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Next Generation Sequencing and Quantitative Analysis of mRNAs in Wild Type and ceh-60 Mutant Caenorhabditis elegans

ABSTRACT: Next Generation Sequencing and Quantitative Analysis of mRNAs in Wild Type and ceh-60 Mutant Caenorhabditis elegans

PROVIDER: PRJNA449675 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR6983670.fastq.gz	Fastqsanger.gz
	SRR6983671.fastq.gz	Fastqsanger.gz
	SRR6983672.fastq.gz	Fastqsanger.gz
	SRR6983673.fastq.gz	Fastqsanger.gz
	SRR6983674.fastq.gz	Fastqsanger.gz

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Next Generation Sequencing and Quantitative Analysis of mRNAs in Wild Type and ceh-60 Mutant Caenorhabditis elegans

Project description:Animals integrate metabolic, developmental, and environmental information before committing key resources to reproduction. In C. elegans, adult animals reallocate key fat stores from intestinal cells to the germline via lipoproteins to promote reproduction. I identified the evolutionarily conserved homeodomain transcription factor CEH-60/PBX as a potent regulator of lipid homeostasis, longevity, and stress response pathways. To gain a comprehensive view of CEH-60 transcriptional activity, I profiled the transcriptomes of ceh-60 mutants by mRNA-Seq and identified genome-wide CEH-60 binding sites by ChIP-Seq. These approaches revealed that several homeostatic pathways are directly controlled by the CEH-60 transcription factor. CEH-60 functions cooperatively with UNC-62/MEIS in the intestine to directly activate lipoprotein genes while simultaneously repressing genes involved in stress responses, including the innate immune and oxidative stress responses. Thus in wild-type animals, CEH-60 serves as a molecular switch that promotes reproduction (i.e., lipoproteins) while repressing stress response and longevity pathways. This study identifies a new key regulator of fat metabolism, longevity, and stress response pathways during normal C. elegans development.

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Genome-wide occupancy of the CEH-60 and UNC-62 Transcription Factors in Caenorhabditis elegans

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CEH-60/PBX regulates vitellogenesis and cuticle formation through interaction with UNC-62/MEIS in Caenorhabditis elegans

Project description:The onset of sexual maturity involves dramatic changes in physiology and gene expression in many animals. A textbook example is the production of enormous amounts of yolk proteins destined for the nascent oocytes, termed vitellogenesis. We previously identified the rapidly evolving PBC-class Hox-cofactor CEH-60/PBX as necessary for abundant vit transcription in C. elegans. Differential proteomics data shows that all vitellogenin proteins are indeed drastically downregulated in ceh-60 mutant animals and suggest an additional role for CEH-60’s involvement cuticle structure, innate immunity and stress response.

2019-09-25 | PXD013584 | Pride

Analysis of the transcription factor CEH-60 in Caenorhabditis elegans development

Project description:Analysis of the transcription factor CEH-60 in Caenorhabditis elegans development

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Methylation profiling of C.elegans to identify CEH-60/PBX binding sites

Project description:CEH-60 binding profile by comparison of DNA methylation of a C. elegans strain expression ceh-60::dam to a control strain expressing gfp::dam. Sequencing libraries prepared using NEBNext Singleplex oligos for Illumina®. Data analysis performed with GeneDamIDseq (Sharma, Ritler, and Meister 2016).

2020-11-16 | E-MTAB-9539 | biostudies-arrayexpress

Genome-wide occupancy of the CEH-60 and UNC-62 Transcription Factors in Caenorhabditis elegans

Project description:Genome-wide occupancy of the CEH-60 and UNC-62 Transcription Factors in Caenorhabditis elegans

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Downstream targets of let-60 Ras in Caenorhabditis elegans

Project description:In Caenorhabditis elegans, let-60 Ras controls many cellular processes, such as differentiation of vulval epithelial cells, function of chemosensory neurons, and meiotic progression in the germ line. Although much is known about the let-60 Ras signaling pathway, relatively little is understood about the target genes induced by let-60 Ras signaling that carry out terminal effector functions leading to morphological change. We have used DNA microarrays to identify 708 genes that change expression in response to activated let-60 Ras. Set of arrays organized by shared biological context, such as organism, tumors types, processes, etc. Keywords: Logical Set

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Methylation profiling of C.elegans to identify CEH-60/PBX binding sites

Project description:Methylation profiling of C.elegans to identify CEH-60/PBX binding sites

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Transcriptomic profile of the homeodomain protein CEH-23 under mitochondrial ETC stress in C. elegans

Project description:Transcriptomic profile of the homeodomain protein CEH-23 under mitochondrial ETC stress in C. elegans by comparing gene expression profile between isp-1(qm150) vs. ceh-23(ms23);isp-1(qm150) mutants

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