Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1150492 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:The genome of elephant grass (Cenchrus purpureus)
| PRJEB50934 | ENA
Project description:Background Methylation of CG dinucleotides constitutes a critical system of epigenetic memory in bony vertebrates, where it modulates gene expression and suppresses transposon activity. The genomes of studied vertebrates are pervasively hypermethylated, with the exception of regulatory elements such as transcription start sites (TSSs), where the presence of methylation is associated with gene silencing. This system is not found in the sparsely methylated genomes of invertebrates, and establishing how it arose during early vertebrate evolution is impeded by a paucity of epigenetic data from basal vertebrates. Methods We perform whole-genome bisulfite sequencing to generate the first genome-wide methylation profiles of a cartilaginous fish, the elephant shark Callorhinchus milii. Employing these to determine the elephant shark methylome structure and its relationship with expression, we compare this with higher vertebrates and an invertebrate chordate using published methylation and transcriptome data. Results Like higher vertebrates, the majority of elephant shark CG sites are highly methylated, and methylation is abundant across the genome rather than patterned in the mosaic configuration of invertebrates. This global hypermethylation includes transposable elements and the bodies of genes at all expression levels. Significantly, we document an inverse relationship between TSS methylation and expression in the elephant shark, supporting the presence of the repressive regulatory architecture shared by higher vertebrates. Conclusions Our demonstration that methylation patterns in a cartilaginous fish are characteristic of higher vertebrates imply the conservation of this epigenetic modification system across jawed vertebrates separated by 465 million years of evolution. In addition, these findings position the elephant shark as a valuable model to explore the evolutionary history and function of vertebrate methylation.
2017-03-24 | GSE96683 | GEO
Project description:Purple napier grass silage Raw sequence reads
| PRJNA1082077 | ENA
Project description:The uniform elephant grass seedlings were treated with 600 mM KH2PO4 (high-Pi treatment, HP) or 0 mM KH2PO4 (low-Pi treatment, LP) in Magnavaca’s solution. The samples were harvested after 15 days of treatments for the TMT proteomic analysis. There were three biological replicates in each treatment.
2023-05-29 | PXD042519 |
Project description:It is well established that histone derived antimicrobial peptides (AMPs) have anti-microbial properties in various invertebrate and vertebrate species.To reveal the possible immunoregulatory functions of the engineered S. cerevisiae expressing gcH2A-4(7t) and gcH2A-11(2t) on the grass carp, the intestines from the immunized grass carp were collected at the first immunization for 7 days and used for transcriptome sequencing. The results found that the activation of PRRs-related pathways including TLRs, NLRs and RLRs was revealed in the engineered S. cerevisiae expressing gcH2A-4(7t) and gcH2A-11(2t) on the grass carp intestines."
2022-07-07 | GSE201422 | GEO