Profiling of 18 - 45 nt small RNAs in the cauda epididymal sperm of mice and rats.
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ABSTRACT:
PROVIDER: PRJNA503111 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR8138822.fastq.gz | Fastqsanger.gz | |||
| SRR8138823.fastq.gz | Fastqsanger.gz |
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Project description:Total RNAs were extracted from the purified cauda epididymal spermatozoa of mouse (C57BL/6, 2 months old) and rats (Sprague Dawley, 450g young adult), and the 18 - 45 nt fraction small RNAs were subjected to library construction and deep sequencing, using Illumina GAIIx.
2018-10-31 | GSE122006 | GEO
Project description:Total RNAs were extracted from the purified caput epididymal spermatozoa of mouse (C57BL/6, 2 months old) and rats (Sprague Dawley, 450g young adult), and the 18 - 45 nt fraction small RNAs were subjected to library construction and deep sequencing, using Illumina HiSeq 2000.
2018-10-31 | GSE122025 | GEO
Project description:<p>The epididymis is the primary organ responsible for sperm maturation, with its caudal region serving as the primary storage site for mature sperm. The unique small molecule metabolites present in the cauda epididymal fluid not only facilitate the long-term storage of sperm but also ensure their structural and functional integrity prior to fertilization. Consequently, an in-depth investigation into the composition and functions of these metabolites in the cauda epididymal fluid is essential for elucidating the regulatory mechanisms governing sperm maturation and fertilization. Yaks, as livestock unique to the Qinghai-Tibet Plateau, hold significant scientific and economic value. Compared to cattle, male yaks exhibit poorer reproductive performance, characterized by reduced sperm motility, elevated sperm abnormality rate, and lower artificial insemination conception rates. To investigate the relationship between sperm motility defects in yaks and the microenvironment during their maturation, this study collected cauda epididymal fluid from yaks and cattle for untargeted metabolomic sequencing. The results indicated that 1,098 and 1,297 kinds of metabolites annotated by the Human Metabolome Database (HMDB) database were identified in yak and cattle cauda epididymal fluid, respectively, using positive and negative ion modes. In both modes, the three categories containing the most types of metabolites were organic acids and derivatives, organoheterocyclic compounds, and lipids and lipid-like molecules. Within the lipid metabolites, fatty acids and conjugates were the most prevalent in both modes. In the positive ion mode, compared to cattle cauda epididymal fluid, 79 metabolites were significantly upregulated and 212 were significantly downregulated in yak cauda epididymal fluid. In the negative ion mode, compared to cattle cauda epididymal fluid, 110 metabolites were significantly upregulated and 230 metabolites were significantly downregulated in yak cauda epididymal fluid. The Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway enrichment results showed that the most significantly enriched pathway in the positive ion mode was the biosynthesis of amino acids, while in the negative ion mode, it was ABC transporters. Among the significant differentially expressed metabolites, 18 have been associated with sperm mobility, maturation or function. The functions of these metabolites involve regulation of oxidative stress, sperm capacitation, spontaneous acrosome reaction, mitochondrial energy metabolism, mRNA methylation, and flagellar motility. Taken together, these findings establish a foundational dataset and offer novel perspectives for elucidating the molecular mechanisms underlying yak sperm maturation, enhancing sperm motility, optimizing reproductive techniques, and ultimately improving reproductive performance.</p>
2025-09-29 | MTBLS13067 | MetaboLights
Project description:Profiling of 18 - 45 nt small RNAs in the caput epididymal sperm of mice and rats
| PRJNA503183 | ENA
Project description:While assisted reproductive technologies (ARTs) are widely used in domestic animals, successful implementation of ARTs to conserve wildlife species remains challenging. In macropods, crucial aspects of fundamental reproductive biology, including changes induced by epididymal maturation, remain unknown, limiting the development of ARTs. In this context we performed a proteomic analysis of spermatozoa from the caput, corpus, and cauda epididymis of Eastern Grey Kangaroos (n = 6) to profile changes over epididymal maturation. Samples prepared by FASP digestion were analysed by LC-MS/MS with SWATH acquisition. A total of 4,304 proteins were identified, with significant overlap across epididymal regions. Highly abundant proteins in common across caput, corpus and cauda spermatozoa had strong enrichment for tubulins and included 4 histone proteins. The most significant proteomic remodelling was observed in the corpus to cauda transition, late in epididymal transit (728 differentially abundant proteins). Overall proteomic changes across epididymal maturation (1,131 differentially abundant proteins) suggested a loss of sperm glycosidases and an increase in flagellar proteins, including tubulins and dyneins. These findings serve to highlight both consistencies with eutherian sperm epididymal maturation (e.g. bias towards protein loss over transit, transfer of proteins via extracellular vesicles) and elements which are likely unique to marsupials (e.g. reduced chromatin stability, potential use of β-oxidation as a major metabolic pathway). This critical information can now be leveraged to further develop ARTs in marsupials.
2025-09-29 | PXD064577 | Pride
Project description:Sperm small RNAs have emerged as important non-genetic contributors to embryogenesis and offspring health. A subset of sperm small RNAs are thought to be acquired during epididymal transit. However, the transfer of RNAs from the somatic epididymis to the sperm has been questioned, and the identity of the specific small RNAs transferred remains unclear. Here, we employ Cre/Lox genetics to generate germline- and epididymal-specific Dgcr8 conditional knockout mice to investigate the dynamics of sperm microRNAs and their function in the early embryo. Interestingly, sperm from germline specific Dgcr8 knockout males restored the levels of 58 of the 98 (59%) miRNAs that were lost in testicular sperm during epididymal transit. Conversely, sperm from epididymal Dgcr8 knockouts displayed a 5-fold reduction in 25 miRNAs. This substantial loss of epididymal miRNAs in sperm was accompanied by transcriptomic changes in the embryo which was rescued by microinjection of epididymal miRNAs. These findings ultimately demonstrate the acquisition of miRNAs by sperm during epididymal transit and their regulation of post-fertilization embryonic gene expression.
2024-08-31 | GSE244885 | GEO
Project description:It has been demonstrated that males exposed to adversity prior to conception sire offspring exhibiting abnormal behaviour and neuroendocrine function. Epigenetic factors such as microRNA (miRNA) within sperm may be responsible for driving these effects. Synthetic glucocorticoids (sGC) are a class of drug that are commonly prescribed and may have implications for intergenerational transmission. Therefore, we hypothesized that caput and cauda sperm miRNA profiles will be altered following sGC exposure in guinea pigs. We used miRNA microarray to evaluate the miRNA levels of caput and cauda sperm isolated from guinea pigs exposed to control and water treated with sGC. We identified a subset of miRNAs with low levels in cauda sperm of guinea pigs exposed to sGC.
2023-03-17 | GSE226168 | GEO
Project description:Cryopreservation induces differential remodeling of the proteome in mammalian spermatozoa. How these proteome changes relate with the loss of sperm function during cryopreservation remains unsolved. The present study attempted to clarify this issue evaluating differential changes in the proteome of pig spermatozoa retrieved from the cauda epididymis and the ejaculate, with clear differences in cryotolerance, comparing fresh and frozen-thawed cells. Sperm samples were collected from 10 healthy, sexually mature and fertile boars, and cryopreserved using a standard 0.5 mL straw protocol. Total and progressive motility, viability and mitochondria membrane potential were higher and membrane fluidity and reactive oxygen species generation lower in frozen-thawed (FT) cauda epididymal than ejaculated spermatozoa. Quantitative proteomics of fresh and FT sperm samples were analyzed using a LC-ESI-MS/MS-based SWATH approach. Cryopreservation quantitatively altered more proteins in ejaculated than cauda epididymal spermatozoa. Differential protein-protein networks highlighted a set of proteins directly involved in mitochondrial functionality among those quantitatively altered in ejaculated spermatozoa, which would explain the worse post-thaw quality of ejaculated pig spermatozoa.
2019-11-11 | PXD012984 | Pride
Project description:Mammalian spermatogenesis involves a series of events during which germ cells differentiate into immature sperm cells. Following spermatogenesis in the seminiferous tubules, sperm undergo post-testicular maturation where they suffer extensive remodelling of their proteome culminating in the acquisition of forward motility and fertilizing ability. Despite the advances, the proteomic landscape of mammalian testicular and epididymal sperm cells remains largely uncharacterized. Shotgun proteomics was used to compare proteomes of bull testicular, caput and cauda epididymal spermatozoa. This is crucial for understanding the physiological mechanisms that lead to sperm competence.
2026-01-28 | PXD066938 | Pride
Project description:Following their production in the testis, spermatozoa enter the epididymis to gain their motility and fertilizing abilities. This post-testicular maturation coincides with sperm epigenetic profile changes that influence the progeny outcome. While recent studies underscored the dynamics of small non-coding RNAs in the maturing spermatozoa, little is known regarding sperm methylation changes and their impact at the post-fertilization level. To map out the sperm methylome dynamics, we purified spermatozoa by FACS from the testis and the different epididymal segments (i.e. caput, corpus and cauda) of CAG/su9-DsRed2; Acr3-EGFP transgenic mice. Reduced-Representation Bisulfite Sequencing (RRBS-Seq) performed on DNA from these respective sperm populations indicated that high methylation changes were observed between spermatozoa from the caput vs. testis with 5546 entries meeting our threshold values (q value < 0.01, methylation difference above 25 %). Most of these changes were transitory during epididymal sperm maturation according to the low number of entries identified between spermatozoa from cauda vs. testis.
2022-03-10 | GSE191051 | GEO