GEO DataSets

(Submitter supplied) The brain requires complex mechanisms of genome regulation to encode and store behavioural information. In mammals, DNA methylation deposited at non-CG dinucleotides characterises brain epigenomes. However, it is unclear to what extent this non-canonical form of DNA methylation is evolutionarily conserved. To test this we profile brain cytosine methylation across the major vertebrate lineages, amphioxus, honeybee and octopus, finding that non-CG methylation in adult brain methylomes is restricted to vertebrates. more...

Organism:

Apis mellifera; Callorhinchus milii; Octopus bimaculoides; Gallus gallus; Ornithorhynchus anatinus; Lethenteron camtschaticum; Branchiostoma lanceolatum; Danio rerio; Monodelphis domestica

Type:

Expression profiling by high throughput sequencing; Methylation profiling by high throughput sequencing

9 related Platforms

11 Samples

Download data: CGMAP, TSV

(Submitter supplied) DNA methylation of active genes, also known as gene body methylation, is found in many animal and plant genomes. Despite this, the transcriptional and developmental role of such methylation remains poorly understood. Here, we explore the dynamic range of gene body methylation and its association with transcription and splicing in honey bee, an organism that targets methylation specifically to gene bodies. more...

Organism:

Apis mellifera

Type:

Methylation profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platforms:

GPL13725 GPL16097

29 Samples

Download data: GFF, TXT

(Submitter supplied) The major environmental determinants of honeybee caste development come from larval nutrients: royal jelly stimulates the differentiation of larvae into queens, whereas beebread leads to worker bee fate. However, these determinants are not fully characterized. Here we report that plant RNAs, particularly miRNAs, which are more enriched in beebread than in royal jelly, delay development and decrease body and ovary size in honeybees, thereby preventing larval differentiation into queens and inducing development into worker bees. more...

Organism:

Camellia japonica; Apis mellifera

Type:

Non-coding RNA profiling by high throughput sequencing

Platforms:

GPL13725 GPL23850

8 Samples

Download data: TXT

(Submitter supplied) To gain insights into the species-specific events downstream of Ubx, we identified direct targets of Ubx from Apis by ChIP-seq and compared them with those of Drosophila at the level of both their function and regulation. While the majority of the targets are species-specific, the ontological distribution of all targets was similar amongst the two species. Interestingly, although considerable number of wing-patterning genes are retained as targets of Ubx over the past 300 millions years, many of them are differentially expressed only between wing and haltere in Drosophila and not between forewing and hindwing in Apis . more...

Organism:

Apis mellifera

Type:

Genome binding/occupancy profiling by high throughput sequencing

Platform:

GPL13725

12 Samples

Download data: TXT

(Submitter supplied) Here, we demonstrate that Nematostella vectensis, Ciona intestinalis, Apis mellifera, and B. mori, show two distinct populations of genes differentiated by gene-body CpG density. Genome-scale DNA methylation profiles for A. mellifera spermatozoa reveal CpG-poor genes are methylated in the germ line, as predicted by the depletion of CpGs. We find an evolutionarily conserved distinction between CpG-poor and -rich genes: the former are associated with basic biological processes, the latter with more specialized functions. more...

Organism:

Apis mellifera

Type:

Methylation profiling by high throughput sequencing

Platform:

GPL13725

1 Sample

Download data: BED, TXT