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RNASeq Pristionchus pacificus

Pristionchus pacificus - public RNASeq studies

Analysed

SRP034667: Male and Female DNA and RNA sequencing in several nematode species

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

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

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.

4 runs in ENA

SRP014878: Pristionchus pacificus Genome sequencing

Max Planck Institute for Developmental Biology

1 run in ENA

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