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Caenorhabditis elegans strain:Hawaii strain CB4856

ABSTRACT: Caenorhabditis elegans strain:Hawaii strain CB4856 Genome sequencing

PROVIDER: PRJNA245160 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR1259172_1.fastq.gz	Fastqsanger.gz
	SRR1259172_2.fastq.gz	Fastqsanger.gz
	SRR1460676.fastq.gz	Fastqsanger.gz

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Caenorhabditis elegans strain:CB4856

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Microarray on Caenorhabditis elegans N2 and CB4856 infected with Orsay virus

Project description:This experiment investigates the gene expression differences upon Orsay virus infection in the Caenorhabdits elegans strains N2 and CB4856. Assays measuring viral load found that the N2 strain displays higher viral loads upon infection than the CB4856 strain. The goal of the experiment was to identify gene-expression differences that could explain the differences in viral load. We (mock-)infected 26h-old C. elegans populations with Orsay virus and took samples after 30h of infection. For each treatment-strain combination 8 samples were collected. Thereafter RNA was isolated, labelled, and hybridized on microarray.

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Caenorhabditis elegans strain:CB4856

Project description:Long-read sequencing of C. elegans strain CB4856 (also known as PD2182 or Hawaiian)

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Transcriptome profiling by microarray of Caenorhabditis elegans MT2124 x CB4856 RILs used for eQTL mapping

Project description:We crossed the MT2124 strain carrying the let-60 (n1046) gain of function mutation with the wild-type strain CB4856. From this cross a panel of mutation introgression recombinant inbred lines (miRILs) was generated. Using this population, the influence of genetic variation on the the let-60 (gf) mutation can be investigated. This analysis can pinpoint genetic loci A panel of 33 miRILs, the parental strains (4x), and transgenic lines amx-2(lf);Si[amx-2(Bristol)];let-60(gf) and amx-2(lf);Si[amx-2(Hawaii)];let-60(gf) containing the N2- or CB4856-allele of amx-2 in a amx-2(lf);let-60(gf) background were sampled. All the strains were grown on nematode growth medium dishes seeded with E. coli OP50. The temperature at which the strains were kept was 20 degrees Celsius and the strains were grown for 72 hours after synchronization by bleaching. Thereafter RNA was isolated, labelled, and hybridized on microarray. The gene expression profiles of the miRILs were used for eQTL mapping. The gene expression profiles of the transgenic strains were used for trans-band confirmation.

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Dynamic gene expression of two Caenorhabditis elegans wild type strains (N2 and CB4856)

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Dynamic gene expression of two Caenorhabditis elegans wild type strains (N2 and CB4856)

Project description:We analyzed the consequences of recombination in gene expression. For this, we measured expression patterns in two C. elegans wild types, N2 and CB4856 (CB). We compare these profiles with gene expression values from a Recombinant Inbred Population (RIL) derived from the same wild types. Expression values of the RILs (GSE17071) were obtained from ViÃ±uela et al. (Genome Research, 2010). N2 and CB strain nematodes were cultured in identical conditions. Likewise, mRNA was extracted at three different ages (juveniles, reproductive and old worms) to investigate the transcriptional consequences of recombination in aging worms. Then, we explored gene expression heritability and transgression as genetic parameters for the analysis of gene expression divergence in natural isolates. Moreover, we investigated the progression of those parameters with age. In total, 14 dual-color microarrays were done on two wild type strains (N2 and CB4856) and three age groups (40, 96, and 214 hours). 5 replicates of t1 (juvenile) and t3 (senescent) samples, and 4 replicates of t2 (reproductive) samples, in a dye-swap design.

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