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Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

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MiRNA expression in C. elegans fem-2(b245ts) and fem-3(q20ts) mutants

ABSTRACT: We compared animals that produce oocytes but no sperm fem-2(b245ts) to animals that produce sperm but no oocytes fem-3(q20ts). Using miRNA microarrays and we found that the mir-35-41 cluster genes were expressed to much greater extent in oogenesis than in spermatogenesis; furthermore, these miRNAs were the only C. elegans miRNAs that showed such differential germline expression. Total RNA was isolated from staged one day old adult populations. The data were obtained from two biological replicates. Each oligonucleotide was printed four times. Data were scaled based on total array intensities (sum of the normalized spot intensities), and data for each sample and each gene were averaged.

ORGANISM(S): Caenorhabditis elegans

SUBMITTER: H Horvitz

PROVIDER: E-GEOD-19557 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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miRNA expression in C. elegans fem-2(b245ts) and fem-3(q20ts) mutants

Project description:We compared animals that produce oocytes but no sperm fem-2(b245ts) to animals that produce sperm but no oocytes fem-3(q20ts). Using miRNA microarrays and we found that the mir-35-41 cluster genes were expressed to much greater extent in oogenesis than in spermatogenesis; furthermore, these miRNAs were the only C. elegans miRNAs that showed such differential germline expression.

2010-01-07 | GSE19557 | GEO

oocytes vs sperm

Project description:fem-1(lf) oocytes only vs fem-3(gf) sperm only Keywords: other

2003-12-31 | GSE725 | GEO

Gene expression in germ line

Project description:Identification of genes expressed in the germ line of C. elegans. This SuperSeries is composed of the following subsets: Direct comparison of fem-3(gf) vs fem-1(lf): GSE725: oocytes vs sperm Indirect comparisons between males and hermaphrodites with and without a germline: GSE715: glp-4 adults GSE716: glp-4 L2 GSE717: glp-4 L3 GSE718: glp-4 L4 GSE719: wt L2 GSE720: wt L3 GSE721: wt L4 GSE722: wt adults GSE723: adult males vs reference GSE724: no germline males vs reference Temporal analysis of wild-type larval and adult gene expression: GSE726: TP01 mid-L3 GSE727: TP02 late-L3 GSE728: TP03 late L3/early L4 GSE729: TP04 early L4 GSE730: TP05 late L4 GSE731: TP06 late L4/young adult GSE732: TP07 early young adult GSE733: TP08 late young adult GSE734: TP09 adult GSE735: TP10 adult with embs 1 GSE736: TP11 adult with emb 2 GSE737: TP12 adult with emb 3 Keywords: SuperSeries Refer to individual Series

2010-05-27 | E-GEOD-696 | biostudies-arrayexpress

Reproductive aging: fem-1 day 3 oocyte vs fem-1 day 8 oocyte

Project description:To find genes in C. elegans oocytes associated with reproductive aging. Five replicates comparing RNA from oocyte samples collected from day 3 fem-1(hc17) animals with RNA from oocyte samples collected from day 8 fem-1(hc17) animals. Three out of five are dye-flipped.

2010-09-01 | E-GEOD-23447 | biostudies-arrayexpress

Reproductive aging: sma-2;fem-1 day 8 oocyte vs fem-1 day 8 oocyte

Project description:To find genes downstream of the TGF-beta Sma/Mab pathway in C. elegans oocytes associated with reproductive aging. Eight replicates comparing RNA from oocyte samples collected from day 8 sma-2(e502);fem-1(hc17) animals with RNA from oocyte samples collected from day 8 fem-1(hc17) animals. Five out of eight are dye-flipped.

2010-09-01 | E-GEOD-23446 | biostudies-arrayexpress

A Restricted Role for Sperm-borne MicroRNAs in Mammalian Fertilization

Project description:Prototypical micro RNAs (miRNAs) are 21~25-base-pair RNAs that regulate differentiation, carcinogenesis and pluripotency by eliminating mRNAs or blocking their translation, processes collectively termed RNA interference (RNAi). RNAi mediated by miRNAs regulates early development in zebrafish, and mouse embryos lacking the miRNA precursor processor, Dicer, are inviable. However, the role of miRNAs during mammalian fertilization is unknown. We here show using microarrays that miRNAs are present in mouse sperm structures that enter the oocyte at fertilization. Sperm contained a broad profile of miRNAs and a subset of potential mRNA targets were expressed in fertilizable, metaphase II (mII) oocytes. Oocytes contained transcripts for the RNAinduced silencing complex (RISC) catalytic subunit, EIF2C3 (formerly AGO3). However, levels of sperm-borne miRNA (measured by quantitative PCR) were apparently low relative to those of unfertilized, mII oocytes, and fertilization did not alter the part of the mII oocyte miRNA landscape that included the most abundant sperm-borne miRNAs. Coinjection of mII oocytes with sperm heads plus anti-miRNAs - to suppress miRNA function - did not perturb pronuclear activation or preimplantation development. Contrastingly, we provide evidence that nuclear transfer by microinjection alters the miRNA profile of enucleated oocytes. These data argue that sperm-borne prototypical miRNAs play a limited role, if any, in mammalian fertilization or early preimplantation development. Keywords: miRNA profiling Seven samples were analyzed for the study.

2010-06-10 | E-GEOD-4011 | biostudies-arrayexpress

Caenorhabditis elegans

Project description:oocytes vs sperm

| PRJNA89777 | ENA

Transcription profiling of long-lived C.elegans daf-2 pathway mutants with wild type/short-lived mutants

Project description:Comparison of long-lived daf-2 pathway mutants with wild type/short-lived mutants. A: age-1 fer-15; fem-1 vs. fer-15; fem-1. B: age-1 fer-15; fem-1 vs. fer-15; fem-1. C: fer-15; daf-2(mu150); fem-1 vs. fer-15; fem-1. D: fer-15; daf-2(mu150); fem-1 vs. fer-15; fem-1. E: daf-16::gfp in daf-16(mu86);daf-2(e1370) vs. daf-16(mu86);daf-2(e1370). F: daf-2(e1368); fer-15; fem-1 vs. fer-15; fem-1. G: fer-15; daf-2(mu150); fem-1 vs. fer-15; fem-1. H: age-1 fer-15; fem-1 vs. fer-15; fem-1. I: fer-15; daf-2(mu150); fem-1 vs. fer-15; fem-1. J: daf-16::gfp in daf-2(e1370); daf-16(mu86) vs. daf-2(e1370); daf-16(mu86). K: daf-2(mu150) vs. wild type. L: daf-2(e1370) vs. daf-2(e1370); daf-16(mu86). M: daf-2(e1370) vs. daf-2(e1370); daf-16(mu86). N: daf-2(e1370) vs. daf-2(e1370); daf-16(mu86).

2003-07-17 | E-MEXP-7 | biostudies-arrayexpress

Developmental characterization of the microRNAs-specific C. elegans Argonautes alg-1 and alg-2

Project description:This study analyzes miRNA association with ALG-1 and ALG-2 in different stages during larval development of C. elegans Staged animals (L1, L2, L3, L4) - the alg-2 mutant expressing tagged-ALG-2, alg-1 mutant, and wild type controls - were lysed. ALG-1 IP or ALG-2 (GFP) IP was performed using tags from all four samples at all four timepoints. Small RNAs were released from antibodies and 5' end-labelled with AlexaFluor532. Labelled RNA was hybridized to a custom microRNA microarray platform to quantify miRNA content.

2012-02-03 | E-GEOD-35505 | biostudies-arrayexpress

mRNAs that co-purify with OMA-1 in the C. elegans germline (microarray)

Project description:The oocytes of most animals arrest at diplotene or diakinesis, but resume meiosis (meiotic maturation) in response to hormones. In C. elegans, maturation of the –1 oocyte requires the presence of sperm, Gas-adenylate cyclase-PKA signaling in the gonadal sheath cells, and germline function of two Tis11-like CCCH zinc-finger proteins, OMA-1 and OMA-2 (OMA proteins). Prior studies indicate that the OMA proteins redundantly repress the translation of specific mRNAs in oocytes (zif-1, mom-2, nos-2, glp-1) and early embryos (mei-1). We purified OMA-1-containing ribonucleoprotein particles (RNPs) and identified mRNAs that associate with OMA-1 in oocytes using microarrays. We examined the relative abundances of mRNAs in OMA-1 RNPs using high-throughput RNA sequencing. Previously identified targets of OMA-dependent translational repression in oocytes were found to be both enriched (>2-fold relative to input RNA) and abundant in purified OMA-1 RNPs. Furthermore, we verified that some of the newly identified mRNAs that share these characteristics are translationally repressed by OMA-1/2 in oocytes through sequences in their 3’UTRs. Although meiotic maturation is stimulated by sperm, we found that the mRNAs copurifying with OMA-1 are not significantly different in the presence and absence of sperm, suggesting that sperm-dependent signaling does not modify the suite of mRNAs stably associated with OMA-1. Further, several tested OMA-1-associated mRNAs were shown to be translationally repressed in both the presence and absence of sperm. RNA co-purifiying with OMA-1 (IP RNA) was isolated and compared to total lysate RNA (input RNA). Immunopurifications were performed, in triplicate, from lysates made from two different sterile strains. Sterile fog-1 adults lack sperm. Sterile spe-9 adults contain fertilization-incompetent sperm that promote meiotic maturation.

2014-09-29 | E-GEOD-54513 | biostudies-arrayexpress

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