequencing. A total of 13,949 cells were detected, which were further clustered into eight cell populations identified with all known constituent cells of mouse epididymis including principle cell, basal cell, clear/narrow cell and immune cells. Through the study of 35 known epididymal proteins linking to sperm function phenotypes (EPSFPs), we found they were mainly expressed in principle cells and also revealed their segmental specific expression patterns. Notably, a part of EPSFPs was associated with sperm protection and predominantly localized in caput principal cells, whereas some EPSFPs, highly expressed in corpus and cauda, were served as the regulating molecular for the sperm functions such as motility, capacitation or acrosome reactions.In addition, focused analyses uncovered 5 subtypes of the principal cell. Intriguingly, Prc5, the subpopulation of principle cells, was almost only existed in the caput epididymis.
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Project description:Dicer1 is an endoribonuclease involved in the biogenesis of functional microRNAs (miRNAs). These small non-coding RNAs are important regulators of the posttranscriptional gene expression and participate to the control of male fertility. Knowing that 1) Dicer1-dependent factors are needed for proper sperm maturation in the epididymis, and that 2) miRNAs are potent mediators of intercellular communication in most biological systems, we investigated the role of Dicer1 dependent-miRNAs produced from the proximal epididymis (initial segment/caput) on the paracrine regulation of epididymal gene expression in the distal epididymis regions (i.e. corpus and cauda). To this aim, we performed comparative microarray and ANOVA analyses on control vs. Defb41iCre/wt;Dicer1fl/fl mice in which functional Dicer1 is absent from the principal cells of the proximal epididymis. We identified 21 and 16 transcripts, including Prostate And Testis Expressed 4 protein and the Zn-alpha 2-glycoprotein, that display significant expression level changes in the corpus and cauda regions, respectively (Fold change >2 or <-2; p<0.001). In addition, 154 miRNAs, including miR- 210, miR-672, miR-191 and miR-204, show a significantly impaired biogenesis in the absence of Dicer1 from the proximal epididymis (Fold change>2 or <-2; p<0.01). These miRNAs are secreted via extracellular vesicles derived from DC2 epididymal principal cell line, and their expression correlates with target transcripts involved in important biological pathways, as evidenced by in silico analysis. These observations suggest that Dicer1-dependent miRNAs could act as potent paracrine regulators of epididymal functions (i.e. control of sperm motility, ciliogenesis) and may contribute to the infertility phenotype observed in the Defb41iCre/wt;Dicer1fl/fl mouse model. These findings open new avenues for the identification of molecular targets important to male fertility control.
2016-09-19 | GSE77139 | GEO
Project description:The male reproductive tract tissue samples were obtained from six 38-wk-old turkeys. The gene expression pattern in turkey testis, epididymis and ductus deferens were determined by high-throughput transcriptome sequencing. The obtained sequence reads were mapped to the turkey genome, and relative expression values were calculated for the analysis of differential expressed genes. Bioinformatics analysis revealed several candidate genes potentially involved in spermatogenesis, spermiogenesis and flagella formation in testis and post-testicular sperm maturation in epididymis and ductus deferens. The achievement of spermatozoa motility during post-testicular maturation were found to be linked with development of flagellum actin filaments and biochemical processes including Ca2+ influx and protein phosphorylation/dephosphorylation. Finally, genes involved in reproductive system development and morphogenesis were identified.
2019-12-21 | GSE142428 | GEO