GEO DataSets

(Submitter supplied) We presents a complete single-cell atlas of aging worms, encompassing both somatic and germ cell types. This atlas was built upon 241K nuclei across the worm lifespan at day 1, 6, 12, and 14 (100%, 99%, 61%, and 14% survival rates, respectively). The worms were aged under normal physiological conditions, without interfering with their reproductive processes.

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platforms:

GPL26672 GPL32326 GPL27998

28 Samples

Download data: MTX, RDS, TSV

(Submitter supplied) Purpose: To uncover immune genes and pathways that are modulated by the GPCR/NPR-15 during S. aureus infection Methods: RNA was extracted from synchronized L4 stage npr-15(tm12539) and WT animals grown at 20 C and infected with S. aureus for 8 hours, followed by Qiagen extraction kits and following standard methods Results: RNA seq analyses shows enriched and signficant upregulated immune, neuropeptide, synaptic signaling and metabolism genes and pathways that are dependent on NPR-15 Conclusions: Our study uncovered NPR-15 to be modulator of the innate immunity in C. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26672

6 Samples

Download data: TAB

(Submitter supplied) Purpose: To gain molecular insights on how UNC-25 regulates C. elegans innate immunity, we used RNA sequencing to profile gene expression in unc-25(e156) animals relative to wild-type animals with or without P. aeruginosa (PA14) infection. Methods: Synchronized L1 worms were placed onto NGM plates seeded with E. coli OP50 and grown at 20 °C until the L4 stage. Worms were washed off the plates, collected with M9 solution and subsequently transferred to modified NGM plates containing E. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26672

12 Samples

Download data: TXT

(Submitter supplied) We compared the ratio of polysome-associated mRNAs (>3 ribosomes/mRNA) normalized to total mRNA levels between WT and pycr-1(wrm22) mutants. While mRNA translation as measured by polysome profiling was not affected in pycr-1 mutants, we detected significant changes in the translation of mRNAs involved in ribogenesis. Ribosomal stress can activate HSF-1 and indeed a transcriptome analysis of pycr-1 mutants revealed a significant change in HSF-1 target gene expression.

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13657

14 Samples

Download data: TSV, XLSX

(Submitter supplied) To genome-widely investigate functions of C. elegans argonautes (AGOs), we applied CRISPR/Cas9 technology to introduce an in-frame GFP::FLAG multiplex tag into the endogenous locus of C. elegans AGOs and performed RNA immunoprecipitation (IP) with anti-GFP or anti-FLAG antibody, followed by unique molecular identifier (UMI)-mediated cDNA library constructions and subjected to high-throughput sequencing. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26672

20 Samples

Download data: BW

(Submitter supplied) Metabolic perturbations can rewire metabolism under different physiological or pathological conditions, in part by transcriptional mechanisms. While numerous efforts have measured gene expression in response to individual metabolic perturbations, methods that determine all metabolic perturbations that affect the expression for a given gene or set of genes have not been available. Here, we use a gene-centered approach to derive a first-pass metabolic regulatory network for Caenorhabditis elegans by performing RNAi of more than 1,400 metabolic genes with a set of 19 promoter reporter strains that express a fluorescent protein in the intestine. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30091

18 Samples

Download data: CSV

(Submitter supplied) To investigate the role of mitochondrial disruption on modulating conserved immunometabolic molecular pathways, we performed a whole transcriptome paired-end mRNA-seq analysis on C. elegans worms exposed to 0.5µM rotenone (a Complex I inhibitor) , or vehicle (0.125% dimethyl sulfoxide) . These results revealed 179 differentially expressed genes (134 up, 45 down) enriched for terms such as detoxification, energy metabolism, or pathogen defense. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26672

8 Samples

Download data: XLSX

(Submitter supplied) Classical ecotoxicological test and high-throughput molecular tools (microarray) were conducted on C. elegans to assess the effectiveness and ecosafety of a nanoremediation strategy applied to a highly polluted soil environment with heavy metals (HMs). We stablished a profiled gene expression in C. elegans exposed to the polluted soil, treated and untreated with nZVI. The results obtained showed that the percentage of differentially expressed genes decreased with the exposure time to nZVI. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by array

Platform:

GPL19230

18 Samples

Download data: CEL

(Submitter supplied) We challenge bristol strain (wild-type), metl-9 KO strain (short as KO, has a 101bp insertion, leads to a truncated protein of 258aa) and metl-9 catalytic-activity mutated strain (short as mut, has N172K, D274G mutations in full-length protein) with P.aeruginosa (P.A14), and observe a discrepant transcriptome pattern between wild-type and KO/mut strains. Plenty of innate immune response genes show different expression patterns upon P.A14 infection between the wild-type strain and KO/mut strain. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL30091

12 Samples

Download data: TXT

(Submitter supplied) Caenorhabditis elegans is associated in nature with a species-rich, distinct microbiota, which was characterized only recently. Thus, our understanding of the relevance of the microbiota for nematode fitness is still at its infancy. One major benefit that the intestinal microbiota can provide to its host is protection against pathogen infection. However, the specific strains conferring the protection and the underlying mechanisms of microbiota-mediated protection are often unclear. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13657

54 Samples

Download data: TXT

(Submitter supplied) Transcriptome profiling of C. elegans wildtype strain (N2) fed heat-inactivated OP50 diet for 5 days after L4 larvae stage. Jena Centre for Systems Biology of Ageing - JenAge (www.jenage.de)

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13776

2 Samples

Download data: XLS

(Submitter supplied) NOT PROVIDED; REQUESTED

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19757

9 Samples

Download data: CSV, FA, TSV

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL19757

19 Samples

Download data: BW, TSV

(Submitter supplied) Intestine-specific transcriptome of wild-type. gas-1(fc21) and gas-1(fc21); cest-2.2 OE Caenorhaditis elegans in order to gain insight into how cest-2.2 overexpression ameliorates Complex I deficiency

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL19757

15 Samples

Download data: FA, TSV, TXT, XLSX

(Submitter supplied) Purpose: To uncover immune and longevity genes and pathways that are modulated by the homeodomain PITX1/UNC-30, which plays a vital role in the GABAergic signaling in C elegans Methods: RNA was extracted from synchronized L4 stage unc-30(ok613) and WT animals grown at 20 C using Qiagen extraction kits and following standard methods Results: RNA seq analyses shows enriched and signficant upregulated immune, neuropeptide, ageing and metabolism genes and pathways that are dependent of GABAergic signaling Conclusions: Our study uncovered GABAgergic signaling to be modulator of the innate immunity in C elegans

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26672

6 Samples

Download data: TAB

(Submitter supplied) Purpose: To uncover immune mediated genes and pathways by Pseudomonas aeruginosa infection that are modulated by the homeodomain PITX1/UNC-30, which plays a vital role in the GABAergic signaling in C. elegans Methods: RNA was extracted from synchronized Pseudomonas aeruginosa infected L4 stage unc-30(ok613) and WT using Qiagen extraction kits and following standard methods. The animals were grown on OP50 at 20 C and infected at 25 C. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL26672

6 Samples

Download data: TXT

(Submitter supplied) Organisms respond to mitochondrial stress by activating multiple defense pathways including the mitochondrial unfolded protein response (UPRmt). However, how different layers of UPRmt regulators are orchestrated to transcriptionally activate the stress responses remains largely unknown. Here we identified CBP-1, the worm ortholog of the mammalian acetyltransferases CBP/p300, as an essential regulator for UPRmt activation, as well as for mitochondrial stress-induced immune response, amyloid-β aggregation reduction and lifespan extension in Caenorhabditis elegans. more...

Organism:

Caenorhabditis elegans

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL25145

6 Samples

Download data: XLSX

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:

Homo sapiens; Caenorhabditis elegans; Mus musculus

Type:

Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platforms:

GPL23227 GPL25145 GPL23479

57 Samples

Download data

(Submitter supplied) Purpose: Cholesterol is an essential nutrient for diverse biological processes in all organisms. However, the role of cholesterol in immune function remains understudied. Hence the goal is to obtain cholesterol-mediated immune genes Methods: Hermaphrodite C. elegans (var. Bristol) wild type (N2) were grown on 20 along side with control, which is 5µg/ml cholesterol and harvested at L4 stage. Total RNA was extracted and RNA sequencing was done following standard protocols Results: Detailed analyses of the transcriptomic data show that cholesterol-mediated immune gene that could enhance the fight against infectious diseases Conclusions: This study showed a novel role for cholesterol in the enhancement of the innate

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL25145

6 Samples

Download data: TXT

(Submitter supplied) In the past decade, the paradigm which claimed that invertebrate immune systems lack specificity has been reconsidered. Accumulating evidence supports that invertebrate immune systems are able to mount specific responses to the pathogen species-, and even to the pathogen strain-level. However, the underlying molecular mechanisms behind invertebrate immune specificity remain mostly unknown. Studying the molecular basis of invertebrate immune specificity in a genetically tractable model, such as the nematode Caenorhabditis elegans, has the potential to reveal insights into the immune systems of other metazoans, including humans. more...

Organism:

Caenorhabditis elegans

Type:

Expression profiling by high throughput sequencing

Platform:

GPL13657

64 Samples

Download data: TXT