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The developmental transcriptome and epigenome of Owenia fusiformis reveal the development and evolution of mitraria larvae

ABSTRACT: Owenia fusiformis has a unique mitraria larvae form which is different to other marine spiralians. we utilize RNA-seq and ATAC-seq to profile the gene expression and chromatin accessibility to understand their development and evolution.

ORGANISM(S): Owenia fusiformis

PROVIDER: GSE184126 | GEO | 2022/05/04

REPOSITORIES: GEO

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The developmental transcriptome and epigenome of Owenia fusiformis reveal the development and evolution of mitraria larvae [dataset2]

Project description:Owenia fusiformis has a unique mitraria larvae form which is different to other marine spiralians. we utilize RNA-seq and ATAC-seq to profile the gene expression and chromatin accessibility dynamics to understand their development and evolution.

2022-11-16 | GSE202283 | GEO

The developmental transcriptome and epigenome of Owenia fusiformis reveal the development and evolution of mitraria larvae

Project description:The developmental transcriptome and epigenome of Owenia fusiformis reveal the development and evolution of mitraria larvae

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The developmental transcriptome and epigenome of Owenia fusiformis reveal the development and evolution of mitraria larvae [dataset2]

Project description:The developmental transcriptome and epigenome of Owenia fusiformis reveal the development and evolution of mitraria larvae [dataset2]

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The adult tissue transcriptome of Owenia fusiformis

Project description:Owenia fusiformis is an ancestral sister group to the annelids, it has a unique "head larvae" type named mitraria larvae. To identify the gene expressed in different tissues, especially the gene expressed in head region, we dissected the 5 female worms and 1 male worm to get 9 different tissues, and extracted their RNA. The sequencing were performed on BGISEQ-500 platform, and the mapping were done with Kallisto and normalization was performed with DEseq2.

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Project description:Owenia fusiformis

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Combined Developmental Effects of Environmental Stressors and Polycyclic Aromatic Hydrocarbons on Fundulus grandis Larvae

Project description:Oil spills have polluted the marine environment for decades and continue to be a major source of polycyclic aromatic hydrocarbons (PAHs) to marine ecosystems around the globe. Although the toxicity of PAHs to fish has been well studied, the combined effects of extreme abiotic factors and oil are poorly understood. Gulf of Mexico killifish Fundulus grandis larvae (< 24 hours post hatch) were exposed to varying environmental conditions (dissolved oxygen 2, 6 ppm; temperature 20, 25, 30°C; and salinity 3, 10, 30 ppt) combined with varying concentrations of high energy water accommodated fractions (HEWAF) (total PAHs 0 – ~ 125 ppb) for a total of 48 h. Larvae survival and development were negatively affected by PAHs, starting with the lowest concentration tested (~15 ppb). High temperature + hypoxia + PAHs resulted in the lowest survival with salinity having little impact on any of the endpoints tested. Expression of the hepatic detoxifying gene cyp1a was highly induced in PAH-exposed larvae, but only under normoxic conditions. A lack of cyp1a induction under hypoxia and PAH exposure could explain the enhanced toxicity observed. This work highlights the need for more studies examining the combined impact of suboptimal water quality parameters in the presence of pollution in fish early life-stages.

2019-04-18 | GSE129998 | GEO

Analysis of midgut composition of Lamypris noctiluca larvae

Project description:Firefly larvae are highly specialized predators of snails, which utilize midgut secretions to incapacitate and pre-digest their much larger prey. With the current analysis we aim to shed light on the composition of the midgut secretion of these larvae utilizing a proteo-transcriptomic approach.

2024-07-03 | PXD052900 | Pride

Annelid methylomes reveal ancestral developmental and ageing-associated epigenetic erosion across Bilateria

Project description:Background DNA methylation in the form of 5-methylcytosine (5mC) is the most abundant base modification in animals. However, 5mC levels vary widely across taxa. Whilst vertebrate genomes are hypermethylated, in most invertebrates, 5mC concentrates on constantly and highly transcribed genes (gene body methylation; GbM) and, in some species, on transposable elements (TEs), a pattern known as ‘mosaic’. Yet, the role and developmental dynamics of 5mC and how these explain interspecific differences in DNA methylation patterns remain poorly understood, especially in Spiralia, a large clade of invertebrates comprising nearly half of the animal phyla. Results Here, we generate base-resolution methylomes for three species with distinct genomic features and phylogenetic positions in Annelida, a major spiralian phylum. All possible 5mC patterns occur in annelids, from typical invertebrate intermediate levels in a mosaic distribution to hypermethylation and methylation loss. GbM is common to annelids with 5mC, and methylation differences across species are explained by taxon-specific transcriptional dynamics or the presence of intronic TEs. Notably, the link between GbM and transcription decays during development, alongside a gradual and global, age-dependent demethylation in adult stages. Additionally, reducing 5mC levels with cytidine analogues during early development impairs normal embryogenesis and reactivates TEs in the annelid Owenia fusiformis. Conclusions Our study indicates that global epigenetic erosion during development and ageing is an ancestral feature of bilateral animals. However, the tight link between transcription and gene body methylation is likely more important in early embryonic stages, and 5mC-mediated TE silencing probably emerged convergently across animal lineages.

2024-06-30 | GSE250187 | GEO

A dynamic histone-based chromatin regulatory toolkit underpins genome and developmental evolution in an invertebrate clade

Project description:The dynamic addition and removal of posttranslational modifications on eukaryotic histones define regulatory regions that play a central role in genome and chromatin biology. Here, we present the histone variation in the adult landscapes of histone posttranslational modifications, as revealed by quantitative mass spectrometry in O. fusiformis and Capitella teleta. MTD keywords Histone

2025-05-18 | PXD064021 | Pride

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