Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Steinernema carpocapsae

ABSTRACT: A parasitic nematode used to control insect pests

PROVIDER: PRJNA43559 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other
	SRR23639665_1.fastq.gz	Fastqsanger.gz
	SRR23639665_2.fastq.gz	Fastqsanger.gz
	SRR23639666_1.fastq.gz	Fastqsanger.gz
	SRR23639666_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 118

Similar Datasets

Steinernema carpocapsae Breton small RNA sequencing insect in vitro simulation system, from "The genome, transcriptome, and proteome of the nematode Steinernema carpocapsae: evolutionary signatures of a pathogenic lifestyle"

Project description:We report small RNA sequencing of the entomopathogenic nematode Steinernema carpocapsae. The nematodes were grown in liquid culture in homogenates of pig kidney/fat and infective juveniles were gathered. Then Galleria mellonella insect haemolymph was added to simulate insect infection, control nematodes weren't added haemolymph. Nematodes were collected after two hours after haemolymph addition.

2016-09-05 | GSE85256 | GEO

Hybrid assembly of the genome of the entomopathogenic nematode Steinernema carpocapsae identifies the X-chromosome.

Project description:Entomopathogenic nematodes from the genus Steinernema are lethal insect parasites that quickly kill their insect hosts with the help of their symbiotic bacteria. Steinernema carpocapsae is one of the most studied entomopathogens due to its broad lethality to diverse insect species and its effective commercial use as a biological control agent for insect pests, as well as a genetic model for studying parasitism, pathogenesis, and symbiosis. In this study, we used long-reads from the Pacific Biosciences platform and BioNano Genomics Irys system to assemble the best genome of S. carpocapsae ALL strain to date, comprising 84.5 Mb in 16 scaffolds, with an N50 of 7.36Mb. The largest scaffold, with 20.9Mb, was identified as chromosome X based on sex-specific genome sequencing. The high level of contiguity allowed us to characterize gene density, repeat content, and GC content. RNA-seq data from 17 developmental stages, spanning from embryo to adult, were used to predict 30,957 gene models. Using this new genome, we performed a macrosyntenic analysis to Caenorhabditis elegans and Pristionchus pacificus and found S. carpocapsae’s chromosome X to be primarily orthologous to C. elegans’ and P. pacificus’ chromosome II and IV. We also investigated the expansion of protein families and gene expression differences between male and female stage nematodes. This new genome and more accurate set of annotations provide a foundation for new comparative genomic and gene expression studies within the Steinernema clade and across the Nematode phylum.

2019-03-06 | GSE127823 | GEO

2016-09-05 | E-GEOD-85256 | biostudies-arrayexpress

Steinernema carpocapsae

Project description:Activated entomopathogenic nematode infective juveniles release lethal venom proteins

| PRJNA354282 | ENA

Steinernema carpocapsae

Project description:Steinernema carpocapsae Breton small RNA sequencing insect in vitro simulation system, from "The genome, transcriptome, and proteome of the nematode Steinernema carpocapsae: evolutionary signatures of a pathogenic lifestyle"

| PRJNA337956 | ENA

The Effect of Temperature Conditioning (9°C and 20°C) on the Proteome of Steinernema carpocapsae and Heterorhabditis megidis Infective Juveniles

Project description:Entomopathogenic nematodes (Rhabditida; Steinernematidae and Heterorhabditidae) are insect parasites which are of economic importance due to their use as biocontrol agents. The third larval stage, infective juveniles (IJs) leave the natal host and move in the soil to locate a new insect host. Both families are associated with mutualistic bacteria, which are released into the haemolymph of the host insect, killing the insect and providing nutrition for nematode development and reproduction, and are thus categorised as entomopathogenic nematodes. Similarities between these two families are due to convergent evolution associated with this lifestyle, rather than common ancestry. Heterorhabditids are closely related to the vertebrate parasites Strongylida (Adams and Nguyen, 2002) and to Caenorhabditis elegans, whereas steinernematids are more closely related to Strongyloididae. The IJ stage of parasitic nematodes is analogous to the dauer stage of C. elegans; both are developmentally arrested, stress resistant stages that disperse to colonise new hosts or food resources, respectively. By investigating the molecular mechanisms and consequences of temperature acclimation and aging in EPN IJs, insights into survival and the changes induced by low temperature exposure may be gained. Label free quantitative (LFQ) massspectrometery-based proteomics facilitates the identification and quantification of thousands of proteins in a single run. Such data allows for the comparison of the proteomes of EPN IJs after conditioning via gene ontology mapping and functional enrichment analysis. Understanding how the IJ proteome is affected by temperature and aging can provide a molecular basis for the wide array of phenotypes and behaviours these organisms may adopt. This study aims to provide proteomic data which may elucidate the molecular mechanisms underlying the phenotypic plasticity which EPN IJs of two distantly related species exhibit.

2022-03-27 | PXD027608 | Pride

Comparative genomics of Steinernema reveals deeply conserved gene regulatory networks

Project description:Parasitism is a major ecological niche for a variety of nematodes. Multiple nematode lineages have specialized as pathogens, including deadly parasites of insects that are used in biological control. We have sequenced and analyzed the draft genomes and transcriptomes of the entomopathogenic nematode Steinernema carpocapsae and four congeners (S. scapterisci, S. monticolum, S. feltiae, and S. glaseri). We used these genomes to establish phylogenetic relationships, explore gene conservation across species, and identify genes uniquely expanded in insect parasites. Protein domain analysis in Steinernema revealed a striking expansion of numerous putative parasitism genes, including certain protease and protease inhibitor families, as well as fatty acid- and retinol-binding proteins. Stage-specific gene expression of some of these expanded families further supports the notion that they are involved in insect parasitism by Steinernema. We show that sets of novel conserved non-coding regulatory motifs are associated with orthologous genes in Steinernema and Caenorhabditis. We have identified a set of expanded gene families that are likely to be involved in parasitism. We have also identified a set of non-coding motifs associated with groups of orthologous genes in Steinernema and Caenorhabditis involved in neurogenesis and embryonic development that are likely part of conserved protein–DNA relationships shared between these two genera.

2015-06-05 | GSE68588 | GEO

Steinernema carpocapsae

Project description:Steinernema carpocapsae Transcriptome or Gene expression

| PRJNA525359 | ENA

Steinernema carpocapsae

Project description:Steinernema carpocapsae genomic variation

| PRJNA351254 | ENA

Steinernema carpocapsae

Project description:Steinernema carpocapsae Raw sequence reads

| PRJNA938950 | ENA