Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Single-cell RNA sequencing of human, macaque, and mouse testes uncovers primate-specific features of spermatogenesis

ABSTRACT: Spermatogenesis is a highly regulated process that produces sperm which faithfully transmits genetic information to the next generation. Although extensively studied in mice, our current understanding of human and macaque spermatogenes is limited to known populations defined by state-specific markers developed from rodent data. As between-species differences have been reported in the process duration and cellular differentiation hierarchy, it remains unclear how molecular markersand cell states are conserved or have diverged from mice toman. To address this challenge, we employ single-cell RNA sequencing to identify transcriptional signatures of major germ and somatic cell-types of the testes in both human and macaques, and compared these data with mouse to characterize conserved and divergent features. This approach reveals differences in gene regulation throughout spermatogenesis, including differences in the stem/progenitor pool of spermatogonia, the expression timing of classical markers of differentiation, potential regulators of meiosis, the kinetics of RNA turnover during sperm maturation, and germ cell-soma communication. These datasets provide a rich foundation for future targeted mechanistic studies of germ cell development and in vitro gametogenesis.

ORGANISM(S): Homo sapiens Macaca mulatta

PROVIDER: GSE142585 | GEO | 2020/06/12

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Single-cell RNA sequencing of mouse germ cells

Project description:Spermatogenesis is a recurring differentiation process that results in the production of male gametes within the testes. During this process, spermatogonial stem cells differentiate to form spermatocytes, which undergo two rounds of meiotic division to form haploid spermatids. Throughout spermiogenesis, round spermatids elongate to form mature sperm. To profile maturing germ cells during the first wave of spermatogenesis, we generated droplet-based single cell RNAseq from juvenile animals at post-natal day P5-P35 as well as adult animals. Cells were isolated from whole testes. Furthermore, to assay the robustness of the meiotic cell division process, we profiled germ cells of the trans-chromosomal mouse model (Tc1) that carries a copy of the human chromosome 21.

2019-01-25 | E-MTAB-6946 | biostudies-arrayexpress

Testis single-cell RNA-sequencing in the cynomolgus macaque reveals conserved transcriptional profiles during mammalian spermatogenesis

Project description:Spermatogenesis in mammals is a complex and highly orchestrated process, which involves the differentiation of diploid (2n-DNA content) spermatogonia into haploid (n) sperm. This process begins with spermatogonia, a niche of stem cells, which drive this process. Spermatogonial stem cells (SSCs) undergo mitotic self-renewal to maintain this niche, while sub-populations of spermatogonia progressively undergo differentiation and later gain competence to initiate meiosis and form sperm. SSCs undergo extensive chromatin remodelling and major morphological changes, while maintaining genome integrity and parental imprints. To study this in greater detail we performed single-cell RNA sequencing of spermatogenic cells derived from the testis of the non-human primate Macaca fascicularis.

2020-08-13 | E-MTAB-8979 | biostudies-arrayexpress

Identification and Characterization of MicroRNAs in Zebrafish Spermatozoa by Illumina Sequencing

Project description:MicroRNAs (miRNAs) are involved in nearly every biological process examined to date. Mounting evidence show that some spermatozoa specific miRNAs play important roles in the regulation of spermatogenesis and germ cells development, but little is known of the exact identity and function of miRNA in sperm cells or their potential involvement in spermatogenesis and germ cells development. Here, we investigated the spermatozoa miRNA profiles using illumina deep sequencing combined with bioinformatic analysis using zebrafish as a model system. Deep sequencing of small RNAs yielded 12 million raw reads from zebrafish spermatozoa. Analysis showed that the noncoding RNA of the spermatozoa included tRNA, rRNA, snRNA, snoRNA and miRNA. By mapping to the zebrafish genome, we identified 400 novel and 204 conserved miRNAs which could be grouped into 104 families, including zebrafish specific families, such as mir-731, mir-724, mir-725, mir-729 and mir-2185. We report the first characterization of the miRNAs profiling in zebrafish spermatozoa. The obtained spermatozoa miRNAs profiling will serve as valuable resources to systematically study spermatogenesis in fish and vertebrate. Examination of small RNA populations in zebrafish spermatozoa

2015-04-01 | E-GEOD-61984 | biostudies-arrayexpress

Differential transcrpitome analysis of Sertoli cells during their phases of postnatal maturation in rat testes

Project description:Spermatogenesis is a complex process involving multiple cells and cellular signals. Among all other cells, Sertoli cells (Sc) are absolutely indispensable for sperm production because they provide biochemical signal and physical support to developing germ cells in the testis. Sc drastically transform during the process of attainment of reproductive maturity. Stage specific gene expression by Sc, supplement for the changing need of developing germ cells. A conspicuous absence of comprehensive gene expression data from various stages of developing Sertoli cells hinders our knowledge of regulating inputs necessary for the process of spermatogenesis.

2017-03-01 | GSE48795 | GEO

A comprehensive roadmap of spermatogenesis and testis niche from single-cell RNA-seq

Project description:Continuous sperm production is not necessary for the survival of the organism, but is essential to maintain a species. The process of spermatogenesis is comprised of three phases: mitotic proliferation, meiosis, and spermiogenesis. To illuminate germline intrinsic and extrinsic programs, we performed single-cell RNA sequencing on ~35K cells from the adult mouse testis. This analysis provides a comprehensive molecular atlas of the testis, identifying both known and novel cell types. We demonstrate for the first time the continuous nature of germ cell differentiation, provide molecular signatures and subtype-specific molecular markers, and identify several novel candidate regulators of spermatogenesis. Finally, we demonstrate in vivo using spatial mapping that germ and somatic cell molecular subtypes correspond to previously defined histological cell types residing at different stages of seminiferous epithelial cycle. Taken together, our results unveil the complexity of the testis, and provide a global, unbiased roadmap of the in vivo gametogenesis program.

2018-08-24 | GSE112393 | GEO

Identification and Characterization of MicroRNAs in Zebrafish Spermatozoa by Illumina Sequencing

2015-04-01 | GSE61984 | GEO

Male Infertility: Genetics of Spermatogenic Failure

Project description:<p>Spermatogenesis is a complex biological process that requires the coordination of thousands of genes. Perhaps because of the large number of genes involved, spermatogenic failure occurs frequently and affects approximately 1% of men. While environmental and genetic factors likely contribute to this disorder, it is thought that the majority of cases have an underlying genetic basis. The two most common genetic causes are deletions on the Y chromosome and cytogenetic abnormalities (/e.g./ Klinefelter syndrome, XXY), which each account for roughly 10-15% of cases of complete spermatogenic failure. Point mutations in several other genes have also been linked to spermatogenic failure, but their collective prevalence is very low. Thus, for approximately 70% of men with spermatogenic failure, the genetic cause remains unknown. We hypothesize that a disproportionate number of these remaining genetic variants reside on the sex chromosomes because they are hemizygous in males and contain a disproportionate number of genes expressed in the testis. To identify genes that are required for spermatogenesis, we have performed capture-based targeted sequencing in 301 men with azoospermia (complete absence of sperm) and 300 fertile controls. Our sequencing is focused on coding genes and conserved, non-coding sequences of the X and Y chromosomes. In addition, we have targeted ~497 autosomal genes that display exclusive or predominant expression in the testis. The total sequence space targeted is 21.3 Mb, and we require >70% of targets reach an average coverage of 20X. </p>

| phs001023 | dbGaP

The evolutionarily conserved gene Arrdc5 is required for male fertility in mice

Project description: In sexually reproducing organisms, sperm contribute half the genomic material required for creation of offspring and natural fertility relies on males producing millions by way of spermatogenesis. This process is essential for continuity and diversity of a species, yet evolutionarily conserved core molecular regulators are undefined. Here we used single cell RNA-sequencing of testicular tissue from mice, pigs, and cattle to generate a multispecies integrated transcriptome database. Through bioinformatic analysis, the gene arrestin-domain containing 5 (Arrdc5) which encodes for an α-arrestin molecule was identified as a potential evolutionarily conserved regulator of spermatogenesis. Expression of Arrdc5 is testis specific in mice, pigs, cattle, and humans. Knockout of Arrdc5 in mice leads to male specific sterility due to production of low numbers of sperm that are immotile and malformed, resembling oligoasthenoteratospermia (OAT) which is a common diagnosis of infertility in men. Spermiogenesis, the final phase of spermatogenesis when round spermatids morphologically transform to spermatozoa, is defective in testes of Arrdc5 deficient mice. Also, epididymal sperm in Arrdc5 knockouts are unable to capacitate and fertilize oocytes. These findings establish Arrdc5 as a core regulator of mammalian spermatogenesis. Considering the role of arrestin molecules as modulators of G-protein coupled signaling and ubiquitination, Arrdc5 is a potential male contraceptive target.

2023-03-06 | GSE206156 | GEO

Argonautes promote male fertility and provide a paternal memory of germline gene expression in C. elegans

Project description:During each life cycle germ cells preserve and pass on both genetic and epigenetic information. In C. elegans, the ALG-3/4 Argonaute (AGO) proteins and their small-RNA cofactors are expressed during male gametogenesis and promote male fertility. Here we show that the CSR-1 AGO functions with ALG-3/4 to positively regulate target genes required for spermiogenesis. Our findings suggest that ALG-3/4 functions during spermatogenesis to amplify a small-RNA signal that represents an epigenetic memory of male-specific gene expression, while CSR-1, which is abundant in mature sperm, transmits this memory to offspring. Surprisingly, in addition to small RNAs targeting male-specific genes, we show that males also harbor an extensive repertoire of CSR-1 small RNAs targeting oogenesis-specific mRNAs. Together these findings suggest that C. elegans sperm transmit not only the genome but also epigenetic binary signals in the form of Argonaute/small-RNA complexes that constitute a memory of which genes were active in preceding generations.

2013-12-19 | GSE49672 | GEO

Improving sperm cryopreservation with type III antifreeze proteins: effect on proteomic profiles of Cynomolgus macaque sperm

Project description:Antifreeze protein III (AFP III) has been used in the cryopreservation of germ cells in several kinds of animals, but it is not yet known what the specific cryoprotective mechanism of AFP III is, except for reducing the formation of ice crystals during cryopreservation. In order to study the cryoprotective mechanism of AFP III on sperm cryopreservation, the proteomic profile of Cynomolgus macaques sperm were identified after cryopreservation. Compared to fresh sperm, 141 and 32 proteins were differentially identified in Cynomolgus macaques sperm cryopreserved without and with 0.1µg/ml AFP III, respectively. These proteins were mainly involved in mitochondrial production of reactive oxygen species (ROS), glutathione (GSH) synthesis and cell apoptosis. According to the differential proteins, we supposed that AFP Ⅲ mainly reduce sperm lipid, protein and DNA damage, as well as the release of cytochrome c, and thereby reduce sperm apoptosis by modulating the production of ROS in mitochondria. The molecular mechanism that how AFP III acts with sperm proteins and protects cell from cryoinjuries needs further study.

2022-02-17 | PXD024836 | Pride

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data