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Steinernema kraussei isolate:nematode

ABSTRACT: Steinernema kraussei isolate:nematode Genome sequencing

PROVIDER: PRJNA1274828 | ENA |

REPOSITORIES: ENA

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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

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 khuongi isolate:webber

Project description:Steinernema khuongi isolate:webber Genome sequencing and assembly

| PRJNA670677 | ENA

Steinernema feltiae isolate:NW

Project description:Steinernema feltiae isolate:NW Genome sequencing and assembly

| PRJNA353610 | ENA

Steinernema riobrave isolate:AKgel

Project description:Steinernema riobrave Indian isolate Draft Genome sequencing and assembly

| PRJNA648477 | ENA

Excreted-Secreted Proteins from activated infective junveiles of the entomopathogenic nematode Steinernema feltiae

Project description:Entomopathogenic nematode infective juveniles activate when they infect a host and begin releasing excreted-secreted products. These are the excreted-secreted proteins detected by mass spec from activated Steinernema feltiae infective juveniles. The infective juveniles were activated in vitro by exposure to insect-host tissue for 6 hours.

2018-10-02 | MSV000082993 | MassIVE

Transcriptomic analysis of Steinernema nematodes highlights metabolic costs associated to Xenorhabdus endosymbiont association and rearing conditions

Project description:We investigate the potential metabolic costs for Steinernema nematode in relation to the maintenance and vectoring of their Xenorhabdus endosymbionts. we performed a comparative dual RNA-seq analysis of infective juveniles (IJs) of two symbiotic partners: S. carpocapsae-X. nematophila and S. puntauvense-X. bovienii.

2022-03-16 | GSE185177 | GEO

Excreted-Secreted Proteins from non-activated/naive infective junveiles of the entomopathogenic nematode Steinernema feltiae

Project description:Entomopathogenic nematode infective juveniles activate when they infect a host and begin releasing excreted-secreted products. These are the excreted-secreted proteins detected by mass spec from non-activated/naive Steinernema feltiae infective juveniles(infective juveniles not exposed to host or host tissue).

2018-10-03 | MSV000082997 | MassIVE

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