Pristionchus pacificus - public RNASeq studies
Table of Contents
- Genome-wide relatedness shapes predatory behavior of Pristionchus pacificus
- Male and Female DNA and RNA sequencing in several nematode species
- Life history responses and gene expression profiles of the nematode Pristionchus pacificus cultured on Cryptococcus yeasts
- Multiple plasticity regulators reveal targets specifying an induced predatory form in nematodes
- 16 other studies
Analysed
ERP124953: Genome-wide relatedness shapes predatory behavior of Pristionchus pacificus
MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY
HASH(0x70bbfc0) (Akduman .. Sommer, 2020)
Design: 1 conditions
| Condition | num. replicates | Insdc center alias |
|---|---|---|
| P. pacificus RNA-seq | 36 | MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY |
SRP034667: Male and Female DNA and RNA sequencing in several nematode species
Ercan, Biology, New York University
Design: 2 conditions
| Condition | num. replicates | Developmental stage | Sex | Strain |
|---|---|---|---|---|
| female | 3 | J4 young adult | female | PS312 |
| male | 3 | J4 young adult | male | PS312 |
SRP081198: Life history responses and gene expression profiles of the nematode Pristionchus pacificus cultured on Cryptococcus yeasts
Max planck institute for developmental biology
Design: 3 conditions
| Condition | num. replicates | Culture conditions | Developmental stage | Strain |
|---|---|---|---|---|
| OP50 | 2 | OP50 | adult | RS2333 |
| Yeast C3 | 2 | Yeast C3 | adult | RS2333 |
| Yeast C5 | 2 | Yeast C5 | adult | RS2333 |
SRP215500: Multiple plasticity regulators reveal targets specifying an induced predatory form in nematodes
Indiana University
Design: 4 conditions
| Condition | num. replicates | Collection date | Geographic location | Developmental stage | Isolation source | Organism part |
|---|---|---|---|---|---|---|
| eud-1(tu445) | 4 | 2011 | Germany: Tuebingen | Mixed-stage | Mutant screen | whole-body |
| eud-1(tu445) iubIs16 | 4 | 2016 | USA: Bloomington, IN | Mixed-stage | Mutant screen | whole-body |
| nhr-40(tu445) | 4 | 2014 | Germany: Tuebingen | Mixed-stage | Mutant screen | whole-body |
| seud-1(iub7) | 4 | 2015 | USA: Bloomington, IN | Mixed-stage | Mutant screen | whole-body |
Other
These studies are available in ENA, and the reads successfully align to our genomes.
If you would like some of them included in the analysis, please let us know!
ERP004953: Developmental stage-specific expression in Pristionchus pacificus
MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY
13 runs in ENA
ERP009764: Microevolution of duplications and deletions and their impact on gene expression in the nematode Pristionchus pacificus
MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY
3 runs in ENA
ERP022675: Genotyping of recombinant inbred lines of the nematode Pristionchus pacificus by RNA-seq
MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY
In this study, we generated a cross between the P. pacificus reference strain (PS312) and an isolate from la Reuinion and geneotyped the resulting offspring after inbreeding of 10 generations by means of RNA-seq.This data can be used to map phenotypic differences between both parental strains, perform expression qtl analysis and to create a novel high-resolution genetic linkage map for P. pacificus.
Gene inactivation using the CRISPR/Cas9 system in the nematode Pristionchus pacificus. (Witte .. Sommer, 2015)
Oxygen-induced social behaviours in Pristionchus pacificus have a distinct evolutionary history and genetic regulation from Caenorhabditis elegans. (Moreno .. Sommer, 2016)
Genomic Profiles of Diversification and Genotype-Phenotype Association in Island Nematode Lineages. (McGaughran .. Sommer, 2016)
96 runs in ENA
ERP023175: Phylotranscriptomic analysis of the nematode genus Pristionchus
MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY
Phylogeny of the nematode genus Pristionchus and implications for biodiversity, biogeography and the evolution of hermaphroditism. (Mayer .. Sommer, 2007)
Molecular phylogeny of beetle associated diplogastrid nematodes suggests host switching rather than nematode-beetle coevolution. (Mayer .. Sommer, 2009)
Large-scale diversification without genetic isolation in nematode symbionts of figs. (Susoy .. Sommer, 2016)
24 runs in ENA
ERP106416: Young genes have distinct gene structure, epigenetic profiles, and transcription start site regulation
MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY
2 runs in ENA
ERP109435: Transcriptome variation across multiple isolates of the nematode P. pacificus
MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY
To study variation in sequence diversity, gene content, isoform usage, and expression levels, we generated RNA-seq libraries for dozens of natural isolates of the nematode P. pacificus.
42 runs in ENA
ERP116199: Diet-dependent surplus killing in nematodes
MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY
Predatory feeding behaviour in Pristionchus nematodes is dependent on phenotypic plasticity and induced by serotonin. (Wilecki .. Sommer, 2015)
Life History Responses and Gene Expression Profiles of the Nematode Pristionchus pacificus Cultured on Cryptococcus Yeasts. (Sanghvi .. Sommer, 2016)
4 runs in ENA
ERP117543: Transcriptomes of wild type, nhr-40 and nhr-1 mutants of Pristionchus pacificus
Max planck institute for developmental biology
38 runs in ENA
ERP120753: Tomo-seq of Pristionchus pacificus nematodes
MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY
Divergence of gene function and expression during development can give rise to phenotypic differences at the level of cells, tissues, organs, and ultimately whole organisms. To gain insights into the evolution of gene expression and novel genes at spatial resolution, we compared the spatially-resolved transcriptomes of two distantly related nematodes, Caenorhabditis elegans and Pristionchus pacificus, that diverged 60-90 million years ago.
16 runs in ENA
ERP126500: High-resolution single worm transcriptomics in Pritionchus pacificus
MAX PLANCK INSTITUTE FOR DEVELOPMENTAL BIOLOGY
80 runs in ENA
SRP014878: Pristionchus pacificus Genome sequencing
Max Planck Institute for Developmental Biology
1 run in ENA
SRP016022: microRNAs in C. elegans, P. pacificus, and S. ratti: Conserved miRNAs are candidate post-transcriptional regulators of developmental arrest in free-living and parasitic nematodes
SRP039388: Pristionchus pacificus trans-spliced transcriptome and operons
Max Planck Institute for Biology of Ageing
3 runs in ENA
SRP061928: Pristionchus pacificus intestinal transcriptome
Max Planck Institute for Developmental Biology
2 runs in ENA
SRP117954: Evolution of piRNAs in nematodes
Peter Sarkies lab - MRC London Institute of Medical Sciences/Imperial College London
2 runs in ENA
SRP278175: Pristionchus pacificus Transcriptome
Max Planck Institute for Developmental Biology
1 run in ENA
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